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|15645077|ref|NP_207247.1| hypothetical protein
[Helicobacter pylori 26695]
(472 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|1LKV|X Chain X, Crystal Structure Of The Middle And C-T... 32 0.15
pdb|2FOK|A Chain A, Structure Of Restriction Endonuclease F... 29 1.3
pdb|1JI4|A Chain A, Nap Protein From Helicobacter Pylori >g... 29 1.3
pdb|1FOK|A Chain A, Structure Of Restriction Endonuclease F... 28 2.2
pdb|177L| Lysozyme (E.C.3.2.1.17) Mutant With Cys 54 Repl... 27 3.8
pdb|1IMH|C Chain C, TonebpDNA COMPLEX >gi|18655511|pdb|1IMH... 27 3.8
>pdb|1LKV|X Chain X, Crystal Structure Of The Middle And C-Terminal Domains Of
The Flagellar Rotor Protein Flig
Length = 232
Score = 32.0 bits (71), Expect = 0.15
Identities = 25/94 (26%), Positives = 44/94 (46%), Gaps = 15/94 (15%)
Query: 70 DDSKEIRVECKNHPIEKMAEKLEETNPEWFEKWREKQYTQTGESKPSKRIKVFKNFTAFD 129
D + EI +K+ +KL + NPE ++ R +R+ VF++ D
Sbjct: 96 DTAAEIMNNLDRTTEKKIMDKLVQENPELADEIR-------------RRMFVFEDILKLD 142
Query: 130 DRLYTIECNLKNLDTHQKKFEICGALYDIYEQIF 163
DR +I+ L+ +DT + GA ++ E+IF
Sbjct: 143 DR--SIQLVLREVDTRDLALALKGASDELKEKIF 174
>pdb|2FOK|A Chain A, Structure Of Restriction Endonuclease Foki
pdb|2FOK|B Chain B, Structure Of Restriction Endonuclease Foki
Length = 579
Score = 28.9 bits (63), Expect = 1.3
Identities = 34/132 (25%), Positives = 55/132 (40%), Gaps = 21/132 (15%)
Query: 128 FDDRLYTIECNLKNLDTHQKKFEICGALYDIYEQIFD-------ETPSLKGRDLETYKAQ 180
FD+ + TIE ++K L EI G Y + + I P L +LE K++
Sbjct: 337 FDEVIETIENDIKGLINTGIFIEIKGRFYQLKDHILQFVIPNRLGKPDLVKSELEEKKSE 396
Query: 181 DLSK-KFMHLGFEQISKDLNDSRLNALLCYEEKVMQALAKKYPSFLQDLHDIKKYRNKDK 239
K K++ + ++ + +S + +L E KVM+ K Y YR K
Sbjct: 397 LRHKLKYVPHEYIELIEIARNSTQDRIL--EMKVMEFFMKVY-----------GYRGKHL 443
Query: 240 HGEKPQDGSSLT 251
G + DG+ T
Sbjct: 444 GGSRKPDGAIYT 455
>pdb|1JI4|A Chain A, Nap Protein From Helicobacter Pylori
pdb|1JI4|B Chain B, Nap Protein From Helicobacter Pylori
pdb|1JI4|C Chain C, Nap Protein From Helicobacter Pylori
pdb|1JI4|D Chain D, Nap Protein From Helicobacter Pylori
pdb|1JI4|E Chain E, Nap Protein From Helicobacter Pylori
pdb|1JI4|F Chain F, Nap Protein From Helicobacter Pylori
pdb|1JI4|G Chain G, Nap Protein From Helicobacter Pylori
pdb|1JI4|H Chain H, Nap Protein From Helicobacter Pylori
pdb|1JI4|I Chain I, Nap Protein From Helicobacter Pylori
pdb|1JI4|J Chain J, Nap Protein From Helicobacter Pylori
pdb|1JI4|K Chain K, Nap Protein From Helicobacter Pylori
pdb|1JI4|L Chain L, Nap Protein From Helicobacter Pylori
Length = 144
Score = 28.9 bits (63), Expect = 1.3
Identities = 25/103 (24%), Positives = 44/103 (42%), Gaps = 19/103 (18%)
