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|15645292|ref|NP_207462.1| hypothetical protein
[Helicobacter pylori 26695]
(607 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|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb... 36 0.011
pdb|1C4O|A Chain A, Crystal Structure Of The Dna Nucleotide... 36 0.011
pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Termin... 33 0.12
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a >gi|11513344... 32 0.27
pdb|1B89|A Chain A, Clathrin Heavy Chain Proximal Leg Segme... 30 0.59
pdb|1F1M|A Chain A, Crystal Structure Of Outer Surface Prot... 30 0.59
pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Pro... 30 0.78
pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Pro... 30 0.78
pdb|1I2W|B Chain B, Beta-Lactamase From Bacillus Lichenifor... 29 1.3
pdb|1FVS|A Chain A, Solution Structure Of The Yeast Copper ... 29 1.7
pdb|1JIH|B Chain B, Yeast Dna Polymerase Eta >gi|18158625|p... 27 5.0
pdb|1PD2|1 Chain 1, Crystal Structure Of Hematopoietic Pros... 27 6.6
pdb|1G5G|A Chain A, Fragment Of Fusion Protein From Newcast... 27 8.6
>pdb|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb8; A Nucleotide
Excision Repair Enzyme
Length = 665
Score = 36.2 bits (82), Expect = 0.011
Identities = 29/81 (35%), Positives = 41/81 (49%), Gaps = 5/81 (6%)
Query: 97 PRSHQTEAINATKEYFSDPKNARGKLIMACGTGKTYTSLKIMEALDSKITLFLAPS---I 153
P+ Q +AI E D + L+ A GTGKT T K++EAL + L LAP+
Sbjct: 10 PKGDQPKAIAGLVEALRDGERFV-TLLGATGTGKTVTMAKVIEAL-GRPALVLAPNKILA 67
Query: 154 ALLSQTFREYAQEKSEPFYAS 174
A L+ FRE E + ++ S
Sbjct: 68 AQLAAEFRELFPENAVEYFIS 88
>pdb|1C4O|A Chain A, Crystal Structure Of The Dna Nucleotide Excision Repair
Enzyme Uvrb From Thermus Thermophilus
Length = 664
Score = 36.2 bits (82), Expect = 0.011
Identities = 29/81 (35%), Positives = 41/81 (49%), Gaps = 5/81 (6%)
Query: 97 PRSHQTEAINATKEYFSDPKNARGKLIMACGTGKTYTSLKIMEALDSKITLFLAPS---I 153
P+ Q +AI E D + L+ A GTGKT T K++EAL + L LAP+
Sbjct: 9 PKGDQPKAIAGLVEALRDGERFV-TLLGATGTGKTVTMAKVIEAL-GRPALVLAPNKILA 66
Query: 154 ALLSQTFREYAQEKSEPFYAS 174
A L+ FRE E + ++ S
Sbjct: 67 AQLAAEFRELFPENAVEYFIS 87
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 32.7 bits (73), Expect = 0.12
Identities = 30/135 (22%), Positives = 61/135 (44%), Gaps = 19/135 (14%)
Query: 397 KQDLIVLNEKNKEDHNLQNQYDTAPSQRAINFCKSINTSKNIKDSFETIMECYDEELKKK 456
KQ + + E+ + L + YD+ +A+ FC NT + + EEL K
Sbjct: 5 KQFYVNVEEEEYKYECLTDLYDSISVTQAVIFC---NTRRKV------------EELTTK 49
Query: 457 SFKNLKISIDHIDGTMNCKDRLEKLEELNQFEPNTCKVLSNARCLSEGVDVPALDSIVFF 516
+N K ++ I + ++R ++E F + ++L + L+ G+DV + ++ +
Sbjct: 50 -LRNDKFTVSAIYSDLPQQERDTIMKE---FRSGSSRILISTDLLARGIDVQQVSLVINY 105
Query: 517 DGKSAMVDIIQAVGR 531
D + + I +GR
Sbjct: 106 DLPANKENYIHRIGR 120
>pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
Length = 394
Score = 31.6 bits (70), Expect = 0.27
Identities = 30/135 (22%), Positives = 60/135 (44%), Gaps = 19/135 (14%)
Query: 397 KQDLIVLNEKNKEDHNLQNQYDTAPSQRAINFCKSINTSKNIKDSFETIMECYDEELKKK 456
KQ + + E+ + L + YD+ +A+ FC NT + + EEL K
Sbjct: 234 KQFYVNVEEEEYKYECLTDLYDSISVTQAVIFC---NTRRKV------------EELTTK 278
Query: 457 SFKNLKISIDHIDGTMNCKDRLEKLEELNQFEPNTCKVLSNARCLSEGVDVPALDSIVFF 516
