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= 003505
(815 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WID|A Chain A, Solution Structure Of The B3 Dna-Binding Domain Of Rav1
Length = 130
Score = 53.1 bits (126), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 30/87 (34%), Positives = 43/87 (49%)
Query: 45 FCKTLTASDTSTHGGFSVPRRAAEKVFPPLDYSQTPPAQELIARDLHDNEWKFRHIFRGQ 104
F K +T SD +P+ AEK FP + + L D++ W+FR+ +
Sbjct: 14 FEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWNS 73
Query: 105 PKRHLLTTGWSVFVSAKRLVAGDSVLF 131
+ ++LT GWS FV K L AGD V F
Sbjct: 74 SQSYVLTKGWSRFVKEKNLRAGDVVSF 100
>pdb|1YEL|A Chain A, Structure Of The Hypothetical Arabidopsis Thaliana Protein
At1g16640.1
Length = 104
Score = 32.0 bits (71), Expect = 1.2, Method: Composition-based stats.
Identities = 22/76 (28%), Positives = 36/76 (47%), Gaps = 5/76 (6%)
Query: 62 VPRRAAEKVFPPLDYSQTPPAQELIARDLHD---NEWKFRHIFRGQPKRHLLTTGWSVFV 118
+ ++++ + PL +++ PA I DL D W R RG+ + LT GW FV
Sbjct: 16 ISEKSSKSLEIPLGFNEYFPAPFPITVDLLDYSGRSWTVRMKKRGE--KVFLTVGWENFV 73
Query: 119 SAKRLVAGDSVLFIWN 134
L G + FI++
Sbjct: 74 KDNNLEDGKYLQFIYD 89
>pdb|2AU3|A Chain A, Crystal Structure Of The Aquifex Aeolicus Primase (Zinc
Binding And Rna Polymerase Domains)
Length = 407
Score = 32.0 bits (71), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 43/184 (23%), Positives = 70/184 (38%), Gaps = 30/184 (16%)
Query: 630 NESLSLPYAASNFTNNVGTDFPLNSDMTTSSCVDESGFLQSSENVDQVNPPTRTFVKVHK 689
+E L+L SN+ N P + D T S V P++ K
Sbjct: 21 SEYLNLEKVGSNYRTNC----PFHPDDTPSFYV----------------SPSKQIFKCFG 60
Query: 690 SGSFGRSLDISKFS---SYDELRSELARMFGLEGQLEDPQRSGWQLVFVDRENDVL---L 743
G G ++ SY E ELA+ +G + LE + V +DR D L
Sbjct: 61 CGVGGDAIKFVSLYEDISYFEAALELAKRYGKKLDLEKISKDEKVYVALDRVCDFYRESL 120
Query: 744 LGDDPWQEFVNNVGYIKILSPLEVQQMGKGLSPVTSGPGQRLSSNNNFDDYVSRQELRSS 803
L + E+V + G + P ++ G +P + + L N+ + Y+ + L S
Sbjct: 121 LKNREASEYVKSRG----IDPKVARKFDLGYAPSSEALVKVLKENDLLEAYLETKNLLSP 176
Query: 804 SNGV 807
+ GV
Sbjct: 177 TKGV 180
>pdb|3IBG|A Chain A, Crystal Structure Of Aspergillus Fumigatus Get3 With Bound
Adp
pdb|3IBG|B Chain B, Crystal Structure Of Aspergillus Fumigatus Get3 With Bound
Adp
pdb|3IBG|C Chain C, Crystal Structure Of Aspergillus Fumigatus Get3 With Bound
Adp
pdb|3IBG|D Chain D, Crystal Structure Of Aspergillus Fumigatus Get3 With Bound
Adp
pdb|3IBG|E Chain E, Crystal Structure Of Aspergillus Fumigatus Get3 With Bound
Adp
pdb|3IBG|F Chain F, Crystal Structure Of Aspergillus Fumigatus Get3 With Bound
Adp
Length = 348
Score = 30.8 bits (68), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 36/83 (43%), Gaps = 4/83 (4%)
Query: 606 FGVSIDSSLMGQNGLPNLKNISSENESLSLPYAASNFTNNVGTDFPLNSDMTTSSCVDES 665
FG ++S L + GLP +NI +E L + + V T F N DMTT CV +
Sbjct: 189 FGPMLNSILGARGGLPGGQNI---DELLQKMESLRETISEVNTQFK-NPDMTTFVCVCIA 244
Query: 666 GFLQSSENVDQVNPPTRTFVKVH 688
FL E + T + H
Sbjct: 245 EFLSLYETERMIQELTSYGIDTH 267