Query: 60 EVYYLHAKAFDDSKEIRVECKNHPIEKMAEKL------EETNPEWFE-----------KW 102
E+Y A FDD E V+ +HP+ ++E + EET + K+
Sbjct: 42 EIYEEFADMFDDLAERIVQLGHHPLVTLSEAIKLTRVKEETKTSFHSKDIFKEILEDYKY 101
Query: 103 REKQYTQTGESKPSKRIKVFKNFTAFDDRLYTIECNLKNLDTH 145
EK++ + + + KV T DD+L ++ ++ L H
Sbjct: 102 LEKEFKELSNTAEKEGDKV--TVTYADDQLAKLQKSIWMLQAH 142
>pdb|1FOK|A Chain A, Structure Of Restriction Endonuclease Foki Bound To Dna
Length = 568
Score = 28.1 bits (61), Expect = 2.2
Identities = 34/132 (25%), Positives = 55/132 (40%), Gaps = 21/132 (15%)
Query: 128 FDDRLYTIECNLKNLDTHQKKFEICGALYDIYEQIFD-------ETPSLKGRDLETYKAQ 180
FD+ + TIE ++K L EI G Y + + I T L +LE K++
Sbjct: 326 FDEVIETIENDIKGLINTGIFIEIKGRFYQLKDHILQFVIPNRGVTKQLVKSELEEKKSE 385
Query: 181 DLSK-KFMHLGFEQISKDLNDSRLNALLCYEEKVMQALAKKYPSFLQDLHDIKKYRNKDK 239
K K++ + ++ + +S + +L E KVM+ K Y YR K
Sbjct: 386 LRHKLKYVPHEYIELIEIARNSTQDRIL--EMKVMEFFMKVY-----------GYRGKHL 432
Query: 240 HGEKPQDGSSLT 251
G + DG+ T
Sbjct: 433 GGSRKPDGAIYT 444
>pdb|177L| Lysozyme (E.C.3.2.1.17) Mutant With Cys 54 Replaced By Thr, Cys 97
Replaced By Ala, Asp 127 Replaced By Cys, Arg 154
Replaced By Cys (C54t,C97a,D127c,R154c)
pdb|178L| Lysozyme (E.C.3.2.1.17) Mutant With Cys 54 Replaced By Thr, Cys 97
Replaced By Ala, Asp 127 Replaced By Cys, Arg 154
Replaced By Cys (C54t,C97a,D127c,R154c)
pdb|179L| Lysozyme (E.C.3.2.1.17) Mutant With Cys 54 Replaced By Ala, Cys 97
Replaced By Ala, Asp 127 Replaced By Cys, Arg 154
Replaced By Cys (C54a,C97a,D127c,R154c)
Length = 164
Score = 27.3 bits (59), Expect = 3.8
Identities = 12/29 (41%), Positives = 19/29 (65%), Gaps = 1/29 (3%)
Query: 311 CFVGVNLAKAKYYSKKEEREKEKMILNFC 339
C VNLAK+++Y++ R K ++I FC
Sbjct: 127 CEAAVNLAKSRWYNQTPNRAK-RVITTFC 154
>pdb|1IMH|C Chain C, TonebpDNA COMPLEX
pdb|1IMH|D Chain D, TonebpDNA COMPLEX
Length = 281
Score = 27.3 bits (59), Expect = 3.8
Identities = 11/33 (33%), Positives = 19/33 (57%)
Query: 262 IYFLVENLLKNPLIKERENAQEEKHYKKNAEID 294
++ + +N LK + +EN +E +K AEID
Sbjct: 200 VFLIGKNFLKGTKVIFQENVSDENSWKSEAEID 232
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
0.317 0.135 0.386
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,791,653
Number of Sequences: 13198
Number of extensions: 120567
Number of successful extensions: 568
Number of sequences better than 10.0: 6
Number of HSP's better than 10.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 567
Number of HSP's gapped (non-prelim): 6
length of query: 472
length of database: 2,899,336
effective HSP length: 92
effective length of query: 380
effective length of database: 1,685,120
effective search space: 640345600
effective search space used: 640345600
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: 56 (26.2 bits)