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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
SYNYAEALQKAIYFYECQQAGPLPEWNRVEWRGDATMNDEVLGGWYDAGAHVKFNLPMAYSAAMLGWALYEYGDDIEASG
QRLHLERNLAFALDYLVACDRGDSVVYQIGDGAADHKWWGSAEVIEKEMTRPYFVGKGSAVVGQMAAALAVGSIVLKNDT
YLRYAKKYFELADATRSDSTYTAANGFYSSHSGFWDELLWASTWLYLATGDRNYLDKAESYTPKLNRQNQTTDIEYQWAH
CWDDCHYGAMILLARATGKEEYHKFAQMHLDWWTPQGYNGKRVAYTPGGLAHLDTWGPLRYATTEAFLAFVYADSINDPA
LKQKYYNFAKSQIDYALGSNPDNRSYVVGFGNNPPQRPHHRTAHGTWLDKRDIPEKHRHVLYGALVGGPGRDDSYEDNIE
DYVKNEVACDYNAGFVGALCRLTAEYGGTPLANFPPPEQRDDEFFVEAAINQASDHFTEIKALLNNRSSWPARLIKDLSY
NYYMDLTEVFEAGYSVDDIKVTIGYCESGMDVEISPITHLYDNIYYIKISYIDGTNICPIGQEQYAAELQFRIAAPQGTK
FWDPTNDFSYQGLTRELAKTKYMPVFDGATKIFGEVPGG

The query sequence (length=599) 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 5gxx:A 600 599 0.9983 0.9967 0.9983 0.0 5gxx:B, 5gxy:A, 5gxy:B, 5gxz:A, 5gxz:B, 5gy0:A, 5gy0:B, 5gy1:A, 5gy1:B
2 7unp:A 608 615 0.5242 0.5164 0.5106 0.0 7v0i:C, 7v0i:A, 7v0i:B, 7v0j:A, 7v0j:B, 7v0j:C
3 1g87:B 613 620 0.5042 0.4927 0.4871 0.0 1g87:A, 1ga2:A, 1ga2:B, 1k72:A, 1k72:B, 1kfg:A, 1kfg:B
4 1js4:A 605 619 0.5075 0.5025 0.4911 0.0 1js4:B, 1tf4:A, 1tf4:B, 3tf4:A, 3tf4:B, 4tf4:A, 4tf4:B
5 8u49:A 615 620 0.4942 0.4813 0.4774 0.0 8u4a:A, 8u4f:A
6 4dod:A 454 456 0.4274 0.5639 0.5614 1.64e-170 4doe:A
7 2xfg:A 446 447 0.4190 0.5628 0.5615 5.34e-163
8 4zg8:A 426 447 0.3038 0.4272 0.4072 4.21e-84 4zg8:B, 4zh5:A, 4zh5:B
9 3wc3:A 435 449 0.2938 0.4046 0.3920 3.46e-83 8ihw:A, 8ihx:A, 8ihy:A
10 1ia7:A 431 448 0.2705 0.3759 0.3616 1.28e-82 1ia6:A
11 1ksc:A 433 451 0.2871 0.3972 0.3814 5.56e-79 1ksd:A
12 2yik:A 493 507 0.2922 0.3550 0.3452 4.09e-76
13 2xfg:B 172 172 0.1219 0.4244 0.4244 1.14e-40
14 4cj1:A 544 408 0.1720 0.1893 0.2525 8.80e-12 4cj0:A, 1clc:A
15 3x17:B 548 133 0.0718 0.0785 0.3233 1.72e-10 3x17:A
16 3x17:B 548 79 0.0451 0.0493 0.3418 6.0 3x17:A
17 3gzk:A 531 254 0.1119 0.1262 0.2638 4.45e-10 5e2j:A, 5e2j:B, 3ez8:A, 3h2w:A, 3h3k:A, 3rx5:A, 3rx7:A, 3rx8:A
18 6dht:A 547 430 0.1720 0.1883 0.2395 1.34e-09
19 5u2o:A 543 441 0.1886 0.2081 0.2562 7.95e-09
20 6fhj:A 979 213 0.0902 0.0552 0.2535 0.088 6fhn:A
21 1rq5:A 602 120 0.0484 0.0482 0.2417 0.13
22 5dgr:A 573 48 0.0250 0.0262 0.3125 0.80 5dgr:B
23 1y9g:A 517 86 0.0317 0.0368 0.2209 1.8
24 6mfv:A 641 98 0.0484 0.0452 0.2959 2.2 6mfv:B, 6mfv:C, 6mfv:D
25 6ex6:A 634 83 0.0434 0.0410 0.3133 2.7 6ex6:B
26 2hsj:D 214 113 0.0467 0.1308 0.2478 4.7 2hsj:A, 2hsj:B

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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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