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|15645283|ref|NP_207453.1| hypothetical protein
[Helicobacter pylori 26695]
(414 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|1IRU|C Chain C, Crystal Structure Of The Mammalian 20s ... 31 0.29
pdb|1JCH|A Chain A, Crystal Structure Of Colicin E3 In Comp... 29 0.85
pdb|1JAD|A Chain A, C-Terminal Domain Of Turkey Plc-Beta >g... 29 1.1
pdb|1A36|A Chain A, Human Dna Topoisomerase I (70 Kda) In N... 28 2.5
pdb|1A31|A Chain A, Human Reconstituted Dna Topoisomerase I... 28 2.5
pdb|1A35|A Chain A, Human Reconstituted Dna Topoisomerase I... 28 2.5
pdb|1A6F| Rnase P Protein From Bacillus Subtilis 27 3.2
pdb|1CMX|A Chain A, Structural Basis For The Specificity Of... 27 4.2
pdb|1B43|A Chain A, Fen-1 From P. Furiosus >gi|6980605|pdb|... 27 5.5
pdb|1TDJ| Threonine Deaminase (Biosynthetic) From E. Coli 27 5.5
pdb|1LRZ|A Chain A, X-Ray Crystal Structure Of Staphylococc... 27 5.5
pdb|1BCC|E Chain E, Cytochrome Bc1 Complex From Chicken >gi... 27 5.5
pdb|1QS1|A Chain A, Crystal Structure Of Vegetative Insecti... 26 7.2
pdb|1CLQ|A Chain A, Crystal Structure Of A Replication Fork... 26 7.2
pdb|1IG9|A Chain A, Structure Of The Replicating Complex Of... 26 7.2
pdb|1FL3|B Chain B, Crystal Structure Of The Blue Fluoresce... 26 7.2
pdb|1VPE| Crystallographic Analysis Of Phosphoglycerate K... 26 9.4
pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dn... 26 9.4
>pdb|1IRU|C Chain C, Crystal Structure Of The Mammalian 20s Proteasome At 2.75
A Resolution
pdb|1IRU|Q Chain Q, Crystal Structure Of The Mammalian 20s Proteasome At 2.75
A Resolution
Length = 261
Score = 30.8 bits (68), Expect = 0.29
Identities = 22/76 (28%), Positives = 35/76 (45%), Gaps = 5/76 (6%)
Query: 9 LKALLFIGIVYAEPESKVEALEGRKQESSL-----DKKIRQELKNKDLKNKELKNKKEEK 63
LK+ L + I V L K E + K + + LK K+++ K+++EE
Sbjct: 186 LKSALALAIKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEVEQLIKKHEEEEA 245
Query: 64 KNTEEKKETKAKRKPR 79
K EKKE + K K +
Sbjct: 246 KAEREKKEKEQKEKDK 261
>pdb|1JCH|A Chain A, Crystal Structure Of Colicin E3 In Complex With Its
Immunity Protein
pdb|1JCH|C Chain C, Crystal Structure Of Colicin E3 In Complex With Its
Immunity Protein
Length = 551
Score = 29.3 bits (64), Expect = 0.85
Identities = 26/100 (26%), Positives = 36/100 (36%), Gaps = 13/100 (13%)
Query: 55 ELKNKKEEKKNTEEKKETKAKRKPRAEV-HHGDTKNPTQKI------------TPPKIKE 101
