RPS-BLAST 2.2.22 [Sep-27-2009]

Database: scop70_1_75 
           13,730 sequences; 2,407,596 total letters

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

Query= gi|254780710|ref|YP_003065123.1| diaminopimelate epimerase
[Candidatus Liberibacter asiaticus str. psy62]
         (296 letters)



>d2gkea2 d.21.1.1 (A:131-274) Diaminopimelate epimerase {Haemophilus
           influenzae [TaxId: 727]}
          Length = 144

 Score =  110 bits (277), Expect = 9e-26
 Identities = 49/124 (39%), Positives = 69/124 (55%), Gaps = 2/124 (1%)

Query: 159 VVSMGNPHAIFFVEDDLYHYDLASFGNLLAKHPMFSEGVNLSIARVTSLESLDLRTWERG 218
            VSMGNPH +  V DD+   ++   G LL  H  F E VN    ++ + E + LR +ERG
Sbjct: 22  AVSMGNPHCVVQV-DDIQTANVEQLGPLLESHERFPERVNAGFMQIINKEHIKLRVYERG 80

Query: 219 VGLTAACGSAACASVVASGCLHKTNRAVSVKMLGGGLLIEWH-DNNHVFMTGEAKKEWEG 277
            G T ACGS ACA+V         N  V V + GG L+IEW+   + ++MTGEA   ++G
Sbjct: 81  AGETQACGSGACAAVAVGIMQGLLNNNVQVDLPGGSLMIEWNGVGHPLYMTGEATHIYDG 140

Query: 278 KLDI 281
            + +
Sbjct: 141 FITL 144


>d2gkea1 d.21.1.1 (A:1-130) Diaminopimelate epimerase {Haemophilus
           influenzae [TaxId: 727]}
          Length = 130

 Score =  109 bits (272), Expect = 4e-25
 Identities = 47/127 (37%), Positives = 67/127 (52%), Gaps = 3/127 (2%)

Query: 8   FAKMEGIGNKILVIDMRGCHDNITSDAINALSTDD-NTHFDQIMLIHDFQDASVDAFIRI 66
           F+KM G+GN  +V+D    +   T + I  L+       FDQ++++    D  +D   RI
Sbjct: 3   FSKMHGLGNDFVVVDGVTQNVFFTPETIRRLANRHCGIGFDQLLIVEAPYDPELDFHYRI 62

Query: 67  INCDGSEVQSCGNGMRCVVRFLTSR--MKRKSFTFETIRGILVAKENRDGSISVDMGEPI 124
            N DGSEV  CGNG RC  RF+T +    +K  +  T +G +V     D  I V+MGEPI
Sbjct: 63  FNADGSEVSQCGNGARCFARFVTLKGLTNKKDISVSTQKGNMVLTVKDDNQIRVNMGEPI 122

Query: 125 LDWKLIP 131
            +   IP
Sbjct: 123 WEPAKIP 129


>d1u0ka2 d.21.1.2 (A:131-283) Hypothetical protein PA4716
           {Pseudomonas aeruginosa [TaxId: 287]}
          Length = 153

 Score = 70.9 bits (173), Expect = 1e-13
 Identities = 22/131 (16%), Positives = 42/131 (32%), Gaps = 13/131 (9%)

Query: 157 PFVVSMGNPHAIFFVEDDLYHYDLASFGNLLAKHPMFSEGVNLSIARVTSLESLDLRTWE 216
           P VVS G P+ +  V  +            +       + +  +   +  ++  + RTW+
Sbjct: 25  PRVVSTGLPYLLLPVTAEALGRARQ-----VNDLQEALDKLGAAFVYLLDVDGREGRTWD 79

Query: 217 R-GVGLTAACGSAACASVVASGCLHKTNRAVSVKMLGGG-------LLIEWHDNNHVFMT 268
             G+    A GSAA              R     +  G        L ++   +  V + 
Sbjct: 80  NLGLVEDVATGSAAGPVAAYLVEYGLAARGEPFVLHQGRFLERPSRLDVQVATDGSVRVG 139

