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= psy6439
(114 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2QAI|A Chain A, Crystal Structure Of The V-Type Atp Synthase Subunit F
From Pyrococcus Furiosus. Nesg Target Pfr7.
pdb|2QAI|B Chain B, Crystal Structure Of The V-Type Atp Synthase Subunit F
From Pyrococcus Furiosus. Nesg Target Pfr7
Length = 111
Score = 43.9 bits (102), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 30/90 (33%), Positives = 46/90 (51%), Gaps = 16/90 (17%)
Query: 12 LAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEA---FRKFIKRDDVDII 68
+ V GD DT VGF L G+ E ++ + S+ +E A R+ ++RDDV II
Sbjct: 3 IVVXGDSDTVVGFRLAGVHEAYEY----------DESLESVERARNKLRELLERDDVGII 52
Query: 69 LINQNVAELIRHCIDDHTQPIPAVLEIPSK 98
LI + +A+ I + P +L+IP K
Sbjct: 53 LITERLAQRIGSLPE---VKFPIILQIPDK 79
>pdb|2I4R|A Chain A, Crystal Structure Of The V-Type Atp Synthase Subunit F
From Archaeoglobus Fulgidus. Nesg Target Gr52a.
pdb|2I4R|B Chain B, Crystal Structure Of The V-Type Atp Synthase Subunit F
From Archaeoglobus Fulgidus. Nesg Target Gr52a
Length = 102
Score = 39.7 bits (91), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 41/81 (50%), Gaps = 15/81 (18%)
Query: 12 LAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILIN 71
LAV+GD D +GF L GI +I + TS +I +A +KRDDV +++
Sbjct: 12 LAVVGDPDFTIGFXLAGISDIYEV-----------TSDEEIVKAVEDVLKRDDVGVVIXK 60
Query: 72 QN----VAELIRHCIDDHTQP 88
Q + ++R ID+ +P
Sbjct: 61 QEYLKKLPPVLRREIDEKVEP 81
>pdb|2OV6|A Chain A, The Nmr Structure Of Subunit F Of The Methanogenic A1ao
Atp Synthase And Its Interaction With The
Nucleotide-Binding Subunit B
Length = 101
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 39/81 (48%), Gaps = 15/81 (18%)
Query: 12 LAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILIN 71
LAVIG + GF L GI ++ + P+ + E A R ++ V I++++
Sbjct: 3 LAVIGKSEFVTGFRLAGISKV--YETPD---------IPATESAVRSVLEDKSVGILVMH 51
Query: 72 Q----NVAELIRHCIDDHTQP 88
N+ E++R +++ QP
Sbjct: 52 NDDIGNLPEVLRKNLNESVQP 72
>pdb|4GWN|A Chain A, Crystal Structure Of Human Mature Meprin Beta
Length = 553
Score = 26.6 bits (57), Expect = 3.5, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 57 RKFIKRDDVDIILINQNVAELIRHCIDDHTQPIPAVLEIPSK 98
R FIK DDV I+L ++++ L + P P+V ++ SK
Sbjct: 510 RDFIKGDDVYILLTVEDISHL--NSTQIQLTPAPSVQDLCSK 549
>pdb|4GWM|A Chain A, Crystal Structure Of Human Promeprin Beta
pdb|4GWM|B Chain B, Crystal Structure Of Human Promeprin Beta
Length = 592
Score = 26.6 bits (57), Expect = 3.5, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 57 RKFIKRDDVDIILINQNVAELIRHCIDDHTQPIPAVLEIPSK 98
R FIK DDV I+L ++++ L + P P+V ++ SK
Sbjct: 549 RDFIKGDDVYILLTVEDISHL--NSTQIQLTPAPSVQDLCSK 588
>pdb|2YOO|A Chain A, Cholest-4-en-3-one Bound Structure Of Cyp142 From
Mycobacterium Smegmatis
pdb|2YOO|B Chain B, Cholest-4-en-3-one Bound Structure Of Cyp142 From
Mycobacterium Smegmatis
pdb|2YOO|C Chain C, Cholest-4-en-3-one Bound Structure Of Cyp142 From
Mycobacterium Smegmatis
pdb|2YOO|D Chain D, Cholest-4-en-3-one Bound Structure Of Cyp142 From
Mycobacterium Smegmatis
pdb|3ZBY|A Chain A, Ligand-free Structure Of Cyp142 From Mycobacterium
Smegmatis
pdb|3ZBY|B Chain B, Ligand-free Structure Of Cyp142 From Mycobacterium
Smegmatis
pdb|3ZBY|C Chain C, Ligand-free Structure Of Cyp142 From Mycobacterium
Smegmatis
pdb|3ZBY|D Chain D, Ligand-free Structure Of Cyp142 From Mycobacterium
Smegmatis
pdb|3ZBY|E Chain E, Ligand-free Structure Of Cyp142 From Mycobacterium
Smegmatis
pdb|3ZBY|F Chain F, Ligand-free Structure Of Cyp142 From Mycobacterium
Smegmatis
Length = 407
Score = 26.2 bits (56), Expect = 5.7, Method: Composition-based stats.
Identities = 18/48 (37%), Positives = 26/48 (54%), Gaps = 1/48 (2%)
Query: 11 LLAVIGDEDTCVGFLLGGIGEINKHR-QPNFLVVDKNTSVSDIEEAFR 57
LL +IG ++T L GG ++ +HR Q + LV D + IEE R
Sbjct: 228 LLILIGGDETTRHTLSGGTEQLLRHRDQWDALVADVDLLPGAIEEMLR 275
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
0.321 0.140 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,286,994
Number of Sequences: 62578
Number of extensions: 119131
Number of successful extensions: 329
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: 320
Number of HSP's gapped (non-prelim): 14
length of query: 114
length of database: 14,973,337
effective HSP length: 77
effective length of query: 37
effective length of database: 10,154,831
effective search space: 375728747
effective search space used: 375728747
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)