SUPERFAMILY 1.75 HMM library and genome assignments server

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Ricin B-like lectins alignments

These alignments are sequences aligned to the 0045755 model.

Sophisticated options are available for refining alignments:


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Alignments

The numbers along the top are the segment numbers of the HMM states, and each sequence is seperately aligned to the model.
The first sequence is the seed the model was built from.
Upper case letters are aligned, lower case letters are insertions, '-' signifies a deletion and '.' is nothing.

                                                                                    10        20    
                                                                                     |         |    
d1abrb1 ...........................................................ivekskics---------SRYEPTVRIGGRD.G
d1hwmb2 .................................................................dvq------------PIATLIVGYN.E
d1knma_ ..................................................................pp-----------ADGGQIKGVGS.G
d1puub2 ...............................................................apret----------------TIYGFR.D
d1qxma1 .........................................................tnandlrnnev--------------FFISPSNNtN
d1qxma2 ..................................................nrncklqtqlnsdrflsk----------------------.-
d1sr4a_ lnllsssgpnrqvlpsepsnfmtlmgqngalltvwalakrnwlwaypniysqdfgnirnwkmepgkhr------------EYFRFVNQ-SlG
d1sr4c_ .........dpttypdvelsppprislrslltaqpvkndhydshnylsthwelidykgkeyeklrdgg------------TLVQFKVVGA.A
d1vcla1 .............................................................evlctnp-----------LDIGELRSFKS.K
d1vcla2 ................................................................pelf-------------YGRLRNEKS.D
d1xhba1 .............................................................qiprhyf------------SLGEIRNVET.N
d2ihoa1 .....................................................slrrgiyhienagvp----------------------.-
d2zqna1 ..................................................................pk-------------FFYIKSELN.G


             30        40         50             60                    70          80          90   
              |         |          |              |                     |           |           |   
d1abrb1 MCVDVYDNGYHNGNRIIMWKC.KDRLEENQLWTL.....KSDK.....TIRSN.......GKCLTTYG..YAPGSYVMIYDCTSAV..AEAT
d1hwmb2 MCLQANGEN----NNVWMEDC.DVTSV-QQQWAL.....FDDR.....TIRVNnsr....GLCVTSNG..YVSKDLIVIRKCQGL-..-ATQ
d1knma_ RCLDVPDASTSDGTQLQLWDC.HSGT--NQQWAA.....TDAG.....ELRVYg......DKCLDAAG..TSNGSKVQIYSCWGG-..-DNQ
d1puub2 LCMESNGG------SVWVETC.TAGQE-NQRWAL.....YGDG.....SIRPKqnq....SQCLTNGR..DSVSTVINIVSCSAG-..SSGQ
d1qxma1 KVLDKISQS-----EVKLWNK.LSGA--NQKWRL.....IYDTnkqayKIKVMdnt....SLILTWN-..-APLSSVSVKTDTNG-..-DNQ
d1qxma2 ---------NLNSQIIVLWQW.FDSS--RQKWII.....EYNE.....TKSAYtlkcqenNRYLTWIQ..-NSNNYVETYQSTDS-..-LIQ
d1sr4a_ TCVEAYGN------GLIHDIC.SLDKL-AQEFEL.....LPTDsgav.VIKSVsq.....GRCVTYNPvsTTFYSTVTLSVCDGATepSRDQ
d1sr4c_ KCFAFLGKG--------TTDC.KDTD--HTVFNL.....IPTN.....TGAFLikdall.GFCITSHD..FDD---LKLEPCGGSV..S---
d1vcla1 QCVDIVGN--QGSGNIATYDC.DGLS--DQQIII.....CGDG.....TIRNEar.....NYCFTPDG..-SGNANVMSSPCTLYPeiPSSQ
d1vcla2 LCLDVEGS--DGKGNVLMYSC.EDNL--DQWFRY.....YENG.....EIVNAks.....GMCLDVEG..SDGSGNVGIYRCDDL-..-RDQ
d1xhba1 QCLDNMARKENE--KVGIFNC.HGMGG-NQVFSY.....TANK.....EIRTD.......DLCLDVS-..-KLNGPVTMLKCHHL-..KGNQ
d2ihoa1 SAIDLKDGSSSDGTPIVGWQFtPDTINWHQLWLAepipnVADT.....FTLCNlfs....GTYMDLYNgsSEAGTAVNGWQGTAFTt.NPHQ
d2zqna1 KVLDIEGQNPAPGSKIITWDQkKGPTAVNQLWYT.....DQQG.....VIRSKln.....DFAIDAS-..---HEQIETQPFDPN-..NPKR


