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= 030355
(179 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4DVY|P Chain P, Crystal Structure Of The Helicobacter Pylori Caga
Oncoprotein
Length = 876
Score = 27.7 bits (60), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 18/30 (60%)
Query: 32 QVRAQIDSMAPKRPTKPNRSEPDFIAPTND 61
Q+R + + A K PTK N+ DFI +ND
Sbjct: 68 QLREEYSNKAIKNPTKKNQYFSDFIDKSND 97
>pdb|4G0H|A Chain A, Crystal Structure Of The N-Terminal Domain Of
Helicobacter Pylori Caga Protein
Length = 916
Score = 27.7 bits (60), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 18/30 (60%)
Query: 32 QVRAQIDSMAPKRPTKPNRSEPDFIAPTND 61
Q+R + + A K PTK N+ DFI +ND
Sbjct: 68 QLREEYSNKAIKNPTKKNQYFSDFIDKSND 97
>pdb|1Q9I|A Chain A, The A251c:s430c Double Mutant Of Flavocytochrome C3 From
Shewanella Frigidimarina
Length = 571
Score = 27.3 bits (59), Expect = 4.9, Method: Composition-based stats.
Identities = 16/35 (45%), Positives = 16/35 (45%)
Query: 106 YNQLVSIDKDHHTTGTGFIRVANEGNGYNIRVGKG 140
YN LVS KD R NEGN Y I V G
Sbjct: 468 YNSLVSSGKDTDFERPNLPRALNEGNYYAIEVTPG 502
>pdb|1P2H|A Chain A, H61m Mutant Of Flavocytochrome C3
Length = 571
Score = 27.3 bits (59), Expect = 4.9, Method: Composition-based stats.
Identities = 16/35 (45%), Positives = 16/35 (45%)
Query: 106 YNQLVSIDKDHHTTGTGFIRVANEGNGYNIRVGKG 140
YN LVS KD R NEGN Y I V G
Sbjct: 468 YNSLVSSGKDTDFERPNLPRALNEGNYYAIEVTPG 502
>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 = 27.3 bits (59), Expect = 4.9, Method: Composition-based stats.
Identities = 16/35 (45%), Positives = 16/35 (45%)
Query: 106 YNQLVSIDKDHHTTGTGFIRVANEGNGYNIRVGKG 140
YN LVS KD R NEGN Y I V G
Sbjct: 468 YNSLVSSGKDTDFERPNLPRALNEGNYYAIEVTPG 502
>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 = 27.3 bits (59), Expect = 4.9, Method: Composition-based stats.
Identities = 16/35 (45%), Positives = 16/35 (45%)
Query: 106 YNQLVSIDKDHHTTGTGFIRVANEGNGYNIRVGKG 140
YN LVS KD R NEGN Y I V G
Sbjct: 468 YNSLVSSGKDTDFERPNLPRALNEGNYYAIEVTPG 502
>pdb|1QJD|A Chain A, Flavocytochrome C3 From Shewanella Frigidimarina
pdb|1Y0P|A Chain A, Flavocytochrome C3 With Mesaconate Bound
Length = 571
Score = 27.3 bits (59), Expect = 4.9, Method: Composition-based stats.
Identities = 16/35 (45%), Positives = 16/35 (45%)
Query: 106 YNQLVSIDKDHHTTGTGFIRVANEGNGYNIRVGKG 140
YN LVS KD R NEGN Y I V G
Sbjct: 468 YNSLVSSGKDTDFERPNLPRALNEGNYYAIEVTPG 502
>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 = 27.3 bits (59), Expect = 4.9, Method: Composition-based stats.
Identities = 16/35 (45%), Positives = 16/35 (45%)
Query: 106 YNQLVSIDKDHHTTGTGFIRVANEGNGYNIRVGKG 140
YN LVS KD R NEGN Y I V G
Sbjct: 468 YNSLVSSGKDTDFERPNLPRALNEGNYYAIEVTPG 502
>pdb|2B7S|A Chain A, R381k Mutant Of Flavocytochrome C3
Length = 571
Score = 27.3 bits (59), Expect = 4.9, Method: Composition-based stats.
Identities = 16/35 (45%), Positives = 16/35 (45%)
Query: 106 YNQLVSIDKDHHTTGTGFIRVANEGNGYNIRVGKG 140
YN LVS KD R NEGN Y I V G
Sbjct: 468 YNSLVSSGKDTDFERPNLPRALNEGNYYAIEVTPG 502
>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 = 27.3 bits (59), Expect = 5.0, Method: Composition-based stats.
Identities = 16/35 (45%), Positives = 16/35 (45%)
Query: 106 YNQLVSIDKDHHTTGTGFIRVANEGNGYNIRVGKG 140
YN LVS KD R NEGN Y I V G
Sbjct: 468 YNSLVSSGKDTDFERPNLPRALNEGNYYAIEVTPG 502
>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 = 27.3 bits (59), Expect = 5.0, Method: Composition-based stats.
