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= 043408
(492 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 = 46.2 bits (108), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 49/178 (27%), Positives = 78/178 (43%), Gaps = 17/178 (9%)
Query: 2 LVSLEMPHSSIKQLWKGVQRLVNLKHLNLSHSEHLTKIPDLSLAT----------NLESL 51
L +L + + ++ L + L L+ L++ LT++P+ +T NL+SL
Sbjct: 129 LETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSL 188
Query: 52 TFR--GCTSLLETHSSIQYLNKLIVLNLEHCRSLTSLSTSIH-LESLKTLILSGCSNLMK 108
G SL + +++Q L L + N L++L +IH L L+ L L GC+ L
Sbjct: 189 RLEWTGIRSLPASIANLQNLKSLKIRN----SPLSALGPAIHHLPKLEELDLRGCTALRN 244
Query: 109 XXXXXXXXXXXXXXXXXXXXXXEGLPSKICKLKSLERLNLSGCSNLQRLPNELGNLEA 166
LP I +L LE+L+L GC NL RLP+ + L A
Sbjct: 245 YPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPA 302
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 37/109 (33%), Positives = 50/109 (45%), Gaps = 1/109 (0%)
Query: 1 NLVSLEMPHSSIKQLWKGVQRLVNLKHLNLSHSEHLTKIPDLSLATNLESLTFRGCTSLL 60
NL SL + + I+ L + L NLK L + +S P + LE L RGCT+L
Sbjct: 184 NLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALR 243
Query: 61 ETHSSIQYLNKLIVLNLEHCRSLTSLSTSIH-LESLKTLILSGCSNLMK 108
L L L+ C +L +L IH L L+ L L GC NL +
Sbjct: 244 NYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSR 292
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 43/168 (25%), Positives = 65/168 (38%), Gaps = 39/168 (23%)
Query: 131 EGLPSKICKLKSLERLNLSGCSNLQRLPNELGNLEA---------LKELKAEGIAIREVP 181
LP+ I L L L++ C L LP L + +A L+ L+ E IR +P
Sbjct: 140 RALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLP 199
Query: 182 SSIVCLKNLGRLSFE--------------------------SFKELPECLGQLSSLRILF 215
+SI L+NL L + + P G + L+ L
Sbjct: 200 ASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLI 259
Query: 216 L-DKNNFERIPESIICLSHLYWLRISYCERLKSLPELPCDLSDIEAHC 262
L D +N +P I L+ L L + C L LP L ++ + A+C
Sbjct: 260 LKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSL---IAQLPANC 304
Score = 32.7 bits (73), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 32/118 (27%), Positives = 49/118 (41%), Gaps = 13/118 (11%)
Query: 134 PSKICKLKSLERLNLSGCSNLQRLPNELGNLEALKELKAEGIAIREVPSSIVCLKNLGRL 193
P + +L L+ + + L LP+ L+ L +R +P+SI L L L
Sbjct: 97 PDQAFRLSHLQHXTID-AAGLXELPDTXQQFAGLETLTLARNPLRALPASIASLNRLREL 155
Query: 194 SFES---FKELPECLGQ---------LSSLRILFLDKNNFERIPESIICLSHLYWLRI 239
S + ELPE L L +L+ L L+ +P SI L +L L+I
Sbjct: 156 SIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKI 213
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 33.1 bits (74), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 38/122 (31%), Positives = 62/122 (50%), Gaps = 8/122 (6%)
Query: 135 SKICKLKSLERLNLSGCSNLQRLPNEL-GNLEALKELKAEGIAIREVPSSIV-CLKNLGR 192
S + +L +L L L+G + LQ LPN + L LKEL ++ +P + L NL
Sbjct: 79 SALKELTNLTYLILTG-NQLQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTY 137
Query: 193 LSF--ESFKELPE-CLGQLSSLRILFLDKNNFERIPESII-CLSHLYWLRISYCERLKSL 248
L + LP+ +L++L L LD N + +PE + L+ L L ++ +LKS+
Sbjct: 138 LYLYHNQLQSLPKGVFDKLTNLTRLDLDNNQLQSLPEGVFDKLTQLKQLSLN-DNQLKSV 196
Query: 249 PE 250
P+
Sbjct: 197 PD 198
>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 = 32.3 bits (72), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 32/113 (28%), Positives = 53/113 (46%), Gaps = 5/113 (4%)
