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|15645908|ref|NP_208087.1| ribosomal protein S11
(rps11) [Helicobacter pylori 26695]
(131 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|1FJG|K Chain K, Structure Of The Thermus Thermophilus 3... 126 9e-31
pdb|1I94|K Chain K, Crystal Structures Of The Small Ribosom... 125 1e-30
pdb|1ISX|A Chain A, Crystal Structure Of Xylanase From Stre... 27 0.59
pdb|1QO8|A Chain A, The Structure Of The Open Conformation ... 25 2.2
pdb|1EUC|B Chain B, Crystal Structure Of Dephosphorylated P... 24 5.0
pdb|1EUD|B Chain B, Crystal Structure Of Phosphorylated Pig... 24 5.0
pdb|1B8A|A Chain A, Aspartyl-Trna Synthetase >gi|4388837|pd... 24 6.5
pdb|1FAK|T Chain T, Human Tissue Factor Complexed With Coag... 24 6.5
pdb|2HFT| Mol_id: 1; Molecule: Human Tissue Factor; Chain... 24 6.5
pdb|1BOY| Extracellular Region Of Human Tissue Factor >gi... 24 6.5
pdb|1EFV|B Chain B, Three-Dimensional Structure Of Human El... 24 6.5
pdb|1AIG|H Chain H, Photosynthetic Reaction Center From Rho... 23 8.5
pdb|1L9B|H Chain H, X-Ray Structure Of The Cytochrome-C(2)-... 23 8.5
>pdb|1FJG|K Chain K, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With The Antibiotics Streptomycin,
Spectinomycin And Paromomycin
pdb|1J5E|K Chain K, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit
pdb|1IBL|K Chain K, 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|K Chain K, Crystal Structure Of Initiation Factor If1 Bound To The
30s Ribosomal Subunit
pdb|1HNZ|K Chain K, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Hygromycin B
pdb|1IBM|K Chain K, 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|K Chain K, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With The Antibiotic Paromomycin
pdb|1HNW|K Chain K, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Tetracycline
pdb|1HNX|K Chain K, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Pactamycin
pdb|1JGQ|N Chain N, 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|N Chain N, 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|N Chain N, 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|N Chain N, 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 = 129
Score = 126 bits (316), Expect = 9e-31
Identities = 66/130 (50%), Positives = 90/130 (68%), Gaps = 4/130 (3%)
Query: 1 MAKRNVTAKKKVVKKNIARGVVYISATFNNTNITITDEMGNVICWSTAGGLGFKGSKKST 60
MAK+ KK VK+ +A G YI A++NNT +TITD GN I WS+ G +G+KGS+K T
Sbjct: 1 MAKK---PSKKKVKRQVASGRAYIHASYNNTIVTITDPDGNPITWSSGGVIGYKGSRKGT 57
Query: 61 PYAAQQAVESALSKAKEHGVKEVGIKVQGPGSGRETAIKSVGATEGIKVLWIKDITPLPH 120
PYAAQ A A KA +G++ V + V+G G+GRE AI+++ A+ G++V I D TP+PH
Sbjct: 58 PYAAQLAALDAAKKAMAYGMQSVDVIVRGTGAGREQAIRALQAS-GLQVKSIVDDTPVPH 116
Query: 121 NGCRPPKRRR 130
NGCRP K+ R
Sbjct: 117 NGCRPKKKFR 126
>pdb|1I94|K Chain K, Crystal Structures Of The Small Ribosomal Subunit With
Tetracycline, Edeine And If3
pdb|1I96|K Chain K, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With The Translation
