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= 030983
(168 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2WSS|U Chain U, The Structure Of The Membrane Extrinsic Region Of Bovine
Atp Synthase
Length = 118
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 52/96 (54%), Gaps = 9/96 (9%)
Query: 4 AGKKIADVAFKAGRTIDWEGMAKMLVSDEARKEFATLRRAFDEVNSTLQTKFSQEPEPID 63
AG+K+A +TIDW +++ ++ K A ++++E ++ ++P ID
Sbjct: 1 AGRKLA------LKTIDWVAFGEIIPRNQ--KAVANSLKSWNETLTSRLATLPEKPPAID 52
Query: 64 WEYYRKGIG-SRLVDMYKQAYESIEVPKYVDKVTPE 98
W YY+ + + LVD +++ + +++VP DK T +
Sbjct: 53 WAYYKANVAKAGLVDDFEKKFNALKVPIPEDKYTAQ 88
>pdb|2CLY|B Chain B, Subcomplex Of The Stator Of Bovine Mitochondrial Atp
Synthase
pdb|2CLY|E Chain E, Subcomplex Of The Stator Of Bovine Mitochondrial Atp
Synthase
Length = 160
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 51/94 (54%), Gaps = 9/94 (9%)
Query: 4 AGKKIADVAFKAGRTIDWEGMAKMLVSDEARKEFATLRRAFDEVNSTLQTKFSQEPEPID 63
AG+K+A +TIDW +++ ++ K A ++++E ++ ++P ID
Sbjct: 1 AGRKLA------LKTIDWVAFGEIIPRNQ--KAVANSLKSWNETLTSRLATLPEKPPAID 52
Query: 64 WEYYRKGIG-SRLVDMYKQAYESIEVPKYVDKVT 96
W YY+ + + LVD +++ + +++VP DK T
Sbjct: 53 WAYYKANVAKAGLVDDFEKKFNALKVPIPEDKYT 86
>pdb|4B2Q|U Chain U, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
Subtomogram Average
pdb|4B2Q|UU Chain u, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
Subtomogram Average
Length = 120
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 46/83 (55%), Gaps = 3/83 (3%)
Query: 15 AGRTIDWEGMAKMLVSDEARKEFATLRRAFDEVNSTLQTKFSQEPEPIDWEYYRKGIG-S 73
A +TIDW +++ ++ K A ++++E ++ ++P IDW YY+ + +
Sbjct: 3 ALKTIDWVAFGEIIPRNQ--KAVANSLKSWNETLTSRLATLPEKPPAIDWAYYKANVAKA 60
Query: 74 RLVDMYKQAYESIEVPKYVDKVT 96
LVD +++ + +++VP DK T
Sbjct: 61 GLVDDFEKKFNALKVPIPEDKYT 83
>pdb|3C6V|A Chain A, Crystal Structure Of Au4130APC7354, A PROBABLE ENZYME FROM
THE Thermophilic Fungus Aspergillus Fumigatus
pdb|3C6V|B Chain B, Crystal Structure Of Au4130APC7354, A PROBABLE ENZYME FROM
THE Thermophilic Fungus Aspergillus Fumigatus
pdb|3C6V|C Chain C, Crystal Structure Of Au4130APC7354, A PROBABLE ENZYME FROM
THE Thermophilic Fungus Aspergillus Fumigatus
Length = 161
Score = 27.3 bits (59), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 26/44 (59%), Gaps = 8/44 (18%)
Query: 24 MAKMLVSDEARKEFATLRRAFDEVNSTLQTKFSQEPEPIDWEYY 67
+A+ SDE R+ F L+R +++ L F EP+ IDWEY+
Sbjct: 90 LARTXTSDEQRQGF--LKR----IDAFLTPXF--EPKGIDWEYF 125
>pdb|3FK3|A Chain A, Structure Of The Yeats Domain, Yaf9
pdb|3FK3|B Chain B, Structure Of The Yeats Domain, Yaf9
pdb|3FK3|C Chain C, Structure Of The Yeats Domain, Yaf9
Length = 164
Score = 26.6 bits (57), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 22/44 (50%)
Query: 48 NSTLQTKFSQEPEPIDWEYYRKGIGSRLVDMYKQAYESIEVPKY 91
++ L T F + P+ D Y+ K + +L D Y SIE P +
Sbjct: 34 HTHLWTIFVRGPQNEDISYFIKKVVFKLHDTYPNPVRSIEAPPF 77
>pdb|3RLS|A Chain A, Crystal Structure Of Yeast Af-9 Homolog Protein Yaf9
pdb|3RLS|B Chain B, Crystal Structure Of Yeast Af-9 Homolog Protein Yaf9
Length = 175
Score = 26.6 bits (57), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 22/44 (50%)