>pdb|1JRX|A Chain A, Crystal Structure Of Arg402ala Mutant Flavocytochrome C3
From Shewanella Frigidimarina
pdb|1JRX|B Chain B, Crystal Structure Of Arg402ala Mutant Flavocytochrome C3
From Shewanella Frigidimarina
Length = 571
Score = 30.8 bits (68), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 23/107 (21%), Positives = 48/107 (44%), Gaps = 6/107 (5%)
Query: 666 GFLQSSENVDQVNPPTRTFVKVHKSGSFGRSLDISKFSSYDELRSELARMFGLEGQLEDP 725
GF +++E V +++P + F+ ++ G+ G LD+++ + L M ++
Sbjct: 315 GFAKNNERVAKLDPSLKGFISTNQPGAVGDGLDVAENAG-----GALKDMQYIQAHPTLS 369
Query: 726 QRSGWQLVFVDRENDVLLLGDDPWQEFVNNVGYIKILSPLEVQQMGK 772
+ G + R N +L+ + + FVN + S + Q GK
Sbjct: 370 VKGGVMVTEAVRGNGAILV-NREGKRFVNEITTADKASAAILAQTGK 415
>pdb|1JRZ|A Chain A, Crystal Structure Of Arg402tyr Mutant Flavocytochrome C3
From Shewanella Frigidimarina
pdb|1JRZ|B Chain B, Crystal Structure Of Arg402tyr Mutant Flavocytochrome C3
From Shewanella Frigidimarina
Length = 571
Score = 30.8 bits (68), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 23/107 (21%), Positives = 48/107 (44%), Gaps = 6/107 (5%)
Query: 666 GFLQSSENVDQVNPPTRTFVKVHKSGSFGRSLDISKFSSYDELRSELARMFGLEGQLEDP 725
GF +++E V +++P + F+ ++ G+ G LD+++ + L M ++
Sbjct: 315 GFAKNNERVAKLDPSLKGFISTNQPGAVGDGLDVAENAG-----GALKDMQYIQAHPTLS 369
Query: 726 QRSGWQLVFVDRENDVLLLGDDPWQEFVNNVGYIKILSPLEVQQMGK 772
+ G + R N +L+ + + FVN + S + Q GK
Sbjct: 370 VKGGVMVTEAVRGNGAILV-NREGKRFVNEITTYDKASAAILAQTGK 415
>pdb|1LJ1|A Chain A, Crystal Structure Of Q363fR402A MUTANT FLAVOCYTOCHROME C3
pdb|1LJ1|B Chain B, Crystal Structure Of Q363fR402A MUTANT FLAVOCYTOCHROME C3
Length = 571
Score = 30.4 bits (67), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 25/117 (21%), Positives = 49/117 (41%), Gaps = 26/117 (22%)
Query: 666 GFLQSSENVDQVNPPTRTFVKVHKSGSFGRSLDISKFSSYDELRSELARMFGLEGQLEDP 725
GF +++E V +++P + F+ ++ G+ G LD+++ + G L+D
Sbjct: 315 GFAKNNERVAKLDPSLKGFISTNQPGAVGDGLDVAENAG---------------GALKDM 359
Query: 726 Q----------RSGWQLVFVDRENDVLLLGDDPWQEFVNNVGYIKILSPLEVQQMGK 772
Q + G + R N +L+ + + FVN + S + Q GK
Sbjct: 360 QYIFAHPTLSVKGGVMVTEAVRGNGAILV-NREGKRFVNEITTADKASAAILAQTGK 415
>pdb|1JRY|A Chain A, Crystal Structure Of Arg402lys Mutant Flavocytochrome C3
From Shewanella Frigidimarina
pdb|1JRY|B Chain B, Crystal Structure Of Arg402lys Mutant Flavocytochrome C3
From Shewanella Frigidimarina
Length = 571
Score = 30.0 bits (66), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 23/107 (21%), Positives = 48/107 (44%), Gaps = 6/107 (5%)
Query: 666 GFLQSSENVDQVNPPTRTFVKVHKSGSFGRSLDISKFSSYDELRSELARMFGLEGQLEDP 725
GF +++E V +++P + F+ ++ G+ G LD+++ + L M ++
Sbjct: 315 GFAKNNERVAKLDPSLKGFISTNQPGAVGDGLDVAENAG-----GALKDMQYIQAHPTLS 369
Query: 726 QRSGWQLVFVDRENDVLLLGDDPWQEFVNNVGYIKILSPLEVQQMGK 772
+ G + R N +L+ + + FVN + S + Q GK
Sbjct: 370 VKGGVMVTEAVRGNGAILV-NREGKRFVNEITTKDKASAAILAQTGK 415
>pdb|1Q9I|A Chain A, The A251c:s430c Double Mutant Of Flavocytochrome C3 From
Shewanella Frigidimarina
Length = 571