E + KKE+KK + E K KPR +G +P K P K+
Sbjct: 430 ESRKKKEDKKRSAENNLNDEKNKPRKGFKDYGHDYHPAPKTENIKGLGDLKPGIPKTPKQ 489
Query: 102 NAKGVQNQGVQSNAPKLEEKDTTSQTLEKKGASPSSQFNS 141
N G + + K+ E D+ LE AS S
Sbjct: 490 NGGGKRKRWTGDKGRKIYEWDSQHGELEGYRASDGQHLGS 529
>pdb|1JAD|A Chain A, C-Terminal Domain Of Turkey Plc-Beta
pdb|1JAD|B Chain B, C-Terminal Domain Of Turkey Plc-Beta
Length = 251
Score = 28.9 bits (63), Expect = 1.1
Identities = 25/110 (22%), Positives = 48/110 (42%), Gaps = 6/110 (5%)
Query: 27 EALEGRKQESSLDK--KIRQELKNKDLKNKELKNKKEEKKNTEEKKETKAKRKPRAEVHH 84
+ + RK++ + ++ KI + + K + + + E + KK+ +AKR R +V
Sbjct: 96 DGIRRRKEQHATEQTAKITELAREKQIAELKALKESSESNIKDIKKKLEAKRLDRIQV-- 153
Query: 85 GDTKNPTQKITPPKIKENAKGVQNQGVQSNAPKLEEKDTT-SQTLEKKGA 133
++ + K ++K+ Q V L EK Q LE+K A
Sbjct: 154 -XXRSTSDKAAQERLKKEINNSHIQEVVQTIKLLTEKTARYQQKLEEKQA 202
>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 = 27.7 bits (60), Expect = 2.5
Identities = 25/80 (31%), Positives = 36/80 (44%), Gaps = 3/80 (3%)
Query: 47 KNKDLKNKELKNKKEEKKNTEEKKET--KAKRKPRA-EVHHGDTKNPTQKITPPKIKENA 103
K+KD K E NKK++ K EE+K + +R P + + K P + EN
Sbjct: 6 KDKDKKVPEPDNKKKKPKKEEEQKWKWWEEERYPEGIKWKFLEHKGPVFAPPYEPLPENV 65
Query: 104 KGVQNQGVQSNAPKLEEKDT 123
K + V +PK EE T
Sbjct: 66 KFYYDGKVMKLSPKAEEVAT 85
>pdb|1A31|A Chain A, Human Reconstituted Dna Topoisomerase I In Covalent
Complex With A 22 Base Pair Dna Duplex
Length = 538
Score = 27.7 bits (60), Expect = 2.5
Identities = 25/80 (31%), Positives = 36/80 (44%), Gaps = 3/80 (3%)
Query: 47 KNKDLKNKELKNKKEEKKNTEEKKET--KAKRKPRA-EVHHGDTKNPTQKITPPKIKENA 103
K+KD K E NKK++ K EE+K + +R P + + K P + EN
Sbjct: 5 KDKDKKVPEPDNKKKKPKKEEEQKWKWWEEERYPEGIKWKFLEHKGPVFAPPYEPLPENV 64
Query: 104 KGVQNQGVQSNAPKLEEKDT 123
K + V +PK EE T
Sbjct: 65 KFYYDGKVMKLSPKAEEVAT 84
>pdb|1A35|A Chain A, Human Reconstituted Dna Topoisomerase I In Non-Covalent
Complex With A 22 Base Pair Dna Duplex
Length = 538
Score = 27.7 bits (60), Expect = 2.5
Identities = 25/80 (31%), Positives = 36/80 (44%), Gaps = 3/80 (3%)
Query: 47 KNKDLKNKELKNKKEEKKNTEEKKET--KAKRKPRA-EVHHGDTKNPTQKITPPKIKENA 103
K+KD K E NKK++ K EE+K + +R P + + K P + EN
Sbjct: 5 KDKDKKVPEPDNKKKKPKKEEEQKWKWWEEERYPEGIKWKFLEHKGPVFAPPYEPLPENV 64
Query: 104 KGVQNQGVQSNAPKLEEKDT 123
K + V +PK EE T
Sbjct: 65 KFYYDGKVMKLSPKAEEVAT 84
>pdb|1A6F| Rnase P Protein From Bacillus Subtilis
Length = 119
