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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
QVIEDDRNNRGTEPFVTGVRGQVPPLVTTNFLVKDQGNASPRYIRCTSYNIPCTSDMAKQAQVPLAAVIKPLARLPPEEA
SPYVVDHGESGPLRCNRCKAYMCPFMQFIEGGRRFQCCFCSCINDVPPQYFQHLDHTGKRVDAYDRPELSLGSYEFLATV
DYCKNNKFPSPPAFIFMIDVSYNAIRTGLVRLLCEELKSLLDFLPREGGAEESAIRVGFVTYNKVLHFYNVKSSLAQPQM
MVVSDVADMFVPLLDGFLVNVNESRAVITSLLDQIPEMFTETVFVPVIQAGMEALKAAECAGKLFLFHTSLPIAEAPGKL
KNRDDRKLINTDKEKTLFQPQTGAYQTLAKECVAQGCCVDLFLFPNQYVDVATLSVVPQLTGGSVYKYASFQVENDQERF
LSDLRRDVQKVVGFDAVMRVRTSTGIRAVDFFGAFYMSNTTDVELAGLDGDKTVTVEFKHDDRLNEESGALLQCALLYTS
CAGQRRLRIHNLALNCCTQLADLYRNCETDTLINYMAKFAYRGVLNSPVKAVRDTLITQCAQILACYRKNCGQLILPECM
KLLPVYLNCVLKSDVLQPGAEVTTDDRAYVRQLVTSMDVTETNVFFYPRLLPLTESTTEPPAVRASEERLSNGDIYLLEN
GLNLFLWVGASVQQGVVQITSGLSVLPVLDNPLSKKVRGLIDSLRAQRSRYMKLTVVKQEDKMEMLFKHFLVEDKSLSGG
ASYVDFLCHMHKEIRQLLS

The query sequence (length=739) 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 3eh2:A 758 756 0.9959 0.9710 0.9735 0.0 3eh2:B, 3eh2:C
2 3efo:B 767 764 0.6604 0.6362 0.6387 0.0 3eg9:B, 5kyu:B, 5kyw:B, 5kyx:B, 5kyy:B
3 3eh1:A 737 730 0.3112 0.3121 0.3151 8.76e-122
4 3egd:B 731 732 0.2991 0.3023 0.3019 7.72e-117 3egx:B, 8hr0:B, 2nup:B, 2nut:B, 5vne:B, 5vnf:B, 5vng:B, 5vnh:B, 5vni:B, 5vnj:B, 5vnk:B, 5vnl:B, 5vnm:B, 5vnn:B, 5vno:B
5 6zga:B 786 760 0.2774 0.2608 0.2697 5.69e-75 4bzi:E, 4bzi:L, 4bzi:M, 6gni:E, 1m2v:B, 6zga:F
6 1pcx:A 745 748 0.2679 0.2658 0.2647 1.02e-66 1pd0:A, 1pd1:A
7 5kyn:A 730 686 0.1840 0.1863 0.1983 1.46e-15 3efo:A, 3eg9:A, 3egd:A, 3egx:A, 8hr0:A, 5kyn:B, 5kyu:A, 5kyw:A, 5kyx:A, 5kyy:A, 2nup:A, 2nut:A, 5vne:A, 5vnf:A, 5vng:A, 5vnh:A, 5vni:A, 5vnj:A, 5vnk:A, 5vnl:A, 5vnm:A, 5vnn:A, 5vno:A
8 1m2v:A 705 664 0.1827 0.1915 0.2033 1.11e-12
9 6zga:A 751 689 0.1840 0.1811 0.1974 1.00e-08 4bzi:A, 4bzi:D, 4bzi:G, 6gni:A, 1m2o:A, 1m2o:C, 2qtv:A, 6zga:E
10 7c2h:G 197 103 0.0284 0.1066 0.2039 4.1
11 1sli:A 679 83 0.0325 0.0353 0.2892 4.8 2sli:A, 3sli:A, 4sli:A
12 1nks:C 194 110 0.0379 0.1443 0.2545 5.2 1nks:D, 1nks:F
13 6dxp:A 206 59 0.0284 0.1019 0.3559 6.1 6dxp:C, 6dxp:B, 6dxp:D, 8h4j:A, 8h4j:B, 8h4j:C, 8h4j:D, 8h4j:E, 8h4j:F, 8h4j:G, 8h4j:H, 7n2w:A, 7n2w:B, 7n2w:C, 7n2w:D
14 5faf:A 113 65 0.0257 0.1681 0.2923 6.6 5fae:A, 5o2z:B, 5o2z:A, 6qw3:A, 4s10:C, 4s10:D
15 2yrc:A 59 48 0.0230 0.2881 0.3542 10.0 2yrd: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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