Initiation Factor If3 (C-Terminal Domain)
pdb|1I97|K Chain K, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With Tetracycline
pdb|1I95|K Chain K, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With Edeine
Length = 128
Score = 125 bits (315), Expect = 1e-30
Identities = 63/121 (52%), Positives = 86/121 (71%), Gaps = 1/121 (0%)
Query: 10 KKVVKKNIARGVVYISATFNNTNITITDEMGNVICWSTAGGLGFKGSKKSTPYAAQQAVE 69
KK VK+ +A G YI A++NNT +TITD GN I WS+ G +G+KGS+K TPYAAQ A
Sbjct: 6 KKKVKRQVASGRAYIHASYNNTIVTITDPDGNPITWSSGGVIGYKGSRKGTPYAAQLAAL 65
Query: 70 SALSKAKEHGVKEVGIKVQGPGSGRETAIKSVGATEGIKVLWIKDITPLPHNGCRPPKRR 129
A KA +G++ V + V+G G+GRE AI+++ A+ G++V I D TP+PHNGCRP K+
Sbjct: 66 DAAKKAMAYGMQSVDVIVRGTGAGREQAIRALQAS-GLQVKSIVDDTPVPHNGCRPKKKF 124
Query: 130 R 130
R
Sbjct: 125 R 125
>pdb|1ISX|A Chain A, Crystal Structure Of Xylanase From Streptomyces
Olivaceoviridis E-86 Complexed With Xylotriose
pdb|1ISX|B Chain B, Crystal Structure Of Xylanase From Streptomyces
Olivaceoviridis E-86 Complexed With Xylotriose
pdb|1ISW|A Chain A, Crystal Structure Of Xylanase From Streptomyces
Olivaceoviridis E-86 Complexed With Xylobiose
pdb|1ISW|B Chain B, Crystal Structure Of Xylanase From Streptomyces
Olivaceoviridis E-86 Complexed With Xylobiose
pdb|1ISV|A Chain A, Crystal Structure Of Xylanase From Streptomyces
Olivaceoviridis E-86 Complexed With Xylose
pdb|1ISV|B Chain B, Crystal Structure Of Xylanase From Streptomyces
Olivaceoviridis E-86 Complexed With Xylose
pdb|1ISY|A Chain A, Crystal Structure Of Xylanase From Streptomyces
Olivaceoviridis E-86 Complexed With Glucose
pdb|1ISY|B Chain B, Crystal Structure Of Xylanase From Streptomyces
Olivaceoviridis E-86 Complexed With Glucose
pdb|1XYF|A Chain A, Endo-1,4-Beta-Xylanase From Streptomyces Olivaceoviridis
pdb|1XYF|B Chain B, Endo-1,4-Beta-Xylanase From Streptomyces Olivaceoviridis
pdb|1ISZ|A Chain A, Crystal Structure Of Xylanase From Streptomyces
Olivaceoviridis E-86 Complexed With Galactose
pdb|1ISZ|B Chain B, Crystal Structure Of Xylanase From Streptomyces
Olivaceoviridis E-86 Complexed With Galactose
pdb|1IT0|A Chain A, Crystal Structure Of Xylanase From Streptomyces
Olivaceoviridis E-86 Complexed With Lactose
pdb|1IT0|B Chain B, Crystal Structure Of Xylanase From Streptomyces
Olivaceoviridis E-86 Complexed With Lactose
Length = 436
Score = 27.3 bits (59), Expect = 0.59
Identities = 19/55 (34%), Positives = 28/55 (50%), Gaps = 4/55 (7%)
Query: 55 GSKKSTPYAAQQAVESALSKAKEHGVKEVGIKVQGPGSGRETAIKSVGATEGIKV 109
GSKK AA AV +AL+ G +++G GSGR + + T+G +V
Sbjct: 287 GSKK----AAYTAVLNALNGGSSTPPPSGGGQIKGVGSGRCLDVPNASTTDGTQV 337
>pdb|1QO8|A Chain A, The Structure Of The Open Conformation Of A
Flavocytochrome C3 Fumarate Reductase
pdb|1QO8|D Chain D, The Structure Of The Open Conformation Of A
Flavocytochrome C3 Fumarate Reductase
Length = 566
Score = 25.4 bits (54), Expect = 2.2
Identities = 12/41 (29%), Positives = 23/41 (55%)
