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|15645858|ref|NP_208036.1| ribosomal protein S18
(rps18) [Helicobacter pylori 26695]
(85 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|1I94|R Chain R, Crystal Structures Of The Small Ribosom... 51 3e-08
pdb|1FJG|R Chain R, Structure Of The Thermus Thermophilus 3... 51 3e-08
pdb|1JLN|A Chain A, Crystal Structure Of The Catalytic Doma... 28 0.17
pdb|1IA8|A Chain A, The 1.7 A Crystal Structure Of Human Ce... 25 1.9
pdb|1HJ5|A Chain A, Cytochrome Cd1 Nitrite Reductase, Reoxi... 23 5.6
pdb|2GEP| Sulfite Reductase Hemoprotein, Oxidized, Sirohe... 23 7.3
pdb|1A05|A Chain A, Crystal Structure Of The Complex Of 3-I... 23 7.3
pdb|1CFR| Crystal Structure Of Citrobacter Freundii Restr... 23 7.3
pdb|1A3W|A Chain A, Pyruvate Kinase From Saccharomyces Cere... 22 9.6
>pdb|1I94|R Chain R, Crystal Structures Of The Small Ribosomal Subunit With
Tetracycline, Edeine And If3
pdb|1I96|R Chain R, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With The Translation
Initiation Factor If3 (C-Terminal Domain)
pdb|1I97|R Chain R, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With Tetracycline
pdb|1I95|R Chain R, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With Edeine
Length = 87
Score = 50.8 bits (120), Expect = 3e-08
Identities = 28/69 (40%), Positives = 41/69 (58%)
Query: 2 ERKRYSKRYCKYTEAKISFIDYKDLDMLKHTLSERYKIMPRRLTGNSKKWQERVEVAIKR 61
+R+ K K T + DY+++++LK LSE KI+PRR TG S K Q + IKR
Sbjct: 12 QRRPSRKAKVKATLGEFDLRDYRNVEVLKRFLSETGKILPRRRTGLSGKEQRILAKTIKR 71
Query: 62 ARHMALIPY 70
AR + L+P+
Sbjct: 72 ARILGLLPF 80
>pdb|1FJG|R Chain R, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With The Antibiotics Streptomycin,
Spectinomycin And Paromomycin
pdb|1J5E|R Chain R, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit
pdb|1IBL|R Chain R, 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|R Chain R, Crystal Structure Of Initiation Factor If1 Bound To The
30s Ribosomal Subunit
pdb|1HNZ|R Chain R, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Hygromycin B
pdb|1IBM|R Chain R, 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|1IBK|R Chain R, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With The Antibiotic Paromomycin
pdb|1HNW|R Chain R, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Tetracycline
pdb|1HNX|R Chain R, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Pactamycin
pdb|1G1X|H Chain H, Structure Of Ribosomal Proteins S15, S6, S18, And 16s
Ribosomal Rna
pdb|1G1X|C Chain C, Structure Of Ribosomal Proteins S15, S6, S18, And 16s
Ribosomal Rna
pdb|1FKA|R Chain R, Structure Of Functionally Activated Small Ribosomal
Subunit At 3.3 A Resolution
pdb|1JGQ|U Chain U, 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|U Chain U, 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|U Chain U, 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|U Chain U, 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 = 88