                  100               110         120          130       140                        
                    |                 |           |            |         |                        
d1abrb1 YWE......IWDNG.......TIINPKSA.LVLSAESSS..MGGTLTVQTNE...YLMRQGWRTG-n.......................
d1hwmb2 RWF......FNSDG.......SVVNLKST.RVMDVKESDv.SLQEVIIFPAT...GNPNQQWRTQ-vpqi....................
d1knma_ KWR......LNSDG.......SVVGVQSG.LCLDAVGNGtaNGTLIQLYTCS...NGSNQRWT---rt......................
d1puub2 RWV......FTNAG.......AILNLKNG.LAMDVAQANp.ALSRIIIYPAT...GNPNQMWLP--vp......................
d1qxma1 YWY......LLQNYisrnv..IIRNYMNPnLVLQY-NID..--DTLMVSTQT...SSSNQFFKF--snciyealn...............
d1qxma2 YWN......INYLDndasky.ILYNLQDTnRVLDVYNSQiaNGTHVIVDSYH...GNTNQQWII--nli.....................
d1sr4a_ TWY......L----.......--------.---------..-----------...-----------appvleatavn.............
d1sr4c_ ---......-----.......--------.---------..-----------...-----------grtfslayqwgilppfgpskilip
d1vcla1 RWRqgrrktFTDNGgieqvatEIINLASG.KCLDIEGSD..GTGDIGVYDCQ...NLDDQYFYV--rsrg....................
d1vcla2 MWS......RPNAYcngdyc.SFLNKESN.KCLDVSGDQ..GTGDVGTWQCD...GLPDQRFKW--vf......................
d1xhba1 LWE......YDPVKl......TLQHVNSN.QCLDKATEE..DSQVPSIRDCT...GSRSQQWLL--rnv.....................
d2ihoa1 LWT......IKKSSdgtsy..KIQNYGSK.TFVDLVNGDssDGAKIAGWTGTwdeGNPHQKWYF--nr......................
d2zqna1 AWI......VSGNT.......IAQLSDRD.IVLDIIKSDkeAGAHICAWKQH...GGPNQKFII--ese.....................


Statistics on alignment.   Save alignment.

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Refine alignments

Sophisticated options are available for refining alignments:

Add your sequences to the alignment:
Members of the same: including
Include all superfamily members: , or just those assigned by the selected model:
Initial T99 seed sequence: NoYes

You may enter many sequences at once using
FASTA format:

Upload a multiple sequence FASTA file:




Model: 0045755 (list models)
Initial SAMT99 seed:
Alignment:



Display Options:
Output in FASTA-like format: NoYes
Output column indices: NoYes
Sequence index (number) on each line: NoYes

Max number of insertions shown: (0 does not show insertions)
Characters per line:
Character to show inserts:
Maximum number of sequences:
Exclude sequences shorter than: residues



Jump to [ Top of page · Alignments · Refine alignments ]

Add alignments from genomes

Select below additional genomes you would like to see alignments for, then click on 'Re-Submit'. The genome assignments will be added to this page.


