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= 015735
         (401 letters)

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

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



>pdb|3IKK|A Chain A, Crystal Structure Analysis Of Msp Domain
 pdb|3IKK|B Chain B, Crystal Structure Analysis Of Msp Domain
          Length = 127

 Score = 57.0 bits (136), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 28/57 (49%), Positives = 39/57 (68%), Gaps = 1/57 (1%)

Query: 3  EELLDIQP-LELKFTFEVKKQSTCVIQLGNKSDQCVAFKVKTTSPKKYCVRPNVSII 58
          E++L ++P  ELKF        T  ++LGN +D+ V FKVKTT+P++YCVRPN  II
Sbjct: 7  EQVLSLEPQHELKFRGPFTDVVTTNLKLGNPTDRNVCFKVKTTAPRRYCVRPNSGII 63


>pdb|2CRI|A Chain A, Solution Structure Of The Msp Domain Of Mouse Vamp-
          Associated Proteina
          Length = 147

 Score = 55.8 bits (133), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 27/54 (50%), Positives = 35/54 (64%)

Query: 10 PLELKFTFEVKKQSTCVIQLGNKSDQCVAFKVKTTSPKKYCVRPNVSIIKPKAI 63
          P +LKF        T  ++L N SD+ V FKVKTT+P++YCVRPN  II P +I
Sbjct: 20 PSDLKFKGPFTDVVTTNLKLQNPSDRKVCFKVKTTAPRRYCVRPNSGIIDPGSI 73


>pdb|1Z9O|A Chain A, 1.9 Angstrom Crystal Structure Of The Rat Vap-a Msp
          Homology Domain In Complex With The Rat Orp1 Ffat Motif
 pdb|1Z9O|B Chain B, 1.9 Angstrom Crystal Structure Of The Rat Vap-a Msp
          Homology Domain In Complex With The Rat Orp1 Ffat Motif
 pdb|1Z9O|C Chain C, 1.9 Angstrom Crystal Structure Of The Rat Vap-a Msp
          Homology Domain In Complex With The Rat Orp1 Ffat Motif
 pdb|1Z9O|D Chain D, 1.9 Angstrom Crystal Structure Of The Rat Vap-a Msp
          Homology Domain In Complex With The Rat Orp1 Ffat Motif
 pdb|1Z9O|E Chain E, 1.9 Angstrom Crystal Structure Of The Rat Vap-a Msp
          Homology Domain In Complex With The Rat Orp1 Ffat Motif
 pdb|1Z9O|F Chain F, 1.9 Angstrom Crystal Structure Of The Rat Vap-a Msp
          Homology Domain In Complex With The Rat Orp1 Ffat Motif
          Length = 128

 Score = 54.3 bits (129), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 26/54 (48%), Positives = 35/54 (64%)

Query: 10 PLELKFTFEVKKQSTCVIQLGNKSDQCVAFKVKTTSPKKYCVRPNVSIIKPKAI 63
          P +LKF        T  ++L N SD+ V FKVKTT+P++YCVRPN  +I P +I
Sbjct: 16 PSDLKFKGPFTDVVTTNLKLQNPSDRKVCFKVKTTAPRRYCVRPNSGVIDPGSI 69


>pdb|1Z9L|A Chain A, 1.7 Angstrom Crystal Structure Of The Rat Vap-A Msp
          Homology Domain
          Length = 128

 Score = 53.9 bits (128), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 26/54 (48%), Positives = 35/54 (64%)

Query: 10 PLELKFTFEVKKQSTCVIQLGNKSDQCVAFKVKTTSPKKYCVRPNVSIIKPKAI 63
          P +LKF        T  ++L N SD+ V FKVKTT+P++YCVRPN  +I P +I
Sbjct: 16 PSDLKFKGPFTDVVTTNLKLQNPSDRKVCFKVKTTAPRRYCVRPNSGVIDPGSI 69


>pdb|2RR3|A Chain A, Solution Structure Of The Complex Between Human Vap-A
          Msp Domain And Human Osbp Ffat Motif
          Length = 130

 Score = 53.9 bits (128), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 26/53 (49%), Positives = 34/53 (64%)

Query: 10 PLELKFTFEVKKQSTCVIQLGNKSDQCVAFKVKTTSPKKYCVRPNVSIIKPKA 62
          P +LKF        T  ++L N SD+ V FKVKTT+P++YCVRPN  II P +
Sbjct: 15 PTDLKFKGPFTDVVTTNLKLRNPSDRKVCFKVKTTAPRRYCVRPNSGIIDPGS 67


>pdb|1WIC|A Chain A, Solution Structure Of The Msp Domain Of Riken Cdna
          6030424e15
          Length = 152

