RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780714|ref|YP_003065127.1| tRNA
(guanine-N(1)-)-methyltransferase [Candidatus Liberibacter asiaticus
str. psy62]
         (236 letters)



>3ief_A TRNA (guanine-N(1)-)-methyltransferase; niaid, ssgcid, seattle
           structural genomics center for infectious diseases;
           2.50A {Bartonella henselae}
          Length = 233

 Score =  348 bits (896), Expect = 5e-97
 Identities = 141/229 (61%), Positives = 178/229 (77%), Gaps = 5/229 (2%)

Query: 1   MTFHASILTLYPEMFPGHLEKSVAGKALACNLWSMDAIQIRNFSTDRHHSVDDTPAGGGA 60
           M F A +LTLYPEMFPG L  S+AG+AL   +WS++ +QIR+F+ D+HHSVDDTPAGGGA
Sbjct: 2   MKFQARVLTLYPEMFPGFLGCSLAGQALKQGIWSLETVQIRDFALDKHHSVDDTPAGGGA 61

Query: 61  GMVLRVDILGKAIDHAVSQYTHEDIPRILMSPRGKTLTQKRVRQLSQKLGVIIVCGRFEG 120
           GMV+R D+L  A+D         D PR+LMSPRG+ L Q   R L++  GV +VCGRFEG
Sbjct: 62  GMVMRADVLAAALDSC-----PNDSPRLLMSPRGRLLNQAYARSLARSSGVTLVCGRFEG 116

Query: 121 IDERIIEARDLEEISVGDYILSGGEPAALILLDAVVRLLPGVLGNQQSTIHESFENGLLE 180
           +DERIIEAR+LEE+S+GDYILSGGE AAL+LLDA+VRLLPGV+GN+ S   ESFENGLLE
Sbjct: 117 VDERIIEARELEEVSIGDYILSGGETAALVLLDAIVRLLPGVMGNEISAKCESFENGLLE 176

Query: 181 FPQYTRPQIWEGLAIPPILNSGDHERIKKWRKEQSFALTKKHRPDLLSK 229
            PQYTRP ++EG  IPP+L SG H+ I  WR++Q+ +LT++ RPDL + 
Sbjct: 177 HPQYTRPAVFEGRGIPPVLTSGHHKAIANWRQQQAESLTRQRRPDLYAL 225


>3ky7_A TRNA (guanine-N(1)-)-methyltransferase; putative tRNA
           (guanine-7-)-methyltransferase, structural genomics,
           infectious diseases; 2.35A {Staphylococcus aureus subsp}
          Length = 269

 Score =  305 bits (783), Expect = 5e-84
 Identities = 98/231 (42%), Positives = 144/231 (62%), Gaps = 5/231 (2%)

Query: 1   MTFHASILTLYPEMFPGHLEKSVAGKALACNLWSMDAIQIRNFSTDRHHSVDDTPAGGGA 60
           M      LTL+PEMF G L  S+  +A   N   ++ +  R+++ ++H+ VDD P GGG 
Sbjct: 25  MKID--YLTLFPEMFDGVLNHSIMKRAQENNKLQINTVNFRDYAINKHNQVDDYPYGGGQ 82

Query: 61  GMVLRVDILGKAIDHAVSQYTHEDIPRILMSPRGKTLTQKRVRQLSQKLGVIIVCGRFEG 120
           GMVL+ + +  A++        E    ILM P+G+  + ++  +LS+   ++ +CG +EG
Sbjct: 83  GMVLKPEPVFNAMED---LDVTEQARVILMCPQGEPFSHQKAVELSKADHIVFICGHYEG 139

Query: 121 IDERIIEARDLEEISVGDYILSGGEPAALILLDAVVRLLPGVLGNQQSTIHESFENGLLE 180
            DERI      +EIS+GDY+L+GGE  A+ + DA+VRL+PGVLGN+QS   +SF +GLLE
Sbjct: 140 YDERIRTHLVTDEISMGDYVLTGGELPAMTMTDAIVRLIPGVLGNEQSHQDDSFSDGLLE 199

Query: 181 FPQYTRPQIWEGLAIPPILNSGDHERIKKWRKEQSFALTKKHRPDLLSKKG 231
           FPQYTRP+ ++GL +P +L SG+H  I  WR EQ    T   RPDL+ K  
Sbjct: 200 FPQYTRPREFKGLTVPDVLLSGNHANIDAWRHEQKLIRTYNKRPDLIEKYP 250