Query: 47 TAGGLGFKGSKKSTPYAAQQAVESALSKAKEHGVKEVGIKV 87
+AGG+ G+K+ T + + VE + A + G ++ IK+
Sbjct: 163 SAGGMNAVGTKQQTAHGVEDKVEWFIEDAMKGGRQQNDIKL 203
>pdb|1EUC|B Chain B, Crystal Structure Of Dephosphorylated Pig Heart, Gtp-
Specific Succinyl-Coa Synthetase
Length = 396
Score = 24.3 bits (51), Expect = 5.0
Identities = 18/53 (33%), Positives = 23/53 (42%), Gaps = 1/53 (1%)
Query: 55 GSKKSTPYAAQQAVESALSKAKEHGVKEVGIKVQGPGSGRETAIKSVGATEGI 107
G K + A A E AL AK KE+ +K Q GR + S G G+
Sbjct: 17 GVKVQRFFVADTANE-ALEAAKRLNAKEIVLKAQILAGGRGKGVFSSGLKGGV 68
>pdb|1EUD|B Chain B, Crystal Structure Of Phosphorylated Pig Heart,
Gtp-Specific Succinyl-Coa Synthetase
Length = 396
Score = 24.3 bits (51), Expect = 5.0
Identities = 18/53 (33%), Positives = 23/53 (42%), Gaps = 1/53 (1%)
Query: 55 GSKKSTPYAAQQAVESALSKAKEHGVKEVGIKVQGPGSGRETAIKSVGATEGI 107
G K + A A E AL AK KE+ +K Q GR + S G G+
Sbjct: 17 GVKVQRFFVADTANE-ALEAAKRLNAKEIVLKAQILAGGRGKGVFSSGLKGGV 68
>pdb|1B8A|A Chain A, Aspartyl-Trna Synthetase
pdb|1B8A|B Chain B, Aspartyl-Trna Synthetase
Length = 438
Score = 23.9 bits (50), Expect = 6.5
Identities = 18/79 (22%), Positives = 35/79 (43%), Gaps = 9/79 (11%)
Query: 45 WSTAGGLGFKGSKKSTPYAAQQAVESALSKAKEHGVKEVGI--------KVQGPGSGRET 96
WS + F ++ ++ V A++ +EH KE+ I K+ P +
Sbjct: 228 WSIDSEMAFIEDEEEVMSFLERLVAHAINYVREHNAKELDILNFELEEPKLPFPRVSYDK 287
Query: 97 AIKSVGATEGIKVLWIKDI 115
A++ +G G ++ W +DI
Sbjct: 288 ALEILGDL-GKEIPWGEDI 305
>pdb|1FAK|T Chain T, Human Tissue Factor Complexed With Coagulation Factor Viia
Inhibited With A Bpti-Mutant
Length = 206
Score = 23.9 bits (50), Expect = 6.5
Identities = 18/76 (23%), Positives = 34/76 (44%), Gaps = 5/76 (6%)
Query: 40 GNVICWSTAGGLGFKGSKKSTPYAAQQAVESALSKAKEHGVKEVGIKVQGPGSGRETAIK 99
GNV +AG ++ S + TPY +E+ L + ++VG KV T ++
Sbjct: 77 GNVESTGSAGEPLYENSPEFTPY-----LETNLGQPTIQSFEQVGTKVNVTVEDERTLVR 131
Query: 100 SVGATEGIKVLWIKDI 115
++ ++ KD+
Sbjct: 132 RNNTFLSLRDVFGKDL 147
>pdb|2HFT| Mol_id: 1; Molecule: Human Tissue Factor; Chain: Null; Domain:
Extracellular Domain, Residues 1 - 219; Engineered: Yes
Length = 218
Score = 23.9 bits (50), Expect = 6.5
Identities = 18/76 (23%), Positives = 34/76 (44%), Gaps = 5/76 (6%)
Query: 40 GNVICWSTAGGLGFKGSKKSTPYAAQQAVESALSKAKEHGVKEVGIKVQGPGSGRETAIK 99
GNV +AG ++ S + TPY +E+ L + ++VG KV T ++
Sbjct: 81 GNVESTGSAGEPLYENSPEFTPY-----LETNLGQPTIQSFEQVGTKVNVTVEDERTLVR 135
Query: 100 SVGATEGIKVLWIKDI 115
++ ++ KD+
Sbjct: 136 RNNTFLSLRDVFGKDL 151
>pdb|1BOY| Extracellular Region Of Human Tissue Factor
pdb|1TFH|A Chain A, Extracellular Domain Of Human Tissue Factor
pdb|1JPS|T Chain T, Crystal Structure Of Tissue Factor In Complex With
Humanized Fab D3h44
pdb|1AHW|C Chain C, A Complex Of Extracellular Domain Of Tissue Factor With An
Inhibitory Fab (5g9)
pdb|1AHW|F Chain F, A Complex Of Extracellular Domain Of Tissue Factor With An
Inhibitory Fab (5g9)
pdb|1TFH|B Chain B, Extracellular Domain Of Human Tissue Factor
Length = 219
Score = 23.9 bits (50), Expect = 6.5
