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|15645928|ref|NP_208107.1| ribosomal protein S19
(rps19) [Helicobacter pylori 26695]
(93 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|1IBM|S Chain S, Structure Of The Thermus Thermophilus 3... 117 3e-28
pdb|1J5E|S Chain S, Structure Of The Thermus Thermophilus 3... 115 8e-28
pdb|1SCU|A Chain A, Succinyl-Coa Synthetase (Succinate-Coa ... 24 2.4
pdb|1CQJ|A Chain A, Crystal Structure Of Dephosphorylated E... 24 2.4
pdb|1I9W|A Chain A, Crystal Structure Of The Fusion Glycopr... 24 2.4
pdb|1JI1|A Chain A, Crystal Structure Analysis Of Thermoact... 24 3.1
pdb|1B4U|B Chain B, Protocatechuate 4,5-Dioxygenase (Ligab)... 24 3.1
pdb|1ACC| Anthrax Protective Antigen 23 5.3
pdb|1D4D|A Chain A, Crystal Structure Of The Succinate Comp... 23 5.3
pdb|1D4C|A Chain A, Crystal Structure Of The Uncomplexed Fo... 23 5.3
pdb|2PBG| 6-Phospho-Beta-D-Galactosidase Form-B 23 6.9
pdb|3PBG|A Chain A, 6-Phospho-Beta-Galactosidase Form-C >gi... 23 6.9
pdb|1F5A|A Chain A, Crystal Structure Of Mammalian Poly(A) ... 23 6.9
pdb|1A36|A Chain A, Human Dna Topoisomerase I (70 Kda) In N... 23 6.9
pdb|1A31|A Chain A, Human Reconstituted Dna Topoisomerase I... 23 6.9
pdb|1KEA|A Chain A, Structure Of A Thermostable Thymine-Dna... 23 6.9
pdb|1A35|A Chain A, Human Reconstituted Dna Topoisomerase I... 23 6.9
pdb|1H6Z|A Chain A, 3.0 A Resolution Crystal Structure Of G... 22 9.1
>pdb|1IBM|S Chain S, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With A Messenger Rna Fragment And
Cognate Transfer Rna Anticodon Stem-Loop Bound At The A
Site
pdb|1FJG|S Chain S, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With The Antibiotics Streptomycin,
Spectinomycin And Paromomycin
pdb|1IBL|S Chain S, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With A Messenger Rna Fragment And
Cognate Transfer Rna Anticodon Stem-Loop Bound At The A
Site And With The Antibiotic Paromomycin
pdb|1HR0|S Chain S, Crystal Structure Of Initiation Factor If1 Bound To The
30s Ribosomal Subunit
pdb|1HNZ|S Chain S, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Hygromycin B
pdb|1HNW|S Chain S, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Tetracycline
pdb|1HNX|S Chain S, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Pactamycin
pdb|1IBK|S Chain S, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With The Antibiotic Paromomycin
pdb|1FKA|S Chain S, Structure Of Functionally Activated Small Ribosomal
Subunit At 3.3 A Resolution
pdb|1JGQ|V Chain V, The Path Of Messenger Rna Through The Ribosome. This
File, 1jgq, Contains The 30s Ribosome Subunit, Three
Trna, And Mrna Molecules. 50s Ribosome Subunit Is In
The File 1giy
pdb|1GIX|V Chain V, Crystal Structure Of The Ribosome At 5.5 A Resolution.
