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= 005602
(688 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1OKC|A Chain A, Structure Of Mitochondrial AdpATP CARRIER IN COMPLEX WITH
Carboxyatractyloside
pdb|2C3E|A Chain A, The Bovine Mitochondrial Adp-Atp Carrier
Length = 297
Score = 50.4 bits (119), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 49/196 (25%), Positives = 82/196 (41%), Gaps = 27/196 (13%)
Query: 465 LAHCTAGGCASVATSFIFTPSERIKQQMQVG---------SRYHNCWNALVGIIKNGGLH 515
L AGG A+ + P ER+K +QV +Y + +V I K G
Sbjct: 8 LKDFLAGGVAAAISKTAVAPIERVKLLLQVQHASKQISAEKQYKGIIDCVVRIPKEQGFL 67
Query: 516 SLYAGWGAVLCRNVPHSIVKFYTYESLKQMMLPSLKPGAQ--PNTIETLICGGVAGSTAA 573
S + G A + R P + F + KQ+ L + Q L GG AG+T+
Sbjct: 68 SFWRGNLANVIRYFPTQALNFAFKDKYKQIFLGGVDRHKQFWRYFAGNLASGGAAGATSL 127
Query: 574 LFTTPFDVI----------PGSTSQYSSVYHALQEIGKREGLKGLYRGL---IPRLVMYM 620
F P D + +++ + + + +I K +GL+GLY+G + +++Y
Sbjct: 128 CFVYPLDFARTRLAADVGKGAAQREFTGLGNCITKIFKSDGLRGLYQGFNVSVQGIIIYR 187
Query: 621 SQGALFFASYEFFKGV 636
A +F Y+ KG+
Sbjct: 188 ---AAYFGVYDTAKGM 200
Score = 34.7 bits (78), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 43/188 (22%), Positives = 75/188 (39%), Gaps = 26/188 (13%)
Query: 377 AGALAGVFVSLC-LHPVDTVKTVIQS---CHTEQKSIVYIGR---SIVSERGLTGLYRGX 429
+G AG SLC ++P+D +T + + Q+ +G I GL GLY+G
Sbjct: 118 SGGAAGA-TSLCFVYPLDFARTRLAADVGKGAAQREFTGLGNCITKIFKSDGLRGLYQGF 176
Query: 430 XXXXXXXXXXXXVYAFTYESVKGALLPHLPKEFHSLAHCTAGGCASVATSFIFTPSERIK 489
Y Y++ KG +LP PK H + + + P + ++
Sbjct: 177 NVSVQGIIIYRAAYFGVYDTAKG-MLPD-PKNVHIIVSWMIAQTVTAVAGLVSYPFDTVR 234
Query: 490 QQMQVGSRYH----------NCWNALVGIIKNGGLHSLYAG-WGAVLCRNVPHSIVKFYT 538
++M + S +CW I K+ G + + G W VL R + + V
Sbjct: 235 RRMMMQSGRKGADIMYTGTVDCWRK---IAKDEGPKAFFKGAWSNVL-RGMGGAFV-LVL 289
Query: 539 YESLKQMM 546
Y+ +K+ +
Sbjct: 290 YDEIKKFV 297
>pdb|2LCK|A Chain A, Structure Of The Mitochondrial Uncoupling Protein 2
Determined By Nmr Molecular Fragment Replacement
Length = 303
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 64/286 (22%), Positives = 104/286 (36%), Gaps = 34/286 (11%)
Query: 376 FAGA-LAGVFVSLCLHPVDTVKTVIQ-----------SCHTEQKSIVYIGRSIVSERGLT 423
F GA A L P+DT K +Q + + + ++ ++V G
Sbjct: 5 FLGAGTAACIADLITFPLDTAKVRLQIQGESQGLVRTAASAQYRGVLGTILTMVRTEGPR 64
Query: 424 GLYRGXXXXXXXXXXXXXVYAFTYESVKGALLP---HLPKEFHSLAHCTAGGCASVATSF 480
LY G V Y+SVK H LA T G A
Sbjct: 65 SLYNGLVAGLQRQMSFASVRIGLYDSVKQFYTKGSEHAGIGSRLLAGSTTGALAVA---- 120
Query: 481 IFTPSERIKQQMQV------GSRYHNCWNALVGIIKNGGLHSLYAGWGAVLCRNVPHSIV 534
+ P++ +K + Q G RY + A I + G+ L+ G + RN +
Sbjct: 121 VAQPTDVVKVRFQAQARAGGGRRYQSTVEAYKTIAREEGIRGLWKGTSPNVARNAIVNCA 180
Query: 535 KFYTYESLKQMMLPS-LKPGAQPNTIETLICGGVAGSTAALFTTPFDVIP-----GSTSQ 588
+ TY+ +K +L + L P + AG + +P DV+ + Q
Sbjct: 181 ELVTYDLIKDTLLKANLMTDDLPCHFTSAFG---AGFCTTVIASPVDVVKTRYMNSALGQ 237
Query: 589 YSSVYHALQEIGKREGLKGLYRGLIPRLVMYMSQGALFFASYEFFK 634