Identities = 18/76 (23%), Positives = 34/76 (44%), Gaps = 5/76 (6%)
Query: 40 GNVICWSTAGGLGFKGSKKSTPYAAQQAVESALSKAKEHGVKEVGIKVQGPGSGRETAIK 99
GNV +AG ++ S + TPY +E+ L + ++VG KV T ++
Sbjct: 81 GNVESTGSAGEPLYENSPEFTPY-----LETNLGQPTIQSFEQVGTKVNVTVEDERTLVR 135
Query: 100 SVGATEGIKVLWIKDI 115
++ ++ KD+
Sbjct: 136 RNNTFLSLRDVFGKDL 151
>pdb|1EFV|B Chain B, Three-Dimensional Structure Of Human Electron Transfer
Flavoprotein To 2.1 A Resolution
Length = 255
Score = 23.9 bits (50), Expect = 6.5
Identities = 21/62 (33%), Positives = 29/62 (45%), Gaps = 2/62 (3%)
Query: 50 GLGFKGSKKSTPYAAQQAVESALSKAKEHGVKEVGIKVQGPGSGRET--AIKSVGATEGI 107
G+ G K S + AVE A+ ++ VKEV GP +ET ++GA GI
Sbjct: 28 GVVTDGVKHSMNPFCEIAVEEAVRLKEKKLVKEVIAVSCGPAQCQETIRTALAMGADRGI 87
Query: 108 KV 109
V
Sbjct: 88 HV 89
>pdb|1AIG|H Chain H, Photosynthetic Reaction Center From Rhodobacter
Sphaeroides In The D+qb- Charge Separated State
pdb|1AIG|P Chain P, Photosynthetic Reaction Center From Rhodobacter
Sphaeroides In The D+qb- Charge Separated State
pdb|1AIJ|H Chain H, Photosynthetic Reaction Center From Rhodobacter
Sphaeroides In The Charge-Neutral Dqaqb State
pdb|1AIJ|T Chain T, Photosynthetic Reaction Center From Rhodobacter
Sphaeroides In The Charge-Neutral Dqaqb State
pdb|1DS8|H Chain H, Photosynthetic Reaction Center From Rhodobacter
Sphaeroides In The Charge-Neutral Dqaqb State With The
Proton Transfer Inhibitor Cd2+
pdb|1DS8|T Chain T, Photosynthetic Reaction Center From Rhodobacter
Sphaeroides In The Charge-Neutral Dqaqb State With The
Proton Transfer Inhibitor Cd2+
pdb|1DV6|H Chain H, Photosynthetic Reaction Center From Rhodobacter
Sphaeroides In The Charge-Neutral Dqaqb State With The
Proton Transfer Inhibitor Zn2+
pdb|1DV6|T Chain T, Photosynthetic Reaction Center From Rhodobacter
Sphaeroides In The Charge-Neutral Dqaqb State With The
Proton Transfer Inhibitor Zn2+
pdb|1DV3|H Chain H, Photosynthetic Reaction Center From Rhodobacter
Sphaeroides In The Charge-Separated D+qaqb- State With
The Proton Transfer Inhibitor Cd2+
pdb|1DV3|T Chain T, Photosynthetic Reaction Center From Rhodobacter
Sphaeroides In The Charge-Separated D+qaqb- State With
The Proton Transfer Inhibitor Cd2+
Length = 260
Score = 23.5 bits (49), Expect = 8.5
Identities = 13/37 (35%), Positives = 20/37 (53%), Gaps = 2/37 (5%)
Query: 31 TNITITDEMGNVICWSTAGGLGFKGSKKSTPYAAQQA 67
T +T+ +E + IC AGGL + K+ + AA A
Sbjct: 223 TEVTLLEE--DKICGYVAGGLMYAAPKRKSVVAAMLA 257
>pdb|1L9B|H Chain H, X-Ray Structure Of The Cytochrome-C(2)-Photosynthetic
Reaction Center Electron Transfer Complex From
Rhodobacter Sphaeroides In Type Ii Co-Crystals
pdb|1L9J|H Chain H, X-Ray Structure Of The Cytochrome-C(2)-Photosynthetic
Reaction Center Electron Transfer Complex From
Rhodobacter Sphaeroides In Type I Co-Crystals
pdb|1L9J|T Chain T, X-Ray Structure Of The Cytochrome-C(2)-Photosynthetic
Reaction Center Electron Transfer Complex From
Rhodobacter Sphaeroides In Type I Co-Crystals
