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|15644679|ref|NP_206849.1| transcriptional regulator
(hypF) [Helicobacter pylori 26695]
(769 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|1GXT|A Chain A, Hydrogenase Maturation Protein Hypf "ac... 48 5e-06
pdb|1GXU|A Chain A, Hydrogenase Maturation Protein Hypf "ac... 48 5e-06
pdb|2ACY| Acyl-Phosphatase (Common Type) From Bovine Testis 31 0.45
pdb|1APS| Acylphosphatase (E.C.3.6.1.7) (Nmr, 5 Structures) 31 0.45
pdb|2IAD|A Chain A, Class Ii Mhc I-Ad In Complex With An In... 29 2.3
pdb|1F3J|A Chain A, Histocompatibility Antigen I-Ag7 >gi|10... 29 2.3
pdb|1ES0|A Chain A, Crystal Structure Of The Murine Class I... 29 2.3
pdb|1HRU|A Chain A, The Structure Of The Yrdc Gene Product ... 29 2.3
pdb|1K7J|A Chain A, Structural Genomics, Protein Tf1 28 3.8
pdb|1JK8|A Chain A, Crystal Structure Of A Human Insulin Pe... 28 5.0
pdb|1TIT| Titin, Ig Repeat 27, Nmr, Minimized Average Str... 27 8.6
>pdb|1GXT|A Chain A, Hydrogenase Maturation Protein Hypf
"acylphosphatase-Like" N-Terminal Domain (Hypf-Acp) In
Complex With Sulfate
Length = 91
Score = 47.8 bits (112), Expect = 5e-06
Identities = 28/71 (39%), Positives = 41/71 (57%), Gaps = 1/71 (1%)
Query: 22 KITLFGVVQGVGMRPFIYTLAQKLELVGFVRNTQAALEIILPAHKTESFLNALKKGLPPL 81
++ + G VQGVG RPF++ LAQ+L L G V N +E+ L E FL L + PPL
Sbjct: 10 QLRIRGKVQGVGFRPFVWQLAQQLNLHGDVCNDGDGVEVRL-REDPEVFLVQLYQHCPPL 68
Query: 82 ALVEKIIISPY 92
A ++ + P+
Sbjct: 69 ARIDSVEREPF 79
>pdb|1GXU|A Chain A, Hydrogenase Maturation Protein Hypf
"acylphosphatase-Like" N-Terminal Domain (Hypf-Acp) In
Complex With A Substrate. Crystal Grown In The Presence
Of Carbamoylphosphate
Length = 91
Score = 47.8 bits (112), Expect = 5e-06
Identities = 28/71 (39%), Positives = 41/71 (57%), Gaps = 1/71 (1%)
Query: 22 KITLFGVVQGVGMRPFIYTLAQKLELVGFVRNTQAALEIILPAHKTESFLNALKKGLPPL 81
++ + G VQGVG RPF++ LAQ+L L G V N +E+ L E FL L + PPL
Sbjct: 10 QLRIRGKVQGVGFRPFVWQLAQQLNLHGDVCNDGDGVEVRL-REDPEVFLVQLYQHCPPL 68
Query: 82 ALVEKIIISPY 92
A ++ + P+
Sbjct: 69 ARIDSVEREPF 79
>pdb|2ACY| Acyl-Phosphatase (Common Type) From Bovine Testis
Length = 98
Score = 31.2 bits (69), Expect = 0.45
Identities = 15/30 (50%), Positives = 20/30 (66%)
Query: 25 LFGVVQGVGMRPFIYTLAQKLELVGFVRNT 54
+FG VQGV R + +KL LVG+V+NT
Sbjct: 13 IFGKVQGVFFRKYTQAEGKKLGLVGWVQNT 42
>pdb|1APS| Acylphosphatase (E.C.3.6.1.7) (Nmr, 5 Structures)
Length = 98
Score = 31.2 bits (69), Expect = 0.45
Identities = 20/65 (30%), Positives = 34/65 (51%), Gaps = 3/65 (4%)
Query: 25 LFGVVQGVGMRPFIYTLAQKLELVGFVRNTQAAL---EIILPAHKTESFLNALKKGLPPL 81
+FG VQGV R + A+K+ +VG+V+NT ++ P K S + L K P
Sbjct: 13 VFGRVQGVCFRMYAEDEARKIGVVGWVKNTSKGTVTGQVQGPEEKVNSMKSWLSKVGSPS 72
Query: 82 ALVEK 86
+ +++
Sbjct: 73 SRIDR 77
>pdb|2IAD|A Chain A, Class Ii Mhc I-Ad In Complex With An Influenza
Hemagglutinin Peptide 126-138
pdb|1IAO|A Chain A, Class Ii Mhc I-Ad In Complex With Ovalbumin Peptide
323-339
Length = 194
Score = 28.9 bits (63), Expect = 2.3
Identities = 22/61 (36%), Positives = 30/61 (49%), Gaps = 5/61 (8%)
Query: 529 GAYENKIYGAECFVGDLERIEETARFEEFWLLGGQKAIKEPRRLVLEIAL-KHQLNKLLK 587
G Y ++ G E F DL++ + R EF GQ + EP+ + IA KH L L K
Sbjct: 24 GQYTHEFDGDELFYVDLDKKKTVWRLPEF----GQLILFEPQGGLQNIAAEKHNLGILTK 79
Query: 588 R 588
R
Sbjct: 80 R 80
>pdb|1F3J|A Chain A, Histocompatibility Antigen I-Ag7
pdb|1F3J|D Chain D, Histocompatibility Antigen I-Ag7
Length = 182
Score = 28.9 bits (63), Expect = 2.3
Identities = 22/61 (36%), Positives = 30/61 (49%), Gaps = 5/61 (8%)
Query: 529 GAYENKIYGAECFVGDLERIEETARFEEFWLLGGQKAIKEPRRLVLEIAL-KHQLNKLLK 587