Query: 133 LPSKICKLKSLERLNLSGCSNLQRLPNELGNLEALKELKAE-GIAIREVPSSIVCLKNLG 191
+PS + L L L L +P EL ++ L+ L + E+PS + NL
Sbjct: 431 IPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLN 490
Query: 192 RLSFESFK---ELPECLGQLSSLRILFLDKNNFE-RIPESIICLSHLYWLRIS 240
+S + + E+P+ +G+L +L IL L N+F IP + L WL ++
Sbjct: 491 WISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLN 543
>pdb|3B2D|A Chain A, Crystal Structure Of Human Rp105MD-1 Complex
pdb|3B2D|B Chain B, Crystal Structure Of Human Rp105MD-1 Complex
Length = 603
Score = 32.3 bits (72), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 44/164 (26%), Positives = 69/164 (42%), Gaps = 30/164 (18%)
Query: 164 LEALKELKAEGIAIRE------VPSSIVCLKNLGRLSFES--FKELPECLGQLSSLRILF 215
L+ L E+ E + ++E ++ C L L + K LP + L+ L+ L
Sbjct: 245 LKGLCEMSVESLNLQEHRFSDISSTTFQCFTQLQELDLTATHLKGLPSGMKGLNLLKKLV 304
Query: 216 LDKNNFERI----PESIICLSHLY--------WLRISYCERLKSLPELPCDLSDIEAHCC 263
L N+F+++ + L+HLY L + E+L +L L +DIEA C
Sbjct: 305 LSVNHFDQLCQISAANFPSLTHLYIRGNVKKLHLGVGCLEKLGNLQTLDLSHNDIEASDC 364
Query: 264 SSLEALSGLSILFTQTSWNSQCFDFQHCEVPRGMICFPGSELPE 307
SL+ L LS L Q + H E P G+ E P+
Sbjct: 365 CSLQ-LKNLSHL--------QTLNLSHNE-PLGLQSQAFKECPQ 398
>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 = 32.3 bits (72), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 32/113 (28%), Positives = 53/113 (46%), Gaps = 5/113 (4%)
Query: 133 LPSKICKLKSLERLNLSGCSNLQRLPNELGNLEALKELKAE-GIAIREVPSSIVCLKNLG 191
+PS + L L L L +P EL ++ L+ L + E+PS + NL
Sbjct: 434 IPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLN 493
Query: 192 RLSFESFK---ELPECLGQLSSLRILFLDKNNFE-RIPESIICLSHLYWLRIS 240
+S + + E+P+ +G+L +L IL L N+F IP + L WL ++
Sbjct: 494 WISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLN 546
>pdb|1G9U|A Chain A, Crystal Structure Of Yopm-leucine Rich Effector Protein
From Yersinia Pestis
pdb|1JL5|A Chain A, Novel Molecular Architecture Of Yopm-A Leucine-Rich
Effector Protein From Yersinia Pestis
Length = 454
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 47/166 (28%), Positives = 75/166 (45%), Gaps = 29/166 (17%)
Query: 132 GLPSKICKLKSLERLNLSGCSNLQRLPNELGNLEALKELKAEGIAIREVPSSIVCLKNLG 191
LP L+SL ++ C++L LP EL ++LK L + ++ + L+ LG
Sbjct: 85 SLPELPPHLESL----VASCNSLTELP-ELP--QSLKSLLVDNNNLKALSDLPPLLEYLG 137
Query: 192 RLSFESFKELPECLGQLSSLRILFLDKNNFERIP----------------ESIICLSHLY 235
+S ++LPE L S L+I+ +D N+ +++P E + L +L
Sbjct: 138 -VSNNQLEKLPE-LQNSSFLKIIDVDNNSLKKLPDLPPSLEFIAAGNNQLEELPELQNLP 195
Query: 236 WLRISYCER--LKSLPELPCDLSDIEA--HCCSSLEALSGLSILFT 277
+L Y + LK LP+LP L I A + L L L L T
Sbjct: 196 FLTAIYADNNSLKKLPDLPLSLESIVAGNNILEELPELQNLPFLTT 241
>pdb|4H09|A Chain A, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
pdb|4H09|B Chain B, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
pdb|4H09|C Chain C, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
pdb|4H09|D Chain D, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
pdb|4H09|E Chain E, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
Length = 379
Score = 30.8 bits (68), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 41/81 (50%), Gaps = 5/81 (6%)
Query: 30 LSHSEHLTKIPDLSLATNLESLTFRGCTSLLETH--SSIQYLNKLIVLNLEHCRSLTSLS 87
S+ ++L KI S T L F G +L E ++ + + L++C +L +L+
Sbjct: 213 FSYGKNLKKITITSGVTTLGDGAFYGXKALDEIAIPKNVTSIGSFL---LQNCTALKTLN 269
