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|15645922|ref|NP_208101.1| ribosomal protein L14
(rpl14) [Helicobacter pylori 26695]
(122 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|487D|M Chain M, Seven Ribosomal Proteins Fitted To A Cr... 160 4e-41
pdb|1LNR|I Chain I, Crystal Structure Of The Large Ribosoma... 148 1e-37
pdb|1K8A|L Chain L, Co-Crystal Structure Of Carbomycin A Bo... 84 5e-18
pdb|1LPQ|A Chain A, Human Dna Topoisomerase I (70 Kda) In N... 25 1.9
pdb|1EJ9|A Chain A, Crystal Structure Of Human Topoisomeras... 25 1.9
pdb|1A36|A Chain A, Human Dna Topoisomerase I (70 Kda) In N... 25 1.9
pdb|1K92|A Chain A, Crystal Structure Of Uncomplexed E. Col... 25 2.5
pdb|1LKV|X Chain X, Crystal Structure Of The Middle And C-T... 23 9.4
>pdb|487D|M Chain M, Seven Ribosomal Proteins Fitted To A Cryo-Electron
Microscopic Map Of The Large 50s Subunit At 7.5
Angstroms Resolution
pdb|1WHI| Ribosomal Protein L14
pdb|1C04|D Chain D, Identification Of Known Protein And Rna Structures In A 5
A Map Of The Large Ribosomal Subunit From Haloarcula
Marismortui
pdb|1GIY|N Chain N, Crystal Structure Of The Ribosome At 5.5 A Resolution.
This File, 1giy, Contains The 50s Ribosome Subunit. The
30s Ribosome Subunit, Three Trna, And Mrna Molecules Are
In The File 1gix
Length = 122
Score = 160 bits (405), Expect = 4e-41
Identities = 80/122 (65%), Positives = 101/122 (82%)
Query: 1 MIQSFTRLNVADNSGAKEIMCIKVLGGSHKRYASVGSVIVASVKKAIPNGKVKRGQVVKA 60
MIQ +RL VADNSGA+E++ IKVLGGS +RYA++G V+VA+VK A P G VK+GQVVKA
Sbjct: 1 MIQQESRLKVADNSGAREVLVIKVLGGSGRRYANIGDVVVATVKDATPGGVVKKGQVVKA 60
Query: 61 VVVRTKKEIQRKNGSLVRFDDNAAVILDAKKDPVGTRIFGPVSREVRYANFMKIISLAPE 120
VVVRTK+ ++R +GS +RFD+NA VI+ K P GTRIFGPV+RE+R +FMKIISLAPE
Sbjct: 61 VVVRTKRGVRRPDGSYIRFDENACVIIRDDKSPRGTRIFGPVARELRDKDFMKIISLAPE 120
Query: 121 VV 122
V+
Sbjct: 121 VI 122
>pdb|1LNR|I Chain I, Crystal Structure Of The Large Ribosomal Subunit From
Deinococcus Radiodurans
Length = 134
Score = 148 bits (374), Expect = 1e-37
Identities = 80/134 (59%), Positives = 98/134 (72%), Gaps = 12/134 (8%)
Query: 1 MIQSFTRLNVADNSGAKEIMCIKVL------------GGSHKRYASVGSVIVASVKKAIP 48
MI +RL+VADNSGA+EIMCI+VL GG +KRYA VG +IVASVK A P
Sbjct: 1 MIMPQSRLDVADNSGAREIMCIRVLNSGIGGKGLTTGGGGNKRYAHVGDIIVASVKDAAP 60
Query: 49 NGKVKRGQVVKAVVVRTKKEIQRKNGSLVRFDDNAAVILDAKKDPVGTRIFGPVSREVRY 108
G VK G VVKAVVVRT I+R +GS +RFD NAAVI++ + +P GTR+FGPV+RE+R
Sbjct: 61 RGAVKAGDVVKAVVVRTSHAIKRADGSTIRFDRNAAVIINNQGEPRGTRVFGPVARELRD 120
Query: 109 ANFMKIISLAPEVV 122
FMKI+SLAPEV+
Sbjct: 121 RRFMKIVSLAPEVL 134
>pdb|1K8A|L Chain L, Co-Crystal Structure Of Carbomycin A Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1K9M|L Chain L, Co-Crystal Structure Of Tylosin Bound To The 50s Ribosomal
Subunit Of Haloarcula Marismortui
pdb|1KD1|L Chain L, Co-Crystal Structure Of Spiramycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M1K|L Chain L, Co-Crystal Structure Of Azithromycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M90|L Chain L, Co-Crystal Structure Of Cca-Phe-Caproic Acid-Biotin And
Sparsomycin Bound To The 50s Ribosomal Subunit
pdb|1JJ2|J Chain J, Fully Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution
pdb|1KQS|J Chain J, The Haloarcula Marismortui 50s Complexed With A
Pretranslocational Intermediate In Protein Synthesis
pdb|1FFK|H Chain H, Crystal Structure Of The Large Ribosomal Subunit From
