RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254781160|ref|YP_003065573.1| 16S rRNA m3U1498
methyltransferase [Candidatus Liberibacter asiaticus str. psy62]
         (245 letters)



>d1vhka2 c.116.1.5 (A:74-253) Hypothetical protein YqeU {Bacillus
           subtilis [TaxId: 1423]}
          Length = 180

 Score =  125 bits (316), Expect = 3e-30
 Identities = 43/170 (25%), Positives = 69/170 (40%), Gaps = 11/170 (6%)

Query: 81  DVQYIFSPIKTNRLDYMIQKSVEMGMGAIRPVITRYT------QNTHYNMDRVRTYTISA 134
            V       K ++L+++IQK  E+G  A  P     +      +      +R       A
Sbjct: 7   KVYIASGLPKGDKLEWIIQKGTELGAHAFIPFQAARSVVKLDDKKAKKKRERWTKIAKEA 66

Query: 135 AEQCDILTLPFIYPPTTLEFLLKNWDHNCQIVFADETCGSENSLEKLHAIA----HIPNV 190
           AEQ     +P +    + + LL+      + V A E    +  +    AI        ++
Sbjct: 67  AEQSYRNEVPRVMDVHSFQQLLQRMQDFDKCVVAYEESSKQGEISAFSAIVSSLPKGSSL 126

Query: 191 AILIGPEGGYHSEEKETLHSLPFVTPLSLGPRILRSDTAAVAAMALVQAI 240
            I+ GPEGG    E E L     V    LGPRILR++TA + A++ +   
Sbjct: 127 LIVFGPEGGLTEAEVERLTEQDGV-TCGLGPRILRTETAPLYALSAISYQ 175


>d1nxza2 c.116.1.5 (A:74-247) Hypothetical protein HI0303
           {Haemophilus influenzae [TaxId: 727]}
          Length = 174

 Score =  124 bits (312), Expect = 7e-30
 Identities = 45/166 (27%), Positives = 76/166 (45%), Gaps = 11/166 (6%)

Query: 85  IFSPIKTNRLDYMIQKSVEMGMGAIRPVITRYT------QNTHYNMDRVRTYTISAAEQC 138
                +  R+++ IQKSVE+G+  I P+ +         +     + + +   I+A EQC
Sbjct: 10  GQVISRGERMEFTIQKSVELGVNVITPLWSERCGVKLDAERMDKKIQQWQKIAIAACEQC 69

Query: 139 DILTLPFIYPPTTLEFLLKNWDHNCQIVFADETCGSENSLEKLHAIAHIPNVAILIGPEG 198
               +P I P   L+      D   ++        S  +L  + A      V +LIG EG
Sbjct: 70  GRNIVPEIRPLMKLQDWCAENDGALKLNLHPRAHYSIKTLPTIPA----GGVRLLIGSEG 125

Query: 199 GYHSEEKETLHSLPFVTPLSLGPRILRSDTAAVAAMALVQAICGDW 244
           G  ++E        F T + LG R+LR++TA++AA++ +Q   GD 
Sbjct: 126 GLSAQEIAQTEQQGF-TEILLGKRVLRTETASLAAISALQICFGDL 170


>d1v6za2 c.116.1.5 (A:67-228) Hypothetical protein TTHA0657 (TT1575)
           {Thermus thermophilus [TaxId: 274]}
          Length = 162

 Score =  120 bits (301), Expect = 1e-28
 Identities = 46/165 (27%), Positives = 82/165 (49%), Gaps = 12/165 (7%)

Query: 81  DVQYIFSPIKTNRLDYMIQKSVEMGMGAIRPVITRYTQNTHYNMDRVR---TYTISAAEQ 137
           +V    + +K ++L  +++ + E+G   I+P++TR++        ++R      + AA+Q
Sbjct: 6   EVVLYVALLKGDKLAEVVRAATELGATRIQPLVTRHSVPKEMGEGKLRRLRAVALEAAKQ 65

Query: 138 CDILTLPFIYPPTTLEFLLKNWDHNCQIVFADETCGSENSLEKLHAIAHIPNVAILIGPE 197
              + +P + PP  L+ + +        V A               +     +A+ +GPE
Sbjct: 66  SGRVVVPEVLPPIPLKAVPQVAQGLVAHVGATARV--------REVLDPEKPLALAVGPE 117

