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= 036761
(897 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4AY9|X Chain X, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
pdb|4AY9|Y Chain Y, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
pdb|4AY9|Z Chain Z, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
Length = 350
Score = 37.0 bits (84), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 29/97 (29%), Positives = 54/97 (55%), Gaps = 6/97 (6%)
Query: 552 NEELEMITSDFFKSMPRLKVLNLSGARRMSSF-PLGISVLVSLQHLDLSGTAIRELPKEL 610
N+ LE+I +D F ++P+L + + A + P L +LQ+L +S T I+ LP ++
Sbjct: 64 NDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNTGIKHLP-DV 122
Query: 611 NALENLQ--CLNLEETHFLITIPRQLIS--SFSSLIV 643
+ + +LQ L++++ + TI R SF S+I+
Sbjct: 123 HKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVIL 159
>pdb|1XWD|C Chain C, Crystal Structure Of Human Follicle Stimulating Hormone
Complexed With Its Receptor
pdb|1XWD|F Chain F, Crystal Structure Of Human Follicle Stimulating Hormone
Complexed With Its Receptor
Length = 252
Score = 36.2 bits (82), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 29/97 (29%), Positives = 54/97 (55%), Gaps = 6/97 (6%)
Query: 552 NEELEMITSDFFKSMPRLKVLNLSGARRMSSF-PLGISVLVSLQHLDLSGTAIRELPKEL 610
N+ LE+I +D F ++P+L + + A + P L +LQ+L +S T I+ LP ++
Sbjct: 64 NDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNTGIKHLP-DV 122
Query: 611 NALENLQ--CLNLEETHFLITIPRQLIS--SFSSLIV 643
+ + +LQ L++++ + TI R SF S+I+
Sbjct: 123 HKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVIL 159
>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|B Chain B, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|C Chain C, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|D Chain D, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
Length = 591
Score = 34.7 bits (78), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 37/144 (25%), Positives = 58/144 (40%), Gaps = 25/144 (17%)
Query: 245 ERAVDIYNVL---KEKKFVLLLDDVWQR---VAF-TTVGVPIPPRDKSASKVVFTTRST- 296
E A D +L K + +L+LDDVW AF + + + RDKS + V +
Sbjct: 221 EEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAFDSQCQILLTTRDKSVTDSVMGPKYVV 280
Query: 297 EVCGWMGAHKNFEVGCLSANDARELFRQNVGEETLNGHPDIRELSETVTKECGSLPLALI 356
V +G K E+ L N + D+ E + ++ KEC PL +
Sbjct: 281 PVESSLGKEKGLEILSLFVNMKK---------------ADLPEQAHSIIKECKGSPLVVS 325
Query: 357 ITGRAMACKKTPEEWRDAIKVLQT 380
+ G + + P W +K LQ
Sbjct: 326 LIGALL--RDFPNRWEYYLKQLQN 347
>pdb|3IZA|A Chain A, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|B Chain B, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|C Chain C, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|D Chain D, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|E Chain E, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|F Chain F, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|G Chain G, Structure Of An Apoptosome-Procaspase-9 Card Complex
Length = 1263
