| 47 | 42 | 22 | 7 | SCOP 52540 | P-loop containing nucleoside triphosphate hydrolases |
| 20 | 13 | 4 | 0 | SCOP 116734 | DNA methylase specificity domain |
| 12 | 11 | 7 | 1 | SCOP 50249 | Nucleic acid-binding proteins |
| 11 | 11 | 7 | 1 | SCOP 55681 | Class II aaRS and biotin synthetases |
| 10 | 10 | 8 | 1 | SCOP 52374 | Nucleotidylyl transferase |
| 10 | 10 | 4 | 0 | SCOP 53335 | S-adenosyl-L-methionine-dependent methyltransferases |
| 8 | 8 | 1 | 0 | SCOP 81333 | F1F0 ATP synthase subunit C |
| 7 | 6 | 5 | 2 | SCOP 50447 | Translation proteins |
| 7 | 7 | 2 | 0 | SCOP 50494 | Trypsin-like serine proteases |
| 6 | 6 | 5 | 2 | SCOP 54211 | Ribosomal protein S5 domain 2-like |
| 6 | 6 | 5 | 0 | SCOP 47323 | Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases |
| 5 | 3 | 3 | 1 | SCOP 53067 | Actin-like ATPase domain |
| 4 | 3 | 2 | 0 | SCOP 161098 | MetI-like |
| 4 | 4 | 3 | 1 | SCOP 50104 | Translation proteins SH3-like domain |
| 4 | 4 | 2 | 1 | SCOP 109604 | HD-domain/PDEase-like |
| 4 | 4 | 2 | 0 | SCOP 52954 | Class II aaRS ABD-related |
| 4 | 2 | 2 | 1 | SCOP 54980 | EF-G C-terminal domain-like |
| 3 | 3 | 3 | 1 | SCOP 52317 | Class I glutamine amidotransferase-like |
| 3 | 3 | 2 | 2 | SCOP 53271 | PRTase-like |
| 3 | 3 | 3 | 1 | SCOP 51735 | NAD(P)-binding Rossmann-fold domains |
| 3 | 3 | 2 | 0 | SCOP 53850 | Periplasmic binding protein-like II |
| 3 | 2 | 2 | 0 | SCOP 54814 | Prokaryotic type KH domain (KH-domain type II) |
| 3 | 1 | 1 | 1 | SCOP 55973 | S-adenosylmethionine synthetase |
| 3 | 1 | 1 | 0 | SCOP 53738 | Phosphoglucomutase, first 3 domains |
| 2 | 2 | 1 | 1 | SCOP 53167 | Purine and uridine phosphorylases |
| 2 | 2 | 1 | 0 | SCOP 57829 | Zn-binding ribosomal proteins |
| 2 | 2 | 1 | 0 | SCOP 56784 | HAD-like |
| 2 | 2 | 1 | 1 | SCOP 53137 | Translational machinery components |
| 2 | 2 | 2 | 0 | SCOP 55120 | Pseudouridine synthase |
| 2 | 2 | 2 | 0 | SCOP 64182 | DHH phosphoesterases |
| 2 | 2 | 1 | 0 | SCOP 52218 | Flavoproteins |
| 2 | 2 | 2 | 0 | SCOP 46785 | "Winged helix" DNA-binding domain |
| 2 | 2 | 1 | 0 | SCOP 143800 | L28p-like |
| 2 | 2 | 2 | 0 | SCOP 53098 | Ribonuclease H-like |
| 2 | 2 | 2 | 0 | SCOP 75217 | alpha/beta knot |
| 2 | 2 | 2 | 0 | SCOP 52980 | Restriction endonuclease-like |
| 2 | 2 | 1 | 0 | SCOP 47729 | IHF-like DNA-binding proteins |
| 2 | 2 | 2 | 0 | SCOP 52402 | Adenine nucleotide alpha hydrolases-like |
| 2 | 1 | 1 | 2 | SCOP 64484 | beta and beta-prime subunits of DNA dependent RNA-polymerase |
| 2 | 2 | 2 | 1 | SCOP 51621 | Phosphoenolpyruvate/pyruvate domain |
| 2 | 2 | 1 | 0 | SCOP 56281 | Metallo-hydrolase/oxidoreductase |