G Y ++ G E F DL++ + R EF GQ + EP+ + IA KH L L K
Sbjct: 21 GQYTHEFDGDELFYVDLDKKKTVWRLPEF----GQLILFEPQGGLQNIAAEKHNLGILTK 76
Query: 588 R 588
R
Sbjct: 77 R 77
>pdb|1ES0|A Chain A, Crystal Structure Of The Murine Class Ii Allele I-A(G7)
Complexed With The Glutamic Acid Decarboxylase (Gad65)
Peptide 207-220
Length = 190
Score = 28.9 bits (63), Expect = 2.3
Identities = 22/61 (36%), Positives = 30/61 (49%), Gaps = 5/61 (8%)
Query: 529 GAYENKIYGAECFVGDLERIEETARFEEFWLLGGQKAIKEPRRLVLEIAL-KHQLNKLLK 587
G Y ++ G E F DL++ + R EF GQ + EP+ + IA KH L L K
Sbjct: 24 GQYTHEFDGDELFYVDLDKKKTVWRLPEF----GQLILFEPQGGLQNIAAEKHNLGILTK 79
Query: 588 R 588
R
Sbjct: 80 R 80
>pdb|1HRU|A Chain A, The Structure Of The Yrdc Gene Product From E.Coli
pdb|1HRU|B Chain B, The Structure Of The Yrdc Gene Product From E.Coli
Length = 188
Score = 28.9 bits (63), Expect = 2.3
Identities = 36/151 (23%), Positives = 56/151 (36%), Gaps = 8/151 (5%)
Query: 212 DALLECAKDIQKGKIIALKGLGGFALLCDGRNFQTIERLRLLKNRPLKP----FALMFKD 267
DA+ + + ++IA F + CD + + RL LK RP+ A ++
Sbjct: 8 DAIAAAIDVLNEERVIAYPTEAVFGVGCDPDSETAVXRLLELKQRPVDKGLILIAANYEQ 67
Query: 268 LNTAKQHAFLNALECESLIST-SAPILLARKKPDIKLAPN-IAKNSPFYGVILPYTPLHA 325
L L ++ E++ S P+ P P + V + PL
Sbjct: 68 LKPYIDDTXLTDVQRETIFSRWPGPVTFVFPAP--ATTPRWLTGRFDSLAVRVTDHPLVV 125
Query: 326 LLLDLLDFPIVFTSANFSSLPLASDEAEIDA 356
L P+V TSAN S LP E+ A
Sbjct: 126 ALCQAYGKPLVSTSANLSGLPPCRTVDEVRA 156
>pdb|1K7J|A Chain A, Structural Genomics, Protein Tf1
Length = 206
Score = 28.1 bits (61), Expect = 3.8
Identities = 31/125 (24%), Positives = 53/125 (41%), Gaps = 10/125 (8%)
Query: 221 IQKGKIIALKGLGGFALLCDGRNFQTIERLRLLKNRP-LKPFALMFKDLNTAKQHAFLNA 279
++KG +I G+AL C + ER+ ++ P F L +DL+ ++F++
Sbjct: 24 VRKGGVIVYPTDSGYALGCKIEDKNAXERICRIRQLPDGHNFTLXCRDLSELSTYSFVDN 83
Query: 280 LECESLISTSAP-----ILLARKKPDIKLAPNIAKNSPFYGVILPYTPLHALLLDLLDFP 334
+ L + P IL K+ +L K G +P P+ LL+ L P
Sbjct: 84 VAFR-LXKNNTPGNYTFILKGTKEVPRRLLQEKRKT---IGXRVPSNPIAQALLEALGEP 139
Query: 335 IVFTS 339
+ TS
Sbjct: 140 XLSTS 144
>pdb|1JK8|A Chain A, Crystal Structure Of A Human Insulin Peptide-Hla-Dq8
Complex
Length = 181
Score = 27.7 bits (60), Expect = 5.0
Identities = 24/68 (35%), Positives = 31/68 (45%), Gaps = 17/68 (25%)
Query: 528 SGAYENKIYGAECFVGDLERIEET------ARFEEFWLLGGQKAIKEPRRLVLEIA-LKH 580
SG Y ++ G E F DLER E RF F +P+ + IA LKH
Sbjct: 19 SGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRF----------DPQFALTNIAVLKH 68
Query: 581 QLNKLLKR 588
LN ++KR
Sbjct: 69 NLNIVIKR 76
>pdb|1TIT| Titin, Ig Repeat 27, Nmr, Minimized Average Structure
pdb|1TIU| Titin, Ig Repeat 27, Nmr, 24 Structures
Length = 98
Score = 26.9 bits (58), Expect = 8.6
Identities = 21/60 (35%), Positives = 24/60 (40%), Gaps = 15/60 (25%)
Query: 532 ENKIYGAECFVGDLERIEETARFE---------EFWLLGGQKAIKEPRRLVLEIALKHQL 582
E +YG E FVG ETA FE W L GQ P ++E KH L
Sbjct: 14 EKPLYGVEVFVG------ETAHFEIELSEPDVHGQWKLKGQPLTASPDCEIIEDGKKHIL 67
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
0.324 0.141 0.421
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,329,693
Number of Sequences: 13198
Number of extensions: 177557
Number of successful extensions: 435
Number of sequences better than 10.0: 11
Number of HSP's better than 10.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 429
Number of HSP's gapped (non-prelim): 12
length of query: 769
length of database: 2,899,336
effective HSP length: 95
effective length of query: 674
effective length of database: 1,645,526
effective search space: 1109084524
effective search space used: 1109084524
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 58 (26.9 bits)