Score = 33.9 bits (76), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 37/143 (25%), Positives = 58/143 (40%), Gaps = 25/143 (17%)
Query: 245 ERAVDIYNVL---KEKKFVLLLDDVWQR---VAF-TTVGVPIPPRDKSASKVVFTTRST- 296
E A D +L K + +L+LDDVW AF + + + RDKS + V +
Sbjct: 227 EEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAFDSQCQILLTTRDKSVTDSVMGPKYVV 286
Query: 297 EVCGWMGAHKNFEVGCLSANDARELFRQNVGEETLNGHPDIRELSETVTKECGSLPLALI 356
V +G K E+ L N + D+ E + ++ KEC PL +
Sbjct: 287 PVESSLGKEKGLEILSLFVNMKK---------------ADLPEQAHSIIKECKGSPLVVS 331
Query: 357 ITGRAMACKKTPEEWRDAIKVLQ 379
+ G + + P W +K LQ
Sbjct: 332 LIGALL--RDFPNRWEYYLKQLQ 352
>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 = 33.1 bits (74), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 46/165 (27%), Positives = 62/165 (37%), Gaps = 17/165 (10%)
Query: 556 EMITSDFFKSMPRLKV--LNLSGARRMSSFPLGISVLVSLQHLDLSGTAIRELPKELNAL 613
E I+S K + + V LNL R LQ LDL+ T ++ LP + L
Sbjct: 238 EDISSAMLKGLCEMSVESLNLQEHRFSDISSTTFQCFTQLQELDLTATHLKGLPSGMKGL 297
Query: 614 ENLQCLNLEETHF--LITIPRQLISSFSSLIVLR-----MFGVGDWSPNGKKNDSDL--- 663
L+ L L HF L I S + L + GVG G DL
Sbjct: 298 NLLKKLVLSVNHFDQLCQISAANFPSLTHLYIRGNVKKLHLGVGCLEKLGNLQTLDLSHN 357
Query: 664 -FSGGDLLVEALRGLEHLEVLSLTLNNFQDLQCVLKSKELRRCTQ 707
D L+ L HL+ L+L+ N LQ S+ + C Q
Sbjct: 358 DIEASDCCSLQLKNLSHLQTLNLSHNEPLGLQ----SQAFKECPQ 398
>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 520
Score = 33.1 bits (74), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 27/86 (31%), Positives = 42/86 (48%), Gaps = 9/86 (10%)
Query: 545 LTLFLIFNEELEMITSDFFKSMPRLKVLNLSGAR--RMSSFPLGISVLVSLQHLDLSGTA 602
L + +I + ++ + FK L+ L+LS + ++S P V+L+HLDLS A
Sbjct: 47 LRILIISHNRIQYLDISVFKFNQELEYLDLSHNKLVKISCHPT-----VNLKHLDLSFNA 101
Query: 603 IRELP--KELNALENLQCLNLEETHF 626
LP KE + L+ L L TH
Sbjct: 102 FDALPICKEFGNMSQLKFLGLSTTHL 127
>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 = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 30/100 (30%), Positives = 43/100 (43%), Gaps = 12/100 (12%)
Query: 550 IFNEELEMITSDFFKSMPRLKVLNLSGARRMSSFPLGISVLVSLQHLDLSGTAIRELPKE 609
IFN + DF L L L+G ++ P I L +L+ LDLS + LP E
Sbjct: 236 IFNISANIFKYDF------LTRLYLNG-NSLTELPAEIKNLSNLRVLDLSHNRLTSLPAE 288
Query: 610 LNALENLQCLNLEETHFLITIPRQLISSFSSLIVLRMFGV 649
L + C L+ +F + L F +L L+ GV
Sbjct: 289 LGS-----CFQLKYFYFFDNMVTTLPWEFGNLCNLQFLGV 323
Score = 29.6 bits (65), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 43/96 (44%), Gaps = 2/96 (2%)
Query: 527 LMETQIRTLSAVPTCLHLLTLFLIFNEELEMITSDFFKSMPRLKVLNLSGARRMSSFPLG 586
L QI +SA LT + L + ++ K++ L+VL+LS R++S P
Sbjct: 231 LSNLQIFNISANIFKYDFLTRLYLNGNSLTELPAEI-KNLSNLRVLDLS-HNRLTSLPAE 288
Query: 587 ISVLVSLQHLDLSGTAIRELPKELNALENLQCLNLE 622
+ L++ + LP E L NLQ L +E
Sbjct: 289 LGSCFQLKYFYFFDNMVTTLPWEFGNLCNLQFLGVE 324
>pdb|2Z81|A Chain A, Crystal Structure Of The Tlr1-tlr2 Heterodimer Induced By
Binding Of A Tri-acylated Lipopeptide
pdb|2Z82|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 549