| 2 | 2 | 1 | 0 | SCOP 81345 | ABC transporter involved in vitamin B12 uptake, BtuC |
| 2 | 2 | 2 | 0 | SCOP 57783 | Zinc beta-ribbon |
| 2 | 1 | 1 | 0 | SCOP 88659 | Sigma3 and sigma4 domains of RNA polymerase sigma factors |
| 2 | 1 | 1 | 0 | SCOP 56024 | Phospholipase D/nuclease |
| 2 | 2 | 2 | 0 | SCOP 47781 | RuvA domain 2-like |
| 2 | 2 | 1 | 1 | SCOP 50465 | EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain |
| 2 | 2 | 2 | 0 | SCOP 46589 | tRNA-binding arm |
| 2 | 1 | 1 | 0 | SCOP 55979 | DNA clamp |
| 2 | 2 | 2 | 1 | SCOP 56719 | Type II DNA topoisomerase |
| 2 | 2 | 2 | 1 | SCOP 50677 | ValRS/IleRS/LeuRS editing domain |
| 2 | 2 | 1 | 0 | SCOP 50615 | N-terminal domain of alpha and beta subunits of F1 ATP synthase |
| 2 | 1 | 1 | 0 | SCOP 49493 | HSP40/DnaJ peptide-binding domain |
| 2 | 2 | 2 | 1 | SCOP 64158 | 2,3-Bisphosphoglycerate-independent phosphoglycerate mutase, substrate-binding domain |
| 2 | 2 | 1 | 1 | SCOP 47917 | C-terminal domain of alpha and beta subunits of F1 ATP synthase |
| 1 | 1 | 1 | 1 | SCOP 51556 | Metallo-dependent hydrolases |
| 1 | 1 | 1 | 0 | SCOP 56731 | DNA primase core |
| 1 | 1 | 1 | 1 | SCOP 51569 | Aldolase |
| 1 | 1 | 1 | 0 | SCOP 48013 | NusB-like |
| 1 | 1 | 1 | 0 | SCOP 55594 | HPr-like |
| 1 | 1 | 1 | 1 | SCOP 56808 | Ribosomal protein L1 |
| 1 | 1 | 1 | 0 | SCOP 53178 | Peptidyl-tRNA hydrolase-like |
| 1 | 1 | 1 | 1 | SCOP 47973 | Ribosomal protein S7 |
| 1 | 1 | 1 | 0 | SCOP 46911 | Ribosomal protein S18 |
| 1 | 1 | 1 | 1 | SCOP 75304 | Amidase signature (AS) enzymes |
| 1 | 1 | 1 | 0 | SCOP 51905 | FAD/NAD(P)-binding domain |
| 1 | 1 | 1 | 0 | SCOP 143597 | YojJ-like |
| 1 | 1 | 1 | 0 | SCOP 56112 | Protein kinase-like (PK-like) |
| 1 | 1 | 1 | 1 | SCOP 53697 | SIS domain |
| 1 | 1 | 1 | 0 | SCOP 52833 | Thioredoxin-like |
| 1 | 1 | 1 | 0 | SCOP 54197 | HIT-like |
| 1 | 1 | 1 | 0 | SCOP 89919 | Ribosome-binding factor A, RbfA |
| 1 | 1 | 1 | 0 | SCOP 54999 | Ribosomal protein S10 |
| 1 | 1 | 1 | 1 | SCOP 52166 | Ribosomal protein L4 |
| 1 | 1 | 1 | 0 | SCOP 54189 | Ribosomal proteins S24e, L23 and L15e |
| 1 | 1 | 1 | 0 | SCOP 54570 | Ribosomal protein S19 |
| 1 | 1 | 1 | 0 | SCOP 54843 | Ribosomal protein L22 |
| 1 | 1 | 1 | 1 | SCOP 54686 | Ribosomal protein L16p/L10e |
| 1 | 1 | 1 | 1 | SCOP 50193 | Ribosomal protein L14 |
| 1 | 1 | 1 | 1 | SCOP 55282 | RL5-like |
| 1 | 1 | 1 | 0 | SCOP 57716 | Glucocorticoid receptor-like (DNA-binding domain) |
| 1 | 1 | 1 | 0 | SCOP 56047 | Ribosomal protein S8 |
| 1 | 1 | 1 | 0 | SCOP 52080 | Ribosomal proteins L15p and L18e |
| 1 | 1 | 1 | 0 | SCOP 103491 | Preprotein translocase SecY subunit |
