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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
VSKTHSFMTVSLIELWERFGYYGMQALIVYFMVQRLGFDDSRANLVWSACAALIYVSPAIGGWVGDKILGTKRTMLLGAG
ILSVGYALMTVPTENTWFMFSALGVIVVGNGLFKPNAGNLVRKIYESKIDSAFTIYYMAVNVGSTFSMLLTPWIKDYVNA
QYGNEFGWHAAFAVCCVGILVGLGNYALMHKSLANYGSEPDTRPVNKKSLAIVLALAALSVVASAIILEYEDVARVFVYA
AGVAVLGIFFHLERAGLIAALILTVQTVFFFIFYQQMSTSLALFALRNVDWDFQVFGTHLWTWSPAQFQALNPIWIMVLS
PVLAWIAAKFALGFAVVAIGFFIYGFAGQFAVNGKTSSWVMIWGYASYSLGELLVSGLGLAMIARMMGAYFVASGISQYL
GGVVANFASVPQDLVDPLQTLPVYTNLFNKLGVAAVVCTIIALAVLPLMRRLT

The query sequence (length=453) 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 4tpg:A 459 459 1.0000 0.9869 0.9869 0.0 4lep:A, 4lep:B, 4tph:A, 4tpj:B, 4tpj:A
2 6gs4:A 468 483 0.4018 0.3889 0.3768 5.83e-101
3 8b17:A 451 464 0.3885 0.3902 0.3793 3.76e-98 8b18:A, 8b19:A, 8b1a:A, 8b1b:A, 8b1c:A, 8b1d:A, 8b1e:A, 8b1f:A, 8b1g:A, 8b1h:A, 8b1i:A, 8b1j:A, 8b1k:A
4 4ikz:A 485 476 0.3135 0.2928 0.2983 8.64e-48
5 6gz9:A 488 494 0.3135 0.2910 0.2874 4.40e-45 6exs:A, 6hzp:A
6 5oxp:A 462 420 0.2428 0.2381 0.2619 4.98e-38 7ac6:A, 4d2c:A, 5d6k:A, 5oxk:A, 4xni:A
7 7q0m:A 482 483 0.2936 0.2759 0.2754 5.31e-34
8 6fmr:A 475 440 0.2406 0.2295 0.2477 3.19e-33 4d2b:A, 4d2d:A, 5d58:A, 5d59:A, 6eia:A, 6fmy:A, 6ghj:A, 5oxl:A, 5oxm:A, 5oxn:A, 5oxo:A, 5oxq:A, 4xnj:A, 6yof:A, 6yog:A
9 4uvm:A 505 416 0.2252 0.2020 0.2452 5.33e-15
10 7pmx:A 657 187 0.1148 0.0791 0.2781 4.46e-14 7pmw:A
11 6ei3:A 511 428 0.2406 0.2133 0.2547 2.19e-13
12 7pmy:A 657 329 0.1567 0.1081 0.2158 3.14e-11
13 9bis:A 472 164 0.0949 0.0911 0.2622 3.35e-11 9bir:A, 9bit:A, 9biu:A
14 8jhq:A 446 114 0.0552 0.0561 0.2193 0.009
15 8jzx:A 455 188 0.0993 0.0989 0.2394 0.041 8jzx:B
16 8jzs:B 486 188 0.0993 0.0926 0.2394 0.045 8jzs:A, 8jzu:A, 8wx4:B, 8wx4:A
17 6zlz:B 371 52 0.0375 0.0458 0.3269 1.2 4fmh:B, 4fmh:H, 4fmh:K, 4fmh:M, 4fmh:O, 4fmh:Q, 4fmh:T, 4fmi:A, 4fmi:T, 4fmi:E, 4fmi:M, 4fmj:K, 4fmj:M, 4fmj:O, 4fmj:Q, 4fmj:S, 4fmj:T, 4fmj:H, 6zlz:A, 6zlz:C, 6zlz:D, 6zlz:E, 6zlz:F
18 8qsk:A 523 67 0.0442 0.0382 0.2985 1.4 8qsk:C, 8qsl:A, 8qsl:C, 8wx5:A
19 3jcm:G 734 47 0.0353 0.0218 0.3404 1.9 5zwm:N, 5zwo:N
20 8b9d:7 576 57 0.0353 0.0278 0.2807 3.7
21 6cqs:A 242 63 0.0419 0.0785 0.3016 6.1
22 6g9x:B 368 59 0.0375 0.0462 0.2881 9.2 6zgr:B, 6zgs:B, 6zgt:B, 6zgu:B
23 6zgs:A 404 59 0.0375 0.0421 0.2881 9.9 6g9x:A, 6zgr:A, 6zgt:A, 6zgu: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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