 Score = 40.0 bits (92), Expect = 0.002,   Method: Compositional matrix adjust.
 Identities = 26/63 (41%), Positives = 34/63 (53%), Gaps = 1/63 (1%)

Query: 5  LLDIQPLE-LKFTFEVKKQSTCVIQLGNKSDQCVAFKVKTTSPKKYCVRPNVSIIKPKAI 63
          LL I P E L F      +   +I L N +   VAFKV+TT+P+KY V+P+ S   P A 
Sbjct: 18 LLHISPAEELYFGSIESGEKKTLIVLTNVTKNIVAFKVRTTAPEKYRVKPSNSSCDPGAS 77

Query: 64 SDF 66
           D 
Sbjct: 78 IDI 80


>pdb|3E5P|A Chain A, Crystal Structure Of Alanine Racemase From E.Faecalis
 pdb|3E5P|B Chain B, Crystal Structure Of Alanine Racemase From E.Faecalis
 pdb|3E5P|C Chain C, Crystal Structure Of Alanine Racemase From E.Faecalis
 pdb|3E6E|A Chain A, Crystal Structure Of Alanine Racemase From E.Faecalis
           Complex With Cycloserine
 pdb|3E6E|B Chain B, Crystal Structure Of Alanine Racemase From E.Faecalis
           Complex With Cycloserine
 pdb|3E6E|C Chain C, Crystal Structure Of Alanine Racemase From E.Faecalis
           Complex With Cycloserine
          Length = 371

 Score = 33.1 bits (74), Expect = 0.31,   Method: Compositional matrix adjust.
 Identities = 33/130 (25%), Positives = 54/130 (41%), Gaps = 10/130 (7%)

Query: 105 IALLAEAVTMQAQRVAPPDLQCKDKFLIQGIVVPFGTSDEDITSDMFAKDSGKYVEEKKL 164
           I  L    T QA R     +Q   +FL +GI   F T+DE I +  F K +G++   K +
Sbjct: 140 IGFLTPEETKQAVRF----VQSHKEFLWEGIFTHFSTADE-IDTSYFEKQAGRF---KAV 191

Query: 165 RVILMSPPQSPVLLPRNGELKQDSSPETSLQKDRALSGVENIPPGDGVAANAEVFETAKF 224
             +L   P+   +      L     P   ++   A+ G+   P G+ +A +  +    + 
Sbjct: 192 LAVLEELPRYVHVSNSATALWHPDVPGNMIRYGVAMYGLN--PSGNKLAPSYALKPALRL 249

Query: 225 ADELTETKDL 234
             EL   K L
Sbjct: 250 TSELIHVKRL 259


>pdb|1TLL|A Chain A, Crystal Structure Of Rat Neuronal Nitric-Oxide Synthase
           Reductase Module At 2.3 A Resolution.
 pdb|1TLL|B Chain B, Crystal Structure Of Rat Neuronal Nitric-Oxide Synthase
           Reductase Module At 2.3 A Resolution
          Length = 688

 Score = 29.6 bits (65), Expect = 3.4,   Method: Compositional matrix adjust.
 Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 6/47 (12%)

Query: 243 RDESRAAKDVQMFGTT----NVTNKLREAKDVQTFESSKDIDELISA 285
           RD++R  +D+  FG T     VTN+LR        ES KD DE+ S+
Sbjct: 644 RDDNRYHEDI--FGVTLRTYEVTNRLRSESIAFIEESKKDADEVFSS 688