| 1 | 1 | 1 | 1 | SCOP 55920 | Creatinase/aminopeptidase |
| 1 | 1 | 1 | 0 | SCOP 57840 | Ribosomal protein L36 |
| 1 | 1 | 1 | 0 | SCOP 46946 | S13-like H2TH domain |
| 1 | 1 | 1 | 0 | SCOP 64263 | Prokaryotic ribosomal protein L17 |
| 1 | 1 | 1 | 0 | SCOP 143034 | L35p-like |
| 1 | 1 | 1 | 1 | SCOP 74731 | Ribosomal protein L20 |
| 1 | 1 | 1 | 0 | SCOP 56300 | Metallo-dependent phosphatases |
| 1 | 1 | 1 | 1 | SCOP 53784 | Phosphofructokinase |
| 1 | 1 | 1 | 0 | SCOP 89447 | AbrB/MazE/MraZ-like |
| 1 | 1 | 1 | 1 | SCOP 47240 | Ferritin-like |
| 1 | 1 | 1 | 0 | SCOP 141091 | L21p-like |
| 1 | 1 | 1 | 0 | SCOP 110324 | Ribosomal L27 protein-like |
| 1 | 1 | 1 | 1 | SCOP 51658 | Xylose isomerase-like |
| 1 | 1 | 1 | 1 | SCOP 75620 | Release factor |
| 1 | 1 | 1 | 0 | SCOP 103473 | MFS general substrate transporter |
| 1 | 1 | 1 | 1 | SCOP 53748 | Phosphoglycerate kinase |
| 1 | 1 | 1 | 1 | SCOP 55174 | Alpha-L RNA-binding motif |
| 1 | 1 | 1 | 0 | SCOP 53383 | PLP-dependent transferases |
| 1 | 1 | 1 | 0 | SCOP 82649 | SufE/NifU |
| 1 | 1 | 1 | 1 | SCOP 50324 | Inorganic pyrophosphatase |
| 1 | 1 | 1 | 0 | SCOP 160369 | Ribosomal protein L10-like |
| 1 | 1 | 1 | 0 | SCOP 46992 | Ribosomal protein S20 |
| 1 | 1 | 1 | 0 | SCOP 109998 | Triger factor/SurA peptide-binding domain-like |
| 1 | 1 | 1 | 0 | SCOP 55486 | Metalloproteases ("zincins"), catalytic domain |
| 1 | 1 | 1 | 0 | SCOP 52943 | ATP synthase (F1-ATPase), gamma subunit |
| 1 | 1 | 1 | 0 | SCOP 109755 | PhoU-like |
| 1 | 1 | 1 | 1 | SCOP 52161 | Ribosomal protein L13 |
| 1 | 1 | 1 | 0 | SCOP 47060 | S15/NS1 RNA-binding domain |
| 1 | 1 | 1 | 1 | SCOP 51351 | Triosephosphate isomerase (TIM) |
| 1 | 1 | 1 | 1 | SCOP 53633 | Carbamate kinase-like |
| 1 | 1 | 1 | 0 | SCOP 55194 | Ribosome recycling factor, RRF |
| 1 | 1 | 1 | 0 | SCOP 54565 | Ribosomal protein S16 |
| 1 | 1 | 1 | 1 | SCOP 48557 | L-aspartase-like |
| 1 | 1 | 1 | 0 | SCOP 55821 | YrdC/RibB |
| 1 | 1 | 1 | 0 | SCOP 51261 | Duplicated hybrid motif |
| 1 | 1 | 1 | 1 | SCOP 53720 | ALDH-like |
| 1 | 1 | 1 | 1 | SCOP 51412 | Inosine monophosphate dehydrogenase (IMPDH) |
| 1 | 1 | 1 | 1 | SCOP 52313 | Ribosomal protein S2 |
| 1 | 1 | 1 | 0 | SCOP 46561 | Ribosomal protein L29 (L29p) |
| 1 | 1 | 1 | 0 | SCOP 56796 | Dehydroquinate synthase-like |
| 1 | 1 | 1 | 0 | SCOP 54995 | Ribosomal protein S6 |
| 1 | 1 | 1 | 1 | SCOP 53187 | Zn-dependent exopeptidases |
| 1 | 1 | 1 | 0 | SCOP 47473 | EF-hand |
| 1 | 1 | 1 | 0 | SCOP 51430 | NAD(P)-linked oxidoreductase |
| 1 | 1 | 1 | 0 | SCOP 88723 | PIN domain-like |
| 1 | 1 | 1 | 0 | SCOP 54534 | FKBP-like |