Query: 198 GGYHSEEKETLHSLPFVTPLSLGPRILRSDTAAVAAMALVQAICG 242
           GG+  EE   L +  F TP+SLG RILR++TAA+A +AL  A  G
Sbjct: 118 GGFAEEEVALLEARGF-TPVSLGRRILRAETAALALLALCTAGEG 161


>d1nxza1 b.122.1.2 (A:2-73) Hypothetical protein HI0303
          {Haemophilus influenzae [TaxId: 727]}
          Length = 72

 Score = 67.9 bits (166), Expect = 8e-13
 Identities = 20/63 (31%), Positives = 36/63 (57%), Gaps = 1/63 (1%)

Query: 9  RLFVDFPLCIKTQGKASGDQYHYLAHVLRMKEGDNILLFNGKDGEWLSKISYVGK-SIRF 67
          R++    L  +TQ   S D  +++A VLRM EG+ + LF+G +  + +KI    K S++ 
Sbjct: 4  RIYHPISLENQTQCYLSEDAANHVARVLRMTEGEQLELFDGSNHIYPAKIIESNKKSVKV 63

Query: 68 KVE 70
          ++ 
Sbjct: 64 EIL 66


>d1vhka1 b.122.1.2 (A:2-73) Hypothetical protein YqeU {Bacillus
          subtilis [TaxId: 1423]}
          Length = 72

 Score = 64.5 bits (157), Expect = 8e-12
 Identities = 15/66 (22%), Positives = 30/66 (45%), Gaps = 4/66 (6%)

Query: 9  RLFVDFPLCIKTQGKA---SGDQYHYLAHVLRMKEGDNILLFNGKDGEWLSKISYVGK-S 64
          R F++       +      +G++ H++ +V+RM EGD I+  +    E   ++  V K  
Sbjct: 2  RYFIELTKQQIEEAPTFSITGEEVHHIVNVMRMNEGDQIICCSQDGFEAKCELQSVSKDK 61

Query: 65 IRFKVE 70
          +   V 
Sbjct: 62 VSCLVI 67


>d1n7ea_ b.36.1.1 (A:) Glutamate receptor-interacting protein 1,
          GRIP1 {Rat (Rattus norvegicus) [TaxId: 10116]}
          Length = 95

 Score = 27.1 bits (60), Expect = 1.6
 Identities = 14/81 (17%), Positives = 27/81 (33%), Gaps = 15/81 (18%)

Query: 15 PLCIKTQGKASGDQYHYLAHVL---------RMKEGDNILLFNGKDGEWLS------KIS 59
          PL I   G         ++ +           +  GD IL  N    +          + 
Sbjct: 15 PLGITISGTEEPFDPIIISSLTKGGLAERTGAIHIGDRILAINSSSLKGKPLSEAIHLLQ 74

Query: 60 YVGKSIRFKVEYQSRSQTKQS 80
            G+++  K++ Q+ +Q   S
Sbjct: 75 MAGETVTLKIKKQTDAQPASS 95


>d1v5la_ b.36.1.1 (A:) Alpha-actinin-2 associated LIM protein
          {Mouse (Mus musculus) [TaxId: 10090]}
          Length = 103

 Score = 26.5 bits (58), Expect = 2.3
 Identities = 12/65 (18%), Positives = 24/65 (36%), Gaps = 9/65 (13%)

Query: 25 SGDQYHYLAHVLRMKEGDNILLFNGKDGEWLS------KISYVGKSIRFKVEYQSRSQTK 78
          +       A    +  GD IL  +G   E ++      +I      +  K++   R++T+
Sbjct: 34 TRITPGSKAAAANLCPGDVILAIDGFGTESMTHADAQDRIKAASYQLCLKID---RAETR 90

Query: 79 QSDVQ 83
              Q
Sbjct: 91 LWSPQ 95


>d1m5za_ b.36.1.1 (A:) Glutamate receptor interacting protein {Rat
          (Rattus norvegicus) [TaxId: 10116]}
          Length = 91

 Score = 25.7 bits (56), Expect = 4.2
 Identities = 6/44 (13%), Positives = 13/44 (29%), Gaps = 6/44 (13%)

