BLASTP 2.2.26 [Sep-21-2011]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
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.


Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 001843
         (1007 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|2BB6|A Chain A, Structure Of Cobalamin-Complexed Bovine Transcobalamin In
           Monoclinic Crystal Form
 pdb|2BB6|B Chain B, Structure Of Cobalamin-Complexed Bovine Transcobalamin In
           Monoclinic Crystal Form
 pdb|2BB6|C Chain C, Structure Of Cobalamin-Complexed Bovine Transcobalamin In
           Monoclinic Crystal Form
 pdb|2BB6|D Chain D, Structure Of Cobalamin-Complexed Bovine Transcobalamin In
           Monoclinic Crystal Form
 pdb|2BBC|A Chain A, Structure Of Cobalamin-Complexed Bovine Transcobalamin In
           Trigonal Crystal Form
 pdb|2V3N|A Chain A, Crystallographic Analysis Of Upper Axial Ligand
           Substitutions In Cobalamin Bound To Transcobalamin
 pdb|2V3P|A Chain A, Crystallographic Analysis Of Beta-Axial Ligand
           Substitutions In Cobalamin Bound To Transcobalamin
          Length = 414

 Score = 32.0 bits (71), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 21/75 (28%), Positives = 37/75 (49%), Gaps = 1/75 (1%)

Query: 368 HQKSQVWDSFLGKLCSFTQCGKIIITTSSTEDFVEPLGAAFSTLHVPGLGKNESWELFLK 427
           HQK +V DS +GKL    +    ++    + D +   G AFS L +  L   +   + L 
Sbjct: 149 HQK-RVHDSVVGKLLYAVEHKPHLLQDHVSVDTMAMAGMAFSCLELSNLNPKQRNRINLA 207

Query: 428 KARIAEDVLQSRSSE 442
             R+ E +L++++ E
Sbjct: 208 LKRVQEKILKAQTPE 222


>pdb|1LW7|A Chain A, Nadr Protein From Haemophilus Influenzae
          Length = 365

 Score = 30.8 bits (68), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 19/68 (27%), Positives = 36/68 (52%), Gaps = 10/68 (14%)

Query: 671 LKVLDLEGVYKP-MLTNNNALGRLPFLEYLGLRSTFIDSLPDSTPILFCLATLDVSHTKV 729
           +K L  E  ++P ++ ++    + P+ +YLGL  + +D  PD T         +VS TK+
Sbjct: 100 VKTLFHEKHFEPSIVFSSEPQDKAPYEKYLGLEVSLVD--PDRT-------FFNVSATKI 150

Query: 730 QRLPYAFW 737
           +  P+ +W
Sbjct: 151 RTTPFQYW 158


>pdb|1G9U|A Chain A, Crystal Structure Of Yopm-leucine Rich Effector Protein
           From Yersinia Pestis
 pdb|1JL5|A Chain A, Novel Molecular Architecture Of Yopm-A Leucine-Rich
           Effector Protein From Yersinia Pestis
          Length = 454

 Score = 30.8 bits (68), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 21/69 (30%), Positives = 37/69 (53%), Gaps = 5/69 (7%)

Query: 669 GMLKVLDLEGVYKPMLTNNNALGRL----PFLEYLGLRSTFIDSLPDSTPILFCLATLDV 724
            + ++ +L    K +L +NN L  L    P LEYLG+ +  ++ LP+     F L  +DV
Sbjct: 102 SLTELPELPQSLKSLLVDNNNLKALSDLPPLLEYLGVSNNQLEKLPELQNSSF-LKIIDV 160

Query: 725 SHTKVQRLP 733
            +  +++LP
Sbjct: 161 DNNSLKKLP 169


>pdb|3B5J|A Chain A, Crystal Structures Of The S504a Mutant Of An Isolated
           Abc-atpase In Complex With Tnp-adp
          Length = 243

 Score = 30.4 bits (67), Expect = 4.9,   Method: Compositional matrix adjust.
 Identities = 12/26 (46%), Positives = 21/26 (80%), Gaps = 1/26 (3%)

Query: 274 QVIALIGKAGSGKTTLARIVYNRVYV 299
           +VI ++G+AGSGK+TL +++  R Y+
Sbjct: 32  EVIGIVGRAGSGKSTLTKLI-QRFYI 56


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.321    0.136    0.412 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 28,324,946
Number of Sequences: 62578
Number of extensions: 1137856
Number of successful extensions: 3554
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 3548
Number of HSP's gapped (non-prelim): 13
length of query: 1007
length of database: 14,973,337
effective HSP length: 108
effective length of query: 899
effective length of database: 8,214,913
effective search space: 7385206787
effective search space used: 7385206787
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: 56 (26.2 bits)