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|15645062|ref|NP_207232.1| hypothetical protein
[Helicobacter pylori 26695]
(389 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|2BDP|A Chain A, Crystal Structure Of Bacillus Dna Polym... 29 1.0
pdb|1XWL| Bacillus Stearothermophilus (Newly Identified S... 29 1.0
pdb|1KKH|A Chain A, Crystal Structure Of The Methanococcus ... 28 1.4
pdb|1MIO|B Chain B, Nitrogenase Molybdenum-Iron Protein >gi... 28 1.8
pdb|1DXH|A Chain A, Catabolic Ornithine Carbamoyltransferas... 28 1.8
pdb|1LWH|A Chain A, Crystal Structure Of T. Maritima 4-Alph... 27 3.0
pdb|1ORT|A Chain A, Ornithine Transcarbamoylase From Pseudo... 27 3.9
pdb|1HO8|A Chain A, Crystal Structure Of The Regulatory Sub... 27 5.2
pdb|1GCO|A Chain A, Crystal Structure Of Glucose Dehydrogen... 26 6.7
>pdb|2BDP|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Fragment
Complexed To 9 Base Pairs Of Duplex Dna
pdb|3BDP|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Fragment
Complexed To Duplex Dna After The Incorporation Of +ttp
By The Enzyme
pdb|4BDP|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Fragment
Complexed To 11 Base Pairs Of Duplex Dna After Addition
Of Two Datp Residues
Length = 580
Score = 28.9 bits (63), Expect = 1.0
Identities = 31/134 (23%), Positives = 57/134 (42%), Gaps = 12/134 (8%)
Query: 198 IKQELVPGLCLFFQGSLEFNDKTTKTMRTSLLDQIQQDDKSYLKIWEKYLIKSAQKSFNE 257
+ + LV ++ F D+ + + LL +++Q S L E +K K +
Sbjct: 147 LAEHLVRKAAAIWELERPFLDELRRNEQDRLLVELEQPLSSILAEMEFAGVKVDTKRLEQ 206
Query: 258 -----AKEVGVLEIESVSKEGGNLRIRFKPALG-----KNKMEILKKSQFKKGSDLGVLE 307
A+++G +E G I LG K ++ +LKK++ + VLE
Sbjct: 207 MGKELAEQLGTVEQRIYELAGQEFNINSPKQLGVILFEKLQLPVLKKTKTGYSTSADVLE 266
Query: 308 DLDPQNE--ENLIN 319
L P +E EN+++
Sbjct: 267 KLAPYHEIVENILH 280
>pdb|1XWL| Bacillus Stearothermophilus (Newly Identified Strain As Yet
Unnamed) Dna Polymerase Fragment
Length = 580
Score = 28.9 bits (63), Expect = 1.0
Identities = 31/134 (23%), Positives = 57/134 (42%), Gaps = 12/134 (8%)
Query: 198 IKQELVPGLCLFFQGSLEFNDKTTKTMRTSLLDQIQQDDKSYLKIWEKYLIKSAQKSFNE 257
+ + LV ++ F D+ + + LL +++Q S L E +K K +
Sbjct: 147 LAEHLVRKAAAIWELERPFLDELRRNEQDRLLVELEQPLSSILAEMEFAGVKVDTKRLEQ 206
Query: 258 -----AKEVGVLEIESVSKEGGNLRIRFKPALG-----KNKMEILKKSQFKKGSDLGVLE 307
A+++G +E G I LG K ++ +LKK++ + VLE
Sbjct: 207 MGKELAEQLGTVEQRIYELAGQEFNINSPKQLGVILFEKLQLPVLKKTKTGYSTSADVLE 266
Query: 308 DLDPQNE--ENLIN 319
L P +E EN+++
Sbjct: 267 KLAPYHEIVENILH 280
>pdb|1KKH|A Chain A, Crystal Structure Of The Methanococcus Jannaschii
Mevalonate Kinase
Length = 317
Score = 28.5 bits (62), Expect = 1.4
Identities = 45/162 (27%), Positives = 66/162 (39%), Gaps = 32/162 (19%)
Query: 30 GLLKIEKNKIYFHLDEKRYLKLEIIGKTKEKEIKNAFCSNAFLAAQ-----VLNLNQERQ 84