Y S H + ++EG + Y+G +P + S + F +YE K
Sbjct: 238 YHSAGHCALTMLRKEGPRAFYKGFMPSFLRLGSWNVVMFVTYEQLK 283
Score = 47.4 bits (111), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 45/197 (22%), Positives = 78/197 (39%), Gaps = 13/197 (6%)
Query: 373 EHA------FAGALAGVFVSLCLHPVDTVKTVIQS-----CHTEQKSIVYIGRSIVSERG 421
EHA AG+ G P D VK Q+ +S V ++I E G
Sbjct: 100 EHAGIGSRLLAGSTTGALAVAVAQPTDVVKVRFQAQARAGGGRRYQSTVEAYKTIAREEG 159
Query: 422 LTGLYRGXXXXXXXXXXXXXVYAFTYESVKGALLPHLPKEFHSLAHCTAGGCASVATSFI 481
+ GL++G TY+ +K LL H T+ A T+ I
Sbjct: 160 IRGLWKGTSPNVARNAIVNCAELVTYDLIKDTLLKANLMTDDLPCHFTSAFGAGFCTTVI 219
Query: 482 FTPSERIKQQMQVGS--RYHNCWNALVGIIKNGGLHSLYAGWGAVLCRNVPHSIVKFYTY 539
+P + +K + + +YH+ + + +++ G + Y G+ R ++V F TY
Sbjct: 220 ASPVDVVKTRYMNSALGQYHSAGHCALTMLRKEGPRAFYKGFMPSFLRLGSWNVVMFVTY 279
Query: 540 ESLKQMMLPSLKPGAQP 556
E LK+ ++ + + P
Sbjct: 280 EQLKRALMAAYQSREAP 296
>pdb|1PFF|A Chain A, Crystal Structure Of Homocysteine Alpha-, Gamma-Lyase At
1.8 Angstroms
pdb|1PFF|B Chain B, Crystal Structure Of Homocysteine Alpha-, Gamma-Lyase At
1.8 Angstroms
Length = 331
Score = 32.3 bits (72), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 20/31 (64%)
Query: 161 STFWTFLRSGASLSNDTCVWGLASAGIPYQL 191
++ WTFL++G L +D C++G A +QL
Sbjct: 28 ASVWTFLKAGDHLISDDCLYGCTHALFEHQL 58
>pdb|1WXR|A Chain A, Crystal Structure Of Heme Binding Protein, An
Autotransporter Hemoglobine Protease From Pathogenic
Escherichia Coli
Length = 1048
Score = 30.0 bits (66), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 29/55 (52%), Gaps = 3/55 (5%)
Query: 338 ENKRNQSDKNVVEDENKMEFHSPKTEKPHLSLAKQEHAFAGALAGVFVSLCLHPV 392
EN+ N D+N + ++FH+P+ +K +A GA+AG ++ +PV
Sbjct: 86 ENRYNIVDRN---NAPSLDFHAPRLDKLVTEVAPTAVTAQGAVAGAYLDKERYPV 137
>pdb|3AK5|A Chain A, Hemoglobin Protease (Hbp) Passenger Missing Domain-2
pdb|3AK5|B Chain B, Hemoglobin Protease (Hbp) Passenger Missing Domain-2
pdb|3AK5|C Chain C, Hemoglobin Protease (Hbp) Passenger Missing Domain-2
pdb|3AK5|D Chain D, Hemoglobin Protease (Hbp) Passenger Missing Domain-2
Length = 975
Score = 30.0 bits (66), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 29/55 (52%), Gaps = 3/55 (5%)
Query: 338 ENKRNQSDKNVVEDENKMEFHSPKTEKPHLSLAKQEHAFAGALAGVFVSLCLHPV 392
EN+ N D+N + ++FH+P+ +K +A GA+AG ++ +PV
Sbjct: 86 ENRYNIVDRN---NAPSLDFHAPRLDKLVTEVAPTAVTAQGAVAGAYLDKERYPV 137
>pdb|1E3M|A Chain A, The Crystal Structure Of E. Coli Muts Binding To Dna With
A G:t Mismatch
pdb|1E3M|B Chain B, The Crystal Structure Of E. Coli Muts Binding To Dna With
A G:t Mismatch
Length = 800
Score = 29.6 bits (65), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 38/89 (42%), Gaps = 7/89 (7%)
Query: 579 FDVIPGSTSQYSSVYHALQEIG--KREGLKGLYRGLIPRLVMY-----MSQGALFFASYE 631
F+ + G Q S L I +R+ LK R +IP L Y S+G +
Sbjct: 467 FNAVHGYYIQISRGQSHLAPINYXRRQTLKNAERYIIPELKEYEDKVLTSKGKALALEKQ 526
Query: 632 FFKGVFSLEVPHLSTLRIQHKQTEEDDVV 660
++ +F L +PHL L+ E DV+