Query: 48 NSTLQTKFSQEPEPIDWEYYRKGIGSRLVDMYKQAYESIEVPKY 91
++ L T F + P+ D Y+ K + +L D Y SIE P +
Sbjct: 31 HTHLWTIFVRGPQNEDISYFIKKVVFKLHDTYPNPVRSIEAPPF 74
>pdb|3BLV|A Chain A, Yeast Isocitrate Dehydrogenase With Citrate Bound In The
Regulatory Subunits
pdb|3BLV|C Chain C, Yeast Isocitrate Dehydrogenase With Citrate Bound In The
Regulatory Subunits
pdb|3BLV|E Chain E, Yeast Isocitrate Dehydrogenase With Citrate Bound In The
Regulatory Subunits
pdb|3BLV|G Chain G, Yeast Isocitrate Dehydrogenase With Citrate Bound In The
Regulatory Subunits
Length = 354
Score = 26.2 bits (56), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 22/42 (52%), Gaps = 4/42 (9%)
Query: 46 EVNSTLQTKFSQEPEPIDWEYYRKGIGSRLVDMYKQAYESIE 87
E+ +++T F E PIDWE I + D + YE++E
Sbjct: 31 EITDSVRTIFEAENIPIDWET----INIKQTDHKEGVYEAVE 68
>pdb|3BLW|A Chain A, Yeast Isocitrate Dehydrogenase With Citrate And Amp
Bound In The Regulatory Subunits
pdb|3BLW|C Chain C, Yeast Isocitrate Dehydrogenase With Citrate And Amp
Bound In The Regulatory Subunits
pdb|3BLW|E Chain E, Yeast Isocitrate Dehydrogenase With Citrate And Amp
Bound In The Regulatory Subunits
pdb|3BLW|G Chain G, Yeast Isocitrate Dehydrogenase With Citrate And Amp
Bound In The Regulatory Subunits
pdb|3BLW|I Chain I, Yeast Isocitrate Dehydrogenase With Citrate And Amp
Bound In The Regulatory Subunits
pdb|3BLW|K Chain K, Yeast Isocitrate Dehydrogenase With Citrate And Amp
Bound In The Regulatory Subunits
pdb|3BLW|M Chain M, Yeast Isocitrate Dehydrogenase With Citrate And Amp
Bound In The Regulatory Subunits
pdb|3BLW|O Chain O, Yeast Isocitrate Dehydrogenase With Citrate And Amp
Bound In The Regulatory Subunits
pdb|3BLX|A Chain A, Yeast Isocitrate Dehydrogenase (Apo Form)
pdb|3BLX|C Chain C, Yeast Isocitrate Dehydrogenase (Apo Form)
pdb|3BLX|E Chain E, Yeast Isocitrate Dehydrogenase (Apo Form)
pdb|3BLX|G Chain G, Yeast Isocitrate Dehydrogenase (Apo Form)
pdb|3BLX|I Chain I, Yeast Isocitrate Dehydrogenase (Apo Form)
pdb|3BLX|K Chain K, Yeast Isocitrate Dehydrogenase (Apo Form)
pdb|3BLX|M Chain M, Yeast Isocitrate Dehydrogenase (Apo Form)
pdb|3BLX|O Chain O, Yeast Isocitrate Dehydrogenase (Apo Form)
Length = 349
Score = 26.2 bits (56), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 22/42 (52%), Gaps = 4/42 (9%)
Query: 46 EVNSTLQTKFSQEPEPIDWEYYRKGIGSRLVDMYKQAYESIE 87
E+ +++T F E PIDWE I + D + YE++E
Sbjct: 31 EITDSVRTIFEAENIPIDWET----INIKQTDHKEGVYEAVE 68
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
0.314 0.132 0.377
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,645,291
Number of Sequences: 62578
Number of extensions: 168331
Number of successful extensions: 488
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 480
Number of HSP's gapped (non-prelim): 21
length of query: 168
length of database: 14,973,337
effective HSP length: 92
effective length of query: 76
effective length of database: 9,216,161
effective search space: 700428236
effective search space used: 700428236
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 48 (23.1 bits)