BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 047084
(437 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 31/107 (28%), Positives = 46/107 (42%), Gaps = 10/107 (9%)
Query: 2 VLDLEDAPVDYLPEGVGNLFNLHYLSVKNTKVKIIPKSIGNLLGLETLDLKNTLVRELPV 61
L+L P+ P+ L +L + ++ + +P + GLETL L +R LP
Sbjct: 85 ALELRSVPLPQFPDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTLARNPLRALPA 144
Query: 62 EIRNLKRLRYLMVYQY-------NYTAGFAAAKLHEGFGSLTNLQKL 101
I +L RLR L + A A+ H+G L NLQ L
Sbjct: 145 SIASLNRLRELSIRACPELTELPEPLASTDASGEHQG---LVNLQSL 188
Score = 33.9 bits (76), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 33/61 (54%), Gaps = 1/61 (1%)
Query: 1 KVLDLEDAPVDYLPEGVGNLFNLHYLSVKNTKVKIIPKSIGNLLGLETLDLKN-TLVREL 59
+ L LE + LP + NL NL L ++N+ + + +I +L LE LDL+ T +R
Sbjct: 186 QSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNY 245
Query: 60 P 60
P
Sbjct: 246 P 246
>pdb|3RGX|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
pdb|3RGZ|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
Length = 768
Score = 35.8 bits (81), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 44/91 (48%), Gaps = 3/91 (3%)
Query: 2 VLDLEDAPVDYLPEGVGNLFNLHYLSVKNTKVKI-IPKSIGNLLGLETLDL-KNTLVREL 59
+LD D +P G+ N NL+++S+ N ++ IPK IG L L L L N+ +
Sbjct: 472 ILDFNDL-TGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNI 530
Query: 60 PVEIRNLKRLRYLMVYQYNYTAGFAAAKLHE 90
P E+ + + L +L + + AA +
Sbjct: 531 PAELGDCRSLIWLDLNTNLFNGTIPAAMFKQ 561
>pdb|3RIZ|A Chain A, Crystal Structure Of The Plant Steroid Receptor Bri1
Ectodomain
pdb|3RJ0|A Chain A, Plant Steroid Receptor Bri1 Ectodomain In Complex With
Brassinolide
Length = 772
Score = 35.8 bits (81), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 44/91 (48%), Gaps = 3/91 (3%)
Query: 2 VLDLEDAPVDYLPEGVGNLFNLHYLSVKNTKVKI-IPKSIGNLLGLETLDL-KNTLVREL 59
+LD D +P G+ N NL+++S+ N ++ IPK IG L L L L N+ +
Sbjct: 469 ILDFNDL-TGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNI 527
Query: 60 PVEIRNLKRLRYLMVYQYNYTAGFAAAKLHE 90
P E+ + + L +L + + AA +
Sbjct: 528 PAELGDCRSLIWLDLNTNLFNGTIPAAMFKQ 558
>pdb|4B8C|D Chain D, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|J Chain J, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|K Chain K, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|L Chain L, Nuclease Module Of The Yeast Ccr4-Not Complex
Length = 727
Score = 35.0 bits (79), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 40/89 (44%), Gaps = 9/89 (10%)
Query: 18 GNLFNLHYLS---VKNTKVKIIPKSIGNLLGLETLDLKNTLVRELPVEIRNLKRLRYLMV 74
N+F +L+ + + +P I NL L LDL + + LP E+ + +L+Y
Sbjct: 241 ANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYFYF 300
Query: 75 YQYNYTAGFAAAKLHEGFGSLTNLQKLCI 103
+ T L FG+L NLQ L +
Sbjct: 301 FDNMVTT------LPWEFGNLCNLQFLGV 323
Score = 34.7 bits (78), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 36/75 (48%)
Query: 1 KVLDLEDAPVDYLPEGVGNLFNLHYLSVKNTKVKIIPKSIGNLLGLETLDLKNTLVRELP 60
+VLDL + LP +G+ F L Y + V +P GNL L+ L ++ + +
Sbjct: 273 RVLDLSHNRLTSLPAELGSCFQLKYFYFFDNMVTTLPWEFGNLCNLQFLGVEGNPLEKQF 332
Query: 61 VEIRNLKRLRYLMVY 75
++I K + L+ Y
Sbjct: 333 LKILTEKSVTGLIFY 347
>pdb|3SR2|C Chain C, Crystal Structure Of Human Xlf-Xrcc4 Complex
pdb|3SR2|D Chain D, Crystal Structure Of Human Xlf-Xrcc4 Complex
pdb|3SR2|G Chain G, Crystal Structure Of Human Xlf-Xrcc4 Complex