This File, 1gix, Contains The 30s Ribosome Subunit,
Three Trna, And Mrna Molecules. 50s Ribosome Subunit Is
In The File 1giy
pdb|1JGO|V Chain V, The Path Of Messenger Rna Through The Ribosome. This
File, 1jgo, Contains The 30s Ribosome Subunit, Three
Trna, And Mrna Molecules. 50s Ribosome Subunit Is In
The File 1giy
pdb|1JGP|V Chain V, The Path Of Messenger Rna Through The Ribosome. This
File, 1jgp, Contains The 30s Ribosome Subunit, Three
Trna, And Mrna Molecules. 50s Ribosome Subunit Is In
The File 1giy
Length = 93
Score = 117 bits (292), Expect = 3e-28
Identities = 53/83 (63%), Positives = 67/83 (79%)
Query: 1 MSRSIKKGPFIDDHLMKKTLKAKEGKDNRPIKTWSRRSTILPEMIGFTYNVHNGRVFIPV 60
M RS+KKG F+DDHL++K L+ + R IKTWSRRSTI+PEM+G T V+NG+ +PV
Sbjct: 1 MPRSLKKGVFVDDHLLEKVLELNAKGEKRLIKTWSRRSTIVPEMVGHTIAVYNGKQHVPV 60
Query: 61 YITENHVGYKLGEFAPTRTFKGH 83
YITEN VG+KLGEFAPTRT++GH
Sbjct: 61 YITENMVGHKLGEFAPTRTYRGH 83
>pdb|1J5E|S Chain S, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit
pdb|1QKF|A Chain A, Solution Structure Of The Ribosomal Protein S19 From
Thermus Thermophilus
pdb|1QKH|A Chain A, Solution Structure Of The Ribosomal Protein S19 From
Thermus Thermophilus
pdb|1I94|S Chain S, Crystal Structures Of The Small Ribosomal Subunit With
Tetracycline, Edeine And If3
pdb|1I96|S Chain S, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With The Translation
Initiation Factor If3 (C-Terminal Domain)
pdb|1I97|S Chain S, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With Tetracycline
pdb|1I95|S Chain S, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With Edeine
Length = 92
Score = 115 bits (288), Expect = 8e-28
Identities = 52/81 (64%), Positives = 66/81 (81%)
Query: 3 RSIKKGPFIDDHLMKKTLKAKEGKDNRPIKTWSRRSTILPEMIGFTYNVHNGRVFIPVYI 62
RS+KKG F+DDHL++K L+ + R IKTWSRRSTI+PEM+G T V+NG+ +PVYI
Sbjct: 2 RSLKKGVFVDDHLLEKVLELNAKGEKRLIKTWSRRSTIVPEMVGHTIAVYNGKQHVPVYI 61
Query: 63 TENHVGYKLGEFAPTRTFKGH 83
TEN VG+KLGEFAPTRT++GH
Sbjct: 62 TENMVGHKLGEFAPTRTYRGH 82
>pdb|1SCU|A Chain A, Succinyl-Coa Synthetase (Succinate-Coa Ligase)
(Adp-Forming) (E.C.6.2.1.5)
pdb|1SCU|D Chain D, Succinyl-Coa Synthetase (Succinate-Coa Ligase)
(Adp-Forming) (E.C.6.2.1.5)
pdb|1JKJ|A Chain A, E. Coli Scs
pdb|1JKJ|D Chain D, E. Coli Scs
pdb|1JLL|A Chain A, Crystal Structure Analysis Of The E197betaa Mutant Of E.
Coli Scs
pdb|1JLL|D Chain D, Crystal Structure Analysis Of The E197betaa Mutant Of E.
Coli Scs
Length = 288
Score = 24.3 bits (51), Expect = 2.4
Identities = 11/31 (35%), Positives = 17/31 (54%)
Query: 57 FIPVYITENHVGYKLGEFAPTRTFKGHKGSV 87
+I ++T+ VGY G AP GH G++
Sbjct: 220 YIKEHVTKPVVGYIAGVTAPKGKRMGHAGAI 250
>pdb|1CQJ|A Chain A, Crystal Structure Of Dephosphorylated E. Coli Succinyl-Coa
Synthetase
pdb|1CQJ|D Chain D, Crystal Structure Of Dephosphorylated E. Coli Succinyl-Coa
Synthetase
pdb|1CQI|A Chain A, Crystal Structure Of The Complex Of Adp And Mg2+ With
Dephosphorylated E. Coli Succinyl-Coa Synthetase
pdb|1CQI|D Chain D, Crystal Structure Of The Complex Of Adp And Mg2+ With
Dephosphorylated E. Coli Succinyl-Coa Synthetase
Length = 286
Score = 24.3 bits (51), Expect = 2.4
Identities = 11/31 (35%), Positives = 17/31 (54%)
Query: 57 FIPVYITENHVGYKLGEFAPTRTFKGHKGSV 87
+I ++T+ VGY G AP GH G++
Sbjct: 220 YIKEHVTKPVVGYIAGVTAPKGKRMGHAGAI 250