| 1 | 1 | 1 | 1 | SCOP 53649 | Alkaline phosphatase-like |
| 1 | 1 | 1 | 0 | SCOP 55781 | GAF domain-like |
| 1 | 1 | 1 | 0 | SCOP 55257 | RBP11-like subunits of RNA polymerase |
| 1 | 1 | 1 | 1 | SCOP 55931 | Glutamine synthetase/guanido kinase |
| 1 | 1 | 1 | 0 | SCOP 54631 | CBS-domain pair |
| 1 | 1 | 1 | 1 | SCOP 53795 | PEP carboxykinase-like |
| 1 | 1 | 1 | 1 | SCOP 51998 | PFL-like glycyl radical enzymes |
| 1 | 1 | 1 | 1 | SCOP 55874 | ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase |
| 1 | 1 | 1 | 1 | SCOP 88946 | Sigma2 domain of RNA polymerase sigma factors |
| 1 | 1 | 1 | 0 | SCOP 89550 | PHP domain-like |
| 1 | 1 | 1 | 0 | SCOP 54736 | ClpS-like |
| 1 | 1 | 1 | 0 | SCOP 50800 | PK beta-barrel domain-like |
| 1 | 1 | 1 | 0 | SCOP 55200 | Translation initiation factor IF3, C-terminal domain |
| 1 | 1 | 1 | 0 | SCOP 88697 | PUA domain-like |
| 1 | 1 | 1 | 0 | SCOP 101386 | all-alpha NTP pyrophosphatases |
| 1 | 1 | 1 | 0 | SCOP 55604 | Glucose permease domain IIB |
| 1 | 1 | 1 | 0 | SCOP 48295 | TrpR-like |
| 1 | 1 | 1 | 0 | SCOP 75138 | HprK N-terminal domain-like |
| 1 | 1 | 1 | 0 | SCOP 50331 | MOP-like |
| 1 | 1 | 1 | 1 | SCOP 51604 | Enolase C-terminal domain-like |
| 1 | 1 | 1 | 1 | SCOP 56091 | DNA ligase/mRNA capping enzyme, catalytic domain |
| 1 | 1 | 1 | 0 | SCOP 158791 | MgtE N-terminal domain-like |
| 1 | 1 | 1 | 0 | SCOP 46565 | Chaperone J-domain |
| 1 | 1 | 1 | 0 | SCOP 48024 | N-terminal domain of DnaB helicase |
| 1 | 1 | 1 | 0 | SCOP 90123 | ABC transporter transmembrane region |
| 1 | 1 | 1 | 0 | SCOP 82866 | Multidrug efflux transporter AcrB transmembrane domain |
| 1 | 1 | 1 | 1 | SCOP 56712 | Prokaryotic type I DNA topoisomerase |
| 1 | 1 | 1 | 0 | SCOP 57938 | DnaJ/Hsp40 cysteine-rich domain |
| 1 | 1 | 1 | 0 | SCOP 46906 | Ribosomal protein L11, C-terminal domain |
| 1 | 1 | 1 | 0 | SCOP 69304 | Tricorn protease N-terminal domain |
| 1 | 1 | 1 | 1 | SCOP 54821 | Ribosomal protein S3 C-terminal domain |
| 1 | 1 | 1 | 0 | SCOP 52009 | Phosphohistidine domain |
| 1 | 1 | 1 | 0 | SCOP 81336 | F1F0 ATP synthase subunit A |
| 1 | 1 | 1 | 0 | SCOP 47789 | C-terminal domain of RNA polymerase alpha subunit |
| 1 | 1 | 1 | 0 | SCOP 51344 | Epsilon subunit of F1F0-ATP synthase N-terminal domain |
| 1 | 1 | 1 | 0 | SCOP 82679 | N-utilization substance G protein NusG, N-terminal domain |
| 1 | 1 | 1 | 0 | SCOP 55190 | Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain |
| 1 | 1 | 1 | 0 | SCOP 116726 | TrkA C-terminal domain-like |
| 1 | 1 | 1 | 0 | SCOP 161093 | MgtE membrane domain-like |
| 1 | 1 | 1 | 1 | SCOP 140990 | FtsH protease domain-like |
