RPS-BLAST 2.2.22 [Sep-27-2009]

Database: mmdb70 
           33,805 sequences; 4,956,049 total letters

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

Query= gi|254780868|ref|YP_003065281.1| birA bifunctional protein
[Candidatus Liberibacter asiaticus str. psy62]
         (252 letters)



>2cgh_A Biotin ligase; 1.8A {Mycobacterium tuberculosis} (A:1-221)
          Length = 221

 Score =  147 bits (371), Expect = 2e-36
 Identities = 53/204 (25%), Positives = 85/204 (41%), Gaps = 12/204 (5%)

Query: 9   QNPYSFRYEFFDTISSTNDECMKRALSGDL-GNLWIVASCQTAGRGRRDNKWISDKGNLY 67
                 + +      STN + + RA SG     + ++A  QTAGRGR    W +      
Sbjct: 25  AGSGWRQLDVVAQTGSTNADLLARAASGADIDGVVLIAEHQTAGRGRHGRGWAATARAQI 84

Query: 68  ASLLLI--DSISKDSLTLLSFAIAVAMRSVIASTLPV-GTDVKIKWPNDILVFQRKIAGI 124
              + +    +   +   LS A  +A+   +A  + V   +  +KWPND+L    K+AGI
Sbjct: 85  ILSVGVRVVDVPVQAWGWLSLAAGLAVLDSVAPLIAVPPAETGLKWPNDVLARGGKLAGI 144

Query: 125 LIETLNLKNGLQAVVVGIGLNVKHCPVDTPYPVTSLQREGG-CIDLKDIFSLLFQDVARV 183
           L E          VV+G+GLNV   P +     TSL   G    D   I S L +++   
Sbjct: 145 LAEVAQ-----PFVVLGVGLNVTQAPEEVDPDATSLLDLGVAAPDRNRIASRLLRELEAR 199

Query: 184 LDLWKKDTGREEIMNLWRCFACGI 207
           +  W+      ++   +R  +  I
Sbjct: 200 IIQWRN--ANPQLAADYRARSLTI 221


>1bia_A BIRA bifunctional protein; transcription regulation; 2.30A
           {Escherichia coli} (A:65-271)
          Length = 207

 Score =  147 bits (371), Expect = 2e-36
 Identities = 50/192 (26%), Positives = 82/192 (42%), Gaps = 8/192 (4%)

Query: 14  FRYEFFDTISSTNDECMKRALSGDLGNLWIVASCQTAGRGRRDNKWISDKGNL-YASLLL 72
                   I STN   + R      G    +A  Q AGRGRR  KW S  G   Y S+  
Sbjct: 15  GSVAVLPVIDSTNQYLLDRIGELKSG-DACIAEYQQAGRGRRGRKWFSPFGANLYLSMFW 73

Query: 73  IDSISKDSLTLLSFAIAVAMRSVIASTLPVGTDVKIKWPNDILVFQRKIAGILIETLNLK 132
                  +   LS  I + M  V+         V++KWPND+ +  RK+AGIL+E     
Sbjct: 74  RLEQGPAAAIGLSLVIGIVMAEVLRKLGAD--KVRVKWPNDLYLQDRKLAGILVELTGKT 131

Query: 133 NGLQAVVVGIGLNV--KHCPVDTPYPVTSLQREGGC-IDLKDIFSLLFQDVARVLDLWKK 189
                +V+G G+N+  +              +E G  +D   + ++L +++   L+L+++
Sbjct: 132 GDAAQIVIGAGINMAMRRVEESVVNQGWITLQEAGINLDRNTLAAMLIRELRAALELFEQ 191

Query: 190 DTGREEIMNLWR 201
           + G    ++ W 
Sbjct: 192 E-GLAPYLSRWE 202


>3bfm_A Biotin protein ligase-like protein of unknown function;
           YP_612389.1, structural genomics, joint center for
           structural genomics, JCSG; HET: 2PE; 1.70A {Silicibacter
           SP} (A:1-191)
          Length = 191

 Score =  143 bits (363), Expect = 1e-35
 Identities = 28/197 (14%), Positives = 53/197 (26%), Gaps = 20/197 (10%)

