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I-TASSER I-TASSER-MTD C-I-TASSER CR-I-TASSER QUARK C-QUARK LOMETS MUSTER CEthreader SEGMER DeepFold DeepFoldRNA FoldDesign COFACTOR COACH MetaGO TripletGO IonCom FG-MD ModRefiner REMO DEMO DEMO-EM DMFold SPRING COTH Threpp PEPPI BSpred ANGLOR EDock BSP-SLIM SAXSTER FUpred ThreaDom ThreaDomEx EvoDesign BindProf BindProfX SSIPe GPCR-I-TASSER MAGELLAN ResQ STRUM DAMpred

TM-score TM-align US-align MM-align RNA-align NW-align LS-align EDTSurf MVP MVP-Fit SPICKER HAAD PSSpred 3DRobot MR-REX I-TASSER-MR SVMSEQ NeBcon ResPRE TripletRes DeepPotential WDL-RF ATPbind DockRMSD DeepMSA FASPR EM-Refiner GPU-I-TASSER

BioLiP E. coli GLASS GPCR-HGmod GPCR-RD GPCR-EXP Tara-3D TM-fold DECOYS POTENTIAL RW/RWplus EvoEF HPSF THE-DB ADDRESS Alpaca-Antibody CASP7 CASP8 CASP9 CASP10 CASP11 CASP12 CASP13 CASP14

BioLiP
>protein
MKFSNITIKNFRNFEKVNINLDNKNVIFGMNDIGKTNFLYALRFLLDKEIRKFGFNKSDYHKHDTSKKIEIILTLDLSNY
EKDEDTKKLISVVKGARTSANADVFYIALESKYDDKELYGNIILKWGSELDNLIDIPGRGNINALDNVFKVIYINPLVDL
DKLFAQNKKYIFEESQGNESDEGILNNIKSLTDQVNQQIGEMTIIKGFQQEITKGFFSDIIPYIKKDGDSNYYPTSGDGR
RKMLSYSIYNYLAKKKYEDKIVIYLIEEPEISLHRSMQIALSKQLFEQSTYKYFFLSTHSPELLYEMDNTRLIRVHSTEK
VVCSSHMYNVEEAYGSVKKKLNKALSSALFAERVLLIEGPSEKILFEKVLDEVEPEYELNGGFLLEVGGTYFNHYVCTLN
DLGITHIIKTDNDLKSKKGKKGVYELLGLNRCLNLLGRENLDEITIDIPEDIKGKKKKERLNERKKEIFKQYKNEVGEFL
GERIYLSEIDLENDLYSAIGESMKRIFENEDPVHYLQKSKLFNMVELVNNLSTKDCFDVFEHEKFACLKELVGSDRG

The query sequence (length=557) is searched through a non-redundant set of database sequences protein_nr.fasta.gz clustered at 90% identity cutoff to identify representative hits. Homologs that belong to the same sequence cluster of the representative hit are listed in the last column of the table.

