BLAST Search Results

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|15645208|ref|NP_207378.1| hypothetical protein
[Helicobacter pylori 26695]
         (293 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|1F76|A  Chain A, Escherichia Coli Dihydroorotate Dehydro...    28  1.2
pdb|2VSG|A  Chain A, A Structural Motif In The Variant Surfa...    28  1.6
pdb|1CTM|    Cytochrome F (Reduced) >gi|3114361|pdb|2PCF|B C...    27  2.1
pdb|1HCZ|    Lumen-Side Domain Of Reduced Cytochrome F At -3...    27  2.1
pdb|1F95|A  Chain A, Solution Structure Of Dynein Light Chai...    27  3.6
pdb|1CMI|A  Chain A, Structure Of The Human PinLC8 DIMER WIT...    27  3.6
pdb|1DXY|    Structure Of D-2-Hydroxyisocaproate Dehydrogenase     26  4.7
pdb|1I1E|A  Chain A, Crystal Structure Of Clostridium Botuli...    25  8.1
pdb|1DD9|A  Chain A, Structure Of The Dnag Catalytic Core >g...    25  8.1

>pdb|1F76|A Chain A, Escherichia Coli Dihydroorotate Dehydrogenase
 pdb|1F76|B Chain B, Escherichia Coli Dihydroorotate Dehydrogenase
 pdb|1F76|D Chain D, Escherichia Coli Dihydroorotate Dehydrogenase
 pdb|1F76|E Chain E, Escherichia Coli Dihydroorotate Dehydrogenase
          Length = 336

 Score = 28.1 bits (61), Expect = 1.2
 Identities = 15/51 (29%), Positives = 30/51 (58%)

Query: 233 DANHKIISIETNKERYLVLLSDKYGLLLDKISPKTSKEELIKEAENNIKNS 283
           +A   +++   NK+  L     KY  +  KI+P  S+EELI+ A++ ++++
Sbjct: 188 EALDDLLTAIKNKQNDLQAXHHKYVPIAVKIAPDLSEEELIQVADSLVRHN 238



>pdb|2VSG|A Chain A, A Structural Motif In The Variant Surface Glycoproteins Of
           Trypanosoma Brucei
 pdb|2VSG|B Chain B, A Structural Motif In The Variant Surface Glycoproteins Of
           Trypanosoma Brucei
          Length = 358

 Score = 27.7 bits (60), Expect = 1.6
 Identities = 24/78 (30%), Positives = 37/78 (46%), Gaps = 12/78 (15%)

Query: 69  PKIMEVEGQKVIVLKNAKLDS----------KKTMDFKEASLNALEMF-SYQNDIYLLSK 117
           P   EVE  K++  K A LDS          KKT D+KE      E F   +++I  L  
Sbjct: 259 PGQTEVETMKLLAQKTAALDSIKFQLAASTGKKTSDYKEDENLKTEYFGKTESNIEALWN 318

Query: 118 KAKVELEIQASNSKDKKR 135
           K K E +++ ++ +D  +
Sbjct: 319 KVKEE-KVKGADPEDPSK 335



>pdb|1CTM|   Cytochrome F (Reduced)
 pdb|2PCF|B Chain B, The Complex Of Cytochrome F And Plastocyanin Determined
           With Paramagnetic Nmr. Based On The Structures Of
           Cytochrome F And Plastocyanin, 10 Structures
          Length = 250

 Score = 27.3 bits (59), Expect = 2.1
 Identities = 13/22 (59%), Positives = 15/22 (68%), Gaps = 4/22 (18%)

Query: 139 LFLPKGFHLAPP----PNLKEK 156
           L LP+GF LAPP    P +KEK
Sbjct: 75  LILPEGFELAPPDRISPEMKEK 96



>pdb|1HCZ|   Lumen-Side Domain Of Reduced Cytochrome F At -35 Degrees Celsius
          Length = 252

 Score = 27.3 bits (59), Expect = 2.1
 Identities = 13/22 (59%), Positives = 15/22 (68%), Gaps = 4/22 (18%)

Query: 139 LFLPKGFHLAPP----PNLKEK 156
           L LP+GF LAPP    P +KEK
Sbjct: 75  LILPEGFELAPPDRISPEMKEK 96



>pdb|1F95|A Chain A, Solution Structure Of Dynein Light Chain 8 (Dlc8) And Bim
           Peptide Complex
 pdb|1F95|B Chain B, Solution Structure Of Dynein Light Chain 8 (Dlc8) And Bim
           Peptide Complex
 pdb|1F96|A Chain A, Solution Structure Of Dynein Light Chain 8 (Dlc8) And Nnos
           Peptide Complex
 pdb|1F96|B Chain B, Solution Structure Of Dynein Light Chain 8 (Dlc8) And Nnos
           Peptide Complex
 pdb|1F3C|A Chain A, Refined Solution Structure Of 8kda Dynein Light Chain
           (Dlc8)
 pdb|1F3C|B Chain B, Refined Solution Structure Of 8kda Dynein Light Chain
           (Dlc8)
          Length = 89