Score = 50.8 bits (120), Expect = 3e-08
Identities = 28/69 (40%), Positives = 41/69 (58%)
Query: 2 ERKRYSKRYCKYTEAKISFIDYKDLDMLKHTLSERYKIMPRRLTGNSKKWQERVEVAIKR 61
+R+ K K T + DY+++++LK LSE KI+PRR TG S K Q + IKR
Sbjct: 13 QRRPSRKAKVKATLGEFDLRDYRNVEVLKRFLSETGKILPRRRTGLSGKEQRILAKTIKR 72
Query: 62 ARHMALIPY 70
AR + L+P+
Sbjct: 73 ARILGLLPF 81
>pdb|1JLN|A Chain A, Crystal Structure Of The Catalytic Domain Of Protein
Tyrosine Phosphatase Ptp-SlBR7
Length = 297
Score = 28.1 bits (61), Expect = 0.17
Identities = 12/35 (34%), Positives = 23/35 (65%), Gaps = 1/35 (2%)
Query: 12 KYTEAKISFIDYKDLDMLKHTLSERYK-IMPRRLT 45
++ E ++F+D K++D+ +H RYK I+P L+
Sbjct: 37 EFMEIPMNFVDPKEIDIPRHGTKNRYKTILPNPLS 71
>pdb|1IA8|A Chain A, The 1.7 A Crystal Structure Of Human Cell Cycle
Checkpoint Kinase Chk1
Length = 289
Score = 24.6 bits (52), Expect = 1.9
Identities = 11/27 (40%), Positives = 16/27 (58%)
Query: 55 VEVAIKRARHMALIPYIVDRKKVVDSP 81
V++A+ R A+ IVD K+ VD P
Sbjct: 23 VQLAVNRVTEEAVAVKIVDMKRAVDCP 49
>pdb|1HJ5|A Chain A, Cytochrome Cd1 Nitrite Reductase, Reoxidised Enzyme
pdb|1HJ5|B Chain B, Cytochrome Cd1 Nitrite Reductase, Reoxidised Enzyme
pdb|1HJ4|A Chain A, Cytochrome Cd1 Nitrite Reductase, X-Ray Reduced Dioxygen
Complex
pdb|1HJ3|A Chain A, Cytochrome Cd1 Nitrite Reductase, Dioxygen Complex
pdb|1HJ3|B Chain B, Cytochrome Cd1 Nitrite Reductase, Dioxygen Complex
pdb|1HJ4|B Chain B, Cytochrome Cd1 Nitrite Reductase, X-Ray Reduced Dioxygen
Complex
pdb|1DY7|B Chain B, Cytochrome Cd1 Nitrite Reductase, Co Complex
pdb|1H9X|B Chain B, Cytochrome Cd1 Nitrite Reductase, Reduced Form
pdb|1HCM|B Chain B, Cytochrome Cd1 Nitrite Reductase, Oxidised From From
Tetragonal Crystals
pdb|1H9X|A Chain A, Cytochrome Cd1 Nitrite Reductase, Reduced Form
pdb|1HCM|A Chain A, Cytochrome Cd1 Nitrite Reductase, Oxidised From From
Tetragonal Crystals
pdb|1H9Y|A Chain A, Cytochrome Cd1 Nitrite Reductase, Reduced Form Complexed
To Cn
pdb|1H9Y|B Chain B, Cytochrome Cd1 Nitrite Reductase, Reduced Form Complexed
To Cn
pdb|1DY7|A Chain A, Cytochrome Cd1 Nitrite Reductase, Co Complex
Length = 567
Score = 23.1 bits (48), Expect = 5.6
Identities = 10/16 (62%), Positives = 11/16 (68%)
Query: 17 KISFIDYKDLDMLKHT 32
KI +DY DLD LK T
Sbjct: 321 KILLVDYTDLDNLKTT 336
>pdb|2GEP| Sulfite Reductase Hemoprotein, Oxidized, Siroheme Feiii [4fe-4s]
+2,Sulfite Complex
pdb|7GEP| Sulfite Reductase Hemoprotein In Complex With A Partially Oxidized
Sulfide Species
pdb|1AOP| Sulfite Reductase Structure At 1.6 Angstrom Resolution
pdb|2AOP| Sulfite Reductase: Reduced With Crii Edta, Siroheme Feii, [4fe-4s]
+1, Phosphate Bound
pdb|6GEP| Sulfite Reductase Hemoprotein Nitric Oxide Complex Reduced With
Proflavine Edta
pdb|4GEP| Sulfite Reductase Hemoprotein Cyanide Complex Reduced With Crii