Query: 9   QNPYSFRYEFFDTISSTNDECMKRALSGDLGNLWIVASCQTAGRGRRDNKWISDKGNLYA 68
             P     E         D   ++                  G       +      L A
Sbjct: 7   TFPPLXTGEAAGPGQDPFDLACQK---------------AELGVDAGLVVYELGTDVLRA 51

Query: 69  SLLLIDSISKDSLTLLSFAIAVAMRSVIASTLPVGTDVKIKWPNDILVFQRKIAGILIET 128
           +L+L   +             V  ++ + +  P    V + W   + +   +   + I  
Sbjct: 52  ALVLAPEVPLAKAXAXLPVCGVGFQNALGALAPPEVAVHLDWNGALRINGARCGRLRIAA 111

Query: 129 LNLKNGLQ--AVVVGIGLNVKHCPVDTPYP-VTSLQREGG-CIDLKDIFSLLFQDVARVL 184
                  Q   +VVG+ L +         P  T+L  EG   +    +     +     +
Sbjct: 112 STDDPDTQPDWLVVGLDLPLWPEGDGGETPDETALYAEGCADVAAPRLLESWARHCLHWI 171

Query: 185 DLWKKDTGREEIMNLWR 201
           + W +    E I   WR
Sbjct: 172 NRWDEG-ELETIHGEWR 187


>2eay_A Biotin [acetyl-COA-carboxylase] ligase; biotin biosynthesis,
           dimer, X-RAY diffraction, structural genomics, NPPSFA;
           1.95A {Aquifex aeolicus} PDB: 3efs_A* 3fjp_A 3efr_A*
           (A:1-185)
          Length = 185

 Score =  137 bits (346), Expect = 2e-33
 Identities = 46/190 (24%), Positives = 83/190 (43%), Gaps = 15/190 (7%)

Query: 15  RYEFFDTISSTNDECMKRALSGDLGNLWIVASCQTAGRGRRDNKWISDKGNLYASLLLID 74
              +   + ST +   +  +S       +VA  QT GRGR   KW+S +G LY S LL  
Sbjct: 4   NLIWLKEVDSTQERLKEWNVSY---GTALVADRQTKGRGRLGRKWLSQEGGLYFSFLLNP 60

Query: 75  SISKDSLTLLSFAIAVAMRSVIASTLPVGTDVKIKWPNDILVFQRKIAGILIETLNLKNG 134
              ++ L  L   + +++   +     +     +KWPND+   ++K++G+L E       
Sbjct: 61  KEFEN-LLQLPLVLGLSVSEALEEITEI--PFSLKWPNDVYFQEKKVSGVLCELSK---- 113

Query: 135 LQAVVVGIGLNVK--HCPVDTPYPVTSLQREGG-CIDLKDIFSLLFQDVARVLDLWKKDT 191
              ++VGIG+NV     P +     T+L    G   D K++   + + ++  L  +K+  
Sbjct: 114 -DKLIVGIGINVNQREIPEEIKDRATTLYEITGKDWDRKEVLLKVLKRISENLKKFKEK- 171

Query: 192 GREEIMNLWR 201
             +E      
Sbjct: 172 SFKEFKGKIE 181


>2ej9_A Putative biotin ligase; biotin biosynthesis, monomer, X-RAY
           diffraction, structural genomics, NPPSFA; HET: BTN;
           2.00A {Methanocaldococcus jannaschii} (A:1-191)
          Length = 191

 Score =  124 bits (312), Expect = 1e-29
 Identities = 47/201 (23%), Positives = 87/201 (43%), Gaps = 17/201 (8%)

Query: 14  FRYEFFDTISSTNDECMKRALSGDLGNLWIVASCQTAGRGRRDNKWISDKGNLYASLLLI 73
                   I STND   + A  G      ++A  Q  G+GR    W SD+G LY S  ++
Sbjct: 1   MEIIHLSEIDSTNDYAKELAKEGKRNF-IVLADKQNNGKGRWGRVWYSDEGGLYFS--MV 57

Query: 74  DSISKDSLTLLSFAIAVAMRSVIASTLPVGTDVKIKWPNDILVFQ----RKIAGILIETL 129
                 +  +++  + + +  V+ + +    ++ +K+PNDI+V      +K+ GIL E  
Sbjct: 58  LDSKLYNPKVINLLVPICIIEVLKNYVDK--ELGLKFPNDIMVKVNDNYKKLGGILTEL- 114