+N K ++ I + ++R +E F + ++L + L+ G+DV + ++ +
Sbjct: 279 -LRNDKFTVSAIYSDLPQQERDTIXKE---FRSGSSRILISTDLLARGIDVQQVSLVINY 334
Query: 517 DGKSAMVDIIQAVGR 531
D + + I +GR
Sbjct: 335 DLPANKENYIHRIGR 349
>pdb|1B89|A Chain A, Clathrin Heavy Chain Proximal Leg Segment (Bovine)
Length = 449
Score = 30.4 bits (67), Expect = 0.59
Identities = 34/141 (24%), Positives = 66/141 (46%), Gaps = 21/141 (14%)
Query: 461 LKISIDHIDGTMNCKDRLEKLEELNQFEPNTCKVLSNARCLSEGVDVPALDSIVFFDGKS 520
+++ I+HI N E E N EP L+ A+ L +G+ A+DS + D S
Sbjct: 9 VQVLIEHIG---NLDRAYEFAERCN--EPAVWSQLAKAQ-LQKGMVKEAIDSYIKADDPS 62
Query: 521 AMVDIIQAVG---------RVMRKAKRKKR-GYI---ILPIALEESEIQNLDEAVNNTNF 567
+ ++++QA + ++ A++K R Y+ ++ + + + L+E +N N
Sbjct: 63 SYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFALAKTNRLAELEEFINGPNN 122
Query: 568 KNIWKVIKALRSHDPSLVDEA 588
+I +V R +D + D A
Sbjct: 123 AHIQQV--GDRCYDEKMYDAA 141
>pdb|1F1M|A Chain A, Crystal Structure Of Outer Surface Protein C (Ospc)
pdb|1F1M|B Chain B, Crystal Structure Of Outer Surface Protein C (Ospc)
pdb|1F1M|C Chain C, Crystal Structure Of Outer Surface Protein C (Ospc)
pdb|1F1M|D Chain D, Crystal Structure Of Outer Surface Protein C (Ospc)
Length = 164
Score = 30.4 bits (67), Expect = 0.59
Identities = 33/117 (28%), Positives = 55/117 (46%), Gaps = 11/117 (9%)
Query: 298 SESSKAKAKESDNVIYSMDDAEIFGEEIYTLNFSKAIALDLLTDYKVIILAVRKENLSG- 356
+E SK K ES+ V+ ++ + E I L +KAI + +D + A +L
Sbjct: 6 TEISK-KITESNAVVLAVKEVETLLTSIDEL--AKAIGKKIKSDVSLDNEADHNGSLMSG 62
Query: 357 ---VTNSVNKKISQLKAEG---TKLDK-KLINNEFVCKIIGTHKGLAKQDLIVLNEK 406
++ + KKIS +K G +++K K + EF K+ G H L K+ + N K
Sbjct: 63 AYLISTLITKKISAIKDSGELKAEIEKAKKCSEEFTAKLKGEHTDLGKEGVTDDNAK 119
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 30.0 bits (66), Expect = 0.78
Identities = 19/74 (25%), Positives = 32/74 (42%), Gaps = 9/74 (12%)
Query: 478 LEKLEELNQFEPNTCKVLSNARCLSEGVDVPALDSIVFFDGKS-----AMVDIIQAVGRV 532
LE++E + VL L EG+D+P + + D + +IQ +GR
Sbjct: 482 LERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRA 541
Query: 533 MRKAKRKKRGYIIL 546
R A G++I+
Sbjct: 542 ARNA----NGHVIM 551
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 30.0 bits (66), Expect = 0.78
Identities = 19/74 (25%), Positives = 32/74 (42%), Gaps = 9/74 (12%)
Query: 478 LEKLEELNQFEPNTCKVLSNARCLSEGVDVPALDSIVFFDGKS-----AMVDIIQAVGRV 532
LE++E + VL L EG+D+P + + D + +IQ +GR
Sbjct: 481 LERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRA 540
Query: 533 MRKAKRKKRGYIIL 546
R A G++I+
Sbjct: 541 ARNA----NGHVIM 550
>pdb|1I2W|B Chain B, Beta-Lactamase From Bacillus Licheniformis Bs3 Complexed
With Cefoxitin
pdb|1I2S|A Chain A, Beta-Lactamase From Bacillus Licheniformis Bs3
pdb|1I2S|B Chain B, Beta-Lactamase From Bacillus Licheniformis Bs3
pdb|1I2W|A Chain A, Beta-Lactamase From Bacillus Licheniformis Bs3 Complexed
With Cefoxitin
Length = 282
Score = 29.3 bits (64), Expect = 1.3
Identities = 31/135 (22%), Positives = 57/135 (41%), Gaps = 17/135 (12%)
Query: 401 IVLNEKNKEDHNLQNQYDTAPSQRAINFCKSINTSKNIKDSFETIMECYDEELKKKSFKN 460
++L +K+ ED NQ T +N+ + T K++ D+ T+ E D L+
Sbjct: 70 VLLQQKSIED---LNQRITYTRDDLVNY--NPITEKHV-DTGMTLKELADASLRYSDNTA 123
Query: 461 LKISIDHIDGTMNCKDRLEKL-----------EELNQFEPNTCKVLSNARCLSEGVDVPA 509
+ + I G + K L K+ ELN+ P + S AR L+ + A
