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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
LSSGSSAAVPFSTAVRFESPSGGLDRYSRVDPAAPGPNVITRFLFKDRPVRRSDPSLSEVDREATMRTVYRNVMGNAYVM
EEERAELATLESQFLVGAISTRDFVRGVAKSATYKKRFFESVSQFRFIELNFKHFMGRAPLDMAEMSKHYEIFAAGGYDA
EVDSYFDSEEYLDVFGLDTVPYMRFRGTYAPNSTFNLQCRLQGGWARSDKKLPMMSMLPLNNKAAIMPHQIVDGLPVIPN
SEHPSQKYNVPKVSREKLQRELLIAQGKANALQIELDAAYTSLASSRAFLAPFAAMAADMDIRPLYGKNPQVFAGQFLGV
GAGQWGKTGADTVRGRSRRVAADIGVKEFQLERVKQLVVDLQRALALEDAEADAPATSLLQAYQAKVYVKPPVIAKKKGP
EPVNEDEITIGQGDKKIKVTVLRNLGDRTEKLREKPEKEEEEGPRTFKDLYETAKPMKGFPGD

The query sequence (length=463) 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 7y4l:z8 463 463 1.0000 1.0000 1.0000 0.0 7ezx:zJ, 7ezx:zL, 6kgx:zE, 6kgx:zG, 7y4l:zF, 7y5e:zK, 7y5e:zF, 7y7a:zT, 7y7a:zQ, 7y7a:zb, 7y7a:z6
2 5y6p:a8 362 372 0.3737 0.4779 0.4651 1.04e-110 5y6p:a9
3 7y4l:bH 407 188 0.2073 0.2359 0.5106 1.42e-60 7ezx:bB, 7ezx:bM, 6kgx:b8, 6kgx:bA, 7y4l:b4, 7y5e:bJ, 7y5e:bM, 7y7a:b3, 7y7a:bC, 7y7a:bV, 7y7a:bp
4 5y6p:B2 374 155 0.1814 0.2246 0.5419 2.43e-56 5y6p:b3
5 5y6p:dy 303 161 0.1706 0.2607 0.4907 2.10e-48 5y6p:dz
6 7ezx:d4 297 156 0.1663 0.2593 0.4936 1.05e-46 7ezx:dD, 6kgx:d9, 6kgx:dJ, 7y4l:d5, 7y4l:dJ, 7y5e:dD, 7y5e:dQ, 7y7a:d2, 7y7a:dc, 7y7a:dF, 7y7a:dM
7 7ezx:MC 280 136 0.1512 0.2500 0.5147 1.92e-42 7ezx:ME, 7y4l:ZG, 7y4l:MG, 7y5e:ZI, 7y5e:MI, 7y7a:MJ, 7y7a:Mk, 7y7a:ZJ, 7y7a:Zk
8 7ezx:O3 375 204 0.1879 0.2320 0.4265 8.71e-40 7ezx:OO, 6kgx:b1, 6kgx:o1, 6kgx:b4, 6kgx:o4, 7liz:A, 7y4l:Y7, 7y4l:b7, 7y5e:YP, 7y5e:bP, 7y7a:YL, 7y7a:bL, 7y7a:bU, 7y7a:YU
9 7ezx:e2 248 160 0.1490 0.2782 0.4313 1.64e-37 7ezx:eR, 6kgx:e3, 6kgx:eD, 7y4l:eK, 7y4l:e1, 7y5e:eA, 7y5e:e7, 7y7a:eD, 7y7a:e5, 7y7a:eg, 7y7a:ei
10 5y6p:ex 233 169 0.1512 0.3004 0.4142 1.41e-31 5y6p:ew, 5y6p:fz, 5y6p:fd
11 7ezx:X1 324 174 0.1469 0.2099 0.3908 8.61e-28 7ezx:X7, 7ezx:X9, 7ezx:XF, 7ezx:XI, 7ezx:XK, 6kgx:X2, 6kgx:X6, 6kgx:X7, 6kgx:XB, 6kgx:XF, 6kgx:XI, 7y4l:XB, 7y4l:XC, 7y4l:XD, 7y4l:XE, 7y4l:X2, 7y4l:X6, 7y5e:XE, 7y5e:XG, 7y5e:XH, 7y5e:XO, 7y5e:X1, 7y5e:X4, 7y7a:X1, 7y7a:X4, 7y7a:X8, 7y7a:XI, 7y7a:XK, 7y7a:XP, 7y7a:XR, 7y7a:XS, 7y7a:Xe, 7y7a:Xj, 7y7a:Xl, 7y7a:Xn
12 5y6p:24 331 171 0.1296 0.1813 0.3509 3.58e-24 5y6p:X5, 5y6p:S8, 5y6p:X9, 5y6p:aX, 5y6p:bX
13 8tpj:A 210 158 0.1123 0.2476 0.3291 3.48e-20
14 8uhe:K 593 141 0.1037 0.0809 0.3404 6.85e-16
15 8uhe:K 593 123 0.0907 0.0708 0.3415 2.44e-14
16 5y6p:aW 228 127 0.0713 0.1447 0.2598 3.93e-11 5y6p:14, 5y6p:W5, 5y6p:R8, 5y6p:W9, 5y6p:bW
17 4nhb:B 311 44 0.0346 0.0514 0.3636 1.1 4nhb:A
18 3crv:A 551 82 0.0562 0.0472 0.3171 3.4 5h8c:A
19 2vf8:B 835 50 0.0367 0.0204 0.3400 6.5 2vf7:A, 2vf7:C
20 2vf7:B 813 50 0.0367 0.0209 0.3400 6.6 2vf8:A
21 1xim:A 392 58 0.0389 0.0459 0.3103 9.7 1xim:B, 1xim:C, 1xim:D, 1xin:A, 1xin:B, 1xin:C, 1xin:D, 2xim:A, 2xim:B, 2xim:C, 2xim:D, 2xin:A, 2xin:B, 2xin:C, 2xin:D, 3xim:A, 3xim:B, 3xim:C, 3xim:D, 4xim:A, 4xim:B, 4xim:C, 4xim:D, 5xim:A, 5xim:B, 5xim:C, 5xim:D, 5xin:A, 5xin:B, 5xin:C, 5xin:D, 6xim:A, 6xim:B, 6xim:C, 6xim:D, 8xim:A, 8xim:B, 8xim:C, 8xim:D, 9xim:A, 9xim:B, 9xim:C, 9xim:D

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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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