Query: 130 NLKNGLQAVVVGIGLNVKHC-PVDTPYPVTSLQREGG-CIDLKDIFSLLFQDVARVLDLW 187
                   +++GIG+NV +    +      SL+   G  +D  +I S   +     L+  
Sbjct: 115 ----TDDYMIIGIGINVNNQIRNEIREIAISLKEITGKELDKVEILSNFLKTFESYLEKL 170

Query: 188 KKDTGR-EEIMNLWRCFACGI 207
           K       EI+  ++ ++  I
Sbjct: 171 KNKEIDDYEILKKYKKYSITI 191


>2dxu_A Biotin--[acetyl-COA-carboxylase] ligase; biotin
           biosynthesis, dimer, X-RAY diffraction, structural
           genomics, NPPSFA; HET: BT5; 1.28A {Pyrococcus
           horikoshii} PDB: 2dzc_A 2ejg_A* 2e3y_A* 2e41_A* 2e64_A
           2ejf_A* 2zgw_A* 1wqw_A* 1wpy_A* 1wq7_A 1wnl_A* 1x01_A*
           2dkg_A* 2dth_A* 2dti_A* 2dto_A* 2fyk_A* 2djz_A* 2hni_A
           2e10_A ... (A:1-187)
          Length = 187

 Score =  118 bits (296), Expect = 8e-28
 Identities = 61/189 (32%), Positives = 92/189 (48%), Gaps = 17/189 (8%)

Query: 14  FRYEFFDTISSTNDECMKRALSGDLGNLWIVASCQTAGRGRRDNKWISDKGNLYASLLLI 73
            R  +F  I+STN+      L        IVA  QT G G  + KW S +G L+ S++L 
Sbjct: 11  RRVIYFQEITSTNEFAKTSYLEEGT---VIVADKQTMGHGALNRKWESPEGGLWLSIVLS 67

Query: 74  DSISKDSLTLLSFAIAVAMRSVIASTLPVGTDVKIKWPNDILVFQRKIAGILIETLNLKN 133
             + +  L  + F  AV +   +        D +IKWPND+LV  +KIAG+L+E      
Sbjct: 68  PKVPQKDLPKIVFLGAVGVVETLKE---FSIDGRIKWPNDVLVNYKKIAGVLVEGKG--- 121

Query: 134 GLQAVVVGIGLNVKHCPVDTPYPVTSLQREGG-CIDLKDIFSLLFQDVARVLDLWKKDTG 192
               +V+GIGLNV       P   TS++ E G  + L  +F  L  ++ R+   + K+  
Sbjct: 122 --DKIVLGIGLNV---NNKVPNGATSMKLELGSEVPLLSVFRSLITNLDRLYLNFLKNPM 176

Query: 193 REEIMNLWR 201
             +I+NL R
Sbjct: 177 --DILNLVR 183


>2qhs_A Lipoyltransferase; globular protein; HET: OCA; 1.50A
           {Thermus thermophilus HB8} PDB: 2qht_A 2qhu_A 2qhv_A
           (A:)
          Length = 237

 Score = 82.9 bits (204), Expect = 4e-17
 Identities = 24/161 (14%), Positives = 47/161 (29%), Gaps = 10/161 (6%)

Query: 40  NLWIVASCQTAGRGRRDNKWISDKGNLYASLLLIDSISKDSLTLLSFAIAVAMRSVIAST 99
           + +     +     R  +      G L    +         +      I  A+  V A  
Sbjct: 81  SWYRENGFELYWVERGGDVTYHGPGQLVGYPIFPV---GREVRRFLRQIEEAIVRVAAGY 137

Query: 100 LPVGTDVKIKWPNDILVFQRKIAGILIETLNLKNGLQ-AVVVGIGLNVKHCPVDTPY--- 155
               +         + V + K+  I +      +    A+ V   LN     V       
Sbjct: 138 --GISAYPTPGYAGVWVGEDKLCAIGVAVKEGVSFHGFALNVNTDLNDFTVIVPCGLKGK 195