>1oy5_A TRNA (guanine-N(1)-)-methyltransferase; structural genomics, TRMD,
           tRNA (M1G37) methyltransferase, BSGC structure funded by
           NIH; 2.60A {Aquifex aeolicus} SCOP: c.116.1.4
          Length = 257

 Score =  292 bits (749), Expect = 4e-80
 Identities = 89/230 (38%), Positives = 135/230 (58%), Gaps = 7/230 (3%)

Query: 1   MTFHASILTLYPEMFPGHLEKSVAGKALACNLWSMDAIQIRNFSTDRHHSVDDTPAGGGA 60
           + F   +LT++P +   + E  +  +A+      +  I +R F+      VDD P GG  
Sbjct: 6   LRFF--VLTIFPHIISCYSEYGIVKQAIKKGKVEVYPIDLREFAPKGQ--VDDVPYGGLP 61

Query: 61  GMVLRVDILGKAIDHAVSQYTHEDIPRILMSPRGKTLTQKRVRQLSQKLGVIIVCGRFEG 120
           GMVL+ + + +A D+ V    +     ++  P G+ L QK V +LS+K  ++I+CGR+EG
Sbjct: 62  GMVLKPEPIYEAYDYVVEN--YGKPFVLITEPWGEKLNQKLVNELSKKERIMIICGRYEG 119

Query: 121 IDERIIEARDLEEISVGDYILSGGEPAALILLDAVVRLLPGVLGNQQSTIHESFENGLLE 180
           +DER+ +  D  EIS+GD+ILSGGE  AL ++DAV R+LPGVL   QS   +SF+N  L 
Sbjct: 120 VDERVKKIVD-MEISLGDFILSGGEIVALAVIDAVSRVLPGVLSEPQSIQEDSFQNRWLG 178

Query: 181 FPQYTRPQIWEGLAIPPILNSGDHERIKKWRKEQSFALTKKHRPDLLSKK 230
           +P YTRP+ + G+ +P  L SG H+ I+ W+       T K RPDL+ K 
Sbjct: 179 YPVYTRPREYRGMKVPEELLSGHHKLIELWKLWHRIENTVKKRPDLIPKD 228


>3knu_A TRNA (guanine-N(1)-)-methyltransferase; niaid, ssgcid, seattle
           structural genomics center for infectious disease; 2.25A
           {Anaplasma phagocytophilum HZ}
          Length = 253

 Score =  261 bits (669), Expect = 8e-71
 Identities = 105/234 (44%), Positives = 156/234 (66%), Gaps = 5/234 (2%)

Query: 1   MTFHASILTLYPEMFPGHLEKSVAGKALACNLWSMDAIQIRNFSTDRHHSVDDTPAGGGA 60
           M F+  +LT++P+MFPG L  S  G AL   LW+++   IR F+ ++H++VDDTP GGG 
Sbjct: 22  MIFN--VLTIFPQMFPGPLGVSNLGSALKKGLWTLNVFDIRAFANNKHNTVDDTPYGGGP 79

Query: 61  GMVLRVDILGKAIDHAVSQYTHEDIPRILMSPRGKTLTQKRVRQLSQKLGVIIVCGRFEG 120
           GM+LR D+LG+ ID       H +   +  SPRG + TQ   RQ      + ++CGRFEG
Sbjct: 80  GMLLRADVLGRCIDEV--LSLHPNTKLMFTSPRGVSFTQDIARQTMNFDNITLLCGRFEG 137

Query: 121 IDERIIEARDLEEISVGDYILSGGEPAALILLDAVVRLLPGVLGNQQSTIHESFENGLLE 180
           IDER+++   L+E+S+GDY+LSGGE AA++++D  VR++PGV+GN +S + +    G LE
Sbjct: 138 IDERVVDFYKLQEVSIGDYVLSGGELAAMVIIDTCVRMVPGVIGNAES-LKQESMEGSLE 196

Query: 181 FPQYTRPQIWEGLAIPPILNSGDHERIKKWRKEQSFALTKKHRPDLLSKKGTLN 234
           +PQYTRP  W+G+ +P +L +G+H  I+KWR+  S ++T   RPDLL  +   N
Sbjct: 197 YPQYTRPASWKGMEVPEVLLTGNHGEIEKWRRNASLSITAARRPDLLKDRYGEN 250


>1ual_A TRNA (guanine-N(1)-)-methyltransferase; spout class, TRMD,
           tRNA(M1G37) methyltransferase, tRNA modification; HET:
           SAH; 1.80A {Haemophilus influenzae} SCOP: c.116.1.4 PDB:
           1uak_A* 1uaj_A* 1uam_A* 1p9p_A*
          Length = 274