Select to display   Genome
NoYes   Canis familiaris 58 (pseudogenes) - Dog
NoYes   Mus musculus 56 (pseudogenes) - House mouse
NoYes   Homo sapiens 76_38 - Human
NoYes   Pan troglodytes 76_2.1.4 - Chimpanzee
NoYes   Gorilla gorilla 76_3.1 - Western gorilla
NoYes   Pongo abelii 76_2 - Sumatran orangutan
NoYes   Tarsius syrichta 76_1
NoYes   Nomascus leucogenys 76_1.0 - Northern white-cheeked gibbon
NoYes   Papio anubis 76 - Olive baboon
NoYes   Macaca mulatta 76_1 - Rhesus monkey
NoYes   Callithrix jacchus 76_3.2.1 - White-tufted-ear marmoset
NoYes   Otolemur garnettii 76_3 - Small-eared galago
NoYes   Microcebus murinus 76_1 - Gray mouse lemur
NoYes   Rattus norvegicus 76_5.0 - Norway rat
NoYes   Mus musculus 76_38 - House mouse
NoYes   Dipodomys ordii 76_1 - Ord's kangaroo rat
NoYes   Heterocephalus glaber v1.7-2 - Naked mole-rat
NoYes   Cavia porcellus 76_3 - Domestic guinea pig
NoYes   Oryctolagus cuniculus 76_2 - Rabbit
NoYes   Ochotona princeps 76 - American pika
NoYes   Tupaia belangeri 76 - Northern tree shrew
NoYes   Sus scrofa 76_10.2 - Pig
NoYes   Bos taurus 76_3.1 - Cattle
NoYes   Ovis aries 76_3.1 - Sheep
NoYes   Vicugna pacos 76_1 - Alpaca
NoYes   Tursiops truncatus 76_1 - Bottlenose dolphin
NoYes   Mustela putorius furo 76_1.0 - Domestic ferret
NoYes   Ailuropoda melanoleuca 76_1 - Giant panda
NoYes   Canis familiaris 76_3.1 - Dog
NoYes   Felis catus 76_6.2 - Domestic cat
NoYes   Equus caballus 76_2 - Horse
NoYes   Myotis lucifugus 76_2.0 - Little brown bat
NoYes   Pteropus vampyrus 76_1 - Large flying fox
NoYes   Sorex araneus 76_1 - European shrew
NoYes   Erinaceus europaeus 76 - Western European hedgehog
NoYes   Procavia capensis 76_1 - Cape rock hyrax
NoYes   Loxodonta africana 76_3 - African savanna elephant
NoYes   Echinops telfairi 76 - Small Madagascar hedgehog
NoYes   Dasypus novemcinctus 76_2 - Nine-banded armadillo
NoYes   Macropus eugenii 76_1.0 - Tammar wallaby
NoYes   Sarcophilus harrisii 76_7.0 - Tasmanian devil
NoYes   Monodelphis domestica 76_5 - Gray short-tailed opossum
NoYes   Ornithorhynchus anatinus 76_5 - Platypus
NoYes   Saccoglossus kowalevskii v3.0
NoYes   Petromyzon marinus 76_7.0 - Sea lamprey
NoYes   Meleagris gallopavo 76_2 - Turkey
NoYes   Gallus gallus 76_4 - Chicken
NoYes   Anas platyrhynchos 76_1.0 - Mallard
NoYes   Taeniopygia guttata 76_3.2.4 - Zebra finch
NoYes   Ficedula albicollis 76_1.0 - Collared flycatcher
NoYes   Pelodiscus sinensis 76_1.0 - Chinese soft-shelled turtle
NoYes   Anolis carolinensis 76_2.0 - Green anole
NoYes   Xenopus laevis - African clawed frog
NoYes   Xenopus tropicalis 76_4.2 - Tropical clawed frog
NoYes   Latimeria chalumnae 76_1 - Coelacanth
NoYes   Lepisosteus oculatus 76 - Spotted gar
NoYes   Gadus morhua 76_1 - Atlantic cod
NoYes   Tetraodon nigroviridis 76_8 - Spotted green pufferfish
NoYes   Takifugu rubripes 76_4 - Torafugu