Query: 156 PVTSLQREGGC-IDLKDIFSLLFQDVARVLDLWKKDTGREE 195
            VTSL++  G  + +++  + +    A V  L   +    E
Sbjct: 196 GVTSLEKLLGRKVPMEEAKARVVAAFAEVFGLRPVEGSVHE 236


>1w66_A Lipoyltransferase; lipoate-protein ligase B, lipoic acid,
           acyltransferase, mycobacterium tuberculosis structural
           proteomics project; HET: DKA; 1.08A {Mycobacterium
           tuberculosis} (A:)
          Length = 232

 Score = 61.3 bits (148), Expect = 1e-10
 Identities = 16/148 (10%), Positives = 39/148 (26%), Gaps = 11/148 (7%)

Query: 48  QTAGRGRRDNKWISDKGNLYASLLLIDSISKDSLTLLSFAIAVAMRSVIASTLPVGTDVK 107
                 R         G L    ++  +   D +  +       ++      L      +
Sbjct: 72  PVVDTDRGGKITWHGPGQLVGYPIIGLAEPLDVVNYVRRLEESLIQVCADLGLH---AGR 128

Query: 108 IKWPNDILVFQRKIAGILIETLNLKNGLQAVVVGIGLNVKHCPVDTPYP-------VTSL 160
           +   + + +  R    +    + +          +  +          P       VTSL
Sbjct: 129 VDGRSGVWLPGRPARKVAAIGVRVSRATTLHGFALNCDCDLAAFTAIVPCGISDAAVTSL 188

Query: 161 QREGG-CIDLKDIFSLLFQDVARVLDLW 187
             E G  + + ++ + +   V   LD  
Sbjct: 189 SAELGRTVTVDEVRATVAAAVCAALDGV 216


>1vqz_A Lipoate-protein ligase, putative; NP_345629.1, structural
           genomics, joint center for structural genomics, JCSG;
           HET: MSE; 1.99A {Streptococcus pneumoniae TIGR4}
           (A:1-49,A:92-251)
          Length = 209

 Score = 38.8 bits (90), Expect = 7e-04
 Identities = 25/154 (16%), Positives = 47/154 (30%), Gaps = 27/154 (17%)

Query: 59  WISDKGNLYASLLLIDSISKDSLTLLSFAIAVAMRSVIASTLPVGTDVKIKWPNDILVFQ 118
           WI+   NL  +++  +  +K       F        VI +   +G   +    ND+ +  
Sbjct: 47  WIN--NNLNYTIISKEDENKA------FDFKSFSTPVINTLAQLGVKAEFTGRNDLEIDG 98

Query: 119 RKIAGILIE----------TLNLKNGLQAVVVGIGLNVKHCPVDT------PYPVTSLQR 162
           +K  G               L     L    +   L V     ++         VT++  
Sbjct: 99  KKFCGNAQAYINGRIXHHGCLLFDVDLSV--LANALKVSKDKFESKGVKSVRARVTNIIN 156

Query: 163 E-GGCIDLKDIFSLLFQDVARVLDLWKKDTGREE 195
           E    I ++    LL +   +      +    EE
Sbjct: 157 ELPKKITVEKFRDLLLEYXKKEYPEXTEYVFSEE 190


>2dxu_A Biotin--[acetyl-COA-carboxylase] ligase; biotin
           biosynthesis, dimer, X-RAY diffraction, structural
           genomics, NPPSFA; HET: BT5; 1.28A {Pyrococcus
           horikoshii} PDB: 2dzc_A 2ejg_A* 2e3y_A* 2e41_A* 2e64_A
           2ejf_A* 2zgw_A* 1wqw_A* 1wpy_A* 1wq7_A 1wnl_A* 1x01_A*
           2dkg_A* 2dth_A* 2dti_A* 2dto_A* 2fyk_A* 2djz_A* 2hni_A
           2e10_A ... (A:188-235)
          Length = 48

 Score = 32.9 bits (76), Expect = 0.038
 Identities = 12/33 (36%), Positives = 19/33 (57%)

Query: 218 GSILGRFVGVDDFGYLLLEEKKGCVRQIFTGDI 250
           GS  G    +DDFG L++    G V+++  GD+
Sbjct: 11  GSFEGIAEDIDDFGRLIIRLDSGEVKKVIYGDV 43


>1bia_A BIRA bifunctional protein; transcription regulation; 2.30A
           {Escherichia coli} (A:272-321)
          Length = 50