 Score =  261 bits (668), Expect = 1e-70
 Identities = 105/226 (46%), Positives = 146/226 (64%), Gaps = 1/226 (0%)

Query: 6   SILTLYPEMFPGHLEKSVAGKALACNLWSMDAIQIRNFSTDRHHSVDDTPAGGGAGMVLR 65
            +++L+PEMF    E  V G+A+  NL  ++    R+F+ D+H +VDD P GGG GM++ 
Sbjct: 24  GVISLFPEMFKAITEFGVTGRAVKHNLLKVECWNPRDFTFDKHKTVDDRPYGGGPGMLMM 83

Query: 66  VDILGKAIDHAVSQYTHEDIPRILMSPRGKTLTQKRVRQLSQKLGVIIVCGRFEGIDERI 125
           V  L  AI  A +    E    I +SP+G+ L Q  V +L+Q   +I+VCGR+EGIDER+
Sbjct: 84  VQPLRDAIHTAKAAA-GEGAKVIYLSPQGRKLDQGGVTELAQNQKLILVCGRYEGIDERL 142

Query: 126 IEARDLEEISVGDYILSGGEPAALILLDAVVRLLPGVLGNQQSTIHESFENGLLEFPQYT 185
           I+    EE S+GDY+L+GGE  A+ L+DAV R +PGVLG Q S   +SF +GLL+ P YT
Sbjct: 143 IQTEIDEEWSIGDYVLTGGELPAMTLIDAVARFIPGVLGKQASAEEDSFADGLLDCPHYT 202

Query: 186 RPQIWEGLAIPPILNSGDHERIKKWRKEQSFALTKKHRPDLLSKKG 231
           RP++ EGL +PP+L SG HE I+KWR +QS   T   RP+LL    
Sbjct: 203 RPEVLEGLTVPPVLMSGHHEEIRKWRLKQSLQRTWLRRPELLEGLA 248


>2v3j_A Essential for mitotic growth 1; EMG1, rRNA processing, nuclear
           protein, ribonucleoprotein, ribosome biogenesis; 2.00A
           {Saccharomyces cerevisiae} SCOP: c.116.1.6 PDB: 2v3k_A*
          Length = 258

 Score = 69.9 bits (171), Expect = 5e-13
 Identities = 11/78 (14%), Positives = 30/78 (38%), Gaps = 1/78 (1%)

Query: 67  DILGKAIDHAVSQYTHEDIPRILMSPRGKTLT-QKRVRQLSQKLGVIIVCGRFEGIDERI 125
           + L K I + ++ +      ++ +S     +  Q  + +L     + +  G      +  
Sbjct: 157 EKLLKVIKNPITDHLPTKCRKVTLSFDAPVIRVQDYIEKLDDDESICVFVGAMARGKDNF 216

Query: 126 IEARDLEEISVGDYILSG 143
            +    E++ + +Y LS 
Sbjct: 217 ADEYVDEKVGLSNYPLSA 234


>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
           vesicle, membrane, Ca structural protein; 7.94A {Bos
           taurus}
          Length = 190

 Score = 30.3 bits (67), Expect = 0.45
 Identities = 7/10 (70%), Positives = 9/10 (90%)

Query: 205 ERIKKWRKEQ 214
           E I+KWR+EQ
Sbjct: 85  ESIRKWREEQ 94


>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 = 28.8 bits (64), Expect = 1.0
 Identities = 32/145 (22%), Positives = 53/145 (36%), Gaps = 52/145 (35%)

Query: 59   GAGMVL------RVDILGKAIDHAVSQYTHEDIPRILMSPRGKTL-----TQKRVRQ-LS 106
            G GM L        D+  +A +H    Y    +  ++ +P   T+       KR+R+  S
Sbjct: 1630 GMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYS 1689

Query: 107  QKLGVIIVCGRFEGIDERIIEARDLEEISVGDYILSGGEPAALILLDAVVRLLPGVLGNQ 166
              +   IV G+ +   E+I      +EI                              N+
Sbjct: 1690 AMIFETIVDGKLK--TEKI-----FKEI------------------------------NE 1712

Query: 167  QSTIHESF--ENGLLEFPQYTRPQI 189
             ST + +F  E GLL   Q+T+P +
Sbjct: 1713 HSTSY-TFRSEKGLLSATQFTQPAL 1736



 Score = 27.2 bits (60), Expect = 3.1
 Identities = 41/253 (16%), Positives = 73/253 (28%), Gaps = 103/253 (40%)

