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= 037628
(166 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3UDF|A Chain A, Crystal Structure Of Apo Pbp1a From Acinetobacter
Baumannii
pdb|3UDF|B Chain B, Crystal Structure Of Apo Pbp1a From Acinetobacter
Baumannii
pdb|3UDI|A Chain A, Crystal Structure Of Acinetobacter Baumannii Pbp1a In
Complex With Penicillin G
pdb|3UDI|B Chain B, Crystal Structure Of Acinetobacter Baumannii Pbp1a In
Complex With Penicillin G
pdb|3UDX|A Chain A, Crystal Structure Of Acinetobacter Baumannii Pbp1a In
Complex With Imipenem
pdb|3UDX|B Chain B, Crystal Structure Of Acinetobacter Baumannii Pbp1a In
Complex With Imipenem
pdb|3UE0|A Chain A, Crystal Structure Of Acinetobacter Baumannii Pbp1a In
Complex With Aztreonam
pdb|3UE0|B Chain B, Crystal Structure Of Acinetobacter Baumannii Pbp1a In
Complex With Aztreonam
pdb|3UE1|A Chain A, Crystal Strucuture Of Acinetobacter Baumanni Pbp1a In
Complex With Mc- 1
pdb|3UE1|B Chain B, Crystal Strucuture Of Acinetobacter Baumanni Pbp1a In
Complex With Mc- 1
Length = 731
Score = 31.6 bits (70), Expect = 0.20, Method: Composition-based stats.
Identities = 30/118 (25%), Positives = 53/118 (44%), Gaps = 21/118 (17%)
Query: 54 DGNDDQLFVNSISTARPSLDADNEGIVPSQKRQELVPIHEVV----------FSTVDKPK 103
DG+ + + +S ARP +A++ G PS+ Q +V + ++V +S V PK
Sbjct: 327 DGSTVTVQWSGMSWARPYRNANSVGAAPSRASQ-IVKVKDIVRLRPNEAKTAWSLVQVPK 385
Query: 104 LLSQLSALLSDIGLNIREAHVFSTTDGYSL--DVF--VVDGWPVEGSVLSPNVADFAM 157
+ QL I +N + + + GY+ F + GW GS + P + A+
Sbjct: 386 VQGQL------IAINPNDGSIEAIVGGYNFYQSKFNRALQGWRQPGSTIKPFLYALAL 437
>pdb|2J5V|A Chain A, Glutamate 5-kinase From Escherichia Coli Complexed With
Glutamyl-5-phosphate And Pyroglutamic Acid
pdb|2J5V|B Chain B, Glutamate 5-kinase From Escherichia Coli Complexed With
Glutamyl-5-phosphate And Pyroglutamic Acid
pdb|2J5T|H Chain H, Glutamate 5-Kinase From Escherichia Coli Complexed With
Glutamate
pdb|2J5T|A Chain A, Glutamate 5-Kinase From Escherichia Coli Complexed With
Glutamate
pdb|2J5T|B Chain B, Glutamate 5-Kinase From Escherichia Coli Complexed With
Glutamate
pdb|2J5T|C Chain C, Glutamate 5-Kinase From Escherichia Coli Complexed With
Glutamate
pdb|2J5T|D Chain D, Glutamate 5-Kinase From Escherichia Coli Complexed With
Glutamate
pdb|2J5T|E Chain E, Glutamate 5-Kinase From Escherichia Coli Complexed With
Glutamate
pdb|2J5T|F Chain F, Glutamate 5-Kinase From Escherichia Coli Complexed With
Glutamate
pdb|2J5T|G Chain G, Glutamate 5-Kinase From Escherichia Coli Complexed With
Glutamate
Length = 367
Score = 28.9 bits (63), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 34/73 (46%), Gaps = 6/73 (8%)
Query: 41 YHIRFIENLCTRTDGNDDQLFVNSISTARPSLDADNEGIVPSQKRQELVPIHEVVFSTVD 100
Y I + L TR D D + F+N+ T R LD + +VP + V E+ D
Sbjct: 94 YGIHVGQMLLTRADMEDRERFLNARDTLRALLDNN---VVPVINENDAVATAEIKVGDND 150
Query: 101 KPKLLSQLSALLS 113
LS L+A+L+
Sbjct: 151 N---LSALAAILA 160
>pdb|2W21|A Chain A, Crystal Structure Of The Aminoacid Kinase Domain Of The
Glutamate 5 Kinase Of Escherichia Coli
Length = 259
Score = 28.9 bits (63), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 34/73 (46%), Gaps = 6/73 (8%)
Query: 41 YHIRFIENLCTRTDGNDDQLFVNSISTARPSLDADNEGIVPSQKRQELVPIHEVVFSTVD 100
Y I + L TR D D + F+N+ T R LD + +VP + V E+ D
Sbjct: 94 YGIHVGQMLLTRADMEDRERFLNARDTLRALLDNN---VVPVINENDAVATAEIKVGDND 150
Query: 101 KPKLLSQLSALLS 113
LS L+A+L+
Sbjct: 151 N---LSALAAILA 160
>pdb|2PMZ|A Chain A, Archaeal Rna Polymerase From Sulfolobus Solfataricus
pdb|2PMZ|Q Chain Q, Archaeal Rna Polymerase From Sulfolobus Solfataricus
