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= 017932
         (363 letters)

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

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



>pdb|1V31|A Chain A, Solution Structure Of The SwibMDM2 DOMAIN OF THE
           Hypothetical Protein At5g14170 From Arabidopsis Thaliana
          Length = 93

 Score = 50.8 bits (120), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 23/69 (33%), Positives = 38/69 (55%)

Query: 115 LSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFK 174
           LST L  V+G     R  ++  +W Y+K  KLQ+PN+     CD +LQ +FG   +    
Sbjct: 14  LSTALMDVLGIEVETRPRIIAAIWHYVKARKLQNPNDPSFFNCDAALQKVFGEEKLKFTM 73

Query: 175 MNRALSKHI 183
           +++ +S H+
Sbjct: 74  VSQKISHHL 82



 Score = 41.2 bits (95), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 17/69 (24%), Positives = 35/69 (50%)

Query: 259 LSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQ 318
           LS  L   +G+    R  ++  +W Y++ + LQ+P +     CD ALQ +F    +    
Sbjct: 14  LSTALMDVLGIEVETRPRIIAAIWHYVKARKLQNPNDPSFFNCDAALQKVFGEEKLKFTM 73

Query: 319 MNKALTRHI 327
           +++ ++ H+
Sbjct: 74  VSQKISHHL 82


>pdb|1UHR|A Chain A, Solution Structure Of The Swib Domain Of Mouse Brg1-
           Associated Factor 60a
          Length = 93

 Score = 49.3 bits (116), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 21/71 (29%), Positives = 36/71 (50%)

Query: 259 LSPDLQTFVGVSELARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQ 318
           L P L   +G+    R  +++ LW YI+   LQDP  R  ++CD+ LQ +F    +   +
Sbjct: 14  LDPRLARLLGIHTQTRPVIIQALWQYIKTHKLQDPHEREFVLCDKYLQQIFESQRMKFSE 73

Query: 319 MNKALTRHIWP 329
           + + L   + P
Sbjct: 74  IPQRLHALLMP 84



 Score = 48.9 bits (115), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 20/51 (39%), Positives = 33/51 (64%)

Query: 115 LSTQLQKVVGAPELARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALF 165
           L  +L +++G     R  +++ LW YIK +KLQDP+ +  +LCD+ LQ +F
Sbjct: 14  LDPRLARLLGIHTQTRPVIIQALWQYIKTHKLQDPHEREFVLCDKYLQQIF 64


>pdb|1V32|A Chain A, Solution Structure Of The SwibMDM2 DOMAIN OF THE
           Hypothetical Protein At5g08430 From Arabidopsis Thaliana
          Length = 101

 Score = 43.1 bits (100), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 21/55 (38%), Positives = 33/55 (60%)

Query: 128 LARTEVVKKLWVYIKENKLQDPNNKRKILCDESLQALFGVNSIDMFKMNRALSKH 182
           ++R +V   +  YI +  L DP+NK+K++CD+ L  LFG  +I   K+   L KH
Sbjct: 35  ISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLFGTRTIFRMKVYDLLEKH 89



 Score = 37.4 bits (85), Expect = 0.012,   Method: Composition-based stats.
 Identities = 16/55 (29%), Positives = 32/55 (58%)

Query: 272 LARTEVVKKLWAYIREKNLQDPKNRRNIICDEALQVLFRVNSINMFQMNKALTRH 326
           ++R +V   +  YI ++ L DP N++ ++CD+ L +LF   +I   ++   L +H
Sbjct: 35  ISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLFGTRTIFRMKVYDLLEKH 89


>pdb|3BIC|A Chain A, Crystal Structure Of Human Methylmalonyl-Coa Mutase
 pdb|3BIC|B Chain B, Crystal Structure Of Human Methylmalonyl-Coa Mutase
 pdb|2XIJ|A Chain A, Crystal Structure Of Human Methylmalonyl-Coa Mutase In
           Complex With Adenosylcobalamin
 pdb|2XIQ|A Chain A, Crystal Structure Of Human Methylmalonyl-Coa Mutase In
           Complex With Adenosylcobalamin And Malonyl-Coa
 pdb|2XIQ|B Chain B, Crystal Structure Of Human Methylmalonyl-Coa Mutase In
           Complex With Adenosylcobalamin And Malonyl-Coa
          Length = 762

 Score = 30.0 bits (66), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 15/47 (31%), Positives = 27/47 (57%), Gaps = 6/47 (12%)

Query: 259 LSPDLQTFVGVS-----ELARTEVVKKLWAYIREKNLQDPKNRRNII 300
            +P L  F G+      E+A+    ++LWA++ EK  Q PKN ++++
Sbjct: 291 FAPRLSFFWGIGMNFYMEIAKMRAGRRLWAHLIEKMFQ-PKNSKSLL 336


  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
   0.317    0.133    0.376 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,510,664
Number of Sequences: 62578
Number of extensions: 232205
Number of successful extensions: 621
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 615
Number of HSP's gapped (non-prelim): 8
length of query: 363
length of database: 14,973,337
effective HSP length: 100
effective length of query: 263
effective length of database: 8,715,537
effective search space: 2292186231
effective search space used: 2292186231
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: 52 (24.6 bits)