Score = 27.3 bits (59), Expect = 3.2
Identities = 16/58 (27%), Positives = 28/58 (47%)
Query: 37 SLDKKIRQELKNKDLKNKELKNKKEEKKNTEEKKETKAKRKPRAEVHHGDTKNPTQKI 94
S+ KKI + +K + EEK+ +EK RKP +++ + +TK Q +
Sbjct: 49 SVSKKIGNAVMRNRIKRLIRQAFLEEKERLKEKDYIIIARKPASQLTYEETKKSLQHL 106
>pdb|1CMX|A Chain A, Structural Basis For The Specificity Of Ubiquitin C-
Terminal Hydrolases
pdb|1CMX|C Chain C, Structural Basis For The Specificity Of Ubiquitin C-
Terminal Hydrolases
Length = 236
Score = 26.9 bits (58), Expect = 4.2
Identities = 21/62 (33%), Positives = 28/62 (44%), Gaps = 2/62 (3%)
Query: 255 LEMQELLRNILLTNVDTSSETKMREYYNKHKEQFSIPTEIETVRYTSTNQEDLERAMADP 314
LE L N L + DTSS + + +QF + E V+ ST Q + A AD
Sbjct: 106 LEPGSDLDNFLKSQSDTSSSKN--RFDDVTTDQFVLNVIKENVQTFSTGQSEAPEATADT 163
Query: 315 NL 316
NL
Sbjct: 164 NL 165
>pdb|1B43|A Chain A, Fen-1 From P. Furiosus
pdb|1B43|B Chain B, Fen-1 From P. Furiosus
Length = 340
Score = 26.6 bits (57), Expect = 5.5
Identities = 30/113 (26%), Positives = 52/113 (45%), Gaps = 9/113 (7%)
Query: 50 DLKNKELKNKKEEKKNTEEKKETKAKRKPRAEVHHGDTKNPTQKITPPKIKENAKGVQNQ 109
+ K KEL+ ++E ++ EEK +A K E + T ++ I++ K ++
Sbjct: 85 EFKKKELEKRREAREEAEEKWR-EALEKGEIEEARKYAQRAT-RVNEMLIEDAKKLLELM 142
Query: 110 GVQ-SNAPKLEEKDTTSQTLEKKG---ASPSSQFNS-IFGNPNDAANNTLEDK 157
G+ AP E + + + KG AS S ++S +FG P N T+ K
Sbjct: 143 GIPIVQAP--SEGEAQAAYMAAKGSVYASASQDYDSLLFGAPRLVRNLTITGK 193
>pdb|1TDJ| Threonine Deaminase (Biosynthetic) From E. Coli
Length = 514
Score = 26.6 bits (57), Expect = 5.5
Identities = 19/73 (26%), Positives = 31/73 (42%), Gaps = 1/73 (1%)
Query: 305 EDLERAMADPNLEIPGVSKANEKIEMKTLNPQIAQVFISHEQGSFTPVMNGGGGQFIT-F 363
E L ++ N+ G+ +E+ E+ + V I E+GSF GG+ +T F
Sbjct: 308 ERLAHILSGANVNFHGLRYVSERCELGEQREALLAVTIPEEKGSFLKFCQLLGGRSVTEF 367
Query: 364 YIKEKKGKNEVSF 376
+ KN F
Sbjct: 368 NYRFADAKNACIF 380
>pdb|1LRZ|A Chain A, X-Ray Crystal Structure Of Staphylococcus Aureus Fema
Length = 426
Score = 26.6 bits (57), Expect = 5.5
Identities = 15/59 (25%), Positives = 30/59 (50%), Gaps = 2/59 (3%)
Query: 30 EGRKQESSLDKKIRQELKN--KDLKNKELKNKKEEKKNTEEKKETKAKRKPRAEVHHGD 86
E ++ L+K + + LK+ K +NK+ NK++ + + E K + R + HG+
Sbjct: 251 ELNEERDILNKDLNKALKDIEKRPENKKAHNKRDNLQQQLDANEQKIEEGKRLQEEHGN 309
>pdb|1BCC|E Chain E, Cytochrome Bc1 Complex From Chicken
pdb|2BCC|E Chain E, Stigmatellin-Bound Cytochrome Bc1 Complex From Chicken
