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= 008797
(553 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 = 223 bits (567), Expect = 3e-58, Method: Compositional matrix adjust.
Identities = 183/546 (33%), Positives = 268/546 (49%), Gaps = 75/546 (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 ITDLIKKVLQSLEDVTGAEFRMFMDFLKSLSLFGEKAPTERMKELIGIIEGQADLDAQFN 249
I KKV LEDVTG EF +FM L L + +++ EL+ QADL+ FN
Sbjct: 178 ILTESKKV---LEDVTGEEFVLFMKILSGLKSLQTVSGRQQLVELVA---EQADLEQTFN 231
Query: 250 VSDADHIDRLISCLYMALPFFLRGASGSKFLNYLNKHIIPVFDKL--PEER---KLDLLK 304
SD D +DRL+ C A+P F + ++F+ Y + ++P L P E +L++LK
Sbjct: 232 PSDPDCVDRLLQCTRQAVPLFSKNVHSTRFVTYFCEQVLPNLGTLTTPVEGLDIQLEVLK 291
Query: 305 ALAEISPYTTPQDSRQILPSVAVLLKK---YMPL--------RKTGGEE--MNFTYVECL 351
LAE+S + D ++ ++ L K YMPL G EE + F+YVECL
Sbjct: 292 LLAEMSSFCG--DMEKLETNLRKLFDKLLEYMPLPPEEAENGENAGNEEPKLQFSYVECL 349
Query: 352 LYTFHHLAHKAPN-ATNSLCGYKIVTGQPSDRLGEDFSDCYKDFTERLTTVEDLTRATMK 410
LY+FH L K P+ T L K+ KDF RL + ++
Sbjct: 350 LYSFHQLGRKLPDFLTAKLNAEKL-----------------KDFKIRLQYFARGLQVYIR 392
Query: 411 KLTQGLADHNKEMAAAKTDEAKEKIKTQKQNTTTGLRTCNNILAMSKPLHSKTPSFIGDK 470
+L LA K A KT+E K K+ L+ NNI + K L PS+
Sbjct: 393 QLR--LALQGKTGEALKTEENKIKV--------VALKITNNINVLIKDLFHIPPSY--KS 440
Query: 471 SVNLSWKEATKPSV----PSTTTASGGKRPASINGSGNTASK-----KGRGSGGLQNQLV 521
+V LSWK K + S T SG S G A + G+ S L N
Sbjct: 441 TVTLSWKPVQKVEIGQKRASEDTTSGSPPKKSSAGPKRDARQIYNPPSGKYSSNLGNFNY 500
Query: 522 NRALEG 527
R+L+G
Sbjct: 501 ERSLQG 506
>pdb|3V6A|A Chain A, Helical Repeat Structure Of Apoptosis Inhibitor 5 Reveals
Protein- Protein Interaction Modules
Length = 474
Score = 217 bits (553), Expect = 1e-56, Method: Compositional matrix adjust.
Identities = 169/494 (34%), Positives = 250/494 (50%), Gaps = 66/494 (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 ITDLIKKVLQSLEDVTGAEFRMFMDFLKSLSLFGEKAPTERMKELIGIIEGQADLDAQFN 249
I KKV LEDVTG EF +FM L L + +++ EL+ QADL+ FN
Sbjct: 195 ILTESKKV---LEDVTGEEFVLFMKILSGLKSLQTVSGRQQLVELVA---EQADLEQTFN 248
Query: 250 VSDADHIDRLISCLYMALPFFLRGASGSKFLNYLNKHIIPVFDKL--PEER---KLDLLK 304
SD D +DRL+ C A+P F + ++F+ Y + ++P L P E +L++LK
Sbjct: 249 PSDPDCVDRLLQCTRQAVPLFSQNVHSTRFVTYFCEQVLPNLGTLTTPVEGLDIQLEVLK 308
Query: 305 ALAEISPYTTPQDSRQILPSVAVLLKK---YMPL--------RKTGGEE--MNFTYVECL 351
LAE+S + D ++ ++ L K YMPL G EE + F+YVECL
Sbjct: 309 LLAEMSSFCG--DMEKLETNLRKLFDKLLEYMPLPPEEAENGENAGNEEPKLQFSYVECL 366
Query: 352 LYTFHHLAHKAPN-ATNSLCGYKIVTGQPSDRLGEDFSDCYKDFTERLTTVEDLTRATMK 410
LY+FH L K P+ T L K+ KDF RL + ++
Sbjct: 367 LYSFHQLGRKLPDFLTAKLNAEKL-----------------KDFKIRLQYFARGLQVYIR 409
Query: 411 KLTQGLADHNKEMAAAKTDEAKEKIKTQKQNTTTGLRTCNNILAMSKPLHSKTPSFIGDK 470
+L LA K A KT+E K K+ L+ NNI + K L PS+
Sbjct: 410 QLR--LALQGKTGEALKTEENKIKV--------VALKITNNINVLIKDLFHIPPSY--KS 457
Query: 471 SVNLSWKEATKPSV 484
+V LSWK K +
Sbjct: 458 TVTLSWKPVQKVEI 471
>pdb|2NPS|A Chain A, Crystal Structure Of The Early Endosomal Snare Complex
Length = 74
Score = 30.8 bits (68), Expect = 1.9, 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: 15,235,171
Number of Sequences: 62578
Number of extensions: 637863
Number of successful extensions: 1672
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1658
Number of HSP's gapped (non-prelim): 11
length of query: 553
length of database: 14,973,337
effective HSP length: 104
effective length of query: 449
effective length of database: 8,465,225
effective search space: 3800886025
effective search space used: 3800886025
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)