pdb|3HKZ|A Chain A, The X-Ray Crystal Structure Of Rna Polymerase From Archaea
pdb|3HKZ|I Chain I, The X-Ray Crystal Structure Of Rna Polymerase From Archaea
Length = 880
Score = 27.7 bits (60), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 18/33 (54%)
Query: 121 EAHVFSTTDGYSLDVFVVDGWPVEGSVLSPNVA 153
E S T + DV+ DG P+EGSV+ P +
Sbjct: 18 EIRKMSVTAIITPDVYDEDGTPIEGSVMDPRLG 50
>pdb|2WAQ|A Chain A, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
pdb|2WB1|A Chain A, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
pdb|2WB1|W Chain W, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
pdb|2Y0S|A Chain A, Crystal Structure Of Sulfolobus Shibatae Rna Polymerase In
P21 Space Group
pdb|2Y0S|W Chain W, Crystal Structure Of Sulfolobus Shibatae Rna Polymerase In
P21 Space Group
pdb|4AYB|A Chain A, Rnap At 3.2ang
pdb|4B1O|A Chain A, Archaeal Rnap-Dna Binary Complex At 4.32ang
pdb|4B1P|W Chain W, Archaeal Rnap-Dna Binary Complex At 4.32ang
Length = 880
Score = 27.7 bits (60), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 18/33 (54%)
Query: 121 EAHVFSTTDGYSLDVFVVDGWPVEGSVLSPNVA 153
E S T + DV+ DG P+EGSV+ P +
Sbjct: 18 EIRKMSVTAIITPDVYDEDGTPIEGSVMDPRLG 50
>pdb|3DDN|A Chain A, Crystal Structure Of Hydroxypyruvic Acid Phosphate Bound
D-3- Phosphoglycerate Dehydrogenase In Mycobacterium
Tuberculosis
pdb|3DDN|B Chain B, Crystal Structure Of Hydroxypyruvic Acid Phosphate Bound
D-3- Phosphoglycerate Dehydrogenase In Mycobacterium
Tuberculosis
Length = 528
Score = 26.9 bits (58), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 18/32 (56%)
Query: 99 VDKPKLLSQLSALLSDIGLNIREAHVFSTTDG 130
VD+P L ++ LL G+NI+ A + +G
Sbjct: 461 VDRPGALGKIGTLLGTAGVNIQAAQLSEDAEG 492
>pdb|1YGY|A Chain A, Crystal Structure Of D-3-Phosphoglycerate Dehydrogenase
From Mycobacterium Tuberculosis
pdb|1YGY|B Chain B, Crystal Structure Of D-3-Phosphoglycerate Dehydrogenase
From Mycobacterium Tuberculosis
pdb|3DC2|A Chain A, Crystal Structure Of Serine Bound D-3-Phosphoglycerate
Dehydrogenase From Mycobacterium Tuberculosis
pdb|3DC2|B Chain B, Crystal Structure Of Serine Bound D-3-Phosphoglycerate
Dehydrogenase From Mycobacterium Tuberculosis
Length = 529
Score = 26.9 bits (58), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 18/32 (56%)
Query: 99 VDKPKLLSQLSALLSDIGLNIREAHVFSTTDG 130
VD+P L ++ LL G+NI+ A + +G
Sbjct: 462 VDRPGALGKIGTLLGTAGVNIQAAQLSEDAEG 493
>pdb|3F6T|A Chain A, Crystal Structure Of Aspartate Aminotransferase (E.C.
2.6.1.1) (Yp_194538.1) From Lactobacillus Acidophilus
Ncfm At 2.15 A Resolution
pdb|3F6T|B Chain B, Crystal Structure Of Aspartate Aminotransferase (E.C.
2.6.1.1) (Yp_194538.1) From Lactobacillus Acidophilus
Ncfm At 2.15 A Resolution
Length = 533
Score = 26.6 bits (57), Expect = 7.4, Method: Composition-based stats.
Identities = 13/36 (36%), Positives = 22/36 (61%), Gaps = 5/36 (13%)
Query: 15 NMDRVEDVLLHQKLLAVAKDPEKRPAYHIRFIENLC 50
++D+VE LH++ +V DP+K +FI+ LC
Sbjct: 339 HLDKVELRQLHKRYSSVVLDPDKX-----KFIDRLC 369
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
0.322 0.138 0.420
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,122,187
Number of Sequences: 62578
Number of extensions: 194972
Number of successful extensions: 384
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 380
Number of HSP's gapped (non-prelim): 8
length of query: 166
length of database: 14,973,337
effective HSP length: 92
effective length of query: 74
effective length of database: 9,216,161
effective search space: 681995914
effective search space used: 681995914
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 47 (22.7 bits)