BLASTP 2.2.1 [Apr-13-2001]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
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.
Query= gi|15645661|ref|NP_207838.1| ribosome-binding factor A
(rbfA) [Helicobacter pylori 26695]
(111 letters)
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
13,198 sequences; 2,899,336 total letters
Searching...........................done
Score E
Sequences producing significant alignments: (bits) Value
pdb|1EKM|A Chain A, Crystal Structure At 2.5 A Resolution O... 27 0.42
pdb|1DHN| 1.65 Angstrom Resolution Structure Of 7,8-Dihyd... 25 1.2
pdb|1A2V|A Chain A, Copper Amine Oxidase From Hansenula Pol... 25 1.2
pdb|1NFD|A Chain A, An Alpha-Beta T Cell Receptor (Tcr) Het... 25 1.6
pdb|1K3W|A Chain A, Crystal Structure Of A Trapped Reaction... 24 2.7
pdb|1ESJ|A Chain A, Crystal Structure Of Thiazole Kinase Mu... 23 4.7
pdb|1EKK|A Chain A, Crystal Structure Of Hydroxyethylthiazo... 23 6.1
pdb|1CQ3|A Chain A, Structure Of A Soluble Secreted Chemoki... 22 8.0
>pdb|1EKM|A Chain A, Crystal Structure At 2.5 A Resolution Of Zinc-Substituted
Copper Amine Oxidase Of Hansenula Polymorpha Expressed
In Escherichia Coli
pdb|1EKM|B Chain B, Crystal Structure At 2.5 A Resolution Of Zinc-Substituted
Copper Amine Oxidase Of Hansenula Polymorpha Expressed
In Escherichia Coli
pdb|1EKM|C Chain C, Crystal Structure At 2.5 A Resolution Of Zinc-Substituted
Copper Amine Oxidase Of Hansenula Polymorpha Expressed
In Escherichia Coli
Length = 656
Score = 26.6 bits (57), Expect = 0.42
Identities = 20/93 (21%), Positives = 38/93 (40%), Gaps = 2/93 (2%)
Query: 21 ASLNDSELNSLSVTKVECSKGKHHAYVFVLSS--DHKILSKLKKAEGLIRQFVLQASGWF 78
A +D + ++V C + +F S D+ S + +A L+ + A+ +
Sbjct: 331 AHFSDRAGDPITVKNAVCIHEEDDGLLFKHSDFRDNFATSLVTRATKLVVSQIFTAANYE 390
Query: 79 KCPKLSFVSDNSLEKQLRLDAIFNEIAKGKDND 111
C F+ D ++ +RL I N G D +
Sbjct: 391 YCLYWVFMQDGAIRLDIRLTGILNTYILGDDEE 423
>pdb|1DHN| 1.65 Angstrom Resolution Structure Of 7,8-Dihydroneopterin
Aldolase From Staphylococcus Aureus
pdb|2DHN| Complex Of 7,8-Dihydroneopterin Aldolase From Staphylococcus
Aureus With 6-Hydroxymethyl-7,8-Dihydropterin At 2.2 A
Resolution
Length = 121
Score = 25.0 bits (53), Expect = 1.2
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 11 NLLELLQEALASLNDSELNSLSVTKVECSK 40
NLLE L E +A+ +S+ N + TKV +K
Sbjct: 71 NLLEHLAERIANRINSQYNRVMETKVRITK 100
>pdb|1A2V|A Chain A, Copper Amine Oxidase From Hansenula Polymorpha
pdb|1A2V|B Chain B, Copper Amine Oxidase From Hansenula Polymorpha
pdb|1A2V|C Chain C, Copper Amine Oxidase From Hansenula Polymorpha
pdb|1A2V|D Chain D, Copper Amine Oxidase From Hansenula Polymorpha
pdb|1A2V|E Chain E, Copper Amine Oxidase From Hansenula Polymorpha
pdb|1A2V|F Chain F, Copper Amine Oxidase From Hansenula Polymorpha
Length = 655
Score = 25.0 bits (53), Expect = 1.2
Identities = 20/93 (21%), Positives = 37/93 (39%), Gaps = 2/93 (2%)
Query: 21 ASLNDSELNSLSVTKVECSKGKHHAYVFVLSS--DHKILSKLKKAEGLIRQFVLQASGWF 78
A +D + ++V C + +F S D+ S + +A L+ + A+
Sbjct: 330 AHFSDRAGDPITVKNAVCIHEEDDGLLFKHSDFRDNFATSLVTRATKLVVSQIFTAANXE 389
Query: 79 KCPKLSFVSDNSLEKQLRLDAIFNEIAKGKDND 111
C F+ D ++ +RL I N G D +
Sbjct: 390 YCLYWVFMQDGAIRLDIRLTGILNTYILGDDEE 422
>pdb|1NFD|A Chain A, An Alpha-Beta T Cell Receptor (Tcr) Heterodimer In Complex
With An Anti-Tcr Fab Fragment Derived From A Mitogenic
Antibody
pdb|1NFD|C Chain C, An Alpha-Beta T Cell Receptor (Tcr) Heterodimer In Complex
With An Anti-Tcr Fab Fragment Derived From A Mitogenic
