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= 012566
(460 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1OXW|A Chain A, The Crystal Structure Of Semet Patatin
pdb|1OXW|B Chain B, The Crystal Structure Of Semet Patatin
pdb|1OXW|C Chain C, The Crystal Structure Of Semet Patatin
Length = 373
Score = 66.6 bits (161), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 69/328 (21%), Positives = 129/328 (39%), Gaps = 35/328 (10%)
Query: 91 LAYLEHALKSKSGNPNARIADYFDXXXXXXXXXXXXXMIFATKGQDRPIFKADDTWRFLA 150
L +LE L+ N +AR+ADYFD I +RP A + F
Sbjct: 35 LEFLEGQLQEXDNNADARLADYFDVIGGTSTGGLLTAXISTPNENNRPFAAAKEIVPFYF 94
Query: 151 DQGKRFYRPLSASSSGSFLKRIFKXXXXXXXXXXXXXXLEKAVKEMFTEKGRSLTLRDTL 210
+ G + + P SG L + K + ++ EK + L
Sbjct: 95 EHGPQIFNP-----SGQILGPKYDG---------------KYLXQVLQEKLGETRVHQAL 134
Query: 211 KPVLIPCYDLSSAAPFLFSRADALETESFDFRLWEVCRATSSEPGLFDP---VLMRSVDG 267
V+I +D+ + P +F++++ + D + +++ +T++ P F P V S
Sbjct: 135 TEVVISSFDIKTNKPVIFTKSNLANSPELDAKXYDISYSTAAAPTYFPPHYFVTNTSNGD 194
Query: 268 QTRCVAVDGGLA-MSNPTAAAI---THVLHNKQEFPFVRGVEDXXXXXXX----XXXXXE 319
+ VDG +A +++P +I T + F +R + +
Sbjct: 195 EYEFNLVDGAVATVADPALLSISVATRLAQKDPAFASIRSLNYKKXLLLSLGTGTTSEFD 254
Query: 320 ASYDYDQVKNWRVKDWARPMARISGDGSAELVDQAVALAFGQSKS-SNYVRIQATGSSLG 378
+Y + W W + + + S+ D ++ AF S +NY+R+Q ++L
Sbjct: 255 KTYTAKEAATWTAVHWXLVIQKXTDAASSYXTDYYLSTAFQALDSKNNYLRVQE--NALT 312
Query: 379 RCGHNVDVDPSPSNVKMLIGAAEEMLKQ 406
D D S +N ++L+ E +LK+
Sbjct: 313 GTTTEXD-DASEANXELLVQVGENLLKK 339
>pdb|2Z04|A Chain A, Crystal Structure Of Phosphoribosylaminoimidazole
Carboxylase Atpase Subunit From Aquifex Aeolicus
pdb|2Z04|B Chain B, Crystal Structure Of Phosphoribosylaminoimidazole
Carboxylase Atpase Subunit From Aquifex Aeolicus
Length = 365
Score = 30.4 bits (67), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 74 LSIDGGG--GMRGILSGKALAYLEHALKSKSGNPNARIAD 111
+ I GGG G IL G+ L + H L+ K P R+AD
Sbjct: 4 VGILGGGQLGWXTILEGRKLGFKFHVLEDKENAPACRVAD 43
>pdb|4DLK|A Chain A, Crystal Structure Of Atp-ca++ Complex Of Purk: N5-
Carboxyaminoimidazole Ribonucleotide Synthetase
pdb|4DLK|B Chain B, Crystal Structure Of Atp-ca++ Complex Of Purk: N5-
Carboxyaminoimidazole Ribonucleotide Synthetase
Length = 380
Score = 29.6 bits (65), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 29/66 (43%), Gaps = 5/66 (7%)
Query: 232 DALETESFDFRLWEVCRATSSEPGLFDPVLMRSVDGQTRCVAVDGGLAMSNPTAAAITHV 291
DA ET F + +C E L PV+M ++ G+ ++G L N H
Sbjct: 282 DACETSQFGQHIRAICNLPLGETNLLKPVVMVNILGEH----IEGVLRQVNRLTGCYLH- 336
Query: 292 LHNKQE 297
L+ K+E
Sbjct: 337 LYGKEE 342
>pdb|3Q2O|A Chain A, Crystal Structure Of Purk: N5-Carboxyaminoimidazole
Ribonucleotide Synthetase
pdb|3Q2O|B Chain B, Crystal Structure Of Purk: N5-Carboxyaminoimidazole
Ribonucleotide Synthetase
pdb|3QFF|A Chain A, Crystal Structure Of Adp Complex Of Purk:
N5-Carboxyaminoimidazole Ribonucleotide Synthetase