Score = 30.0 bits (66), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 23/107 (21%), Positives = 48/107 (44%), Gaps = 6/107 (5%)
Query: 666 GFLQSSENVDQVNPPTRTFVKVHKSGSFGRSLDISKFSSYDELRSELARMFGLEGQLEDP 725
GF +++E V +++P + F+ ++ G+ G LD+++ + L M ++
Sbjct: 315 GFAKNNERVAKLDPSLKGFISTNQPGAVGDGLDVAENAG-----GALKDMQYIQAHPTLS 369
Query: 726 QRSGWQLVFVDRENDVLLLGDDPWQEFVNNVGYIKILSPLEVQQMGK 772
+ G + R N +L+ + + FVN + S + Q GK
Sbjct: 370 VKGGVMVTEAVRGNGAILV-NREGKRFVNEITTRDKASAAILAQTGK 415
>pdb|1P2E|A Chain A, H61a Mutant Of Flavocytochrome C3
Length = 571
Score = 30.0 bits (66), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 23/107 (21%), Positives = 48/107 (44%), Gaps = 6/107 (5%)
Query: 666 GFLQSSENVDQVNPPTRTFVKVHKSGSFGRSLDISKFSSYDELRSELARMFGLEGQLEDP 725
GF +++E V +++P + F+ ++ G+ G LD+++ + L M ++
Sbjct: 315 GFAKNNERVAKLDPSLKGFISTNQPGAVGDGLDVAENAG-----GALKDMQYIQAHPTLS 369
Query: 726 QRSGWQLVFVDRENDVLLLGDDPWQEFVNNVGYIKILSPLEVQQMGK 772
+ G + R N +L+ + + FVN + S + Q GK
Sbjct: 370 VKGGVMVTEAVRGNGAILV-NREGKRFVNEITTRDKASAAILAQTGK 415
>pdb|1P2H|A Chain A, H61m Mutant Of Flavocytochrome C3
Length = 571
Score = 30.0 bits (66), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 23/107 (21%), Positives = 48/107 (44%), Gaps = 6/107 (5%)
Query: 666 GFLQSSENVDQVNPPTRTFVKVHKSGSFGRSLDISKFSSYDELRSELARMFGLEGQLEDP 725
GF +++E V +++P + F+ ++ G+ G LD+++ + L M ++
Sbjct: 315 GFAKNNERVAKLDPSLKGFISTNQPGAVGDGLDVAENAG-----GALKDMQYIQAHPTLS 369
Query: 726 QRSGWQLVFVDRENDVLLLGDDPWQEFVNNVGYIKILSPLEVQQMGK 772
+ G + R N +L+ + + FVN + S + Q GK
Sbjct: 370 VKGGVMVTEAVRGNGAILV-NREGKRFVNEITTRDKASAAILAQTGK 415
>pdb|1KSS|A Chain A, Crystal Structure Of His505ala Mutant Flavocytochrome C3
From Shewanella Frigidimarina
Length = 571
Score = 30.0 bits (66), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 23/107 (21%), Positives = 48/107 (44%), Gaps = 6/107 (5%)
Query: 666 GFLQSSENVDQVNPPTRTFVKVHKSGSFGRSLDISKFSSYDELRSELARMFGLEGQLEDP 725
GF +++E V +++P + F+ ++ G+ G LD+++ + L M ++
Sbjct: 315 GFAKNNERVAKLDPSLKGFISTNQPGAVGDGLDVAENAG-----GALKDMQYIQAHPTLS 369
Query: 726 QRSGWQLVFVDRENDVLLLGDDPWQEFVNNVGYIKILSPLEVQQMGK 772
+ G + R N +L+ + + FVN + S + Q GK
Sbjct: 370 VKGGVMVTEAVRGNGAILV-NREGKRFVNEITTRDKASAAILAQTGK 415
>pdb|1KSU|A Chain A, Crystal Structure Of His505tyr Mutant Flavocytochrome C3
From Shewanella Frigidimarina
pdb|1KSU|B Chain B, Crystal Structure Of His505tyr Mutant Flavocytochrome C3
From Shewanella Frigidimarina
Length = 571
Score = 30.0 bits (66), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 23/107 (21%), Positives = 48/107 (44%), Gaps = 6/107 (5%)
Query: 666 GFLQSSENVDQVNPPTRTFVKVHKSGSFGRSLDISKFSSYDELRSELARMFGLEGQLEDP 725
GF +++E V +++P + F+ ++ G+ G LD+++ + L M ++
Sbjct: 315 GFAKNNERVAKLDPSLKGFISTNQPGAVGDGLDVAENAG-----GALKDMQYIQAHPTLS 369
Query: 726 QRSGWQLVFVDRENDVLLLGDDPWQEFVNNVGYIKILSPLEVQQMGK 772
+ G + R N +L+ + + FVN + S + Q GK
Sbjct: 370 VKGGVMVTEAVRGNGAILV-NREGKRFVNEITTRDKASAAILAQTGK 415