Identities = 16/35 (45%), Positives = 16/35 (45%)
Query: 106 YNQLVSIDKDHHTTGTGFIRVANEGNGYNIRVGKG 140
YN LVS KD R NEGN Y I V G
Sbjct: 468 YNSLVSSGKDTDFERPNLPRALNEGNYYAIEVTPG 502
>pdb|1P2E|A Chain A, H61a Mutant Of Flavocytochrome C3
Length = 571
Score = 27.3 bits (59), Expect = 5.2, Method: Composition-based stats.
Identities = 16/35 (45%), Positives = 16/35 (45%)
Query: 106 YNQLVSIDKDHHTTGTGFIRVANEGNGYNIRVGKG 140
YN LVS KD R NEGN Y I V G
Sbjct: 468 YNSLVSSGKDTDFERPNLPRALNEGNYYAIEVTPG 502
>pdb|1KSS|A Chain A, Crystal Structure Of His505ala Mutant Flavocytochrome C3
From Shewanella Frigidimarina
Length = 571
Score = 27.3 bits (59), Expect = 5.2, Method: Composition-based stats.
Identities = 16/35 (45%), Positives = 16/35 (45%)
Query: 106 YNQLVSIDKDHHTTGTGFIRVANEGNGYNIRVGKG 140
YN LVS KD R NEGN Y I V G
Sbjct: 468 YNSLVSSGKDTDFERPNLPRALNEGNYYAIEVTPG 502
>pdb|1E39|A Chain A, Flavocytochrome C3 From Shewanella Frigidimarina Histidine
365 Mutated To Alanine
Length = 571
Score = 27.3 bits (59), Expect = 5.2, Method: Composition-based stats.
Identities = 16/35 (45%), Positives = 16/35 (45%)
Query: 106 YNQLVSIDKDHHTTGTGFIRVANEGNGYNIRVGKG 140
YN LVS KD R NEGN Y I V G
Sbjct: 468 YNSLVSSGKDTDFERPNLPRALNEGNYYAIEVTPG 502
>pdb|2B7R|A Chain A, Structure Of E378d Mutant Flavocytochrome C3
Length = 571
Score = 27.3 bits (59), Expect = 5.2, Method: Composition-based stats.
Identities = 16/35 (45%), Positives = 16/35 (45%)
Query: 106 YNQLVSIDKDHHTTGTGFIRVANEGNGYNIRVGKG 140
YN LVS KD R NEGN Y I V G
Sbjct: 468 YNSLVSSGKDTDFERPNLPRALNEGNYYAIEVTPG 502
>pdb|3AFG|A Chain A, Crystal Structure Of Pron-Tk-Sp From Thermococcus
Kodakaraensis
pdb|3AFG|B Chain B, Crystal Structure Of Pron-Tk-Sp From Thermococcus
Kodakaraensis
Length = 539
Score = 26.9 bits (58), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 32/59 (54%), Gaps = 9/59 (15%)
Query: 4 AGVDQWTVTKPSRSDEVL--DAVEQVRIANQVRAQIDSMAPKRPTKPNRSEPDFIAPTN 60
+G +++TV P+ + +V+ AV++ + I + + PT NR +P+ +AP N
Sbjct: 281 SGPNKYTVGSPAAASKVITVGAVDKYDV-------ITDFSSRGPTADNRLKPEVVAPGN 332
>pdb|1JMJ|A Chain A, Crystal Structure Of Native Heparin Cofactor Ii
pdb|1JMJ|B Chain B, Crystal Structure Of Native Heparin Cofactor Ii
Length = 480
Score = 26.9 bits (58), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 16/29 (55%)
Query: 149 YKSNPATNDWIPSVEYDQAFISSKPNRSE 177
+K N TNDWIP E D ++ + SE
Sbjct: 41 HKENTVTNDWIPEGEEDDDYLDLEKIFSE 69
>pdb|2QI2|A Chain A, Crystal Structure Of The Thermoplasma Acidophilum Pelota
Protein
Length = 347
Score = 26.6 bits (57), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 24/47 (51%), Gaps = 4/47 (8%)
Query: 83 HVGVIYSAEVNNTAQDEFVETQYYNQLVSIDKDHHTT----GTGFIR 125
VG +YS A+ + E Y++Q+V+ K++ + G GF R
Sbjct: 155 QVGTVYSGRSGKYAEGNYSEASYFDQIVNALKNYSNSIIILGPGFAR 201
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
0.311 0.128 0.374
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,745,461
Number of Sequences: 62578
Number of extensions: 237477
Number of successful extensions: 336
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 19
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 317
Number of HSP's gapped (non-prelim): 21
length of query: 179
length of database: 14,973,337
effective HSP length: 93
effective length of query: 86
effective length of database: 9,153,583
effective search space: 787208138
effective search space used: 787208138
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 48 (23.1 bits)