pdb|3BCC|E Chain E, Stigmatellin And Antimycin Bound Cytochrome Bc1 Complex
From Chicken
Length = 196
Score = 26.6 bits (57), Expect = 5.5
Identities = 21/100 (21%), Positives = 39/100 (39%)
Query: 2 RKIFSYVLKALLFIGIVYAEPESKVEALEGRKQESSLDKKIRQELKNKDLKNKELKNKKE 61
RK FSY++ A+ +G+ YA + + + + + E+K D+ + K
Sbjct: 32 RKGFSYLVTAVTTLGVAYAAKNVVTQFVSSMSASADVLAMSKIEIKLSDIPEGKNMAFKW 91
Query: 62 EKKNTEEKKETKAKRKPRAEVHHGDTKNPTQKITPPKIKE 101
K + TK + A V ++P + K E
Sbjct: 92 RGKPLFVRHRTKKEIDQEAAVEVSQLRDPQHDLERVKKPE 131
>pdb|1QS1|A Chain A, Crystal Structure Of Vegetative Insecticidal Protein2
(Vip2)
pdb|1QS1|B Chain B, Crystal Structure Of Vegetative Insecticidal Protein2
(Vip2)
pdb|1QS1|C Chain C, Crystal Structure Of Vegetative Insecticidal Protein2
(Vip2)
pdb|1QS1|D Chain D, Crystal Structure Of Vegetative Insecticidal Protein2
(Vip2)
Length = 462
Score = 26.2 bits (56), Expect = 7.2
Identities = 43/218 (19%), Positives = 87/218 (39%), Gaps = 21/218 (9%)
Query: 42 IRQELKNKDLKNKELKNKKEEKKNTEEKKETKAKRKPRAEVHHGDTKNPTQKITPPK--I 99
I + K +L+N ++ +K E+ K +EK + K K + K K I
Sbjct: 45 INSQSKYTNLQNLKITDKVEDFKEDKEKAKEWGKEKEKEWKLTATEKGKMNNFLDNKNDI 104
Query: 100 KENAKGVQNQGVQSNAPKLEEKDTTSQTLEKKGASPSSQFNSIFGNPNDAANNTLEDKVV 159
K N K + S ++++ + +K S NSI N +E +
Sbjct: 105 KTNYKEITFSMAGSFEDEIKDLKEIDKMFDKTNLS-----NSIITYKN------VEPTTI 153
Query: 160 GGISLLVNGSPI---TLYQIQEEQEKSKVSKAQARD-RLIAERIKNQEIERLKIHVDDDK 215
G L G+ I + Q +E+ + D L A+++ ++E LK+ V K
Sbjct: 154 GFNKSLTEGNTINSDAMAQFKEQFLDRDIKFDSYLDTHLTAQQVSSKERVILKVTVPSGK 213
Query: 216 LDQEMAMMAQQQGMDLDHFKQMLMAEGHYKLYRDQLKE 253
+ + G+ L++ + ++ + Y ++ D++ +
Sbjct: 214 ----GSTTPTKAGVILNNSEYKMLIDNGYMVHVDKVSK 247
>pdb|1CLQ|A Chain A, Crystal Structure Of A Replication Fork Dna Polymerase
Editing Complex At 2.7 A Resolution
pdb|1WAJ| Dna Polymerase From Bacteriophage Rb69
pdb|1WAF|A Chain A, Dna Polymerase From Bacteriophage Rb69
pdb|1WAF|B Chain B, Dna Polymerase From Bacteriophage Rb69
pdb|1IH7|A Chain A, High-Resolution Structure Of Apo Rb69 Dna Polymerase
Length = 903
Score = 26.2 bits (56), Expect = 7.2
Identities = 16/41 (39%), Positives = 22/41 (53%), Gaps = 2/41 (4%)
Query: 7 YVLKALLFIGIVYAEPESKVEALEGRKQESSLDKKIRQELK 47
Y L G YAEP+ K+ LE Q+SS K +++ LK
Sbjct: 708 YALNVWDMEGTRYAEPKLKIMGLE--TQKSSTPKAVQKALK 746
>pdb|1IG9|A Chain A, Structure Of The Replicating Complex Of A Pol Alpha Family
Dna Polymerase
Length = 903
Score = 26.2 bits (56), Expect = 7.2
