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|15645177|ref|NP_207347.1| conserved hypothetical
protein [Helicobacter pylori 26695]
(287 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|1AV6|A Chain A, Vaccinia Methyltransferase Vp39 Complex... 29 0.54
pdb|1J5O|H Chain H, Crystal Structure Of Met184ile Mutant O... 28 1.2
pdb|1QE0|A Chain A, Crystal Structure Of Apo S. Aureus Hist... 28 1.6
pdb|2GWX|B Chain B, Molecular Recognition Of Fatty Acids By... 27 3.5
pdb|3GWX|A Chain A, Molecular Recognition Of Fatty Acids By... 27 3.5
pdb|1I84|S Chain S, Cryo-Em Structure Of The Heavy Meromyos... 26 4.6
pdb|1I38|A Chain A, Crystal Structure Of The Rat Androgen R... 26 6.0
pdb|1EUZ|E Chain E, Glutamate Dehydrogenase From Thermococc... 25 7.9
>pdb|1AV6|A Chain A, Vaccinia Methyltransferase Vp39 Complexed With M7g Capped
Rna Hexamer And S-Adenosylhomocysteine
Length = 289
Score = 29.3 bits (64), Expect = 0.54
Identities = 20/56 (35%), Positives = 32/56 (56%), Gaps = 5/56 (8%)
Query: 72 DQEFLNQIKPSFFDKEIAVMSDAGMPSLSDPGMSLAAYALKHNIQYDVL-PGANAL 126
D+E+L IK +I ++SD PS +D L+ YAL+ N+ +L P A++L
Sbjct: 115 DEEYLRSIKKQLHPSKIILISDVRSPSTAD---LLSNYALQ-NVMISILNPVASSL 166
>pdb|1J5O|H Chain H, Crystal Structure Of Met184ile Mutant Of Hiv-1 Reverse
Transcriptase In Complex With Double Stranded Dna
Template- Primer
pdb|2HMI|D Chain D, Hiv-1 Reverse Transcriptase Complexed With A
Double-Stranded Dna And Fab28
pdb|1HYS|D Chain D, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With A Polypurine Tract Rna:dna
Length = 220
Score = 28.1 bits (61), Expect = 1.2
Identities = 22/95 (23%), Positives = 41/95 (43%), Gaps = 9/95 (9%)
Query: 56 NIATKKREFIAFHSHNDQEFLNQIKPSFFDKEIAVMSDAGMPSLSDPGM---------SL 106
N + K R ++ + N+Q FLN + D I + + + S++D M ++
Sbjct: 62 NPSLKSRLTVSKDTSNNQAFLNMMTVETADTAIYYCAQSAITSVTDSAMDHWGQGTSVTV 121
Query: 107 AAYALKHNIQYDVLPGANALTTAFCASGFLEGRFF 141
++ A Y + PG+ A T + G L +F
Sbjct: 122 SSAATTPPSVYPLAPGSAAQTNSMVTLGCLVKGYF 156
>pdb|1QE0|A Chain A, Crystal Structure Of Apo S. Aureus Histidyl-Trna
Synthetase
pdb|1QE0|B Chain B, Crystal Structure Of Apo S. Aureus Histidyl-Trna
Synthetase
Length = 420
Score = 27.7 bits (60), Expect = 1.6
Identities = 15/68 (22%), Positives = 30/68 (44%), Gaps = 4/68 (5%)
Query: 74 EFLNQIKPSFFDKEIAVMSDAGMPSLSDPGMSLAAYALKHNIQYDVL---PGANALTTAF 130
+FLN+ +++++ A + D G+P DP + H ++++ P + T
Sbjct: 225 DFLNEESKAYYEQVKAYLDDLGIPYTEDPNLVRGLDYYTHT-AFELMMDNPNYDGAITTL 283
Query: 131 CASGFLEG 138
C G G
Sbjct: 284 CGGGRYNG 291
>pdb|2GWX|B Chain B, Molecular Recognition Of Fatty Acids By Peroxisome
Proliferator-Activated Receptors
pdb|2GWX|A Chain A, Molecular Recognition Of Fatty Acids By Peroxisome
Proliferator-Activated Receptors
Length = 267
Score = 26.6 bits (57), Expect = 3.5
Identities = 14/50 (28%), Positives = 28/50 (56%)
Query: 152 ERRLKIAKILNALAYLEEKTPVVFYESPHRLLETLKDLNDLAKGMHLFAA 201
E+ L +++N L +E + VFY +ET+++L + AK + F++
Sbjct: 49 EKGLVWKQLVNGLPPYKEISVHVFYRCQCTTVETVRELTEFAKSIPSFSS 98
>pdb|3GWX|A Chain A, Molecular Recognition Of Fatty Acids By Peroxisome
Proliferator-Activated Receptors
pdb|1GWX|A Chain A, Molecular Recognition Of Fatty Acids By Peroxisome
Proliferator-Activated Receptors
pdb|3GWX|B Chain B, Molecular Recognition Of Fatty Acids By Peroxisome
Proliferator-Activated Receptors
pdb|1GWX|B Chain B, Molecular Recognition Of Fatty Acids By Peroxisome
Proliferator-Activated Receptors
Length = 271
Score = 26.6 bits (57), Expect = 3.5
Identities = 14/50 (28%), Positives = 28/50 (56%)
Query: 152 ERRLKIAKILNALAYLEEKTPVVFYESPHRLLETLKDLNDLAKGMHLFAA 201
E+ L +++N L +E + VFY +ET+++L + AK + F++
Sbjct: 53 EKGLVWKQLVNGLPPYKEISVHVFYRCQCTTVETVRELTEFAKSIPSFSS 102
>pdb|1I84|S Chain S, Cryo-Em Structure Of The Heavy Meromyosin Subfragment Of
Chicken Gizzard Smooth Muscle Myosin With Regulatory
Light Chain In The Dephosphorylated State. Only C Alphas
Provided For Regulatory Light Chain. Only Backbone Atoms
Provided For S2 Fragment.
