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= 008918
(549 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3U0R|A Chain A, Helical Repeat Structure Of Apoptosis Inhibitor 5 Reveals
Protein- Protein Interaction Modules
Length = 507
Score = 227 bits (578), Expect = 1e-59, Method: Compositional matrix adjust.
Identities = 182/544 (33%), Positives = 267/544 (49%), Gaps = 75/544 (13%)
Query: 11 IEKLYEFGERLNEAKDKSQNVKD-YEGIIEAAKTSLKAKQLAAQLIPRFFKFFPDLSSRA 69
+E+LY L +A ++ KD Y+ I++ K K K+LAAQ IP+FFK FP+L+ A
Sbjct: 7 VEELYRNYGILADATEQVGQHKDAYQVILDGVKGGTKEKRLAAQFIPKFFKHFPELADSA 66
Query: 70 VDAHLDLIEEEELGVRVQAIRGLPLFCKDTPEYLSKIVDILVQLLAAEEIVERDAVHKAL 129
++A LDL E+E++ +R QAI+ LP F T E L ++ DIL QLL ++ E + V+ AL
Sbjct: 67 INAQLDLCEDEDVSIRRQAIKELPQFA--TGENLPRVADILTQLLQTDDSAEFNLVNNAL 124
Query: 130 MSLLRQDVKASLTALFKHIGSVDEPSTDEFIREKVLSFIRDKVFPLKAELLKPQEEMERH 189
+S+ + D K +L LF I ++ +RE+ + F+ K+ L E+L +E+E
Sbjct: 125 LSIFKMDAKGTLGGLFSQI-----LQGEDIVRERAIKFLSTKLKTLPDEVLT--KEVEEL 177
Query: 190 ITDLIKKSLEDVTGAEFRMFMDFLKSLSLFGEKAPTERMKELIGIIEGQADLDAQFNVSD 249
I KK LEDVTG EF +FM L L + +++ EL+ QADL+ FN SD
Sbjct: 178 ILTESKKVLEDVTGEEFVLFMKILSGLKSLQTVSGRQQLVELVA---EQADLEQTFNPSD 234
Query: 250 ADHIDRLISCLYMALPFFLRGASGSKFLNYLNKHIIPVFDKL--PEER---KLDLLKALA 304
D +DRL+ C A+P F + ++F+ Y + ++P L P E +L++LK LA
Sbjct: 235 PDCVDRLLQCTRQAVPLFSKNVHSTRFVTYFCEQVLPNLGTLTTPVEGLDIQLEVLKLLA 294
Query: 305 EISPYTTPQDS-----RQILPSVAVLLKYMPL--------RKTGGEE--MNFTYVECLLY 349
E+S + + R++ LL+YMPL G EE + F+YVECLLY
Sbjct: 295 EMSSFCGDMEKLETNLRKLFDK---LLEYMPLPPEEAENGENAGNEEPKLQFSYVECLLY 351
Query: 350 TFHHLAHKAPN-ATNSLCGYKIVTGQPSDRLGEDFSDCYKDFTERLTTVEDLTRATMKKL 408
+FH L K P+ T L K+ KDF RL + +++L
Sbjct: 352 SFHQLGRKLPDFLTAKLNAEKL-----------------KDFKIRLQYFARGLQVYIRQL 394
Query: 409 TQGLADHNKEMAAAKTDEAKEKIKTQKQNTTTGLRTCNNILAMSKPLHSKTPSFIGDKSV 468
LA K A KT+E K K+ L+ NNI + K L PS+ +V
Sbjct: 395 R--LALQGKTGEALKTEENKIKV--------VALKITNNINVLIKDLFHIPPSY--KSTV 442
Query: 469 NLSWKEATKPSV----PSTTTASGGKRPASINGSGNTASK-----KGRGSGGLQNQLVNR 519
LSWK K + S T SG S G A + G+ S L N R
Sbjct: 443 TLSWKPVQKVEIGQKRASEDTTSGSPPKKSSAGPKRDARQIYNPPSGKYSSNLGNFNYER 502
Query: 520 ALEG 523
+L+G
Sbjct: 503 SLQG 506
>pdb|3V6A|A Chain A, Helical Repeat Structure Of Apoptosis Inhibitor 5 Reveals
Protein- Protein Interaction Modules
Length = 474
Score = 221 bits (564), Expect = 6e-58, Method: Compositional matrix adjust.