Score = 31.6 bits (70), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 43/162 (26%), Positives = 74/162 (45%), Gaps = 15/162 (9%)
Query: 533 RTLSAVPTCL--HLLTLFLIFNEELEMITSDFFKSMPRLKVLNLSGARRMSSFPLGISVL 590
R+ +++P+ L + +L L FN+ + I ++ L+VL L +R + L
Sbjct: 15 RSFTSIPSGLTAAMKSLDLSFNK-ITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSL 73
Query: 591 VSLQHLDLSGTAIRELPKE-LNALENLQCLNLEETHFLITIPRQLISSFSSLIVLRMFGV 649
SL+HLDLS + L L +L+ LNL + L + ++L LR+ V
Sbjct: 74 GSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNV 133
Query: 650 GDWSPNGKKNDSDLFSGGDLLVEALRGLEHLEVLSLTLNNFQ 691
+S + + F+G L L LE+ +L+L N+Q
Sbjct: 134 ETFSEIRRID----FAG-------LTSLNELEIKALSLRNYQ 164
>pdb|3V44|A Chain A, Crystal Structure Of The N-Terminal Fragment Of Zebrafish
Tlr5
Length = 407
Score = 31.6 bits (70), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 38/146 (26%), Positives = 65/146 (44%), Gaps = 30/146 (20%)
Query: 593 LQHLDLSGTAIRELPK-ELNALENLQCLNLEETHFLITIPRQLISSFSSLIVLRMFGVGD 651
+ ++DLS +I EL + + L++LQ L +E+ + I SSLI+L++
Sbjct: 32 VNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKL----- 86
Query: 652 WSPNGKKNDSDLFSGGDLLVEALRGLEHLEVLSLTL----------NNFQDLQC----VL 697
D + F L A GL +LEVL+LT N F+ L VL
Sbjct: 87 --------DYNQFL--QLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVL 136
Query: 698 KSKELRRCTQALYLYSFKRSEPLDVS 723
+ +++ A + + +R LD++
Sbjct: 137 RDNNIKKIQPASFFLNMRRFHVLDLT 162
>pdb|3A79|A Chain A, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
pdb|3A7B|A Chain A, Crystal Structure Of Tlr2-Streptococcus Pneumoniae
Lipoteichoic Acid Complex
pdb|3A7C|A Chain A, Crystal Structure Of Tlr2-Pe-Dtpa Complex
Length = 580
Score = 31.6 bits (70), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 43/162 (26%), Positives = 74/162 (45%), Gaps = 15/162 (9%)
Query: 533 RTLSAVPTCL--HLLTLFLIFNEELEMITSDFFKSMPRLKVLNLSGARRMSSFPLGISVL 590
R+ +++P+ L + +L L FN+ + I ++ L+VL L +R + L
Sbjct: 41 RSFTSIPSGLTAAMKSLDLSFNK-ITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSL 99
Query: 591 VSLQHLDLSGTAIRELPKE-LNALENLQCLNLEETHFLITIPRQLISSFSSLIVLRMFGV 649
SL+HLDLS + L L +L+ LNL + L + ++L LR+ V
Sbjct: 100 GSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNV 159
Query: 650 GDWSPNGKKNDSDLFSGGDLLVEALRGLEHLEVLSLTLNNFQ 691
+S + + F+G L L LE+ +L+L N+Q
Sbjct: 160 ETFSEIRRID----FAG-------LTSLNELEIKALSLRNYQ 190
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 31.2 bits (69), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 35/143 (24%), Positives = 56/143 (39%), Gaps = 25/143 (17%)
Query: 245 ERAVDIYNVL---KEKKFVLLLDDVWQ----RVAFTTVGVPIPPRDKSASKVVFTTRS-T 296
E A D VL K + +L+LDDVW + + + RDKS + V +
Sbjct: 221 EEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFDNQCQILLTTRDKSVTDSVMGPKHVV 280
Query: 297 EVCGWMGAHKNFEVGCLSANDARELFRQNVGEETLNGHPDIRELSETVTKECGSLPLALI 356
V +G K E+ L N +E D+ + ++ KEC PL +
Sbjct: 281 PVESGLGREKGLEILSLFVNMKKE---------------DLPAEAHSIIKECKGSPLVVS 325
Query: 357 ITGRAMACKKTPEEWRDAIKVLQ 379
+ G + + P W ++ LQ