Query: 33 AHVLRMKEGDNILLFNGKD------GEWLSKISYVGKSIRFKVE 70
            +  +K  D +L  N            +  I+  G  +   + 
Sbjct: 45 GDLGGLKPYDRLLQVNHVRTRDFDCCLVVPLIAESGNKLDLVIS 88


>d1vb7a_ b.36.1.1 (A:) PDZ-LIM protein mystique {Mouse (Mus
          musculus) [TaxId: 10090]}
          Length = 94

 Score = 25.3 bits (55), Expect = 4.8
 Identities = 11/52 (21%), Positives = 20/52 (38%), Gaps = 6/52 (11%)

Query: 30 HYLAHVLRMKEGDNILLFNGKDGEWLS------KISYVGKSIRFKVEYQSRS 75
             A    ++ GD I+  NG+  E +       KI      +R +++  S  
Sbjct: 40 RGKAEAADLRPGDIIVAINGQSAENMLHAEAQSKIRQSASPLRLQLDRSSGP 91


>d2mev3_ b.121.4.1 (3:) Mengo encephalomyocarditis virus coat
           proteins {Mengovirus [TaxId: 12107]}
          Length = 231

 Score = 25.2 bits (55), Expect = 4.9
 Identities = 24/125 (19%), Positives = 38/125 (30%), Gaps = 20/125 (16%)

Query: 31  YLAHVLRMKEGDNILLFNGKDGEWLSKISYVGKSI---RFKVEYQSRSQTK-QSDVQYIF 86
           +LA + R         F    G  +    + G ++   +F + Y      K  S  Q + 
Sbjct: 93  FLAALSRN--------FAQYRGSLVYTFVFTGTAMMKGKFLIAYTPPGAGKPTSRDQAMQ 144

Query: 87  SPIKTNRLDYMIQKSVEMGMGAIRPVITRYTQNTHYNMDRVRTYTISAAEQCDILTLPFI 146
           +       D  +  S    +  I P   R       N+  V  +          LT P  
Sbjct: 145 ATYAI--WDLGLNSSYSFTVPFISPTHFRMVGTDQANITNVDGWV-----TVWQLT-PLT 196

Query: 147 YPPTT 151
           YPP  
Sbjct: 197 YPPGC 201


>d2h9fa2 d.21.1.4 (A:187-395) Hypothetical protein PA0793
           {Pseudomonas aeruginosa [TaxId: 287]}
          Length = 209

 Score = 24.9 bits (54), Expect = 6.3
 Identities = 12/65 (18%), Positives = 21/65 (32%)

Query: 172 CGSENSLEKLHAIAHIPNVAILIGPEGGYHSEEKETLHSLPFVTPLSLGPRILRSDTAAV 231
            G   + E+     H P +A +  P     +  K        +   +L    L       
Sbjct: 74  MGLIKTPEEAATRQHTPKIAFVAPPRDYRTASGKLVAAGDIDLLVRALSMGKLHHAMMGT 133

Query: 232 AAMAL 236
           AA+A+
Sbjct: 134 AAVAI 138


>d1rgwa_ b.36.1.1 (A:) Zasp (Cypher, Oracle 1) {Human (Homo
          sapiens) [TaxId: 9606]}
          Length = 85

 Score = 24.4 bits (53), Expect = 8.3
 Identities = 7/51 (13%), Positives = 21/51 (41%), Gaps = 6/51 (11%)

Query: 30 HYLAHVLRMKEGDNILLFNGKDGEWLS------KISYVGKSIRFKVEYQSR 74
             A   ++ +GD ++  +G + + ++      KI     ++   ++   R
Sbjct: 35 GSKAAQSQLSQGDLVVAIDGVNTDTMTHLEAQNKIKSASYNLSLTLQKSKR 85


  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
   0.321    0.136    0.414 

Gapped
Lambda     K      H
   0.267   0.0632    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 918,834
Number of extensions: 40622
Number of successful extensions: 123
Number of sequences better than 10.0: 1
Number of HSP's gapped: 117
Number of HSP's successfully gapped: 13
Length of query: 245
Length of database: 2,407,596
Length adjustment: 83
Effective length of query: 162
Effective length of database: 1,268,006
Effective search space: 205416972
Effective search space used: 205416972
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: 52 (24.0 bits)