>pdb|2UV9|A Chain A, Crystal Structure Of Fatty Acid Synthase From Thermomyces
            Lanuginosus At 3.1 Angstrom Resolution. This File
            Contains The Alpha Subunits Of The Fatty Acid Synthase.
            The Entire Crystal Structure Consists Of One
            Heterododecameric Fatty Acid Synthase And Is Described In
            Remark 400
 pdb|2UV9|B Chain B, Crystal Structure Of Fatty Acid Synthase From Thermomyces
            Lanuginosus At 3.1 Angstrom Resolution. This File
            Contains The Alpha Subunits Of The Fatty Acid Synthase.
            The Entire Crystal Structure Consists Of One
            Heterododecameric Fatty Acid Synthase And Is Described In
            Remark 400
 pdb|2UV9|C Chain C, Crystal Structure Of Fatty Acid Synthase From Thermomyces
            Lanuginosus At 3.1 Angstrom Resolution. This File
            Contains The Alpha Subunits Of The Fatty Acid Synthase.
            The Entire Crystal Structure Consists Of One
            Heterododecameric Fatty Acid Synthase And Is Described In
            Remark 400
 pdb|2UV9|D Chain D, Crystal Structure Of Fatty Acid Synthase From Thermomyces
            Lanuginosus At 3.1 Angstrom Resolution. This File
            Contains The Alpha Subunits Of The Fatty Acid Synthase.
            The Entire Crystal Structure Consists Of One
            Heterododecameric Fatty Acid Synthase And Is Described In
            Remark 400
 pdb|2UV9|E Chain E, Crystal Structure Of Fatty Acid Synthase From Thermomyces
            Lanuginosus At 3.1 Angstrom Resolution. This File
            Contains The Alpha Subunits Of The Fatty Acid Synthase.
            The Entire Crystal Structure Consists Of One
            Heterododecameric Fatty Acid Synthase And Is Described In
            Remark 400
 pdb|2UV9|F Chain F, Crystal Structure Of Fatty Acid Synthase From Thermomyces
            Lanuginosus At 3.1 Angstrom Resolution. This File
            Contains The Alpha Subunits Of The Fatty Acid Synthase.
            The Entire Crystal Structure Consists Of One
            Heterododecameric Fatty Acid Synthase And Is Described In
            Remark 400
 pdb|2UVB|A Chain A, Crystal Structure Of Fatty Acid Synthase Complexed With
            Nadp+ From Thermomyces Lanuginosus At 3.1 Angstrom
            Resolution. This File Contains The Alpha Subunits Of The
            Fatty Acid Synthase. The Entire Crystal Structure
            Consists Of One Heterododecameric Fatty Acid Synthase And
            Is Described In Remark 400
 pdb|2UVB|B Chain B, Crystal Structure Of Fatty Acid Synthase Complexed With
            Nadp+ From Thermomyces Lanuginosus At 3.1 Angstrom
            Resolution. This File Contains The Alpha Subunits Of The
            Fatty Acid Synthase. The Entire Crystal Structure
            Consists Of One Heterododecameric Fatty Acid Synthase And
            Is Described In Remark 400
 pdb|2UVB|C Chain C, Crystal Structure Of Fatty Acid Synthase Complexed With
            Nadp+ From Thermomyces Lanuginosus At 3.1 Angstrom
            Resolution. This File Contains The Alpha Subunits Of The
            Fatty Acid Synthase. The Entire Crystal Structure
            Consists Of One Heterododecameric Fatty Acid Synthase And
            Is Described In Remark 400
 pdb|2UVB|D Chain D, Crystal Structure Of Fatty Acid Synthase Complexed With
            Nadp+ From Thermomyces Lanuginosus At 3.1 Angstrom
            Resolution. This File Contains The Alpha Subunits Of The
            Fatty Acid Synthase. The Entire Crystal Structure
            Consists Of One Heterododecameric Fatty Acid Synthase And
            Is Described In Remark 400
 pdb|2UVB|E Chain E, Crystal Structure Of Fatty Acid Synthase Complexed With
            Nadp+ From Thermomyces Lanuginosus At 3.1 Angstrom
            Resolution. This File Contains The Alpha Subunits Of The
            Fatty Acid Synthase. The Entire Crystal Structure
            Consists Of One Heterododecameric Fatty Acid Synthase And
            Is Described In Remark 400
 pdb|2UVB|F Chain F, Crystal Structure Of Fatty Acid Synthase Complexed With
            Nadp+ From Thermomyces Lanuginosus At 3.1 Angstrom
            Resolution. This File Contains The Alpha Subunits Of The
            Fatty Acid Synthase. The Entire Crystal Structure
            Consists Of One Heterododecameric Fatty Acid Synthase And
            Is Described In Remark 400
          Length = 1878

 Score = 28.1 bits (61), Expect = 9.5,   Method: Compositional matrix adjust.
 Identities = 27/73 (36%), Positives = 37/73 (50%), Gaps = 6/73 (8%)

Query: 146  ITSDMF-AKDSGKYVEEKKLRVILMSPPQSPVLLPRNGELKQDSSPETSLQKDRALSGVE 204
            I + +F AKD   Y +  + +V L   PQS V    NGELK  + P T    D+  SG +
Sbjct: 1674 INNKLFVAKDKAPYEDRIQSKVFLN--PQSRVTQESNGELKFPAEPVTPT-GDKKQSGTQ 1730

Query: 205  NIPPGDGVAANAE 217
               P +  AA+AE
Sbjct: 1731 T--PSESDAASAE 1741


  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
   0.316    0.132    0.364 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,302,223
Number of Sequences: 62578
Number of extensions: 399525
Number of successful extensions: 1075
Number of sequences better than 100.0: 37
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 27
Number of HSP's that attempted gapping in prelim test: 1060
Number of HSP's gapped (non-prelim): 42
length of query: 401
length of database: 14,973,337
effective HSP length: 101
effective length of query: 300
effective length of database: 8,652,959
effective search space: 2595887700
effective search space used: 2595887700
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)