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= 030060
         (183 letters)

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

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



>pdb|3N1H|A Chain A, Crystal Structure Of Stwhy2
 pdb|3N1I|A Chain A, Crystal Structure Of A Stwhy2-Ere32 Complex
 pdb|3N1J|A Chain A, Crystal Structure Of A Stwhy2-Dt32 Complex
 pdb|3N1K|A Chain A, Crystal Structure Of A Stwhy2-Cere32 Complex
 pdb|3N1L|A Chain A, Crystal Structure Of A Stwhy2-Rcere32 Complex
          Length = 178

 Score =  181 bits (459), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 86/126 (68%), Positives = 105/126 (83%), Gaps = 2/126 (1%)

Query: 53  GSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDW 112
           G   GR+FAPY V+KGKAA S +P LPTF +LDSG +K+ R+GVI+LTF P++GERKYDW
Sbjct: 5   GKREGRVFAPYSVFKGKAALSAEPRLPTFNRLDSGGVKLNRRGVIMLTFWPSVGERKYDW 64

Query: 113 AKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANAD--GFFISL 170
            K+Q FALS TEVGSL++MG RDSSEFFHDP+MLSSNAGQ+RKSLSIK NAD  G+FISL
Sbjct: 65  EKRQLFALSATEVGSLISMGTRDSSEFFHDPSMLSSNAGQVRKSLSIKPNADGSGYFISL 124

Query: 171 ICIASS 176
             + ++
Sbjct: 125 SVVNNN 130


>pdb|3R9Y|A Chain A, Crystal Structure Of Stwhy2 K67a (Form I)
 pdb|3R9Z|A Chain A, Crystal Structure Of Stwhy2 K67a (Form Ii)
 pdb|3RA0|A Chain A, Crystal Structure Of A Stwhy2 K67a-Dt32 Complex
          Length = 178

 Score =  179 bits (453), Expect = 9e-46,   Method: Compositional matrix adjust.
 Identities = 85/126 (67%), Positives = 104/126 (82%), Gaps = 2/126 (1%)

Query: 53  GSLGGRIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDW 112
           G   GR+FAPY V+KG AA S +P LPTF +LDSG +K+ R+GVI+LTF P++GERKYDW
Sbjct: 5   GKREGRVFAPYSVFKGAAALSAEPRLPTFNRLDSGGVKLNRRGVIMLTFWPSVGERKYDW 64

Query: 113 AKKQHFALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANAD--GFFISL 170
            K+Q FALS TEVGSL++MG RDSSEFFHDP+MLSSNAGQ+RKSLSIK NAD  G+FISL
Sbjct: 65  EKRQLFALSATEVGSLISMGTRDSSEFFHDPSMLSSNAGQVRKSLSIKPNADGSGYFISL 124

Query: 171 ICIASS 176
             + ++
Sbjct: 125 SVVNNN 130


>pdb|1L3A|A Chain A, Structure Of The Plant Transcriptional Regulator Pbf-2
 pdb|1L3A|B Chain B, Structure Of The Plant Transcriptional Regulator Pbf-2
 pdb|1L3A|C Chain C, Structure Of The Plant Transcriptional Regulator Pbf-2
 pdb|1L3A|D Chain D, Structure Of The Plant Transcriptional Regulator Pbf-2
          Length = 227

 Score =  122 bits (305), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 54/108 (50%), Positives = 79/108 (73%)

Query: 58  RIFAPYYVYKGKAAFSVDPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERKYDWAKKQH 117
           ++F  Y +YKGKAA +V+P  P F  LDSG  K+ R+G+++L FAPA G R+YDW++KQ 
Sbjct: 37  KVFVGYSIYKGKAALTVEPRSPEFSPLDSGAFKLSREGMVMLQFAPAAGVRQYDWSRKQV 96

Query: 118 FALSPTEVGSLLTMGPRDSSEFFHDPAMLSSNAGQMRKSLSIKANADG 165
           F+LS TE+GS++++G +DS EFFHDP    S+ G++RK L ++   DG
Sbjct: 97  FSLSVTEIGSIISLGTKDSCEFFHDPNKGRSDEGRVRKVLKVEPLPDG 144


>pdb|1N26|A Chain A, Crystal Structure Of The Extra-Cellular Domains Of Human
           Interleukin-6 Receptor Alpha Chain
          Length = 325

 Score = 28.1 bits (61), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 12/42 (28%), Positives = 21/42 (50%)

Query: 137 SEFFHDPAMLSSNAGQMRKSLSIKANADGFFISLICIASSHG 178
           +E F +P   S  + +    L++      F+I  +C+ASS G
Sbjct: 139 AEDFQEPCQYSQESQKFSCQLAVPEGDSSFYIVSMCVASSVG 180


>pdb|3TQQ|A Chain A, Structure Of The Methionyl-Trna Formyltransferase (Fmt)
           From Coxiella Burnetii
          Length = 314

 Score = 28.1 bits (61), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 17/60 (28%), Positives = 32/60 (53%), Gaps = 8/60 (13%)

Query: 75  DPVLPTFMKLDSGDLKVKRKGVILLTFAPAIGERK--YDWAK------KQHFALSPTEVG 126
           D +L +  KL+ GD+K++++     T+A  I +++   DW K      +Q  A +PT + 
Sbjct: 176 DLLLESLAKLEKGDIKLEKQDEASATYASKIQKQEALIDWRKSAVEIARQVRAFNPTPIA 235


>pdb|1P9M|C Chain C, Crystal Structure Of The Hexameric Human Il-6/il-6 Alpha
           Receptor/gp130 Complex
          Length = 201

 Score = 27.7 bits (60), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 12/42 (28%), Positives = 21/42 (50%)

Query: 137 SEFFHDPAMLSSNAGQMRKSLSIKANADGFFISLICIASSHG 178
           +E F +P   S  + +    L++      F+I  +C+ASS G
Sbjct: 44  AEDFQEPCQYSQESQKFSCQLAVPEGDSSFYIVSMCVASSVG 85


  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
   0.319    0.135    0.396 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,678,167
Number of Sequences: 62578
Number of extensions: 174673
Number of successful extensions: 321
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 315
Number of HSP's gapped (non-prelim): 8
length of query: 183
length of database: 14,973,337
effective HSP length: 93
effective length of query: 90
effective length of database: 9,153,583
effective search space: 823822470
effective search space used: 823822470
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: 48 (23.1 bits)