NoYes   Gasterosteus aculeatus 76_1 - Three-spined stickleback
NoYes   Oryzias latipes 76_1 - Japanese medaka
NoYes   Xiphophorus maculatus 76_4.4.2 - Southern platyfish
NoYes   Poecilia formosa 76 - Amazon molly
NoYes   Oreochromis niloticus 76_1.0 - Nile tilapia
NoYes   Astyanax mexicanus 76 - Mexican tetra
NoYes   Danio rerio 76_9 - Zebrafish
NoYes   Oikopleura dioica
NoYes   Ciona intestinalis 76 - Vase tunicate
NoYes   Strongylocentrotus purpuratus v3.1 - Purple sea urchin
NoYes   Octopus bimaculoides 280
NoYes   Capitella sp. I
NoYes   Danaus plexippus OGS1.0 - Monarch butterfly
NoYes   Apis mellifera 38.2d - Honey bee
NoYes   Harpegnathos saltator v3.3 - Jerdon's jumping ant
NoYes   Linepithema humile v1.1 - Argentine ant
NoYes   Pogonomyrmex barbatus v1.2 - Red harvester ant
NoYes   Acromyrmex echinatior v3.8 - Panamanian leafcutter ant
NoYes   Atta cephalotes v1.1
NoYes   Camponotus floridanus v3.3 - Florida carpenter ant
NoYes   Lucilia cuprina - Australian sheep blowfly
NoYes   Drosophila grimshawi 1.3
NoYes   Drosophila willistoni 1.3
NoYes   Drosophila pseudoobscura 2.13
NoYes   Drosophila persimilis 1.3
NoYes   Drosophila suzukii
NoYes   Drosophila yakuba 1.3
NoYes   Drosophila simulans 1.3
NoYes   Drosophila sechellia 1.3
NoYes   Drosophila melanogaster 76_5 - Fruit fly
NoYes   Drosophila erecta 1.3
NoYes   Drosophila ananassae 1.3
NoYes   Drosophila virilis 1.2
NoYes   Drosophila mojavensis 1.3
NoYes   Megaselia scalaris 22
NoYes   Aedes aegypti 55 - Yellow fever mosquito
NoYes   Culex pipiens quinquefasciatus - Southern house mosquito
NoYes   Anopheles gambiae 49_3j - African malaria mosquito
NoYes   Tribolium castaneum 3.0 - Red flour beetle
NoYes   Pediculus humanus corporis - Human body louse
NoYes   Acyrthosiphon pisum - Pea aphid
NoYes   Daphnia pulex - Common water flea
NoYes   Strigamia maritima 22
NoYes   Tetranychus urticae - Two-spotted spider mite
NoYes   Ixodes scapularis - Black-legged tick
NoYes   Acropora digitifera v1.0
NoYes   Sphaerobolus stellatus v1.0
NoYes   Serpula lacrymans var. lacrymans S7.9
NoYes   Schizophyllum commune
NoYes   Fomitopsis pinicolav1.0
NoYes   Fomitopsis pinicola FP-58527 SS1 v3.0
NoYes   Dichomitus squalens
NoYes   Gossypium raimondii v221
NoYes   Cucumis sativus v122 - Cucumber
NoYes   Malus domestica v196 - Apple
NoYes   Populus trichocarpa v156 - Black cottonwood
NoYes   Phyllostachys heterocyclavar. pubescens - Mosochiku
NoYes   Zea mays subsp. mays - Maize
NoYes   Zea mays v181 - Maize
NoYes   Thermobispora bispora DSM 43833
NoYes   Catenulispora acidiphila DSM 44928
NoYes   Kitasatospora setae KM-6054
NoYes   Streptomyces coelicolor A3(2)
NoYes   Streptomyces sp. PAMC26508
NoYes   Streptomyces flavogriseus ATCC 33331
NoYes   Streptomyces bingchenggensis BCW-1
NoYes   Streptomyces avermitilis MA-4680
NoYes   Streptomyces cattleya NRRL 8057 = DSM 46488
NoYes   Streptomyces scabiei 87.22