Sbjct: 527 LYEELFDLLLPHLEALQQSASALAELDVL 555
>pdb|1OH5|A Chain A, The Crystal Structure Of E. Coli Muts Binding To Dna With
A C:a Mismatch
pdb|1OH5|B Chain B, The Crystal Structure Of E. Coli Muts Binding To Dna With
A C:a Mismatch
pdb|1OH6|A Chain A, The Crystal Structure Of E. Coli Muts Binding To Dna With
An A:a Mismatch
pdb|1OH6|B Chain B, The Crystal Structure Of E. Coli Muts Binding To Dna With
An A:a Mismatch
pdb|1OH7|A Chain A, The Crystal Structure Of E. Coli Muts Binding To Dna With
A G:g Mismatch
pdb|1OH7|B Chain B, The Crystal Structure Of E. Coli Muts Binding To Dna With
A G:g Mismatch
pdb|1OH8|A Chain A, The Crystal Structure Of E. Coli Muts Binding To Dna With
An Unpaired Thymidine
pdb|1OH8|B Chain B, The Crystal Structure Of E. Coli Muts Binding To Dna With
An Unpaired Thymidine
pdb|1W7A|A Chain A, Atp Bound Muts
pdb|1W7A|B Chain B, Atp Bound Muts
pdb|2WTU|A Chain A, Crystal Structure Of Escherichia Coli Muts In Complex With
A 16 Basepair Oligo Containing An A.A Mismatch.
pdb|2WTU|B Chain B, Crystal Structure Of Escherichia Coli Muts In Complex With
A 16 Basepair Oligo Containing An A.A Mismatch
Length = 800
Score = 29.6 bits (65), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 38/89 (42%), Gaps = 7/89 (7%)
Query: 579 FDVIPGSTSQYSSVYHALQEIG--KREGLKGLYRGLIPRLVMY-----MSQGALFFASYE 631
F+ + G Q S L I +R+ LK R +IP L Y S+G +
Sbjct: 467 FNAVHGYYIQISRGQSHLAPINYMRRQTLKNAERYIIPELKEYEDKVLTSKGKALALEKQ 526
Query: 632 FFKGVFSLEVPHLSTLRIQHKQTEEDDVV 660
++ +F L +PHL L+ E DV+
Sbjct: 527 LYEELFDLLLPHLEALQQSASALAELDVL 555
>pdb|1WB9|A Chain A, Crystal Structure Of E. Coli Dna Mismatch Repair Enzyme
Muts, E38t Mutant, In Complex With A G.T Mismatch
pdb|1WB9|B Chain B, Crystal Structure Of E. Coli Dna Mismatch Repair Enzyme
Muts, E38t Mutant, In Complex With A G.T Mismatch
Length = 800
Score = 29.6 bits (65), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 38/89 (42%), Gaps = 7/89 (7%)
Query: 579 FDVIPGSTSQYSSVYHALQEIG--KREGLKGLYRGLIPRLVMY-----MSQGALFFASYE 631
F+ + G Q S L I +R+ LK R +IP L Y S+G +
Sbjct: 467 FNAVHGYYIQISRGQSHLAPINYMRRQTLKNAERYIIPELKEYEDKVLTSKGKALALEKQ 526
Query: 632 FFKGVFSLEVPHLSTLRIQHKQTEEDDVV 660
++ +F L +PHL L+ E DV+
Sbjct: 527 LYEELFDLLLPHLEALQQSASALAELDVL 555
>pdb|3K0S|A Chain A, Crystal Structure Of E.Coli Dna Mismatch Repair Protein
Muts, D693n Mutant, In Complex With Gt Mismatched Dna
pdb|3K0S|B Chain B, Crystal Structure Of E.Coli Dna Mismatch Repair Protein
Muts, D693n Mutant, In Complex With Gt Mismatched Dna
Length = 799
Score = 29.6 bits (65), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 38/89 (42%), Gaps = 7/89 (7%)
Query: 579 FDVIPGSTSQYSSVYHALQEIG--KREGLKGLYRGLIPRLVMY-----MSQGALFFASYE 631
F+ + G Q S L I +R+ LK R +IP L Y S+G +
Sbjct: 466 FNAVHGYYIQISRGQSHLAPINYMRRQTLKNAERYIIPELKEYEDKVLTSKGKALALEKQ 525
Query: 632 FFKGVFSLEVPHLSTLRIQHKQTEEDDVV 660
++ +F L +PHL L+ E DV+
Sbjct: 526 LYEELFDLLLPHLEALQQSASALAELDVL 554