Identities = 16/41 (39%), Positives = 22/41 (53%), Gaps = 2/41 (4%)
Query: 7 YVLKALLFIGIVYAEPESKVEALEGRKQESSLDKKIRQELK 47
Y L G YAEP+ K+ LE Q+SS K +++ LK
Sbjct: 708 YALNVWDMEGTRYAEPKLKIMGLE--TQKSSTPKAVQKALK 746
>pdb|1FL3|B Chain B, Crystal Structure Of The Blue Fluorescent Antibody (19g2)
In Complex With Stilbene Hapten At 277k
pdb|1FL3|L Chain L, Crystal Structure Of The Blue Fluorescent Antibody (19g2)
In Complex With Stilbene Hapten At 277k
Length = 214
Score = 26.2 bits (56), Expect = 7.2
Identities = 26/105 (24%), Positives = 45/105 (42%), Gaps = 13/105 (12%)
Query: 296 TVRYTSTNQEDLERAMADPNLEIPGVSKANEKIEMKTLN--PQIAQVFISHEQGSFTPVM 353
T+R + ED+ NLE+P A K+E+K + P ++ S EQ +
Sbjct: 76 TLRINTVEAEDVGVYYCAQNLELPPTFGAGTKLELKRADAAPTVSIFPPSSEQ------L 129
Query: 354 NGGGGQFI----TFYIKEKKGKNEVSFSQAKQFIAQKLV-EESKD 393
GG + FY K+ K ++ S+ + + ++SKD
Sbjct: 130 TSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKD 174
>pdb|1VPE| Crystallographic Analysis Of Phosphoglycerate Kinase From The
Hyperthermophilic Bacterium Thermotoga Maritima
Length = 398
Score = 25.8 bits (55), Expect = 9.4
Identities = 16/45 (35%), Positives = 20/45 (43%)
Query: 45 ELKNKDLKNKELKNKKEEKKNTEEKKETKAKRKPRAEVHHGDTKN 89
EL K++K E KK EE KE + H G+TKN
Sbjct: 81 ELLGKEVKFVPAVVGDEVKKAVEELKEGEVLLLENTRFHPGETKN 125
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 25.8 bits (55), Expect = 9.4
Identities = 15/71 (21%), Positives = 30/71 (42%)
Query: 32 RKQESSLDKKIRQELKNKDLKNKELKNKKEEKKNTEEKKETKAKRKPRAEVHHGDTKNPT 91
R++ + KKI +L + +K+ K +K+ +E + KP + GD +
Sbjct: 343 REKHGGIPKKIEGKLAEEFIKSLPFKLTNAQKRAHQEIRNDMISEKPMNRLLQGDVGSGK 402
Query: 92 QKITPPKIKEN 102
+ I +N
Sbjct: 403 TVVAQLAILDN 413
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
0.309 0.128 0.336
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,217,654
Number of Sequences: 13198
Number of extensions: 91936
Number of successful extensions: 204
Number of sequences better than 10.0: 18
Number of HSP's better than 10.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 196
Number of HSP's gapped (non-prelim): 20
length of query: 414
length of database: 2,899,336
effective HSP length: 91
effective length of query: 323
effective length of database: 1,698,318
effective search space: 548556714
effective search space used: 548556714
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 55 (25.8 bits)