pdb|1K6L|H Chain H, Photosynethetic Reaction Center From Rhodobacter
Sphaeroides
pdb|1K6N|H Chain H, E(L212)a,D(L213)a Double Mutant Structure Of
Photosynthetic Reaction Center From Rhodobacter
Sphaeroides
pdb|1M3X|H Chain H, Photosynthetic Reaction Center From Rhodobacter
Sphaeroides
pdb|1YST|H Chain H, Photosynthetic Reaction Center (Wild Type)
pdb|2RCR|H Chain H, Photosynthetic Reaction Center From (Rhodobacter
sphaeroides)
pdb|1QOV|H Chain H, Photosynthetic Reaction Center Mutant With Ala M260
Replaced With Trp (Chain M, A260w)
pdb|1E6D|H Chain H, Photosynthetic Reaction Center Mutant With Trp M115
Replaced With Phe (Chain M, Wm115f) Phe M197 Replaced
With Arg (Chain M, Fm197r)
pdb|1MPS|H Chain H, Photosynthetic Reaction Center Mutant With Phe M 197
Replaced With Arg And Tyr M 177 Replaced With Phe (Chain
M, Y177f, F197r)
pdb|1FNP|H Chain H, Crystal Structure Analysis Of The Mutant Reaction Center
Pro L209-> Phe From The Photosynthetic Purple Bacterium
Rhodobacter Sphaeroides
pdb|1PCR|H Chain H, Photosynthetic Reaction Center
pdb|1E14|H Chain H, Photosynthetic Reaction Center Mutant With Phe M197
Replaced With Arg (Chain M, Fm197r) And Gly M203
Replaced With Asp (Chain M, Gm203d)
pdb|1JGY|H Chain H, Photosynthetic Reaction Center Mutant With Tyr M 76
Replaced With Phe
pdb|1F6N|H Chain H, Crystal Structure Analysis Of The Mutant Reaction Center
Pro L209-> Tyr From The Photosynthetic Purple Bacterium
Rhodobacter Sphaeroides
pdb|1JGX|H Chain H, Photosynthetic Reaction Center Mutant With Thr M 21
Replaced With Asp
pdb|1FNQ|H Chain H, Crystal Structure Analysis Of The Mutant Reaction Center
Pro L209-> Glu From The Photosynthetic Purple Bacterium
Rhodobacter Sphaeroides
pdb|1JH0|H Chain H, Photosynthetic Reaction Center Mutant With Glu L 205
Replaced To Leu
pdb|4RCR|H Chain H, Photosynthetic Reaction Center
pdb|1JGZ|H Chain H, Photosynthetic Reaction Center Mutant With Tyr M 76
Replaced With Lys
pdb|1JGW|H Chain H, Photosynthetic Reaction Center Mutant With Thr M 21
Replaced With Leu
Length = 260
Score = 23.5 bits (49), Expect = 8.5
Identities = 13/37 (35%), Positives = 20/37 (53%), Gaps = 2/37 (5%)
Query: 31 TNITITDEMGNVICWSTAGGLGFKGSKKSTPYAAQQA 67
T +T+ +E + IC AGGL + K+ + AA A
Sbjct: 223 TEVTLLEE--DKICGYVAGGLMYAAPKRKSVVAAMLA 257
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
0.313 0.131 0.378
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 750,886
Number of Sequences: 13198
Number of extensions: 27192
Number of successful extensions: 67
Number of sequences better than 10.0: 13
Number of HSP's better than 10.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 59
Number of HSP's gapped (non-prelim): 13
length of query: 131
length of database: 2,899,336
effective HSP length: 78
effective length of query: 53
effective length of database: 1,869,892
effective search space: 99104276
effective search space used: 99104276
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 49 (23.5 bits)