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|15645925|ref|NP_208104.1| ribosomal protein L16
(rpl16) [Helicobacter pylori 26695]
         (141 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|1LNR|K  Chain K, Crystal Structure Of The Large Ribosoma...   160  7e-41
pdb|1GIY|P  Chain P, Crystal Structure Of The Ribosome At 5....    30  0.10
pdb|1CRK|A  Chain A, Mitochondrial Creatine Kinase >gi|23922...    25  4.4
pdb|1CC1|L  Chain L, Crystal Structure Of A Reduced, Active ...    25  4.4
pdb|1D9Y|A  Chain A, Neisseria Gonorrhoeae Ferric Binding Pr...    24  7.5
pdb|1JG2|A  Chain A, Crystal Structure Of L-Isoaspartyl (D-A...    24  7.5

>pdb|1LNR|K Chain K, Crystal Structure Of The Large Ribosomal Subunit From
           Deinococcus Radiodurans
          Length = 141

 Score =  160 bits (404), Expect = 7e-41
 Identities = 76/139 (54%), Positives = 102/139 (72%)

Query: 1   MLMPKRTKYRKQMKGRNRGKAHRGNSIAFGDIAIKAIEHGRIDSRQIESARVAMTRHIKR 60
           ML+PKRTK+RKQ +GR  G A  G+ +AFGD  + A+E   I S QIE+ R+ M+RH +R
Sbjct: 1   MLLPKRTKFRKQFRGRMTGDAKGGDYVAFGDYGLIAMEPAWIKSNQIEACRIVMSRHFRR 60

Query: 61  AGKVWIRVFPDKPLTAKPLETRMGKGKGSVEKWVMNIKPGRIVYEMLGIEEGLAREALAL 120
            GK++IR+FPDKP+T KP ETRMGKGKG+VE WV  +KPGR+++E+ G+ E  A+EA  L
Sbjct: 61  GGKIYIRIFPDKPVTKKPAETRMGKGKGAVEYWVSVVKPGRVMFEVAGVTEEQAKEAFRL 120

Query: 121 AQSKLPFKTKIVTCESENE 139
           A  KLP +TK+V  E  +E
Sbjct: 121 AGHKLPIQTKMVKREVYDE 139



>pdb|1GIY|P Chain P, Crystal Structure Of The Ribosome At 5.5 A Resolution.
          This File, 1giy, Contains The 50s Ribosome Subunit. The
          30s Ribosome Subunit, Three Trna, And Mrna Molecules
          Are In The File 1gix
          Length = 138

 Score = 30.0 bits (66), Expect = 0.10
 Identities = 18/69 (26%), Positives = 32/69 (46%)

Query: 2  LMPKRTKYRKQMKGRNRGKAHRGNSIAFGDIAIKAIEHGRIDSRQIESARVAMTRHIKRA 61
          + P R +Y   + G+   +   GN+     +     +  +I    +E+AR A  R ++ +
Sbjct: 2  IKPTRREYISGIPGKGIAQFKMGNNTYPAQVENVVEKPVQIRHNALEAARNAANRFVQNS 61

Query: 62 GKVWIRVFP 70
          GK  IR FP
Sbjct: 62 GKFRIRKFP 70



>pdb|1CRK|A Chain A, Mitochondrial Creatine Kinase
 pdb|1CRK|B Chain B, Mitochondrial Creatine Kinase
 pdb|1CRK|C Chain C, Mitochondrial Creatine Kinase
 pdb|1CRK|D Chain D, Mitochondrial Creatine Kinase
          Length = 380

 Score = 24.6 bits (52), Expect = 4.4
 Identities = 11/29 (37%), Positives = 16/29 (54%)

Query: 31  DIAIKAIEHGRIDSRQIESARVAMTRHIK 59
           D+    I HG+ D R + S+RV   R I+
Sbjct: 105 DLDASKITHGQFDERYVLSSRVRTGRSIR 133



>pdb|1CC1|L Chain L, Crystal Structure Of A Reduced, Active Form Of The
           Ni-Fe-Se Hydrogenase From Desulfomicrobium Baculatum
          Length = 498

 Score = 24.6 bits (52), Expect = 4.4
 Identities = 13/51 (25%), Positives = 20/51 (38%), Gaps = 19/51 (37%)

Query: 54  MTRHIKRAGKVWIRVFPDKPLTAKPLETRMGKGKGSVEKWVMNIKPGRIVY 104
           M RH+ RA + W+                      +VEKW+  ++PG   Y
Sbjct: 375 MGRHVLRAEETWLTAV-------------------AVEKWLKQVQPGAETY 406



>pdb|1D9Y|A Chain A, Neisseria Gonorrhoeae Ferric Binding Protein
          Length = 309

 Score = 23.9 bits (50), Expect = 7.5
 Identities = 10/32 (31%), Positives = 18/32 (56%)

Query: 18  RGKAHRGNSIAFGDIAIKAIEHGRIDSRQIES 49
           +G    G   A   +A++A+E+G ID+  I +
Sbjct: 163 KGLKEYGKPYAKNSVALQAVENGEIDAALINN 194



>pdb|1JG2|A Chain A, Crystal Structure Of L-Isoaspartyl (D-Aspartyl) O-
           Methyltransferase With Adenosine
 pdb|1JG4|A Chain A, Crystal Structure Of L-Isoaspartyl (D-Aspartyl) O-
           Methyltransferase With S-Adenosylmethionine
 pdb|1JG3|A Chain A, Crystal Structure Of L-Isoaspartyl (D-Aspartyl) O-
           Methyltransferase With Adenosine & Vyp(Isp)ha Substrate
 pdb|1JG3|B Chain B, Crystal Structure Of L-Isoaspartyl (D-Aspartyl) O-
           Methyltransferase With Adenosine & Vyp(Isp)ha Substrate
 pdb|1JG1|A Chain A, Crystal Structure Of L-Isoaspartyl (D-Aspartyl) O-
           Methyltransferase With S-Adenosyl-L-Homocysteine
          Length = 235

 Score = 23.9 bits (50), Expect = 7.5
 Identities = 16/67 (23%), Positives = 30/67 (43%)

Query: 40  GRIDSRQIESARVAMTRHIKRAGKVWIRVFPDKPLTAKPLETRMGKGKGSVEKWVMNIKP 99
           G I S+++E A +   R++    K       D+PL     +T       ++   + N+KP
Sbjct: 32  GIIRSKEVERAFLKYPRYLSVEDKYKKYAHIDEPLPIPAGQTVSAPHMVAIMLEIANLKP 91

Query: 100 GRIVYEM 106
           G  + E+
Sbjct: 92  GMNILEV 98



  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
   0.319    0.135    0.391 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 785,133
Number of Sequences: 13198
Number of extensions: 27736
Number of successful extensions: 42
Number of sequences better than 10.0: 6
Number of HSP's better than 10.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 37
Number of HSP's gapped (non-prelim): 6
length of query: 141
length of database: 2,899,336
effective HSP length: 79
effective length of query: 62
effective length of database: 1,856,694
effective search space: 115115028
effective search space used: 115115028
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)