Haloarcula Marismortui At 2.4 Angstrom Resolution
Length = 132
Score = 84.0 bits (206), Expect = 5e-18
Identities = 52/119 (43%), Positives = 74/119 (61%), Gaps = 8/119 (6%)
Query: 8 LNVADNSGAKEIMCIKVLG--GSHKRY--ASVGSVIVASVKKAIPNGKVKRGQVVKAVVV 63
+ ADN+GA+E+ I V G G+ R+ A +G I SV K P R QV++AVVV
Sbjct: 18 ITCADNTGARELKVISVHGYSGTKNRHPKAGLGDKITVSVTKGTPE---MRRQVLEAVVV 74
Query: 64 RTKKEIQRKNGSLVRFDDNAAVILDAKKDPVGTRIFGPVSREVRYANFMKIISLAPEVV 122
R +K I+R +G+ V+F+DNAAVI+D +DP GT + GP++REV F + S A +V
Sbjct: 75 RQRKPIRRPDGTRVKFEDNAAVIVDENEDPRGTELKGPIAREVA-QRFGSVASAATMIV 132
>pdb|1LPQ|A Chain A, Human Dna Topoisomerase I (70 Kda) In Non-Covalent Complex
With A 22 Base Pair Dna Duplex Containing An 8-Oxog
Lesion
Length = 564
Score = 25.4 bits (54), Expect = 1.9
Identities = 16/54 (29%), Positives = 26/54 (47%)
Query: 43 VKKAIPNGKVKRGQVVKAVVVRTKKEIQRKNGSLVRFDDNAAVILDAKKDPVGT 96
+K A + KV + K VV KK +QR L++ + A + K+ +GT
Sbjct: 464 LKSAKADAKVMKDAKTKKVVESKKKAVQRLEEQLMKLEVQATDREENKQIALGT 517
>pdb|1EJ9|A Chain A, Crystal Structure Of Human Topoisomerase I Dna Complex
Length = 563
Score = 25.4 bits (54), Expect = 1.9
Identities = 16/54 (29%), Positives = 26/54 (47%)
Query: 43 VKKAIPNGKVKRGQVVKAVVVRTKKEIQRKNGSLVRFDDNAAVILDAKKDPVGT 96
+K A + KV + K VV KK +QR L++ + A + K+ +GT
Sbjct: 463 LKSAKADAKVMKDAKTKKVVESKKKAVQRLEEQLMKLEVQATDREENKQIALGT 516
>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 = 25.4 bits (54), Expect = 1.9
Identities = 16/54 (29%), Positives = 26/54 (47%)
Query: 43 VKKAIPNGKVKRGQVVKAVVVRTKKEIQRKNGSLVRFDDNAAVILDAKKDPVGT 96
+K A + KV + K VV KK +QR L++ + A + K+ +GT
Sbjct: 492 LKSAKADAKVMKDAKTKKVVESKKKAVQRLEEQLMKLEVQATDREENKQIALGT 545
>pdb|1K92|A Chain A, Crystal Structure Of Uncomplexed E. Coli Argininosuccinate
Synthetase
pdb|1KP3|A Chain A, Crystal Structure Of E. Coli Argininosuccinate Synthetase
In Complex With Atp And Citrulline
pdb|1K97|A Chain A, Crystal Structure Of E. Coli Argininosuccinate Synthetase
In Complex With Aspartate And Citrulline
pdb|1KP2|A Chain A, Crystal Structure Of E. Coli Argininosuccinate Synthetase
In Complex With Atp
Length = 455
Score = 25.0 bits (53), Expect = 2.5
Identities = 13/42 (30%), Positives = 23/42 (53%)
Query: 79 FDDNAAVILDAKKDPVGTRIFGPVSREVRYANFMKIISLAPE 120
FD A ++ D+ + V ++I G V+ E+R N I++ E
Sbjct: 336 FDSQALMLRDSLQRWVASQITGEVTLELRRGNDYSILNTVSE 377
>pdb|1LKV|X Chain X, Crystal Structure Of The Middle And C-Terminal Domains Of
The Flagellar Rotor Protein Flig
Length = 232
Score = 23.1 bits (48), Expect = 9.4
Identities = 20/70 (28%), Positives = 28/70 (39%), Gaps = 3/70 (4%)
Query: 56 QVVKAVVVRTKKEIQRKNGSLVRFDDNAAVILDAKKDPVGTRIFGPVSREVRYANFMKII 115
QV VR +Q N AV+L PV +I G + E++ +I
Sbjct: 1 QVKPFSFVRDTDPVQLVNFLQSEHPQTIAVVLSYLDPPVAAQILGALPEELQTEVLKRIA 60
Query: 116 SL---APEVV 122
L +PEVV
Sbjct: 61 LLERTSPEVV 70
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 0.135 0.366
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 629,851
Number of Sequences: 13198
Number of extensions: 21266
Number of successful extensions: 33
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: 24
Number of HSP's gapped (non-prelim): 8
length of query: 122
length of database: 2,899,336
effective HSP length: 77
effective length of query: 45
effective length of database: 1,883,090
effective search space: 84739050
effective search space used: 84739050
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 48 (23.1 bits)