>pdb|1WBD|A Chain A, Crystal Structure Of E. Coli Dna Mismatch Repair Enzyme
Muts, E38q Mutant, In Complex With A G.T Mismatch
pdb|1WBD|B Chain B, Crystal Structure Of E. Coli Dna Mismatch Repair Enzyme
Muts, E38q Mutant, In Complex With A G.T Mismatch
Length = 800
Score = 29.6 bits (65), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 38/89 (42%), Gaps = 7/89 (7%)
Query: 579 FDVIPGSTSQYSSVYHALQEIG--KREGLKGLYRGLIPRLVMY-----MSQGALFFASYE 631
F+ + G Q S L I +R+ LK R +IP L Y S+G +
Sbjct: 467 FNAVHGYYIQISRGQSHLAPINYMRRQTLKNAERYIIPELKEYEDKVLTSKGKALALEKQ 526
Query: 632 FFKGVFSLEVPHLSTLRIQHKQTEEDDVV 660
++ +F L +PHL L+ E DV+
Sbjct: 527 LYEELFDLLLPHLEALQQSASALAELDVL 555
>pdb|1WBB|A Chain A, Crystal Structure Of E. Coli Dna Mismatch Repair Enzyme
Muts, E38a Mutant, In Complex With A G.T Mismatch
pdb|1WBB|B Chain B, Crystal Structure Of E. Coli Dna Mismatch Repair Enzyme
Muts, E38a Mutant, In Complex With A G.T Mismatch
Length = 800
Score = 29.6 bits (65), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 38/89 (42%), Gaps = 7/89 (7%)
Query: 579 FDVIPGSTSQYSSVYHALQEIG--KREGLKGLYRGLIPRLVMY-----MSQGALFFASYE 631
F+ + G Q S L I +R+ LK R +IP L Y S+G +
Sbjct: 467 FNAVHGYYIQISRGQSHLAPINYMRRQTLKNAERYIIPELKEYEDKVLTSKGKALALEKQ 526
Query: 632 FFKGVFSLEVPHLSTLRIQHKQTEEDDVV 660
++ +F L +PHL L+ E DV+
Sbjct: 527 LYEELFDLLLPHLEALQQSASALAELDVL 555
>pdb|1NG9|A Chain A, E.Coli Muts R697a: An Atpase-Asymmetry Mutant
pdb|1NG9|B Chain B, E.Coli Muts R697a: An Atpase-Asymmetry Mutant
Length = 800
Score = 29.6 bits (65), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 38/89 (42%), Gaps = 7/89 (7%)
Query: 579 FDVIPGSTSQYSSVYHALQEIG--KREGLKGLYRGLIPRLVMY-----MSQGALFFASYE 631
F+ + G Q S L I +R+ LK R +IP L Y S+G +
Sbjct: 467 FNAVHGYYIQISRGQSHLAPINYMRRQTLKNAERYIIPELKEYEDKVLTSKGKALALEKQ 526
Query: 632 FFKGVFSLEVPHLSTLRIQHKQTEEDDVV 660
++ +F L +PHL L+ E DV+
Sbjct: 527 LYEELFDLLLPHLEALQQSASALAELDVL 555
>pdb|2H0D|B Chain B, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 100
Score = 28.9 bits (63), Expect = 9.7, Method: Composition-based stats.
Identities = 15/51 (29%), Positives = 24/51 (47%)
Query: 278 TTKSLLSDYFLKDVSDMKEDCDVTRQPCSSLCADYCINSVASSNGTCEKCR 328
+ +SL S+ DM ++ T++ CAD I ++ S N C CR
Sbjct: 27 SPRSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCR 77
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
0.317 0.131 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,957,604
Number of Sequences: 62578
Number of extensions: 743610
Number of successful extensions: 1635
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1620
Number of HSP's gapped (non-prelim): 19
length of query: 688
length of database: 14,973,337
effective HSP length: 105
effective length of query: 583
effective length of database: 8,402,647
effective search space: 4898743201
effective search space used: 4898743201
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)