Query: 10  LYPEMFPGHLEK--SVAGKALACNLWS--MDAIQIRNFSTDRH---HSVDDTPAGGGAGM 62
           LY + +   +      + + L+  L    +DA ++     +      +  +TP       
Sbjct: 176 LY-QTYHVLVGDLIKFSAETLS-ELIRTTLDAEKVFTQGLNILEWLENPSNTPD------ 227

Query: 63  VLRVDILGKAIDHAVS-------QYTHEDIP-RIL-MSPRGKTLTQKRVRQL-------S 106
               D L       +S       Q  H  +  ++L  +P         +R         S
Sbjct: 228 ---KDYLLSI---PISCPLIGVIQLAHYVVTAKLLGFTP-------GELRSYLKGATGHS 274

Query: 107 QKLGVIIVCGRFEGIDERIIEARDLEEISVGDYILSGGEPAALILLDAVVRLL--PGVLG 164
           Q  G++            I E    E      ++             A+  +L   GV  
Sbjct: 275 Q--GLVTAVA--------IAETDSWESF----FVSV---------RKAI-TVLFFIGVRC 310

Query: 165 NQ--------QSTIHESFENGLLEFPQYTRPQIWEGLAIP-PILNSGDHERIKKWRKE-- 213
            +         S + +S EN              EG  +P P+L+      I    +E  
Sbjct: 311 YEAYPNTSLPPSILEDSLENN-------------EG--VPSPMLS------ISNLTQEQV 349

Query: 214 QSF-ALTKKHRPD 225
           Q +   T  H P 
Sbjct: 350 QDYVNKTNSHLPA 362


>3daw_B Twinfilin-1, protein A6; actin depolymerisation, actin binding
           proteins, cytoskeleton, structural protein/contractIle
           protein complex; HET: ATP; 2.55A {Mus musculus} PDB:
           2hd7_A
          Length = 164

 Score = 27.2 bits (60), Expect = 3.5
 Identities = 13/63 (20%), Positives = 27/63 (42%), Gaps = 6/63 (9%)

Query: 79  QYTHEDIPR-----ILMSPRGKTLTQKRVRQLSQKLGVIIVCGRFEGID-ERIIEARDLE 132
           +++HE         I   P      ++R+   S K  ++ +  R   +D  R IE  + +
Sbjct: 84  KHSHEGDYLESVVFIYSMPGYTCSIRERMLYSSCKSPLLEIVERQLQMDVIRKIEIDNGD 143

Query: 133 EIS 135
           E++
Sbjct: 144 ELT 146


>2w0i_A Twinfilin-2; cytoskeleton, actin-binding, actin binding, cytoplasm,
           acetylation, polymorphism, cofilin-like, phosphoprotein,
           phosphorylation; 1.8A {Homo sapiens}
          Length = 135

 Score = 27.2 bits (60), Expect = 3.7
 Identities = 14/63 (22%), Positives = 27/63 (42%), Gaps = 6/63 (9%)

Query: 79  QYTHEDIPR-----ILMSPRGKTLTQKRVRQLSQKLGVIIVCGRFEGID-ERIIEARDLE 132
           ++THE  P      I   P  K   ++R+   S K  ++    +   ++  + IE  D  
Sbjct: 64  KHTHEGDPLESVVFIYSMPGYKCSIKERMLYSSCKSRLLDSVEQDFHLEIAKKIEIGDGA 123

Query: 133 EIS 135
           E++
Sbjct: 124 ELT 126


>2g4r_A MOGA, molybdopterin biosynthesis MOG protein; anomalous
           substructure of MOGA, biosynthetic protein; 1.92A
           {Mycobacterium tuberculosis}
          Length = 160

 Score = 26.8 bits (58), Expect = 4.2
 Identities = 16/78 (20%), Positives = 25/78 (32%), Gaps = 4/78 (5%)

Query: 14  MFPGHLEKSVAGKALACNLWSMDAIQIRNFSTDRHHSVDDTP----AGGGAGMVLRVDIL 69
                L+  + G A A     +  +     S         T      G   G+   + +L
Sbjct: 83  HTVAVLDYVIPGLADAIRRSGLPKVPTSVLSRGVCGVAGRTLIINLPGSPGGVRDGLGVL 142

Query: 70  GKAIDHAVSQYTHEDIPR 87
              +DHA+ Q    D PR
Sbjct: 143 ADVLDHALEQIAGGDHPR 160


>3lvh_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
           vesicle, membrane, Ca structural protein; 9.00A {Bos
           taurus}
          Length = 205

 Score = 26.7 bits (58), Expect = 4.3
 Identities = 8/26 (30%), Positives = 13/26 (50%)

