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= 037924
(158 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 30.8 bits (68), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 32/130 (24%), Positives = 49/130 (37%), Gaps = 14/130 (10%)
Query: 29 GRVYCDTCRCGFETS------------ATTYIQGARVRIECKDRNSLNLKYSVDGDTDST 76
G+ D+ R FE T + +G +E RN + LK D T
Sbjct: 29 GKEITDSVRTIFEAENIPIDWETINIKQTDHKEGVYEAVESLKRNKIGLKGLWHTPADQT 88
Query: 77 GTYNIHVDGDHQDQICYVKLISSSLADCKTAYPGCALILTRSN--GVVSNLHFANALGFL 134
G +++V Q I + SL KT P LI+ R N G S L + G +
Sbjct: 89 GHGSLNVALRKQLDIYANVALFKSLKGVKTRIPDIDLIVIRENTEGEFSGLEHESVPGVV 148
Query: 135 KNRPLAFYPE 144
++ + P+
Sbjct: 149 ESLKVXTRPK 158
>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 = 30.8 bits (68), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 32/130 (24%), Positives = 49/130 (37%), Gaps = 14/130 (10%)
Query: 29 GRVYCDTCRCGFETS------------ATTYIQGARVRIECKDRNSLNLKYSVDGDTDST 76
G+ D+ R FE T + +G +E RN + LK D T
Sbjct: 29 GKEITDSVRTIFEAENIPIDWETINIKQTDHKEGVYEAVESLKRNKIGLKGLWHTPADQT 88
Query: 77 GTYNIHVDGDHQDQICYVKLISSSLADCKTAYPGCALILTRSN--GVVSNLHFANALGFL 134
G +++V Q I + SL KT P LI+ R N G S L + G +
Sbjct: 89 GHGSLNVALRKQLDIYANVALFKSLKGVKTRIPDIDLIVIRENTEGEFSGLEHESVPGVV 148
Query: 135 KNRPLAFYPE 144
++ + P+
Sbjct: 149 ESLKVMTRPK 158
>pdb|2FQL|A Chain A, Crystal Structure Of Trimeric Frataxin From The Yeast
Saccharomyces Cerevisiae
pdb|3OEQ|A Chain A, Crystal Structure Of Trimeric Frataxin From The Yeast
Saccharomyces Cerevisiae, With Full Length N-Terminus
pdb|3OER|A Chain A, Crystal Structure Of Trimeric Frataxin From The Yeast
Saccharomyces Cerevisiae, Complexed With Cobalt
pdb|4EC2|A Chain A, Crystal Structure Of Trimeric Frataxin From The Yeast
Saccharomyces Cerevisiae, Complexed With Ferrous
Length = 123
Score = 27.7 bits (60), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 14/59 (23%), Positives = 29/59 (49%)
Query: 65 LKYSVDGDTDSTGTYNIHVDGDHQDQICYVKLISSSLADCKTAYPGCALILTRSNGVVS 123
++ S DG N+ ++ H++ Y+ + SL + A+P C + S+GV++
Sbjct: 1 VESSTDGQVVPQEVLNLPLEKAHEEADDYLDHLLDSLEELSEAHPDCIPDVELSHGVMT 59
>pdb|1IUB|A Chain A, Fucose-Specific Lectin From Aleuria Aurantia
(Hg-Derivative Form)
pdb|1IUC|A Chain A, Fucose-Specific Lectin From Aleuria Aurantia With Three
Ligands
Length = 312
Score = 27.3 bits (59), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 18/81 (22%), Positives = 38/81 (46%), Gaps = 10/81 (12%)
Query: 49 QGARVRIECKDRNSLNLKYSVDGD---TDSTGTYNIHVDGDHQDQICYVKLISSSLADCK 105
QG ++R+ C +++++ ++ DG T G+ + V + KL + +
Sbjct: 72 QGIQIRVYCVNKDNILSEFVYDGSKWITGQLGSVGVKVGSNS-------KLAALQWGGSE 124
Query: 106 TAYPGCALILTRSNGVVSNLH 126
+A P + +SNG S++H
Sbjct: 125 SAPPNIRVYYQKSNGSGSSIH 145
>pdb|2GA5|A Chain A, Yeast Frataxin
Length = 123
Score = 27.3 bits (59), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 14/59 (23%), Positives = 29/59 (49%)
Query: 65 LKYSVDGDTDSTGTYNIHVDGDHQDQICYVKLISSSLADCKTAYPGCALILTRSNGVVS 123
++ S DG N+ ++ H++ Y+ + SL + A+P C + S+GV++
Sbjct: 1 MESSTDGQVVPQEVLNLPLEKYHEEADDYLDHLLDSLEELSEAHPDCIPDVELSHGVMT 59
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
0.323 0.139 0.430
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,237,213
Number of Sequences: 62578
Number of extensions: 158992
Number of successful extensions: 659
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 654
Number of HSP's gapped (non-prelim): 7
length of query: 158
length of database: 14,973,337
effective HSP length: 91
effective length of query: 67
effective length of database: 9,278,739
effective search space: 621675513
effective search space used: 621675513
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 47 (22.7 bits)