>pdb|1QJD|A Chain A, Flavocytochrome C3 From Shewanella Frigidimarina
pdb|1Y0P|A Chain A, Flavocytochrome C3 With Mesaconate Bound
Length = 571
Score = 30.0 bits (66), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 23/107 (21%), Positives = 48/107 (44%), Gaps = 6/107 (5%)
Query: 666 GFLQSSENVDQVNPPTRTFVKVHKSGSFGRSLDISKFSSYDELRSELARMFGLEGQLEDP 725
GF +++E V +++P + F+ ++ G+ G LD+++ + L M ++
Sbjct: 315 GFAKNNERVAKLDPSLKGFISTNQPGAVGDGLDVAENAG-----GALKDMQYIQAHPTLS 369
Query: 726 QRSGWQLVFVDRENDVLLLGDDPWQEFVNNVGYIKILSPLEVQQMGK 772
+ G + R N +L+ + + FVN + S + Q GK
Sbjct: 370 VKGGVMVTEAVRGNGAILV-NREGKRFVNEITTRDKASAAILAQTGK 415
>pdb|2B7R|A Chain A, Structure Of E378d Mutant Flavocytochrome C3
Length = 571
Score = 30.0 bits (66), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 23/107 (21%), Positives = 48/107 (44%), Gaps = 6/107 (5%)
Query: 666 GFLQSSENVDQVNPPTRTFVKVHKSGSFGRSLDISKFSSYDELRSELARMFGLEGQLEDP 725
GF +++E V +++P + F+ ++ G+ G LD+++ + L M ++
Sbjct: 315 GFAKNNERVAKLDPSLKGFISTNQPGAVGDGLDVAENAG-----GALKDMQYIQAHPTLS 369
Query: 726 QRSGWQLVFVDRENDVLLLGDDPWQEFVNNVGYIKILSPLEVQQMGK 772
+ G + R N +L+ + + FVN + S + Q GK
Sbjct: 370 VKGGVMVTDAVRGNGAILV-NREGKRFVNEITTRDKASAAILAQTGK 415
>pdb|1E39|A Chain A, Flavocytochrome C3 From Shewanella Frigidimarina Histidine
365 Mutated To Alanine
Length = 571
Score = 29.6 bits (65), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 10/36 (27%), Positives = 24/36 (66%)
Query: 666 GFLQSSENVDQVNPPTRTFVKVHKSGSFGRSLDISK 701
GF +++E V +++P + F+ ++ G+ G LD+++
Sbjct: 315 GFAKNNERVAKLDPSLKGFISTNQPGAVGDGLDVAE 350
>pdb|1M64|A Chain A, Crystal Structure Of Q363f Mutant Flavocytochrome C3
pdb|1M64|B Chain B, Crystal Structure Of Q363f Mutant Flavocytochrome C3
Length = 571
Score = 29.6 bits (65), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 10/36 (27%), Positives = 24/36 (66%)
Query: 666 GFLQSSENVDQVNPPTRTFVKVHKSGSFGRSLDISK 701
GF +++E V +++P + F+ ++ G+ G LD+++
Sbjct: 315 GFAKNNERVAKLDPSLKGFISTNQPGAVGDGLDVAE 350
>pdb|2B7S|A Chain A, R381k Mutant Of Flavocytochrome C3
Length = 571
Score = 29.6 bits (65), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 10/36 (27%), Positives = 24/36 (66%)
Query: 666 GFLQSSENVDQVNPPTRTFVKVHKSGSFGRSLDISK 701
GF +++E V +++P + F+ ++ G+ G LD+++
Sbjct: 315 GFAKNNERVAKLDPSLKGFISTNQPGAVGDGLDVAE 350
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
0.315 0.131 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,143,327
Number of Sequences: 62578
Number of extensions: 858083
Number of successful extensions: 1614
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1598
Number of HSP's gapped (non-prelim): 24
length of query: 815
length of database: 14,973,337
effective HSP length: 107
effective length of query: 708
effective length of database: 8,277,491
effective search space: 5860463628
effective search space used: 5860463628
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: 56 (26.2 bits)