Query: 269 GEAKKEWEGKL 279
           G  +     +L
Sbjct: 140 GHVQLLARAEL 150


>d1qy9a2 d.21.1.2 (A:130-297) Hypothetical protein YddE {Escherichia
           coli [TaxId: 562]}
          Length = 168

 Score = 52.5 bits (125), Expect = 4e-08
 Identities = 19/146 (13%), Positives = 42/146 (28%), Gaps = 23/146 (15%)

Query: 157 PFVVSMGNPHAIFFVED----DLYHYDLASFGNLLAKHPMFSEGVNLSIARVTSLESLDL 212
             V + G+   +  ++     D    DL +   +  K      G              D 
Sbjct: 25  IQVATTGHSKVMIPLKPEVDIDALSPDLNALTAISKKIGC--NGFFP-FQIRPGKNETDG 81

Query: 213 RTWERGVGLTAACGSAACASVVASGCLHK----------TNRAVSVKMLGGGLLIE---- 258
           R +   +G+     +      + +  +H             +    + LG   +IE    
Sbjct: 82  RMFSPAIGIVEDPVTGNANGPMGAWLVHHNVLPHDGNVLRVKGHQGRALGRDGMIEVTVT 141

Query: 259 --WHDNNHVFMTGEAKKEWEGKLDIK 282
              +    V ++G A   +  +  I+
Sbjct: 142 IRDNQPEKVTISGTAVILFHAEWAIE 167


>d1xuba2 d.21.1.2 (A:129-278) Phenazine biosynthesis protein PhzF
           {Pseudomonas fluorescens [TaxId: 294]}
          Length = 150

 Score = 49.8 bits (118), Expect = 3e-07
 Identities = 18/136 (13%), Positives = 35/136 (25%), Gaps = 14/136 (10%)

Query: 157 PFVVSMGNPHAIFFVEDDLYHYDLASFGNLLAKHPMFSEGVNLSIARVTSLESLDLRTWE 216
             +   G  H    +        L++          F +      A         + +  
Sbjct: 18  IEIYHNGPRHVFVGLPS---IDALSALHPDHRALSNFHDMAINCFAGAGRRWRSRMFSPA 74

Query: 217 RGVGLTAACGSAACASVVASGCLHKTNRAVSVKML-------GGGLLIEWHDNNH----V 265
            GV   AA GSAA    +      +      V++L          +  +          V
Sbjct: 75  YGVVEDAATGSAAGPLAIHLARHGQIEFGQPVEILQGVEIGRPSLMFAKAEGRAEQLTRV 134

Query: 266 FMTGEAKKEWEGKLDI 281
            ++G       G + +
Sbjct: 135 EVSGNGVTFGRGTIVL 150


>d1auka_ c.76.1.2 (A:) Arylsulfatase A {Human (Homo sapiens) [TaxId:
           9606]}
          Length = 485

 Score = 27.8 bits (60), Expect = 1.0
 Identities = 10/46 (21%), Positives = 20/46 (43%), Gaps = 4/46 (8%)

Query: 165 PHAIFFVEDDLYHYDLASFGNLLAKHP----MFSEGVNLSIARVTS 206
           P+ +    DDL + DL  +G+  +  P    + + G+  +   V  
Sbjct: 3   PNIVLIFADDLGYGDLGCYGHPSSTTPNLDQLAAGGLRFTDFYVPV 48


>d1xuba1 d.21.1.2 (A:1-128) Phenazine biosynthesis protein PhzF
           {Pseudomonas fluorescens [TaxId: 294]}
          Length = 128

 Score = 28.0 bits (62), Expect = 1.1
 Identities = 18/83 (21%), Positives = 29/83 (34%), Gaps = 9/83 (10%)

Query: 53  HDFQDASVDAFIRIINCDGSEVQSCGNGMRCVVRFLTSRMKRKSFTFETIRGIL-VAKEN 111
            +  DA +  F        +E+   G  +      L +         ET  G +    E 
Sbjct: 53  RNGGDALIRIF-----TPVNELPFAGAPLLGTAIALGAHTDNHRLYLETQMGTIAFELER 107