G+L+I+ NK R +K E E+ +KN C + A+ L E
Sbjct: 168 GILEIKNNKF-------RKIKGEF-----EEFLKN--CKFLIVYAEKRKKKTAELVNEVA 213
Query: 85 VLELKCHFFKHPIKILPEPLNINFKD----------TIIKKLLKDMGKDKKIEDFKETCI 134
+E K FK K++ E L I K+ ++KKL K +I D
Sbjct: 214 KIENKDEIFKEIDKVIDEALKIKNKEDFGKLMTKNHELLKKLNISTPKLDRIVDIGNRFG 273
Query: 135 L--KIAGFTYFVCVLPYEYENKEDKENSEEILKEDFRLLNTK 174
K+ G CV+ E KE KE +E+ KED R+ N +
Sbjct: 274 FGAKLTGAGGGGCVIILVNEEKE-KELLKELNKEDVRIFNCR 314
>pdb|1MIO|B Chain B, Nitrogenase Molybdenum-Iron Protein
pdb|1MIO|D Chain D, Nitrogenase Molybdenum-Iron Protein
Length = 458
Score = 28.1 bits (61), Expect = 1.8
Identities = 20/69 (28%), Positives = 33/69 (46%), Gaps = 3/69 (4%)
Query: 55 GKTKEKEIKNAFCSNAFLAAQVLNLNQERQVLELKCHFFKHPIKILPEPLNINFKDTIIK 114
G TK +++K+ S+ L+ + + LE KC K P K L P+ ++ D I
Sbjct: 222 GGTKIEDLKDTGNSDLTLSLGSYASDLGAKTLEKKC---KVPFKTLRTPIGVSATDEFIM 278
Query: 115 KLLKDMGKD 123
L + GK+
Sbjct: 279 ALSEATGKE 287
>pdb|1DXH|A Chain A, Catabolic Ornithine Carbamoyltransferase From Pseudomonas
Aeruginosa
Length = 335
Score = 28.1 bits (61), Expect = 1.8
Identities = 34/125 (27%), Positives = 53/125 (42%), Gaps = 14/125 (11%)
Query: 190 YEAIKLRPIKQELVPGLCLFFQGSLEFNDKTTKTMRTSLLDQI----QQDDKSYLKIWEK 245
Y+AI+ R KQE+V L F G FN T + T +L + + DK I
Sbjct: 101 YDAIEYRGFKQEIVEELAK-FAGVPVFNGLTDEYHPTQMLADVLTMREHSDKPLHDISYA 159
Query: 246 YLIKSAQKSFNEAKEVGVLEIESVSKEGGNLRIRFKPALGKNKMEILKKSQF--KKGSDL 303
YL + N +G +K G ++RI AL + + + +F + G+ L
Sbjct: 160 YLGDARNNMGNSLLLIG-------AKLGMDVRIAAPKALWPHDEFVAQCKKFAEESGAKL 212
Query: 304 GVLED 308
+ ED
Sbjct: 213 TLTED 217
>pdb|1LWH|A Chain A, Crystal Structure Of T. Maritima
4-Alpha-Glucanotransferase
pdb|1LWH|B Chain B, Crystal Structure Of T. Maritima
4-Alpha-Glucanotransferase
pdb|1LWJ|A Chain A, Crystal Structure Of T. Maritima 4-Alpha-
GlucanotransferaseACARBOSE COMPLEX
pdb|1LWJ|B Chain B, Crystal Structure Of T. Maritima 4-Alpha-
GlucanotransferaseACARBOSE COMPLEX
Length = 441
Score = 27.3 bits (59), Expect = 3.0
Identities = 16/52 (30%), Positives = 26/52 (49%), Gaps = 4/52 (7%)
Query: 156 DKENSEEILKED----FRLLNTKGGLSVKRALINNRHSYEAIKLRPIKQELV 203
D+ E + KED +RL + + L V L +E +K++P K E+V
Sbjct: 390 DRAKLEFLCKEDKFLVYRLYDDQHSLKVFHNLSGEEVVFEGVKMKPYKTEVV 441
>pdb|1ORT|A Chain A, Ornithine Transcarbamoylase From Pseudomonas Aeruginosa
pdb|1ORT|B Chain B, Ornithine Transcarbamoylase From Pseudomonas Aeruginosa
pdb|1ORT|C Chain C, Ornithine Transcarbamoylase From Pseudomonas Aeruginosa
pdb|1ORT|D Chain D, Ornithine Transcarbamoylase From Pseudomonas Aeruginosa
pdb|1ORT|E Chain E, Ornithine Transcarbamoylase From Pseudomonas Aeruginosa
pdb|1ORT|F Chain F, Ornithine Transcarbamoylase From Pseudomonas Aeruginosa