 Score = 26.6 bits (57), Expect = 3.6
 Identities = 13/38 (34%), Positives = 20/38 (52%)

Query: 81  VLKNAKLDSKKTMDFKEASLNALEMFSYQNDIYLLSKK 118
           V+KNA +  +   D  E +  ALE ++ + DI    KK
Sbjct: 7   VIKNADMSEEMQQDSVECATQALEKYNIEKDIAAHIKK 44



>pdb|1CMI|A Chain A, Structure Of The Human PinLC8 DIMER WITH A BOUND PEPTIDE
 pdb|1CMI|B Chain B, Structure Of The Human PinLC8 DIMER WITH A BOUND PEPTIDE
          Length = 85

 Score = 26.6 bits (57), Expect = 3.6
 Identities = 13/38 (34%), Positives = 20/38 (52%)

Query: 81  VLKNAKLDSKKTMDFKEASLNALEMFSYQNDIYLLSKK 118
           V+KNA +  +   D  E +  ALE ++ + DI    KK
Sbjct: 3   VIKNADMSEEMQQDSVECATQALEKYNIEKDIAAHIKK 40



>pdb|1DXY|   Structure Of D-2-Hydroxyisocaproate Dehydrogenase
          Length = 333

 Score = 26.2 bits (56), Expect = 4.7
 Identities = 21/88 (23%), Positives = 37/88 (41%), Gaps = 14/88 (15%)

Query: 52  IKAVQTTLTFETPFNKTPKIMEVEGQKVIVLKNAKLDSKKTMDFKEASLN---------- 101
           I ++QTT      F K    M   G K + ++N   D+      K+  +           
Sbjct: 48  INSLQTTPYAAGVFEK----MHAYGIKFLTIRNVGTDNIDMTAMKQYGIRLSNVPAYSPA 103

Query: 102 ALEMFSYQNDIYLLSKKAKVELEIQASN 129
           A+  F+  + +YLL    KV+ ++QA +
Sbjct: 104 AIAEFALTDTLYLLRNMGKVQAQLQAGD 131



>pdb|1I1E|A Chain A, Crystal Structure Of Clostridium Botulinum Neurotoxin B
           Complexed With Doxorubicin
 pdb|1EPW|A Chain A, Crystal Structure Of Clostridium Neurotoxin Type B
 pdb|1F31|A Chain A, Crystal Structure Of Clostridium Botulinum Neurotoxin B
           Complexed With A Trisaccharide
          Length = 1290

 Score = 25.4 bits (54), Expect = 8.1
 Identities = 16/54 (29%), Positives = 28/54 (51%)

Query: 196 IAALLLILYVIKKKIVPTQGSFSAKDFKLEISVLGRVDANHKIISIETNKERYL 249
           I  L+L   +I K  +P++ + S  DF +++ V  +  A  KI + E    +YL
Sbjct: 487 INELILDTDLISKIELPSENTESLTDFNVDVPVYEKQPAIKKIFTDENTIFQYL 540



>pdb|1DD9|A Chain A, Structure Of The Dnag Catalytic Core
 pdb|1DDE|A Chain A, Structure Of The Dnag Catalytic Core
          Length = 338

 Score = 25.4 bits (54), Expect = 8.1
 Identities = 19/65 (29%), Positives = 26/65 (39%), Gaps = 3/65 (4%)

Query: 123 LEIQASNSKDKKRLRFLFLPKGFHLAPPPNLKEKSQQTNLAQKDTNEQPQSPLNTLELKP 182
           LE       D ++LRF+FLP G     P  L  K  +     +     P S      L P
Sbjct: 227 LETALPYMTDGRQLRFMFLPDG---EDPDTLVRKEGKEAFEARMEQAMPLSAFLFNSLMP 283

Query: 183 PLNLS 187
            ++LS
Sbjct: 284 QVDLS 288



  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
   0.314    0.132    0.356 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,515,322
Number of Sequences: 13198
Number of extensions: 60350
Number of successful extensions: 85
Number of sequences better than 10.0: 9
Number of HSP's better than 10.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 80
Number of HSP's gapped (non-prelim): 10
length of query: 293
length of database: 2,899,336
effective HSP length: 87
effective length of query: 206
effective length of database: 1,751,110
effective search space: 360728660
effective search space used: 360728660
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: 54 (25.4 bits)