RPS-BLAST 2.2.22 [Sep-27-2009]

Database: pdb70 
           24,244 sequences; 5,693,230 total letters

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

Query= gi|254781042|ref|YP_003065455.1| succinate dehydrogenase
hydrophobic membrane anchor [Candidatus Liberibacter asiaticus str.
psy62]
         (130 letters)



>2wdq_D Succinate dehydrogenase hydrophobic membrane anchor subunit;
           succinate dehydrogenase activity, cell inner membrane,
           tricarboxylic acid cycle; HET: FAD HEM CBE; 2.40A
           {Escherichia coli} PDB: 1nen_D* 2acz_D* 1nek_D* 2wdr_D*
           2wdv_D*
          Length = 115

 Score = 67.1 bits (164), Expect = 1e-12
 Identities = 25/112 (22%), Positives = 49/112 (43%)

Query: 13  RGMGSAKDGTGHFIKQRFTAIANIPFIIFFIAFFIKYGDAPYEQIVSVLSNVAVASIMGL 72
                 ++G   FI  R TAI    +II+ + FF   G+  YE  +   ++        L
Sbjct: 4   NASALGRNGVHDFILVRATAIVLTLYIIYMVGFFATSGELTYEVWIGFFASAFTKVFTLL 63

Query: 73  GTISISVHMQLGMQVIIEDYIHYRLLKIMFLFMNSCFVLLLIIFCLFSLLKI 124
              SI +H  +GM  ++ DY+    L++M   +    +++ +I+    +  +
Sbjct: 64  ALFSILIHAWIGMWQVLTDYVKPLALRLMLQLVIVVALVVYVIYGFVVVWGV 115


>2h88_D Succinate dehydrogenase cytochrome B, small subunit; complex II,
           membrane protein, heme protein, iron sulfur protein,
           oxidoreductase, redox enzyme; HET: FAD BHG HEM UNL;
           1.74A {Gallus gallus} PDB: 1yq4_D* 1yq3_D* 2fbw_D*
           2h89_D* 1zoy_D* 1zp0_D*
          Length = 103

 Score = 55.2 bits (133), Expect = 5e-09
 Identities = 11/100 (11%), Positives = 30/100 (30%), Gaps = 19/100 (19%)

Query: 16  GSAKDGTGHFIKQRFTAIANIPFIIFFIAFFIKYGDAPYEQIVSVLSNVAVASIMGLGTI 75
           GS+K  + H+  +R  +   +  +     +                      ++      
Sbjct: 1   GSSKAASLHWTSERAVSALLLGLLPAAYLYP-------------------GPAVDYSLAA 41

Query: 76  SISVHMQLGMQVIIEDYIHYRLLKIMFLFMNSCFVLLLII 115
           ++++H   G+  +I DY+H      +          +   
Sbjct: 42  ALTLHGHWGLGQVITDYVHGDTPIKVANTGLYVLSAITFT 81


>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
           acyl-carrier-protein, beta-ketoacyl reductase,
           beta-ketoacyl synthase, dehydratase; 4.00A
           {Saccharomyces cerevisiae}
          Length = 2006

 Score = 28.4 bits (63), Expect = 0.54
 Identities = 10/26 (38%), Positives = 11/26 (42%), Gaps = 8/26 (30%)

Query: 2   DFDMRSSLGRVRGMGS----AKDGTG 23
           DF      G   G+G      KDGTG
Sbjct: 503 DFGP----GGASGLGVLTHRNKDGTG 524


>3gzs_A Uncharacterized SUSD superfamily protein; structural genomics,
           joint center for structural genomics, JCSG; 2.09A
           {Bacteroides fragilis nctc 9343}
          Length = 515

 Score = 25.3 bits (54), Expect = 4.0
 Identities = 8/30 (26%), Positives = 10/30 (33%)

Query: 27  KQRFTAIANIPFIIFFIAFFIKYGDAPYEQ 56
                A+A I  I         +G  PY Q
Sbjct: 118 NDEIYALAQIIKIAALHRTTDMFGPIPYSQ 147


>1zmb_A Acetylxylan esterase related enzyme; alpha-beta protein, structural
           genomics, PSI, protein structure initiative; 2.61A
           {Clostridium acetobutylicum atcc 824} SCOP: c.23.10.7
          Length = 290

 Score = 25.4 bits (55), Expect = 4.1
 Identities = 9/59 (15%), Positives = 16/59 (27%), Gaps = 12/59 (20%)