pdb|1ORT|G Chain G, Ornithine Transcarbamoylase From Pseudomonas Aeruginosa
pdb|1ORT|H Chain H, Ornithine Transcarbamoylase From Pseudomonas Aeruginosa
pdb|1ORT|I Chain I, Ornithine Transcarbamoylase From Pseudomonas Aeruginosa
pdb|1ORT|J Chain J, Ornithine Transcarbamoylase From Pseudomonas Aeruginosa
pdb|1ORT|K Chain K, Ornithine Transcarbamoylase From Pseudomonas Aeruginosa
pdb|1ORT|L Chain L, Ornithine Transcarbamoylase From Pseudomonas Aeruginosa
Length = 335
Score = 26.9 bits (58), Expect = 3.9
Identities = 34/125 (27%), Positives = 52/125 (41%), Gaps = 14/125 (11%)
Query: 190 YEAIKLRPIKQELVPGLCLFFQGSLEFNDKTTKTMRTSLLDQI----QQDDKSYLKIWEK 245
Y+AI R KQE+V L F G FN T + T +L + + DK I
Sbjct: 101 YDAIGYRGFKQEIVEELAK-FAGVPVFNGLTDEYHPTQMLADVLTMREHSDKPLHDISYA 159
Query: 246 YLIKSAQKSFNEAKEVGVLEIESVSKEGGNLRIRFKPALGKNKMEILKKSQF--KKGSDL 303
YL + N +G +K G ++RI AL + + + +F + G+ L
Sbjct: 160 YLGDARNNMGNSLLLIG-------AKLGMDVRIAAPKALWPHDEFVAQCKKFAEESGAKL 212
Query: 304 GVLED 308
+ ED
Sbjct: 213 TLTED 217
>pdb|1HO8|A Chain A, Crystal Structure Of The Regulatory Subunit H Of The
V-Type Atpase Of Saccharomyces Cerevisiae
Length = 480
Score = 26.6 bits (57), Expect = 5.2
Identities = 18/69 (26%), Positives = 34/69 (49%), Gaps = 5/69 (7%)
Query: 77 LNLNQERQVLELKCHFFKHPIKILPEPLNINFK---DTIIKKLLKDMGKDKKIEDFKETC 133
+N QE+ ++++ + H +++LPE +++ K I +LL K E K T
Sbjct: 413 VNAKQEKIIIQVALNDITHVVELLPESIDVLDKTGGKADIMELLNHSDSRVKYEALKAT- 471
Query: 134 ILKIAGFTY 142
I G+T+
Sbjct: 472 -QAIIGYTF 479
>pdb|1GCO|A Chain A, Crystal Structure Of Glucose Dehydrogenase Complexed With
Nad+
pdb|1GCO|B Chain B, Crystal Structure Of Glucose Dehydrogenase Complexed With
Nad+
pdb|1GCO|E Chain E, Crystal Structure Of Glucose Dehydrogenase Complexed With
Nad+
pdb|1GCO|F Chain F, Crystal Structure Of Glucose Dehydrogenase Complexed With
Nad+
Length = 261
Score = 26.2 bits (56), Expect = 6.7
Identities = 15/37 (40%), Positives = 22/37 (58%), Gaps = 2/37 (5%)
Query: 151 YENKEDKENS--EEILKEDFRLLNTKGGLSVKRALIN 185
Y +KED+ NS EEI K + KG ++V+ +IN
Sbjct: 38 YRSKEDEANSVLEEIKKVGGEAIAVKGDVTVESDVIN 74
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
0.316 0.137 0.374
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,163,117
Number of Sequences: 13198
Number of extensions: 91842
Number of successful extensions: 272
Number of sequences better than 10.0: 9
Number of HSP's better than 10.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 271
Number of HSP's gapped (non-prelim): 9
length of query: 389
length of database: 2,899,336
effective HSP length: 90
effective length of query: 299
effective length of database: 1,711,516
effective search space: 511743284
effective search space used: 511743284
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: 55 (25.8 bits)