Query: 88 TSIHLESLKTLILSGCSNLMK 108
++++ L+ SGCSNL K
Sbjct: 270 FYAKVKTVPYLLCSGCSNLTK 290
>pdb|2WFH|A Chain A, The Human Slit 2 Dimerization Domain D4
pdb|2WFH|B Chain B, The Human Slit 2 Dimerization Domain D4
Length = 193
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 181 PSSIVCLKNLGRLSFESFKELPECLGQLSSLRILFLDKNNFERIPESIICLSHLYWLRIS 240
P+ CL + R S + K LP+ G + L+LD N F +P+ + HL + +S
Sbjct: 5 PTECTCLDTVVRCSNKGLKVLPK--GIPRDVTELYLDGNQFTLVPKELSNYKHLTLIDLS 62
>pdb|3KJ4|A Chain A, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
pdb|3KJ4|D Chain D, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
Length = 286
Score = 29.6 bits (65), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 35/113 (30%), Positives = 49/113 (43%), Gaps = 7/113 (6%)
Query: 134 PSKICKLKSLERLNLSGCSNLQRLP-NELGNLEALKELKAEGIAIREVPS-SIVCLKNLG 191
P L +L+ L L +NLQ LP N +L L L G I VP + L +L
Sbjct: 121 PGLFRGLAALQYLYLQD-NNLQALPDNTFRDLGNLTHLFLHGNRIPSVPEHAFRGLHSLD 179
Query: 192 RLSFES---FKELPECLGQLSSLRILFLDKNNFERIP-ESIICLSHLYWLRIS 240
RL + P L L L+L NN +P E ++ L L +LR++
Sbjct: 180 RLLLHQNHVARVHPHAFRDLGRLMTLYLFANNLSMLPAEVLVPLRSLQYLRLN 232
>pdb|3RG1|A Chain A, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|E Chain E, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|I Chain I, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|M Chain M, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|B Chain B, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|F Chain F, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|J Chain J, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|N Chain N, Crystal Structure Of The Rp105MD-1 Complex
Length = 612
Score = 28.9 bits (63), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 31/119 (26%), Positives = 55/119 (46%), Gaps = 15/119 (12%)
Query: 167 LKELKAEGIAIREVPSSIVCLKNLGRL--SFESFKELPEC-LGQLSSLRILFLDKNNFER 223
++EL + +PS I + +L +L + SF +L + SLR L++ K N +
Sbjct: 279 VQELDLTAAHLNGLPSGIEGMNSLKKLVLNANSFDQLCQINAASFPSLRDLYI-KGNMRK 337
Query: 224 IPESIICLSHLYWLRISYCERLKSLPELPCDLSDIEAHCCSSLEALSGLSILFTQTSWN 282
+ CL E+L++L +L SDIEA C +L+ + + + S+N
Sbjct: 338 LDLGTRCL-----------EKLENLQKLDLSHSDIEASDCCNLQLKNLRHLQYLNLSYN 385
Score = 28.5 bits (62), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 40/120 (33%), Positives = 52/120 (43%), Gaps = 26/120 (21%)
Query: 1 NLVSLEMPHSSIKQLWKGVQRLVNLKHL---NLSHSEHLTKIPDLSLATNLESLTFRGCT 57
NL L++ HS I+ +L NL+HL NLS++E L LE F+ C
Sbjct: 350 NLQKLDLSHSDIEASDCCNLQLKNLRHLQYLNLSYNEPL----------GLEDQAFKECP 399
Query: 58 SL------------LETHSSIQYLNKLIVLNLEHCRSLTSLSTSIH-LESLKTLILSGCS 104
L HS Q L+ L VLNL HC TS + L+ L+ L L G S
Sbjct: 400 QLELLDVAFTHLHVKAPHSPFQNLHLLRVLNLSHCLLDTSNQHLLAGLQDLRHLNLQGNS 459
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
0.323 0.139 0.433
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,474,578
Number of Sequences: 62578
Number of extensions: 536646
Number of successful extensions: 1139
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 1107
Number of HSP's gapped (non-prelim): 50
length of query: 492
length of database: 14,973,337
effective HSP length: 103
effective length of query: 389
effective length of database: 8,527,803
effective search space: 3317315367
effective search space used: 3317315367
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (25.0 bits)