Identities = 168/492 (34%), Positives = 249/492 (50%), Gaps = 66/492 (13%)
Query: 11 IEKLYEFGERLNEAKDKSQNVKD-YEGIIEAAKTSLKAKQLAAQLIPRFFKFFPDLSSRA 69
+E+LY L +A ++ KD Y+ I++ K K K+LAAQ IP+FFK FP+L+ A
Sbjct: 24 VEELYRNYGILADATEQVGQHKDAYQVILDGVKGGTKEKRLAAQFIPKFFKHFPELADSA 83
Query: 70 VDAHLDLIEEEELGVRVQAIRGLPLFCKDTPEYLSKIVDILVQLLAAEEIVERDAVHKAL 129
++A LDL E+E++ +R QAI+ LP F T E L ++ DIL QLL ++ E + V+ AL
Sbjct: 84 INAQLDLCEDEDVSIRRQAIKELPQFA--TGENLPRVADILTQLLQTDDSAEFNLVNNAL 141
Query: 130 MSLLRQDVKASLTALFKHIGSVDEPSTDEFIREKVLSFIRDKVFPLKAELLKPQEEMERH 189
+S+ + D K +L LF I ++ +RE+ + F+ K+ L E+L +E+E
Sbjct: 142 LSIFKMDAKGTLGGLFSQI-----LQGEDIVRERAIKFLSTKLKTLPDEVLT--KEVEEL 194
Query: 190 ITDLIKKSLEDVTGAEFRMFMDFLKSLSLFGEKAPTERMKELIGIIEGQADLDAQFNVSD 249
I KK LEDVTG EF +FM L L + +++ EL+ QADL+ FN SD
Sbjct: 195 ILTESKKVLEDVTGEEFVLFMKILSGLKSLQTVSGRQQLVELVA---EQADLEQTFNPSD 251
Query: 250 ADHIDRLISCLYMALPFFLRGASGSKFLNYLNKHIIPVFDKL--PEER---KLDLLKALA 304
D +DRL+ C A+P F + ++F+ Y + ++P L P E +L++LK LA
Sbjct: 252 PDCVDRLLQCTRQAVPLFSQNVHSTRFVTYFCEQVLPNLGTLTTPVEGLDIQLEVLKLLA 311
Query: 305 EISPYTTPQDS-----RQILPSVAVLLKYMPL--------RKTGGEE--MNFTYVECLLY 349
E+S + + R++ LL+YMPL G EE + F+YVECLLY
Sbjct: 312 EMSSFCGDMEKLETNLRKLFDK---LLEYMPLPPEEAENGENAGNEEPKLQFSYVECLLY 368
Query: 350 TFHHLAHKAPN-ATNSLCGYKIVTGQPSDRLGEDFSDCYKDFTERLTTVEDLTRATMKKL 408
+FH L K P+ T L K+ KDF RL + +++L
Sbjct: 369 SFHQLGRKLPDFLTAKLNAEKL-----------------KDFKIRLQYFARGLQVYIRQL 411
Query: 409 TQGLADHNKEMAAAKTDEAKEKIKTQKQNTTTGLRTCNNILAMSKPLHSKTPSFIGDKSV 468
LA K A KT+E K K+ L+ NNI + K L PS+ +V
Sbjct: 412 R--LALQGKTGEALKTEENKIKV--------VALKITNNINVLIKDLFHIPPSY--KSTV 459
Query: 469 NLSWKEATKPSV 480
LSWK K +
Sbjct: 460 TLSWKPVQKVEI 471
>pdb|2NPS|A Chain A, Crystal Structure Of The Early Endosomal Snare Complex
Length = 74
Score = 30.8 bits (68), Expect = 1.8, Method: Composition-based stats.
Identities = 18/46 (39%), Positives = 28/46 (60%), Gaps = 5/46 (10%)
Query: 9 KQIEKLYEFGERLNEAKDKSQNVKDYEGIIEAAKTSLKAKQLAAQL 54
+ I K+ E GERL+E +DKS+++ D A S ++KQL Q+
Sbjct: 26 ENITKVIERGERLDELQDKSESLSD-----NATAFSNRSKQLRRQM 66
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
0.316 0.133 0.371
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,155,466
Number of Sequences: 62578
Number of extensions: 636063
Number of successful extensions: 1644
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1629
Number of HSP's gapped (non-prelim): 12
length of query: 549
length of database: 14,973,337
effective HSP length: 104
effective length of query: 445
effective length of database: 8,465,225
effective search space: 3767025125
effective search space used: 3767025125
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 54 (25.4 bits)