| 1 | 1 | 1 | 1 | SCOP 55347 | Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain |
| 1 | 1 | 1 | 0 | SCOP 48163 | An anticodon-binding domain of class I aminoacyl-tRNA synthetases |
| 1 | 1 | 1 | 1 | SCOP 54826 | Enolase N-terminal domain-like |
| 1 | 1 | 1 | 1 | SCOP 54810 | GMP synthetase C-terminal dimerisation domain |
| 1 | 1 | 1 | 1 | SCOP 101904 | GyrA/ParC C-terminal domain-like |
| 1 | 1 | 1 | 0 | SCOP 47364 | Domain of the SRP/SRP receptor G-proteins |
| 1 | 1 | 1 | 0 | SCOP 48300 | Ribosomal protein L7/12, oligomerisation (N-terminal) domain |
| 1 | 1 | 1 | 1 | SCOP 100920 | Heat shock protein 70kD (HSP70), peptide-binding domain |
| 1 | 1 | 1 | 0 | SCOP 46934 | UBA-like |
| 1 | 1 | 1 | 0 | SCOP 56327 | LDH C-terminal domain-like |
| 1 | 1 | 1 | 0 | SCOP 54768 | dsRNA-binding domain-like |
| 1 | 1 | 1 | 0 | SCOP 52113 | BRCT domain |
| 1 | 1 | 1 | 0 | SCOP 47831 | Enzyme I of the PEP:sugar phosphotransferase system HPr-binding (sub)domain |
| 1 | 1 | 1 | 0 | SCOP 56053 | Ribosomal protein L6 |
| 1 | 1 | 1 | 0 | SCOP 54752 | RecA protein, C-terminal domain |
| 1 | 1 | 1 | 0 | SCOP 100934 | Heat shock protein 70kD (HSP70), C-terminal subdomain |
| 1 | 1 | 1 | 0 | SCOP 55957 | Phosphoglucomutase, C-terminal domain |
| 1 | 1 | 1 | 0 | SCOP 46557 | GreA transcript cleavage protein, N-terminal domain |
| 1 | 1 | 1 | 0 | SCOP 47807 | 5' to 3' exonuclease, C-terminal subdomain |
| 1 | 1 | 1 | 0 | SCOP 47446 | Signal peptide-binding domain |
| 1 | 1 | 1 | 1 | SCOP 82051 | Obg GTP-binding protein N-terminal domain |
| 1 | 1 | 1 | 0 | SCOP 54713 | Elongation factor Ts (EF-Ts), dimerisation domain |
| 1 | 1 | 1 | 0 | SCOP 54747 | Ribosomal L11/L12e N-terminal domain |
| 1 | 1 | 1 | 0 | SCOP 48168 | R1 subunit of ribonucleotide reductase, N-terminal domain |
| 1 | 1 | 1 | 0 | SCOP 81886 | Helical scaffold and wing domains of SecA |
| 1 | 1 | 1 | 0 | SCOP 52156 | Initiation factor IF2/eIF5b, domain 3 |
| 1 | 1 | 1 | 0 | SCOP 64586 | C-terminal domain of ProRS |
| 1 | 1 | 1 | 0 | SCOP 51064 | Head domain of nucleotide exchange factor GrpE |
| 1 | 1 | 1 | 0 | SCOP 101353 | Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) |
| 1 | 1 | 1 | 0 | SCOP 56553 | Insert subdomain of RNA polymerase alpha subunit |
| 1 | 1 | 1 | 0 | SCOP 54364 | Translation initiation factor IF3, N-terminal domain |
| 1 | 1 | 1 | 0 | SCOP 69705 | Transcription factor NusA, N-terminal domain |
| 1 | 1 | 1 | 0 | SCOP 81767 | Pre-protein crosslinking domain of SecA |
| 1 | 1 | 1 | 0 | SCOP 81799 | Putative methyltransferase TM0872, insert domain |
| 1 | 1 | 1 | 0 | SCOP 102741 | Obg GTP-binding protein C-terminal domain |