pdb|3SR2|H Chain H, Crystal Structure Of Human Xlf-Xrcc4 Complex
Length = 229
Score = 34.3 bits (77), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 33/66 (50%), Gaps = 6/66 (9%)
Query: 204 QDKLIKPW------QNSVVVKLLGRNIGYKVLCNRLKVMWHQIHDFSVIDLENNYFLIRL 257
Q L++PW +NS++ K+ GY +L + L+ +WH+ D SV+ RL
Sbjct: 11 QGLLMQPWAWLQLAENSLLAKVFITKQGYALLVSDLQQVWHEQVDTSVVSQRAKELNKRL 70
Query: 258 KSPEDA 263
+P A
Sbjct: 71 TAPPAA 76
>pdb|3W03|A Chain A, Xlf-Xrcc4 Complex
pdb|3W03|B Chain B, Xlf-Xrcc4 Complex
Length = 235
Score = 34.3 bits (77), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 33/66 (50%), Gaps = 6/66 (9%)
Query: 204 QDKLIKPW------QNSVVVKLLGRNIGYKVLCNRLKVMWHQIHDFSVIDLENNYFLIRL 257
Q L++PW +NS++ K+ GY +L + L+ +WH+ D SV+ RL
Sbjct: 8 QGLLMQPWAWLQLAENSLLAKVFITKQGYALLVSDLQQVWHEQVDTSVVSQRAKELNKRL 67
Query: 258 KSPEDA 263
+P A
Sbjct: 68 TAPPAA 73
>pdb|3Q4F|E Chain E, Crystal Structure Of Xrcc4XLF-Cernunnos Complex
pdb|3Q4F|F Chain F, Crystal Structure Of Xrcc4XLF-Cernunnos Complex
pdb|3Q4F|A Chain A, Crystal Structure Of Xrcc4XLF-Cernunnos Complex
pdb|3Q4F|B Chain B, Crystal Structure Of Xrcc4XLF-Cernunnos Complex
pdb|3RWR|D Chain D, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|E Chain E, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|H Chain H, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|I Chain I, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|L Chain L, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|M Chain M, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|O Chain O, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|Q Chain Q, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|S Chain S, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|W Chain W, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|T Chain T, Crystal Structure Of The Human Xrcc4-Xlf Complex
pdb|3RWR|X Chain X, Crystal Structure Of The Human Xrcc4-Xlf Complex
Length = 230
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 33/66 (50%), Gaps = 6/66 (9%)
Query: 204 QDKLIKPW------QNSVVVKLLGRNIGYKVLCNRLKVMWHQIHDFSVIDLENNYFLIRL 257
Q L++PW +NS++ K+ GY +L + L+ +WH+ D SV+ RL
Sbjct: 6 QGLLMQPWAWLQLAENSLLAKVFITKQGYALLVSDLQQVWHEQVDTSVVSQRAKELNKRL 65
Query: 258 KSPEDA 263
+P A
Sbjct: 66 TAPPAA 71
>pdb|2QM4|A Chain A, Crystal Structure Of Human Xlf/cernunnos, A Non-homologous
End-joining Factor
pdb|2QM4|B Chain B, Crystal Structure Of Human Xlf/cernunnos, A Non-homologous
End-joining Factor
pdb|2QM4|C Chain C, Crystal Structure Of Human Xlf/cernunnos, A Non-homologous
End-joining Factor
pdb|2QM4|D Chain D, Crystal Structure Of Human Xlf/cernunnos, A Non-homologous
End-joining Factor
Length = 235
Score = 33.1 bits (74), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 32/66 (48%), Gaps = 6/66 (9%)
Query: 204 QDKLIKPW------QNSVVVKLLGRNIGYKVLCNRLKVMWHQIHDFSVIDLENNYFLIRL 257
Q L +PW +NS++ K+ GY +L + L+ +WH+ D SV+ RL
Sbjct: 8 QGLLXQPWAWLQLAENSLLAKVFITKQGYALLVSDLQQVWHEQVDTSVVSQRAKELNKRL 67
Query: 258 KSPEDA 263
+P A
Sbjct: 68 TAPPAA 73
>pdb|2R9A|A Chain A, Crystal Structure Of Human Xlf
pdb|2R9A|B Chain B, Crystal Structure Of Human Xlf
Length = 230
Score = 33.1 bits (74), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 32/66 (48%), Gaps = 6/66 (9%)
Query: 204 QDKLIKPW------QNSVVVKLLGRNIGYKVLCNRLKVMWHQIHDFSVIDLENNYFLIRL 257