Antibody
Length = 203
Score = 24.6 bits (52), Expect = 1.6
Identities = 15/54 (27%), Positives = 30/54 (54%), Gaps = 5/54 (9%)
Query: 16 LQEALASLNDSELNSLSVTKVECSKGKHHAYVFVLSSDHKILSKLKKAEGLIRQ 69
LQ++ A L+DS L ++ S+G ++ YVF + K+++ ++ E + Q
Sbjct: 75 LQKSSAQLSDSALYYCAL-----SEGGNYKYVFGAGTRLKVIAHIQNPEPAVYQ 123
>pdb|1K3W|A Chain A, Crystal Structure Of A Trapped Reaction Intermediate Of
The Dna Repair Enzyme Endonuclease Viii With Dna
pdb|1K3X|A Chain A, Crystal Structure Of A Trapped Reaction Intermediate Of
The Dna Repair Enzyme Endonuclease Viii With
Brominated-Dna
Length = 262
Score = 23.9 bits (50), Expect = 2.7
Identities = 10/48 (20%), Positives = 22/48 (45%)
Query: 34 TKVECSKGKHHAYVFVLSSDHKILSKLKKAEGLIRQFVLQASGWFKCP 81
T+ + + KHH +F H+ ++ +I + L + ++ CP
Sbjct: 211 TRGQVDENKHHGALFRFKVFHRDGEPCERCGSIIEKTTLSSRPFYWCP 258
>pdb|1ESJ|A Chain A, Crystal Structure Of Thiazole Kinase Mutant (C198s)
pdb|1ESJ|B Chain B, Crystal Structure Of Thiazole Kinase Mutant (C198s)
pdb|1ESJ|C Chain C, Crystal Structure Of Thiazole Kinase Mutant (C198s)
pdb|1ESQ|C Chain C, Crystal Structure Of Thiazole Kinase Mutant (C198s) With
Atp And Thiazole Phosphate.
pdb|1ESQ|A Chain A, Crystal Structure Of Thiazole Kinase Mutant (C198s) With
Atp And Thiazole Phosphate.
pdb|1ESQ|B Chain B, Crystal Structure Of Thiazole Kinase Mutant (C198s) With
Atp And Thiazole Phosphate
Length = 284
Score = 23.1 bits (48), Expect = 4.7
Identities = 14/52 (26%), Positives = 25/52 (47%)
Query: 20 LASLNDSELNSLSVTKVECSKGKHHAYVFVLSSDHKILSKLKKAEGLIRQFV 71
LA +LN++ E ++V+ L + HK+L+K+ A L+ V
Sbjct: 165 LAQQAAQKLNTVIAITGEVDVIADTSHVYTLHNGHKLLTKVTGAGSLLTSVV 216
>pdb|1EKK|A Chain A, Crystal Structure Of Hydroxyethylthiazole Kinase In The R3
Form With Hydroxyethylthiazole
pdb|1EKK|B Chain B, Crystal Structure Of Hydroxyethylthiazole Kinase In The R3
Form With Hydroxyethylthiazole
pdb|1EKQ|B Chain B, Crystal Structure Of Hydroxyethylthiazole Kinase In R3
Space Group
pdb|1EKQ|A Chain A, Crystal Structure Of Hydroxyethylthiazole Kinase In R3
Space Group
Length = 272
Score = 22.7 bits (47), Expect = 6.1
Identities = 14/52 (26%), Positives = 25/52 (47%)
Query: 20 LASLNDSELNSLSVTKVECSKGKHHAYVFVLSSDHKILSKLKKAEGLIRQFV 71
LA +LN++ E ++V+ L + HK+L+K+ A L+ V
Sbjct: 153 LAQQAAQKLNTVIAITGEVDVIADTSHVYTLHNGHKLLTKVTGAGXLLTSVV 204
>pdb|1CQ3|A Chain A, Structure Of A Soluble Secreted Chemokine Inhibitor,
Vcci, From Cowpox Virus
pdb|1CQ3|B Chain B, Structure Of A Soluble Secreted Chemokine Inhibitor,
Vcci, From Cowpox Virus
Length = 233
Score = 22.3 bits (46), Expect = 8.0
Identities = 8/15 (53%), Positives = 12/15 (79%)
Query: 76 GWFKCPKLSFVSDNS 90
G+ KCPK+S +S+ S
Sbjct: 84 GFTKCPKISSISEYS 98
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
Posted date: Dec 20, 2002 11:08 AM
Number of letters in database: 2,899,336
Number of sequences in database: 13,198
Lambda K H
0.315 0.131 0.357
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 530,640
Number of Sequences: 13198
Number of extensions: 15922
Number of successful extensions: 32
Number of sequences better than 10.0: 8
Number of HSP's better than 10.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 25
Number of HSP's gapped (non-prelim): 8
length of query: 111
length of database: 2,899,336
effective HSP length: 87
effective length of query: 24
effective length of database: 1,751,110
effective search space: 42026640
effective search space used: 42026640
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 46 (22.3 bits)