pdb|1I84|V Chain V, Cryo-Em Structure Of The Heavy Meromyosin Subfragment Of
Chicken Gizzard Smooth Muscle Myosin With Regulatory
Light Chain In The Dephosphorylated State. Only C Alphas
Provided For Regulatory Light Chain. Only Backbone Atoms
Provided For S2 Fragment
Length = 1184
Score = 26.2 bits (56), Expect = 4.6
Identities = 34/158 (21%), Positives = 61/158 (38%), Gaps = 13/158 (8%)
Query: 140 FFYAGFLPHKSKERRLKIAKILNAL-----AYLEEKTPVVFYESPHRLLETLKDLNDLAK 194
FF G L H +ER LKI ++ A YL K + + ++
Sbjct: 774 FFRTGVLAHLEEERDLKITDVIIAFQAQCRGYLARKAFAKRQQQLESIFCIQYNVRSFMN 833
Query: 195 GMH------LFAAKELTKL-HQQYYLGEVSQIIERLQQSTIQGEWVLVLLNEKKIEPCMG 247
H F L K+ Q+ + + ++R ++ + E L L +K + C
Sbjct: 834 VXHWPWMXLFFXIXPLLKVTRQEEEMQAKDEELQRTKERQQKAEAELKELEQKHTQLCEE 893
Query: 248 LSALLE-LDLPPKIKAKIEAVMTQKNAKELYFQRLLEE 284
+ L E L ++ A+ E + + AK+ + +L E
Sbjct: 894 KNLLQEKLQAETELYAEAEEMRVRLAAKKQELEEILHE 931
>pdb|1I38|A Chain A, Crystal Structure Of The Rat Androgen Receptor Ligand
Binding Domain T877a Mutant Complex With
Dihydrotestosteron
Length = 260
Score = 25.8 bits (55), Expect = 6.0
Identities = 15/57 (26%), Positives = 26/57 (45%)
Query: 152 ERRLKIAKILNALAYLEEKTPVVFYESPHRLLETLKDLNDLAKGMHLFAAKELTKLH 208
E R+ K L+ + + K P ++L + L + +A+ +H FA L K H
Sbjct: 170 ELRMNYIKELDRIIACKRKNPTSCSRRFYQLTKLLDSVQPIARELHQFAFDLLIKSH 226
>pdb|1EUZ|E Chain E, Glutamate Dehydrogenase From Thermococcus Profundus In The
Unligated State
pdb|1EUZ|A Chain A, Glutamate Dehydrogenase From Thermococcus Profundus In The
Unligated State
pdb|1EUZ|C Chain C, Glutamate Dehydrogenase From Thermococcus Profundus In The
Unligated State
pdb|1EUZ|D Chain D, Glutamate Dehydrogenase From Thermococcus Profundus In The
Unligated State
pdb|1EUZ|F Chain F, Glutamate Dehydrogenase From Thermococcus Profundus In The
Unligated State
pdb|1EUZ|B Chain B, Glutamate Dehydrogenase From Thermococcus Profundus In The
Unligated State
Length = 419
Score = 25.4 bits (54), Expect = 7.9
Identities = 14/36 (38%), Positives = 21/36 (57%)
Query: 251 LLELDLPPKIKAKIEAVMTQKNAKELYFQRLLEEKN 286
LLEL++ A IE V+T+KNA + + + E N
Sbjct: 284 LLELEVDVLAPAAIEEVITEKNADNIKAKIVAEVAN 319
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
0.321 0.137 0.393
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,493,320
Number of Sequences: 13198
Number of extensions: 55472
Number of successful extensions: 204
Number of sequences better than 10.0: 8
Number of HSP's better than 10.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 198
Number of HSP's gapped (non-prelim): 8
length of query: 287
length of database: 2,899,336
effective HSP length: 87
effective length of query: 200
effective length of database: 1,751,110
effective search space: 350222000
effective search space used: 350222000
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (25.4 bits)