Sbjct: 124 QNLILKQIGGPESLKKELRKIGDEVTNPERFEPELNEVNPGETQDTSTARALATSLQAFA 183
Query: 510 LDSIVFFDGKSAMVD 524
L+ + + + ++D
Sbjct: 184 LEDKLPSEKRELLID 198
>pdb|1FVS|A Chain A, Solution Structure Of The Yeast Copper Transporter Domain
Ccc2a In The Apo And Cu(I) Load States
pdb|1FVQ|A Chain A, Solution Structure Of The Yeast Copper Transporter Domain
Ccc2a In The Apo And Cu(I) Loaded States
Length = 72
Score = 28.9 bits (63), Expect = 1.7
Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 345 IILAVRKENLSGVTNSVNKKISQLKAEGTKLDKKLINNE 383
+ILAV S TN++N ++ LK TK D L+ NE
Sbjct: 4 VILAVHGMTCSACTNTINTQLRALKGV-TKCDISLVTNE 41
>pdb|1JIH|B Chain B, Yeast Dna Polymerase Eta
pdb|1JIH|A Chain A, Yeast Dna Polymerase Eta
Length = 531
Score = 27.3 bits (59), Expect = 5.0
Identities = 20/83 (24%), Positives = 39/83 (46%), Gaps = 10/83 (12%)
Query: 323 EEIYTLNFSKAI----ALDLLTDYKVIILAVRKENLSGVTNSVNKKISQLKAEGTKLDKK 378
E+I +L F + DL+TD+ +ILA+ + G+ +S+ + + G
Sbjct: 210 EKIKSLKFEGDVFNPEGRDLITDWDDVILALGSQVCKGIRDSIKDILGYTTSCG------ 263
Query: 379 LINNEFVCKIIGTHKGLAKQDLI 401
L + + VCK+ +K Q ++
Sbjct: 264 LSSTKNVCKLASNYKKPDAQTIV 286
>pdb|1PD2|1 Chain 1, Crystal Structure Of Hematopoietic Prostaglandin D
Synthase Complex With Glutathione
pdb|1PD2|2 Chain 2, Crystal Structure Of Hematopoietic Prostaglandin D
Synthase Complex With Glutathione
Length = 199
Score = 26.9 bits (58), Expect = 6.6
Identities = 14/42 (33%), Positives = 21/42 (49%)
Query: 64 EITEEDFIYSRIDWEKFDPTKTQDEIPLCDKKKPRSHQTEAI 105
+I ED + DW K PT +IP+ + + HQ+ AI
Sbjct: 26 DIKYEDHRIEQADWPKIKPTLPFGKIPVLEVEGLTLHQSLAI 67
>pdb|1G5G|A Chain A, Fragment Of Fusion Protein From Newcastle Disease Virus
pdb|1G5G|B Chain B, Fragment Of Fusion Protein From Newcastle Disease Virus
pdb|1G5G|C Chain C, Fragment Of Fusion Protein From Newcastle Disease Virus
pdb|1G5G|D Chain D, Fragment Of Fusion Protein From Newcastle Disease Virus
pdb|1G5G|E Chain E, Fragment Of Fusion Protein From Newcastle Disease Virus
pdb|1G5G|F Chain F, Fragment Of Fusion Protein From Newcastle Disease Virus
Length = 481
Score = 26.6 bits (57), Expect = 8.6
Identities = 26/107 (24%), Positives = 52/107 (48%), Gaps = 10/107 (9%)
Query: 297 YSESSKAKAKESDNVIYSMDDAEIFGEEIYTLNFSKAIALDLLTDYKVII---LAVRKEN 353
Y E+ ++S N++ S+D + + + K I++ D +VI+ L + E
Sbjct: 381 YGEAVSLIDRQSCNIL-SLDGITLRLSGEFDATYQKNISIQ---DSQVIVTGNLDISTE- 435
Query: 354 LSGVTNSVNKKISQLKAEGTKLDKKLINNEFVCKIIGTHKGLAKQDL 400
L V NS++ + +L+ +KLDK +N + K ++++DL
Sbjct: 436 LGNVNNSISNALDKLEESNSKLDK--VNVKLTSTSSREQKLISEEDL 480
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
0.315 0.132 0.364
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,298,923
Number of Sequences: 13198
Number of extensions: 131920
Number of successful extensions: 255
Number of sequences better than 10.0: 13
Number of HSP's better than 10.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 252
Number of HSP's gapped (non-prelim): 13
length of query: 607
length of database: 2,899,336
effective HSP length: 94
effective length of query: 513
effective length of database: 1,658,724
effective search space: 850925412
effective search space used: 850925412
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 57 (26.6 bits)