>pdb|1I9W|A Chain A, Crystal Structure Of The Fusion Glycoprotein E1 From
Semliki Forest Virus
Length = 390
Score = 24.3 bits (51), Expect = 2.4
Identities = 7/15 (46%), Positives = 11/15 (72%)
Query: 38 STILPEMIGFTYNVH 52
ST++P ++GF Y H
Sbjct: 4 STVMPNVVGFPYKAH 18
>pdb|1JI1|A Chain A, Crystal Structure Analysis Of Thermoactinomyces Vulgaris
R- 47 Alpha-Amylase 1
pdb|1JI1|B Chain B, Crystal Structure Analysis Of Thermoactinomyces Vulgaris
R- 47 Alpha-Amylase 1
Length = 637
Score = 23.9 bits (50), Expect = 3.1
Identities = 12/36 (33%), Positives = 19/36 (52%), Gaps = 3/36 (8%)
Query: 38 STILPEMIGFTYNVHNGRVFIPVYITENHVGYKLGE 73
ST+ ++ G +Y V NG V + V + H G L +
Sbjct: 605 STVTDKITGHSYTVQNGMVTVAV---DGHYGAVLAQ 637
>pdb|1B4U|B Chain B, Protocatechuate 4,5-Dioxygenase (Ligab) In Complex With
Protocatechuate (Pca)
pdb|1B4U|D Chain D, Protocatechuate 4,5-Dioxygenase (Ligab) In Complex With
Protocatechuate (Pca)
pdb|1BOU|B Chain B, Three-Dimensional Structure Of Ligab
pdb|1BOU|D Chain D, Three-Dimensional Structure Of Ligab
Length = 302
Score = 23.9 bits (50), Expect = 3.1
Identities = 8/27 (29%), Positives = 16/27 (58%)
Query: 26 KDNRPIKTWSRRSTILPEMIGFTYNVH 52
K +PI+ W ++ +P+++ YN H
Sbjct: 35 KGYQPIRDWIKQPGNMPDVVILVYNDH 61
>pdb|1ACC| Anthrax Protective Antigen
Length = 735
Score = 23.1 bits (48), Expect = 5.3
Identities = 18/70 (25%), Positives = 30/70 (42%), Gaps = 9/70 (12%)
Query: 6 KKGPFIDDHLMKKTLKAKEGKDNRPIKTWS------RRSTILPEMI---GFTYNVHNGRV 56
KK D+L LK K + T + R + +P+ + G+T +V N R
Sbjct: 142 KKEVISSDNLQLPELKQKSSNSRKKRSTSAGPTVPDRDNDGIPDSLEVEGYTVDVKNKRT 201
Query: 57 FIPVYITENH 66
F+ +I+ H
Sbjct: 202 FLSPWISNIH 211
>pdb|1D4D|A Chain A, Crystal Structure Of The Succinate Complexed Form Of The
Flavocytochrome C Fumarate Reductase Of Shewanella
Putrefaciens Strain Mr-1
pdb|1D4E|A Chain A, Crystal Structure Of The Flavocytochrome C Fumarate
Reductase Of Shewanella Putrefaciens Strain Mr-1
Complexed With Fumarate
Length = 572
Score = 23.1 bits (48), Expect = 5.3
Identities = 10/22 (45%), Positives = 13/22 (58%)
Query: 66 HVGYKLGEFAPTRTFKGHKGSV 87
H + +GE A T KGH+ SV
Sbjct: 61 HKSHLIGEIACTSCHKGHEKSV 82
>pdb|1D4C|A Chain A, Crystal Structure Of The Uncomplexed Form Of The
Flavocytochrome C Fumarate Reductase Of Shewanella
Putrefaciens Strain Mr-1
pdb|1D4C|D Chain D, Crystal Structure Of The Uncomplexed Form Of The
Flavocytochrome C Fumarate Reductase Of Shewanella
Putrefaciens Strain Mr-1
pdb|1D4C|B Chain B, Crystal Structure Of The Uncomplexed Form Of The
Flavocytochrome C Fumarate Reductase Of Shewanella
Putrefaciens Strain Mr-1
pdb|1D4C|C Chain C, Crystal Structure Of The Uncomplexed Form Of The
Flavocytochrome C Fumarate Reductase Of Shewanella
Putrefaciens Strain Mr-1
Length = 572
Score = 23.1 bits (48), Expect = 5.3
Identities = 10/22 (45%), Positives = 13/22 (58%)
Query: 66 HVGYKLGEFAPTRTFKGHKGSV 87
H + +GE A T KGH+ SV
Sbjct: 61 HKSHLIGEIACTSCHKGHEKSV 82
>pdb|2PBG| 6-Phospho-Beta-D-Galactosidase Form-B
Length = 468
Score = 22.7 bits (47), Expect = 6.9
Identities = 8/11 (72%), Positives = 10/11 (90%)
Query: 60 VYITENHVGYK 70
+YITEN +GYK
Sbjct: 371 IYITENGLGYK 381
>pdb|3PBG|A Chain A, 6-Phospho-Beta-Galactosidase Form-C
pdb|3PBG|B Chain B, 6-Phospho-Beta-Galactosidase Form-C