pdb|3QFF|B Chain B, Crystal Structure Of Adp Complex Of Purk:
N5-Carboxyaminoimidazole Ribonucleotide Synthetase
pdb|3R5H|A Chain A, Crystal Structure Of Adp-Air Complex Of Purk:
N5-Carboxyaminoimidazole Ribonucleotide Synthetase
pdb|3R5H|B Chain B, Crystal Structure Of Adp-Air Complex Of Purk:
N5-Carboxyaminoimidazole Ribonucleotide Synthetase
Length = 389
Score = 29.6 bits (65), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 29/66 (43%), Gaps = 5/66 (7%)
Query: 232 DALETESFDFRLWEVCRATSSEPGLFDPVLMRSVDGQTRCVAVDGGLAMSNPTAAAITHV 291
DA ET F + +C E L PV+M ++ G+ ++G L N H
Sbjct: 288 DACETSQFGQHIRAICNLPLGETNLLKPVVMVNILGEH----IEGVLRQVNRLTGCYLH- 342
Query: 292 LHNKQE 297
L+ K+E
Sbjct: 343 LYGKEE 348
>pdb|3V4S|A Chain A, Crystal Structure Of Adp-atp Complex Of Purk:
N5-carboxyaminoimidazole Ribonucleotide Synthetase
pdb|3V4S|B Chain B, Crystal Structure Of Adp-atp Complex Of Purk:
N5-carboxyaminoimidazole Ribonucleotide Synthetase
Length = 387
Score = 29.6 bits (65), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 29/66 (43%), Gaps = 5/66 (7%)
Query: 232 DALETESFDFRLWEVCRATSSEPGLFDPVLMRSVDGQTRCVAVDGGLAMSNPTAAAITHV 291
DA ET F + +C E L PV+M ++ G+ ++G L N H
Sbjct: 288 DACETSQFGQHIRAICNLPLGETNLLKPVVMVNILGEH----IEGVLRQVNRLTGCYLH- 342
Query: 292 LHNKQE 297
L+ K+E
Sbjct: 343 LYGKEE 348
>pdb|1KSA|A Chain A, Crystal Structure Of The Bacteriochlorophyll A Protein
From Chlorobium Tepidum
pdb|1KSA|B Chain B, Crystal Structure Of The Bacteriochlorophyll A Protein
From Chlorobium Tepidum
pdb|3BSD|A Chain A, Light Harvesting Protein From Rc Of Chlorobium Tepidum
Length = 366
Score = 28.5 bits (62), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 21/39 (53%)
Query: 69 GKICILSIDGGGGMRGILSGKALAYLEHALKSKSGNPNA 107
G+ +S+D GGG+R IL+ + + H + K N N
Sbjct: 271 GEFPGVSVDAGGGLRRILNHPLIPLVHHGMVGKFNNFNV 309
>pdb|3ENI|A Chain A, Crystal Structure Of The Fenna-Matthews-Olson Protein From
Chlorobaculum Tepidum
pdb|3ENI|C Chain C, Crystal Structure Of The Fenna-Matthews-Olson Protein From
Chlorobaculum Tepidum
Length = 365
Score = 28.5 bits (62), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 21/39 (53%)
Query: 69 GKICILSIDGGGGMRGILSGKALAYLEHALKSKSGNPNA 107
G+ +S+D GGG+R IL+ + + H + K N N
Sbjct: 270 GEFPGVSVDAGGGLRRILNHPLIPLVHHGMVGKFNNFNV 308
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
0.318 0.133 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,100,432
Number of Sequences: 62578
Number of extensions: 444645
Number of successful extensions: 826
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 821
Number of HSP's gapped (non-prelim): 7
length of query: 460
length of database: 14,973,337
effective HSP length: 102
effective length of query: 358
effective length of database: 8,590,381
effective search space: 3075356398
effective search space used: 3075356398
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)