Query: 196 PPILNSGDHERIKKWRKEQSFALTKK 221
                + + E I+KWR+EQ   L + 
Sbjct: 91  QADRLTQEPESIRKWREEQRKRLQEL 116


>3nk6_A 23S rRNA methyltransferase; nosiheptide, nosiheptide-resistance
           methyltransferase, 23S R methyltransferase; 2.00A
           {Streptomyces actuosus} PDB: 3nk7_A* 3gyq_A*
          Length = 277

 Score = 26.1 bits (57), Expect = 6.9
 Identities = 6/33 (18%), Positives = 13/33 (39%), Gaps = 5/33 (15%)

Query: 191 EGLAIPPILNSGDHERIKKWRKEQSFALTKKHR 223
           E +  P I+ +     +++        +TK  R
Sbjct: 2   EFMTEPAIITNASDPAVQRIID-----VTKHSR 29


>3e57_A Uncharacterized protein TM1382; structural genomics, nudix
           hydrolase, PSI-2, protein structure initiative; 1.89A
           {Thermotoga maritima}
          Length = 211

 Score = 26.1 bits (57), Expect = 7.9
 Identities = 14/65 (21%), Positives = 27/65 (41%), Gaps = 11/65 (16%)

Query: 80  YTHEDIPRILMSPRGKTLTQKRVRQLSQK----LGVIIVCGRFEGID-----ERIIEA-- 128
            T + IP +++    + L  KR  + S+K    L  + + G     D     E  ++   
Sbjct: 65  TTKQVIPYVVIMDGDRVLITKRTTKQSEKRLHNLYSLGIGGHVREGDGATPREAFLKGLE 124

Query: 129 RDLEE 133
           R++ E
Sbjct: 125 REVNE 129


>1ywl_A Hypothetical UPF0213 protein EF2693; alpha and beta, structural
           genomics, northeast structural genomics consortium
           (NESG); NMR {Enterococcus faecalis}
          Length = 96

 Score = 26.0 bits (57), Expect = 8.2
 Identities = 4/20 (20%), Positives = 7/20 (35%)

Query: 206 RIKKWRKEQSFALTKKHRPD 225
             KK  ++Q     K    +
Sbjct: 71  AFKKLTRKQKEQYLKTFHLE 90


>1icp_A OPR1, 12-oxophytodienoate reductase 1; beta-alpha-barrel,
           protein-FMN-PEG complex, oxidoreductase; HET: FMN 2PE;
           1.90A {Solanum lycopersicum} SCOP: c.1.4.1 PDB: 1icq_A*
           1ics_A* 3hgr_A* 1vji_A* 2q3r_A*
          Length = 376

 Score = 25.9 bits (56), Expect = 8.3
 Identities = 16/98 (16%), Positives = 31/98 (31%), Gaps = 1/98 (1%)

Query: 46  DRHHSVDDTPAGGGAGMVLRVDILGKAIDHAVSQYTHEDIPRILMSPRGKTLTQKRVRQL 105
            R          G          + ++++     Y H   PR+  +      T+  V   
Sbjct: 238 IRISPFAHYNEAGDTNPTALGLYMVESLNKYDLAYCHVVEPRMKTAWEKIECTESLVPMR 297

Query: 106 SQKLGVIIVCGRFEGID-ERIIEARDLEEISVGDYILS 142
               G  IV G ++  D  R +     + ++ G   +S
Sbjct: 298 KAYKGTFIVAGGYDREDGNRALIEDRADLVAYGRLFIS 335


>2o3i_A Hypothetical protein; NESG, CVR68, Q7NTB2, structural genomics,
           PSI-2, protein structure initiative; 2.30A
           {Chromobacterium violaceum} SCOP: e.73.1.1
          Length = 405

 Score = 25.7 bits (56), Expect = 9.8
 Identities = 6/26 (23%), Positives = 8/26 (30%), Gaps = 3/26 (11%)

Query: 124 RIIEARDLEEISVGDYILS---GGEP 146
             +   DLE +  G        GG  
Sbjct: 3   FELSPSDLEPLLQGACFFGSGGGGTM 28


  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
   0.320    0.138    0.408 

Gapped
Lambda     K      H
   0.267   0.0564    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 2,088,477
Number of extensions: 97834
Number of successful extensions: 301
Number of sequences better than 10.0: 1
Number of HSP's gapped: 293
Number of HSP's successfully gapped: 24
Length of query: 236
Length of database: 5,693,230
Length adjustment: 89
Effective length of query: 147
Effective length of database: 3,535,514
Effective search space: 519720558
Effective search space used: 519720558
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 (21.8 bits)
S2: 55 (25.3 bits)