Edta
pdb|5GEP| Sulfite Reductase Hemoprotein Carbon Monoxide Complex Reduced With
Crii Edta
pdb|8GEP| Sulfite Reductase Hemoprotein Nitrate Complex
pdb|5AOP| Sulfite Reductase Structure Reduced With Crii Edta, 5-Coordinate
Siroheme, Siroheme Feii, [4fe-4s] +1
pdb|3GEO| Sulfite Reductase Hemoprotein Nitrite Complex
pdb|4AOP| Sulfite Reductase Hemoprotein Partially Photoreduced With
Proflavine Edta, Phosphate Partially Bound
pdb|3AOP| Sulfite Reductase Hemoprotein Photoreduced With Proflavine Edta,
Siroheme Feii,[4fe-4s] +1, Phosphate Bound
Length = 497
Score = 22.7 bits (47), Expect = 7.3
Identities = 13/28 (46%), Positives = 18/28 (63%), Gaps = 2/28 (7%)
Query: 19 SFIDYKDLDMLKHTLSERYKIMPRRLTG 46
SFID D M KH +S+ + +M R+TG
Sbjct: 380 SFIDNIDNLMAKHGVSDEHIVM--RVTG 405
>pdb|1A05|A Chain A, Crystal Structure Of The Complex Of 3-Isopropylmalate
Dehydrogenase From Thiobacillus Ferrooxidans With
3-Isopropylmalate
pdb|1A05|B Chain B, Crystal Structure Of The Complex Of 3-Isopropylmalate
Dehydrogenase From Thiobacillus Ferrooxidans With
3-Isopropylmalate
Length = 358
Score = 22.7 bits (47), Expect = 7.3
Identities = 8/21 (38%), Positives = 13/21 (61%)
Query: 47 NSKKWQERVEVAIKRARHMAL 67
N++ W +RVE A++R L
Sbjct: 308 NAEPWAQRVEAAVQRVLDQGL 328
>pdb|1CFR| Crystal Structure Of Citrobacter Freundii Restriction Endonuclease
Cfr10i At 2.15 Angstroms Resolution
Length = 285
Score = 22.7 bits (47), Expect = 7.3
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 19 SFIDYKDLDMLKHTLSERYKIMPRR 43
+FIDY +L+ +K LS + P R
Sbjct: 173 NFIDYAELEHIKSFLSVKTTFRPDR 197
>pdb|1A3W|A Chain A, Pyruvate Kinase From Saccharomyces Cerevisiae Complexed
With Fbp, Pg, Mn2+ And K+
pdb|1A3W|B Chain B, Pyruvate Kinase From Saccharomyces Cerevisiae Complexed
With Fbp, Pg, Mn2+ And K+
pdb|1A3X|A Chain A, Pyruvate Kinase From Saccharomyces Cerevisiae Complexed
With Pg, Mn2+ And K+
pdb|1A3X|B Chain B, Pyruvate Kinase From Saccharomyces Cerevisiae Complexed
With Pg, Mn2+ And K+
Length = 500
Score = 22.3 bits (46), Expect = 9.6
Identities = 7/18 (38%), Positives = 13/18 (71%)
Query: 9 RYCKYTEAKISFIDYKDL 26
+Y K + KI ++DYK++
Sbjct: 116 KYAKACDDKIMYVDYKNI 133
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
0.323 0.136 0.399
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 468,762
Number of Sequences: 13198
Number of extensions: 14522
Number of successful extensions: 25
Number of sequences better than 10.0: 9
Number of HSP's better than 10.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 17
Number of HSP's gapped (non-prelim): 9
length of query: 85
length of database: 2,899,336
effective HSP length: 61
effective length of query: 24
effective length of database: 2,094,258
effective search space: 50262192
effective search space used: 50262192
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 46 (22.3 bits)