Query: 35  NIPFIIFFIAFFIKYGDAPYE------------QIVSVLSNVAVASIMGLGTISISVHM 81
           +IP II  +  F+                    +      N    +  GL      +H+
Sbjct: 150 DIPIIIGGLGDFLGKERFGKGCTEYNFINKELQKFAFEQDNCYFVTASGLTCNPDGIHI 208


>1gtz_A 3-dehydroquinate dehydratase; lyase, type II dehydroquinase,
           shikimate pathway, dodecameric quaternary structure;
           HET: DHK; 1.6A {Streptomyces coelicolor} SCOP: c.23.13.1
           PDB: 2bt4_A* 1v1j_A* 2cjf_A* 1d0i_A 1gu0_A 1gu1_A*
          Length = 156

 Score = 25.1 bits (55), Expect = 4.5
 Identities = 10/55 (18%), Positives = 17/55 (30%), Gaps = 3/55 (5%)

Query: 22  TGHFIKQRFTAIANIPFIIFFIAFFIKYGDAPYEQIVSVLSNVAVASIMGLGTIS 76
           T   I         +P +   I+    +   P+    S +S  A   + G G   
Sbjct: 86  TSVAILDALNTCDGLPVVEVHIS--NIHQREPFRHH-SYVSQRADGVVAGCGVQG 137


>1ohu_A Apoptosis regulator CED-9; BCL-2 family; 2.03A {Caenorhabditis
          elegans} SCOP: f.1.4.1 PDB: 1ty4_A
          Length = 175

 Score = 24.9 bits (54), Expect = 6.4
 Identities = 3/14 (21%), Positives = 8/14 (57%)

Query: 86 QVIIEDYIHYRLLK 99
          +  + DY  +R+ +
Sbjct: 14 EGFVVDYFTHRIRQ 27


>2a5y_A Apoptosis regulator CED-9; apoptosis; HET: ATP; 2.60A
          {Caenorhabditis elegans} SCOP: f.1.4.1
          Length = 204

 Score = 24.5 bits (53), Expect = 6.7
 Identities = 4/16 (25%), Positives = 10/16 (62%)

Query: 82 QLGMQVIIEDYIHYRL 97
          +L ++  + DY  +R+
Sbjct: 30 RLDIEGFVVDYFTHRI 45


>1xg2_A Pectinesterase 1; protein-protein complex, beta helix,four helix
          bundle, hydrolase/hydrolase inhibitor complex; 1.90A
          {Solanum lycopersicum}
          Length = 317

 Score = 24.5 bits (53), Expect = 7.6
 Identities = 19/65 (29%), Positives = 31/65 (47%), Gaps = 18/65 (27%)

Query: 18 AKDGTGHF--IKQRFTAIANIP------FIIFFIAFFIKYGDAPYEQIVSVLSNVAVASI 69
          A+DGTG +  + +   A+A  P      ++I     ++K G   Y++ V V SN     I
Sbjct: 8  AQDGTGDYQTLAE---AVAAAPDKSKTRYVI-----YVKRGT--YKENVEVASNKMNLMI 57

Query: 70 MGLGT 74
          +G G 
Sbjct: 58 VGDGM 62


>2w3l_A BCL2-XL, apoptosis regulator BCL-2; HET: DRO; 2.10A {Homo
          sapiens} PDB: 2o2f_A*
          Length = 144

 Score = 24.0 bits (52), Expect = 9.9
 Identities = 6/14 (42%), Positives = 10/14 (71%)

Query: 86 QVIIEDYIHYRLLK 99
          + I+  YIHY+L +
Sbjct: 4  REIVMKYIHYKLSQ 17


  Database: pdb70
    Posted date:  Jan 26, 2011 11:21 AM
  Number of letters in database: 5,693,230
  Number of sequences in database:  24,244
  
Lambda     K      H
   0.337    0.149    0.436 

Gapped
Lambda     K      H
   0.267   0.0613    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,119,372
Number of extensions: 48473
Number of successful extensions: 215
Number of sequences better than 10.0: 1
Number of HSP's gapped: 213
Number of HSP's successfully gapped: 34
Length of query: 130
Length of database: 5,693,230
Length adjustment: 82
Effective length of query: 48
Effective length of database: 3,705,222
Effective search space: 177850656
Effective search space used: 177850656
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.7 bits)
S2: 51 (23.7 bits)