pdb|1PBG|B Chain B, Mol_id: 1; Molecule: 6-Phospho-Beta-D-Galactosidase;
Chain: A, B; Synonym: Pgal; Ec: Ec 3.2.1.85; Engineered:
Yes; Other_details: Precipitant Polyethylene Glycol
pdb|1PBG|A Chain A, Mol_id: 1; Molecule: 6-Phospho-Beta-D-Galactosidase;
Chain: A, B; Synonym: Pgal; Ec: Ec 3.2.1.85; Engineered:
Yes; Other_details: Precipitant Polyethylene Glycol
Length = 468
Score = 22.7 bits (47), Expect = 6.9
Identities = 8/11 (72%), Positives = 10/11 (90%)
Query: 60 VYITENHVGYK 70
+YITEN +GYK
Sbjct: 371 IYITENGLGYK 381
>pdb|1F5A|A Chain A, Crystal Structure Of Mammalian Poly(A) Polymerase
Length = 513
Score = 22.7 bits (47), Expect = 6.9
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 29 RPIKTWSRRSTILPEMIGF 47
R IK W++R I ++GF
Sbjct: 225 RAIKLWAKRHNIYSNILGF 243
>pdb|1A36|A Chain A, Human Dna Topoisomerase I (70 Kda) In Non-Covalent
Complex With A 22 Base Pair Dna Duplex
Length = 592
Score = 22.7 bits (47), Expect = 6.9
Identities = 17/49 (34%), Positives = 21/49 (42%), Gaps = 6/49 (12%)
Query: 13 DHLMKKTLKAKEGKDNRPIKTWSRRSTILPEMIGFTYNVHNGRVFIPVY 61
D+ KK K +E K K W PE I + + H G VF P Y
Sbjct: 16 DNKKKKPKKEEEQK----WKWWEEER--YPEGIKWKFLEHKGPVFAPPY 58
>pdb|1A31|A Chain A, Human Reconstituted Dna Topoisomerase I In Covalent
Complex With A 22 Base Pair Dna Duplex
Length = 538
Score = 22.7 bits (47), Expect = 6.9
Identities = 17/49 (34%), Positives = 21/49 (42%), Gaps = 6/49 (12%)
Query: 13 DHLMKKTLKAKEGKDNRPIKTWSRRSTILPEMIGFTYNVHNGRVFIPVY 61
D+ KK K +E K K W PE I + + H G VF P Y
Sbjct: 15 DNKKKKPKKEEEQK----WKWWEEER--YPEGIKWKFLEHKGPVFAPPY 57
>pdb|1KEA|A Chain A, Structure Of A Thermostable Thymine-Dna Glycosylase
Length = 221
Score = 22.7 bits (47), Expect = 6.9
Identities = 13/39 (33%), Positives = 21/39 (53%)
Query: 18 KTLKAKEGKDNRPIKTWSRRSTILPEMIGFTYNVHNGRV 56
KT K++ KD + I ++R+ L E+ N + GRV
Sbjct: 72 KTPKSEIAKDIKEIGLSNQRAEQLKELARVVINDYGGRV 110
>pdb|1A35|A Chain A, Human Reconstituted Dna Topoisomerase I In Non-Covalent
Complex With A 22 Base Pair Dna Duplex
Length = 538
Score = 22.7 bits (47), Expect = 6.9
Identities = 17/49 (34%), Positives = 21/49 (42%), Gaps = 6/49 (12%)
Query: 13 DHLMKKTLKAKEGKDNRPIKTWSRRSTILPEMIGFTYNVHNGRVFIPVY 61
D+ KK K +E K K W PE I + + H G VF P Y
Sbjct: 15 DNKKKKPKKEEEQK----WKWWEEER--YPEGIKWKFLEHKGPVFAPPY 57
>pdb|1H6Z|A Chain A, 3.0 A Resolution Crystal Structure Of Glycosomal Pyruvate
Phosphate Dikinase From Trypanosoma Brucei
Length = 913
Score = 22.3 bits (46), Expect = 9.1
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 9 PFIDDHLMKKTLKAKEGKDNRPI 31
P+ DHLM L+ K N+PI
Sbjct: 398 PYQVDHLMHPNLEPGAEKANKPI 420
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
0.319 0.138 0.415
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 590,019
Number of Sequences: 13198
Number of extensions: 23473
Number of successful extensions: 50
Number of sequences better than 10.0: 18
Number of HSP's better than 10.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 35
Number of HSP's gapped (non-prelim): 18
length of query: 93
length of database: 2,899,336
effective HSP length: 69
effective length of query: 24
effective length of database: 1,988,674
effective search space: 47728176
effective search space used: 47728176
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 46 (22.3 bits)