Sbjct: 326 LIGALL--RDFPNRWAYYLRQLQ 346
>pdb|3SZT|A Chain A, Quorum Sensing Control Repressor, Qscr, Bound To
N-3-Oxo-Dodecanoyl-L- Homoserine Lactone
pdb|3SZT|B Chain B, Quorum Sensing Control Repressor, Qscr, Bound To
N-3-Oxo-Dodecanoyl-L- Homoserine Lactone
Length = 237
Score = 31.2 bits (69), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 33/68 (48%), Gaps = 5/68 (7%)
Query: 253 VLKEKKFVLLLDDVWQRVAFTTVGVPIPPRDKSASKVVFTTRSTEVCGWMGAHKNF-EVG 311
+L+++ F+L + + Q T G + PR S V T R TE+ W K + E+G
Sbjct: 142 ILEKESFLLWITSMLQ----ATFGDLLAPRIVPESNVRLTARETEMLKWTAVGKTYGEIG 197
Query: 312 CLSANDAR 319
+ + D R
Sbjct: 198 LILSIDQR 205
>pdb|3V47|A Chain A, Crystal Structure Of The N-Tetminal Fragment Of Zebrafish
Tlr5 In Complex With Salmonella Flagellin
pdb|3V47|B Chain B, Crystal Structure Of The N-Tetminal Fragment Of Zebrafish
Tlr5 In Complex With Salmonella Flagellin
Length = 455
Score = 31.2 bits (69), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 38/146 (26%), Positives = 65/146 (44%), Gaps = 30/146 (20%)
Query: 593 LQHLDLSGTAIRELPK-ELNALENLQCLNLEETHFLITIPRQLISSFSSLIVLRMFGVGD 651
+ ++DLS +I EL + + L++LQ L +E+ + I SSLI+L++
Sbjct: 32 VNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKL----- 86
Query: 652 WSPNGKKNDSDLFSGGDLLVEALRGLEHLEVLSLTL----------NNFQDLQC----VL 697
D + F L A GL +LEVL+LT N F+ L VL
Sbjct: 87 --------DYNQFL--QLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVL 136
Query: 698 KSKELRRCTQALYLYSFKRSEPLDVS 723
+ +++ A + + +R LD++
Sbjct: 137 RDNNIKKIQPASFFLNMRRFHVLDLT 162
>pdb|4G8A|A Chain A, Crystal Structure Of Human Tlr4 Polymorphic Variant D299g
And T399i In Complex With Md-2 And Lps
pdb|4G8A|B Chain B, Crystal Structure Of Human Tlr4 Polymorphic Variant D299g
And T399i In Complex With Md-2 And Lps
Length = 635
Score = 29.3 bits (64), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 28/102 (27%), Positives = 46/102 (45%), Gaps = 15/102 (14%)
Query: 591 VSLQHLDLSGTAIRELPKELNALENLQCLNLEETHFLITIPRQLISSFSSLIVLRMFGVG 650
+SL++LDLS + + LE L+ L+ + ++ + +S FS + LR
Sbjct: 397 ISLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNL------KQMSEFSVFLSLRNLIYL 450
Query: 651 DWSPNGKKNDSDLFSGGDLLVEALRGLEHLEVLSLTLNNFQD 692
D S + F+G GL LEVL + N+FQ+
Sbjct: 451 DISHTHTR---VAFNG------IFNGLSSLEVLKMAGNSFQE 483
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
0.322 0.138 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,880,315
Number of Sequences: 62578
Number of extensions: 909666
Number of successful extensions: 1919
Number of sequences better than 100.0: 34
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 33
Number of HSP's that attempted gapping in prelim test: 1879
Number of HSP's gapped (non-prelim): 67
length of query: 897
length of database: 14,973,337
effective HSP length: 108
effective length of query: 789
effective length of database: 8,214,913
effective search space: 6481566357
effective search space used: 6481566357
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 56 (26.2 bits)