NoYes   Streptomyces hygroscopicus subsp. jinggangensis 5008
NoYes   Actinosynnema mirum DSM 43827
NoYes   Amycolatopsis mediterranei U32
NoYes   Kribbella flavida DSM 17836
NoYes   Salinispora arenicola CNS-205
NoYes   Salinispora tropica CNB-440
NoYes   Verrucosispora maris AB-18-032
NoYes   Micromonospora sp. L5
NoYes   Micromonospora aurantiaca ATCC 27029
NoYes   Actinoplanes sp. N902-109
NoYes   Actinoplanes sp. SE50/110
NoYes   Actinoplanes missouriensis 431
NoYes   Microbacterium testaceum StLB037
NoYes   Cellulomonas flavigena DSM 20109
NoYes   Cellulomonas fimi ATCC 484
NoYes   Aggregatibacter actinomycetemcomitans D7S-1
NoYes   Haemophilus parasuis SH0165
NoYes   Haemophilus ducreyi 35000HP
NoYes   Xenopus (Silurana) tropicalis v7.1 (annotation v7.2) - Tropical clawed frog
NoYes   Drosophila melanogaster FlyBase 5.12 - Fruit fly
NoYes   Anopheles gambiae VectorBase AgamP3.6 - African malaria mosquito
NoYes   Streptomyces rapamycinicus NRRL 5491
NoYes   Streptomyces davawensis JCM 4913
NoYes   Streptomyces venezuelae ATCC 10712
NoYes   Streptomyces cattleya NRRL 8057 = DSM 46488
NoYes   Streptomyces hygroscopicus subsp. jinggangensis TL01
NoYes   Amycolatopsis mediterranei RB
NoYes   Amycolatopsis mediterranei S699
NoYes   Amycolatopsis mediterranei S699
NoYes   Actinoplanes friuliensis DSM 7358
NoYes   Clostridium botulinum BKT015925
NoYes   Clostridium botulinum B str. Eklund 17B
NoYes   Sorangium cellulosum So0157-2
NoYes   Aggregatibacter actinomycetemcomitans ANH9381
NoYes   Aggregatibacter actinomycetemcomitans D11S-1
NoYes   Haemophilus parasuis ZJ0906
NoYes   Escherichia coli IHE3034
NoYes   Escherichia coli APEC O1
NoYes   Homo sapiens 69_37 - Human
NoYes   Pan troglodytes 69_2.1.4 - Chimpanzee
NoYes   Gorilla gorilla 69_3.1 - Western gorilla
NoYes   Pongo abelii 69_2 - Sumatran orangutan
NoYes   Nomascus leucogenys 69_1.0 - Northern white-cheeked gibbon
NoYes   Macaca mulatta 69_1 - Rhesus monkey
NoYes   Callithrix jacchus 69_3.2.1 - White-tufted-ear marmoset
NoYes   Otolemur garnettii 69_3 - Small-eared galago
NoYes   Tarsius syrichta 69_1
NoYes   Microcebus murinus 69_1 - Gray mouse lemur
NoYes   Rattus norvegicus 69_3.4 - Norway rat
NoYes   Mus musculus 69_38 - House mouse
NoYes   Dipodomys ordii 69_1 - Ord's kangaroo rat
NoYes   Cavia porcellus 69_3 - Domestic guinea pig
NoYes   Oryctolagus cuniculus 69_2 - Rabbit
NoYes   Ochotona princeps 69 - American pika
NoYes   Tupaia belangeri 69 - Northern tree shrew
NoYes   Sus scrofa 69_10.2 - Pig
NoYes   Bos taurus 69_3.1 - Cattle
NoYes   Vicugna pacos 69_1 - Alpaca
NoYes   Tursiops truncatus 69_1 - Bottlenose dolphin
NoYes   Mustela putorius furo 69_1.0 - Domestic ferret
NoYes   Ailuropoda melanoleuca 69_1 - Giant panda
NoYes   Canis familiaris 69_3.1 - Dog
NoYes   Felis catus 69 - Domestic cat
NoYes   Equus caballus 69_2 - Horse
NoYes   Myotis lucifugus 69_2.0 - Little brown bat