# Hit Hit
length
Aligned
length
Identity
(normalized by query)
Identity
(normalized by hit)
Identity (normalized
by aligned length)
E-value Homologs
to hit
1 8x5i:D 557 557 1.0000 1.0000 1.0000 0.0 8x5i:B
2 8x5i:A 477 325 0.5781 0.6751 0.9908 0.0 8x5i:C, 8x5n:A, 8x5n:D, 8x5n:B, 8x5n:C
3 8x5i:A 477 156 0.2801 0.3270 1.0000 2.96e-101 8x5i:C, 8x5n:A, 8x5n:D, 8x5n:B, 8x5n:C
4 8wy4:A 451 295 0.5296 0.6541 1.0000 0.0 8wy4:B, 8wy4:D, 8wy4:C, 8wy5:A, 8wy5:B, 8wy5:C, 8wy5:D, 8x51:A, 8x51:B
5 8wy4:A 451 306 0.3268 0.4035 0.5948 4.66e-102 8wy4:B, 8wy4:D, 8wy4:C, 8wy5:A, 8wy5:B, 8wy5:C, 8wy5:D, 8x51:A, 8x51:B
6 8v47:H 306 77 0.0485 0.0882 0.3506 5.65e-04 8v48:H, 8v48:K
7 8v46:A 412 77 0.0485 0.0655 0.3506 0.001 8ux9:B, 8ux9:C, 8v46:B, 8v47:A, 8v47:B, 8v47:C, 8v48:A, 8v48:B, 8v48:C, 8v48:F, 8v49:A, 8v49:B
8 8v45:B 383 80 0.0485 0.0705 0.3375 0.003 8v45:A, 8v45:F, 8v45:C
9 6njw:A 208 71 0.0413 0.1106 0.3239 0.005 6njv:A
10 6wge:B 490 52 0.0341 0.0388 0.3654 0.082
11 8rok:A 381 52 0.0341 0.0499 0.3654 0.082 8pq5:B
12 8p0a:B 314 52 0.0341 0.0605 0.3654 0.083
13 8rol:A 411 52 0.0341 0.0462 0.3654 0.090 8roi:A, 8roj:A, 8rok:C
14 7w1m:B 528 52 0.0341 0.0360 0.3654 0.094
15 7w1m:B 528 100 0.0395 0.0417 0.2200 5.0
16 6wg3:B 693 52 0.0341 0.0274 0.3654 0.11
17 6wg3:B 693 100 0.0377 0.0303 0.2100 9.2
18 5z68:C 373 46 0.0323 0.0483 0.3913 0.14 5z68:A, 5z68:B, 5z68:D, 5z69:A
19 6qpw:C 377 45 0.0341 0.0504 0.4222 0.15
20 6zz6:B 423 45 0.0341 0.0449 0.4222 0.17
21 4ux3:A 436 45 0.0341 0.0436 0.4222 0.22
22 6nk8:B 204 67 0.0323 0.0882 0.2687 0.48 6nk8:A
23 4rdv:B 451 39 0.0305 0.0377 0.4359 0.93 3mdu:A, 3mdw:A, 3mdw:B, 3mdw:C, 3mdw:D, 4rdv:A, 4rdv:C, 4rdv:D, 4rdw:A, 4rzb:A, 4rzb:B
24 6yuf:C 456 38 0.0251 0.0307 0.3684 1.0
25 5hut:A 469 109 0.0539 0.0640 0.2752 1.0 5hut:B, 5huu:A, 5huu:B, 5huv:A, 5huv:B, 5hvl:A, 5hvl:B
26 3qkt:A 339 43 0.0269 0.0442 0.3488 1.8 4ncj:C, 4ncj:D, 3qkt:C
27 3qkt:B 319 43 0.0269 0.0470 0.3488 1.9 4ncj:A, 4ncj:B, 3qkt:D, 3qku:B
28 3qku:A 359 43 0.0269 0.0418 0.3488 2.2 1f2u:A, 1f2u:D, 1f2u:C, 1f2u:B, 3qks:A, 3qks:B
29 8eyk:F 1070 154 0.0646 0.0336 0.2338 2.9
30 2my1:A 159 24 0.0197 0.0692 0.4583 3.0 7b9v:L, 6bk8:I, 7dco:N, 6exn:L, 5gm6:T, 5gmk:T, 6j6g:T, 6j6h:T, 6j6n:T, 6j6q:T, 5lj3:L, 5lj5:L, 5lqw:E, 5mps:L, 5mq0:L, 5wsg:T, 5y88:L, 5ylz:L
31 8eyi:F 1211 153 0.0646 0.0297 0.2353 4.1 4w9n:A, 4w9n:B, 4w9n:C, 4w9n:D
32 5dcs:A 287 67 0.0287 0.0557 0.2388 5.0 5dco:A, 5dcr:A, 5ekb:A, 6f65:A, 6f6b:A, 6f6c:A, 6f6c:B, 6f6e:A, 6f6e:B, 6f6f:A, 6f6g:A, 6f6g:B, 6f6h:A, 6f6h:B, 6f6k:A, 6f6k:B, 6f6l:A, 6f6l:B, 6f6m:A, 6f6m:B, 4hr0:A, 4hr4:A, 6i90:A, 6i92:A, 6i93:A, 6i94:A, 6i95:A, 5omj:A, 5omk:A, 6qjv:A, 6qk0:A, 6qk0:B, 6qk1:A, 6qk2:A, 6qk2:B, 4xb9:A, 4xbv:A, 4xbv:B, 4xbw:A
33 3kyd:B 477 58 0.0359 0.0419 0.3448 8.3
34 1xs9:A 129 117 0.0521 0.2248 0.2479 8.6 1bl0:A

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Reference:
  • Chengxin Zhang, Xi Zhang, Peter L Freddolino, and Yang Zhang. BioLiP2: an updated structure database for biologically relevent ligand-protein interactions, Nucleic Acids Research, gkad630 (2023).
  • Jianyi Yang, Ambrish Roy, and Yang Zhang. BioLiP: a semi-manually curated database for biologically relevant ligand-protein interactions, Nucleic Acids Research, 41: D1096-D1103 (2013) (download the PDF file).
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