Q L +PW +NS++ K+ GY +L + L+ +WH+ D SV+ RL
Sbjct: 6 QGLLXQPWAWLQLAENSLLAKVFITKQGYALLVSDLQQVWHEQVDTSVVSQRAKELNKRL 65
Query: 258 KSPEDA 263
+P A
Sbjct: 66 TAPPAA 71
>pdb|2ID5|A Chain A, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|B Chain B, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|C Chain C, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|D Chain D, Crystal Structure Of The Lingo-1 Ectodomain
Length = 477
Score = 32.7 bits (73), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 33/112 (29%), Positives = 53/112 (47%), Gaps = 6/112 (5%)
Query: 14 PEGVGNLFNLHYLSVKNTKVKIIPKSI-GNLLGLETLDL-KNTLVRELPVEIRNLKRLRY 71
P NLFNL L +++ ++K+IP + L L LD+ +N +V L ++L L+
Sbjct: 73 PGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKS 132
Query: 72 LMVYQYNYTAGFAAAKLHEGFGSLT--NLQKLCIIEADSEALKELMKLRQLR 121
L V + + + + G SL L+K + +EAL L L LR
Sbjct: 133 LEVGDNDLV--YISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLR 182
>pdb|3EA0|A Chain A, Crystal Structure Of Para Family Atpase From Chlorobium
Tepidum Tls
pdb|3EA0|B Chain B, Crystal Structure Of Para Family Atpase From Chlorobium
Tepidum Tls
Length = 245
Score = 32.3 bits (72), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 28/109 (25%), Positives = 49/109 (44%), Gaps = 8/109 (7%)
Query: 54 TLVRELPVEIRNLKRLRYLMVYQYNYT-AGFAAAKLHEGFGSLTNLQKLCIIEADSEALK 112
T + + +E + L ++ Y+Y F A+ H G L +L +LCI+ S L+
Sbjct: 96 TFEKIVNIEPERVSDLIHIAASFYDYIIVDFGASIDHVGVWVLEHLDELCIVTTPS--LQ 153
Query: 113 ELMKLRQLRNLLKTIPPPLA-----ADRSTKKARFRSHEVDADSPSPLS 156
L + QL L K P++ +R+ +R S E++ P+S
Sbjct: 154 SLRRAGQLLKLCKEFEKPISRIEIILNRADTNSRITSDEIEKVIGRPIS 202
>pdb|3RFS|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
pdb|3RFS|B Chain B, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 272
Score = 31.6 bits (70), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 44/79 (55%), Gaps = 3/79 (3%)
Query: 1 KVLDLEDAPVDYLPEGV-GNLFNLHYLSVKNTKVKIIPKSI-GNLLGLETLDLKNTLVRE 58
K L L + + LP+GV L NL YL++ + +++ +PK + L L LDL ++
Sbjct: 112 KELVLVENQLQSLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQS 171
Query: 59 LPVEIRN-LKRLRYLMVYQ 76
LP + + L +L+ L +YQ
Sbjct: 172 LPEGVFDKLTQLKDLRLYQ 190
>pdb|1H6U|A Chain A, Internalin H: Crystal Structure Of Fused N-Terminal
Domains
Length = 308
Score = 28.5 bits (62), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 46/103 (44%), Gaps = 19/103 (18%)
Query: 38 KSIGNLLGLETLDLKNTLVREL-PV--------------EIRNLKRLRYLMVYQYNYTAG 82
+I L ++TLDL +T + ++ P+ +I N+ L L QY
Sbjct: 101 SAIAGLQSIKTLDLTSTQITDVTPLAGLSNLQVLYLDLNQITNISPLAGLTNLQY---LS 157
Query: 83 FAAAKLHEGFGSLTNLQKLCIIEADSEALKELMKLRQLRNLLK 125
A++ + L NL KL ++AD + ++ L L NL++
Sbjct: 158 IGNAQVSD-LTPLANLSKLTTLKADDNKISDISPLASLPNLIE 199
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.138 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,781,696
Number of Sequences: 62578
Number of extensions: 514384
Number of successful extensions: 1084
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1071
Number of HSP's gapped (non-prelim): 18
length of query: 437
length of database: 14,973,337
effective HSP length: 102
effective length of query: 335
effective length of database: 8,590,381
effective search space: 2877777635
effective search space used: 2877777635
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)