NoYes   Pteropus vampyrus 69_1 - Large flying fox
NoYes   Sorex araneus 69_1 - European shrew
NoYes   Erinaceus europaeus 69 - Western European hedgehog
NoYes   Procavia capensis 69_1 - Cape rock hyrax
NoYes   Loxodonta africana 69_3 - African savanna elephant
NoYes   Echinops telfairi 69 - Small Madagascar hedgehog
NoYes   Dasypus novemcinctus 69_2 - Nine-banded armadillo
NoYes   Macropus eugenii 69_1.0 - Tammar wallaby
NoYes   Sarcophilus harrisii 69_7.0 - Tasmanian devil
NoYes   Monodelphis domestica 69_5 - Gray short-tailed opossum
NoYes   Ornithorhynchus anatinus 69_5 - Platypus
NoYes   Petromyzon marinus 69_7.0 - Sea lamprey
NoYes   Meleagris gallopavo 69_2 - Turkey
NoYes   Gallus gallus 69_2 - Chicken
NoYes   Taeniopygia guttata 69_3.2.4 - Zebra finch
NoYes   Pelodiscus sinensis 69_1.0 - Chinese soft-shelled turtle
NoYes   Anolis carolinensis 69_2.0 - Green anole
NoYes   Xenopus tropicalis 69_4.2 - Tropical clawed frog
NoYes   Latimeria chalumnae 69_1 - Coelacanth
NoYes   Gadus morhua 69_1 - Atlantic cod
NoYes   Tetraodon nigroviridis 69_8 - Spotted green pufferfish
NoYes   Takifugu rubripes 69_4 - Torafugu
NoYes   Gasterosteus aculeatus 69_1 - Three-spined stickleback
NoYes   Oryzias latipes 69_1 - Japanese medaka
NoYes   Xiphophorus maculatus 69_4.4.2 - Southern platyfish
NoYes   Oreochromis niloticus 69_1.0 - Nile tilapia
NoYes   Danio rerio 69_9 - Zebrafish
NoYes   Ciona intestinalis 69 - Vase tunicate
NoYes   Drosophila melanogaster 69_5 - Fruit fly
NoYes   Homo sapiens 75_37 - Human
NoYes   Homo sapiens - Human
NoYes   Mus musculus 63_37 (longest transcript per gene) - House mouse
NoYes   Moniliophthora perniciosa FA553
NoYes   Malus x domestica - Apple
NoYes   Ricinus communis - Castor bean
NoYes   Maize field bulk soil microbial communities from University of Illinois Energy Farm, Urbana, IL (Bulk soil sample from field growing corn (Zea may (meta-genome)
NoYes   Miscanthus field bulk soil microbial communities from University of Illinois Energy Farm, Urbana, IL (Bulk soil sample from field growing Miscanthu (meta-genome)
NoYes   NCBI 2017_08 genome
NoYes   Soil microbial communities from sample at FACE Site 1 Maryland Estuary CO2- (Maryland Estuary ambient) (meta-genome)
NoYes   Soil microbial communities from sample at FACE Site 3 Nevada Test Site Creosote CO2- (meta-genome)
NoYes   Soil microbial communities from sample at FACE Site 5 Oak Ridge CO2- (Oak Ridge ambient) (meta-genome)
NoYes   STRING v9.0.5 (STRING)
NoYes   Uniprot 2018_03 genome
NoYes   NCBI plasmid sequences (Plasmids)
NoYes   NCBI viral sequences (Viral)
NoYes   PDB chains (SCOP 1.75) (PDB)
NoYes   Protein Data Bank (all PDB sequenc)
NoYes   SCOP2 SCOPe CATH ECOD (all domain sequ)
NoYes   UniProt viral sequences (Viral)
NoYes   ALL (only advised for small superfamilies)


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