 Score = 27.9 bits (63), Expect = 1.2
 Identities = 12/44 (27%), Positives = 20/44 (45%), Gaps = 1/44 (2%)

Query: 207 IGDLITIKLSYGSILGRFVGVDDFGYLLLEEKKGCVRQIFTGDI 250
           I   + + +    I G   G+D  G LLLE+    ++    G+I
Sbjct: 1   INRPVKLIIGDKEIFGISRGIDKQGALLLEQDGI-IKPWMGGEI 43


>3kd4_A Putative protease; structural genomics, joint center for
           structural genomics, JCSG, protein structure initiative,
           PSI-2; HET: MSE; 2.00A {Parabacteroides distasonis atcc
           8503} (A:367-506)
          Length = 140

 Score = 27.1 bits (60), Expect = 2.3
 Identities = 4/59 (6%), Positives = 15/59 (25%), Gaps = 4/59 (6%)

Query: 100 LPVGTDVKIKWPNDILVFQRKIAGILIETLNLKNGLQAVVVGIGLNVKHCPVDTPYPVT 158
           + +     +         Q K    +     +  G+ +       + +    + P  + 
Sbjct: 4   IQIKESRSVAISA----DQAKDGFAICVLPAISAGIDSWGXSALNSKRSNLFELPSLIR 58


>3ibv_A Exportin-T; karyopherin, heat repeat, cytoplasm, nucleus,
           RNA- binding, transport, tRNA processing, tRNA-binding,
           RNA binding protein; 3.10A {Schizosaccharomyces pombe}
           PDB: 3icq_T* (A:831-925)
          Length = 95

 Score = 26.2 bits (58), Expect = 4.0
 Identities = 8/34 (23%), Positives = 18/34 (52%), Gaps = 1/34 (2%)

Query: 194 EEIMNLWRCFACGIGDLITIKLSYGSILGRFVGV 227
           + ++N    FA  +G+  T K S  +++ + V +
Sbjct: 9   DPLINSILHFANLVGEPATQKSSI-ALVSKMVSL 41


>1b34_B Protein (small nuclear ribonucleoprotein SM D2); snRNP,
           splicing, spliceosome, core snRNP domain, systemic lupus
           erythematosus, SLE; 2.50A {Homo sapiens} (B:)
          Length = 118

 Score = 25.3 bits (55), Expect = 7.7
 Identities = 7/46 (15%), Positives = 11/46 (23%), Gaps = 4/46 (8%)

Query: 207 IGDLITIKLSYGS-ILGRFVGVDDFGYLLLEEKKGCVRQIFTGDIF 251
               + I       +LGR    D    ++LE               
Sbjct: 38  NNTQVLINCRNNKKLLGRVKAFDRHCNMVLEN---VKEMWTEVPKS 80


>1yoz_A Hypothetical protein AF0941; APC5573, midwest center for
           structural genomics, MCSG, protein structure initiative,
           PSI, structural genomics; 2.00A {Archaeoglobus fulgidus}
           (A:)
          Length = 116

 Score = 25.0 bits (54), Expect = 9.2
 Identities = 11/41 (26%), Positives = 21/41 (51%), Gaps = 1/41 (2%)

Query: 159 SLQREGGCIDLKDIFSLLFQDVARVLDLWKK-DTGREEIMN 198
           S++     +D K+IF +   D   +L+L+K     +EE+  
Sbjct: 22  SVEEADKLLDQKNIFEMFRSDCEEILNLYKSGKAEKEEVQR 62


  Database: mmdb70
    Posted date:  Jun 20, 2010  3:12 AM
  Number of letters in database: 4,956,049
  Number of sequences in database:  33,805
  
Lambda     K      H
   0.324    0.141    0.433 

Gapped
Lambda     K      H
   0.267   0.0625    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 1,917,068
Number of extensions: 82373
Number of successful extensions: 173
Number of sequences better than 10.0: 1
Number of HSP's gapped: 150
Number of HSP's successfully gapped: 22
Length of query: 252
Length of database: 4,956,049
Length adjustment: 86
Effective length of query: 166
Effective length of database: 2,048,819
Effective search space: 340103954
Effective search space used: 340103954
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (24.4 bits)