Query: 112 RDGS-ISVDMGEPILDWKLIPLA 133
           ++GS I+  M +PI  W    L 
Sbjct: 108 QNGSVIAASMDQPIPTWT--ALG 128


>d1p49a_ c.76.1.2 (A:) Steryl-sulfatase {Human (Homo sapiens)
           [TaxId: 9606]}
          Length = 553

 Score = 27.9 bits (60), Expect = 1.2
 Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 4/46 (8%)

Query: 165 PHAIFFVEDDLYHYDLASFGNLLAKHP----MFSEGVNLSIARVTS 206
           P+ I  + DDL   D   +GN   + P    + S GV L+     S
Sbjct: 5   PNIILVMADDLGIGDPGCYGNKTIRTPNIDRLASGGVKLTQHLAAS 50


>d2fvja1 a.123.1.1 (A:207-477) Peroxisome proliferator activated
           receptor gamma, PPAR-gamma {Human (Homo sapiens) [TaxId:
           9606]}
          Length = 271

 Score = 26.9 bits (59), Expect = 1.9
 Identities = 13/48 (27%), Positives = 19/48 (39%), Gaps = 6/48 (12%)

Query: 90  SRMKRKSFTFETIRGILVAK-ENRDGSISVDM-----GEPILDWKLIP 131
           S +K    T    R IL  K  ++   +  DM     GE  + +K I 
Sbjct: 15  SYIKSFPLTKAKARAILTGKTTDKSPFVIYDMNSLMMGEDKIKFKHIT 62


>d2c1ia1 c.6.2.3 (A:268-463) Peptidoglycan GlcNAc deacetylase
           C-terminal domain {Streptococcus pneumoniae [TaxId:
           1313]}
          Length = 196

 Score = 25.9 bits (56), Expect = 4.1
 Identities = 11/63 (17%), Positives = 24/63 (38%), Gaps = 5/63 (7%)

Query: 5   MVDFAKMEGIGNKILVIDMRGCHDNITSDAINALSTDDNTHFDQIMLIHDFQDASVDAFI 64
           + +   +  I   +  +D +  ++      I             I+L+HD    +V+A  
Sbjct: 107 IRNSLDLSFIMWDVDSLDWKSKNEASILTEIQ-----HQVANGSIVLMHDIHSPTVNALP 161

Query: 65  RII 67
           R+I
Sbjct: 162 RVI 164


>d1haea_ g.3.11.1 (A:) Heregulin-alpha, EGF-like domain {Human
          (Homo sapiens) [TaxId: 9606]}
          Length = 63

 Score = 25.7 bits (56), Expect = 4.3
 Identities = 6/19 (31%), Positives = 8/19 (42%)

Query: 66 IINCDGSEVQSCGNGMRCV 84
          ++ C   E   C NG  C 
Sbjct: 3  LVKCAEKEKTFCVNGGECF 21


>d1w25a2 c.23.1.1 (A:141-293) Response regulator PleD, receiver
          domain {Caulobacter crescentus [TaxId: 155892]}
          Length = 153

 Score = 24.7 bits (53), Expect = 9.3
 Identities = 5/14 (35%), Positives = 13/14 (92%)

Query: 9  AKMEGIGNKILVID 22
          A+++G+G ++L++D
Sbjct: 7  ARLDGLGGRVLIVD 20


  Database: scop70_1_75
    Posted date:  Mar 27, 2010  6:21 PM
  Number of letters in database: 2,407,596
  Number of sequences in database:  13,730
  
Lambda     K      H
   0.322    0.137    0.420 

Gapped
Lambda     K      H
   0.267   0.0465    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,130,901
Number of extensions: 51375
Number of successful extensions: 136
Number of sequences better than 10.0: 1
Number of HSP's gapped: 127
Number of HSP's successfully gapped: 18
Length of query: 296
Length of database: 2,407,596
Length adjustment: 85
Effective length of query: 211
Effective length of database: 1,240,546
Effective search space: 261755206
Effective search space used: 261755206
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (24.8 bits)