RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780180|ref|YP_003064593.1| S-adenosylmethionine:tRNA
ribosyltransferase-isomerase [Candidatus Liberibacter asiaticus str.
psy62]
         (360 letters)



>1wdi_A Hypothetical protein TT0907; structural genomics, riken
           structural genomics/proteomics initiative, RSGI, unknown
           function; HET: CIT; 2.10A {Thermus thermophilus} (A:)
          Length = 345

 Score =  396 bits (1019), Expect = e-111
 Identities = 151/361 (41%), Positives = 202/361 (55%), Gaps = 20/361 (5%)

Query: 1   MM-VKEFDFDLPPSRIALRPVFPRDSARLMVVHPNLSCPLVISDHLVSDLPAFLNSNDAI 59
           M  ++ +D+ LPP +IA   V PRD ARLMVV+     P  ++   V DLP FL   D +
Sbjct: 1   MEGLEAYDYHLPPEQIAQEGVEPRDMARLMVVYRE--GPFRVAHKRVRDLPEFLRPGDVL 58

Query: 60  VFNNTKVITAQLNGVRFCHINRREKEISCTLHMRVSPNSWSVYARPSKVIKKGDILHFFS 119
           VFN +KVI A+L   +         ++   L    SP  W     P++    G  L   S
Sbjct: 59  VFNESKVIPARLLARK-----PTGGKVEILLVRERSPGLWEALLGPARKAPPGTRLLLLS 113

Query: 120 QDGQS---RLEATVIDKWNTGEILLVFSISGIELERQISLVGTIPLPPYIARKRPIDARD 176
               +    L+A V+     G  LL F    +    ++   G +PLPPYI  K P++   
Sbjct: 114 PKDLAPVPGLQAEVVAVEEDGVRLLRFQGDLVAHLEEV---GEVPLPPYIKAKIPME--- 167

Query: 177 YVDYQTTYAKIQGSVAAPTAGLHFTSNLLSRLISIGIKVYFVTLHVGAGTFMPVKVEDTD 236
              YQT YA+  GSVAAPTAGLHFT  LL RL  +G+++ F+TLHVG GTF PVK  D +
Sbjct: 168 --RYQTVYARRPGSVAAPTAGLHFTPELLERLREMGVELRFLTLHVGPGTFRPVK-GDPE 224

Query: 237 DHIMHSEIGFIDAPTAQALNSVKSRGGRIVSVGTTSLRLLETATTEDGIINPWSGFTNIF 296
            H MH+E   I    A+A+N  K+ G R+V+VGTT +R LE+A  E   +    G T +F
Sbjct: 225 KHEMHAEPYAIPEEVAEAVNRAKAEGRRVVAVGTTVVRALESAYREGVGVVAGEGETRLF 284

Query: 297 ITPGYRFRAVDILMSNFHLPKSTLLMLVSAFCGIEETKKMYQHAISHAYRFYSYGDTSLL 356
           I P Y F+ VD L +NFHLP+STLLMLV+AF G E T + Y+ A++  YRFYS GD  L+
Sbjct: 285 IRPPYTFKVVDALFTNFHLPRSTLLMLVAAFLGRERTLEAYRLAVAEGYRFYSLGDAMLI 344

Query: 357 F 357
            
Sbjct: 345 L 345


>1yy3_A S-adenosylmethionine:tRNA ribosyltransferase- isomerase;
           beta-barrel, QUEA, quein queuosine, tRNA- modification;
           2.88A {Bacillus subtilis} (A:1-67,A:171-346)
          Length = 243

 Score =  252 bits (646), Expect = 4e-68
 Identities = 92/174 (52%), Positives = 121/174 (69%), Gaps = 1/174 (0%)

Query: 184 YAKIQGSVAAPTAGLHFTSNLLSRLISIGIKVYFVTLHVGAGTFMPVKVEDTDDHIMHSE 243
           Y+K  GS AAPTAGLHFT  +L +L   G+++ F+TLHVG GTF PV  ++ ++H MH+E
Sbjct: 69  YSKEIGSAAAPTAGLHFTEEILQQLKDKGVQIEFITLHVGLGTFRPVSADEVEEHNMHAE 128

Query: 244 IGFIDAPTAQALNSVKSRGGRIVSVGTTSLRLLET-ATTEDGIINPWSGFTNIFITPGYR 302
              +   TA ALN V+  GGRI+SVGTTS R LET A   DG     SG+T+IFI PGY 
Sbjct: 129 FYQMSEETAAALNKVRENGGRIISVGTTSTRTLETIAGEHDGQFKASSGWTSIFIYPGYE 188

Query: 303 FRAVDILMSNFHLPKSTLLMLVSAFCGIEETKKMYQHAISHAYRFYSYGDTSLL 356
           F+A+D +++NFHLPKS+L+MLVSA  G E   + Y HA+   YRF+S+GD  L+
Sbjct: 189 FKAIDGMITNFHLPKSSLIMLVSALAGRENILRAYNHAVEEEYRFFSFGDAMLI 242



 Score = 88.6 bits (220), Expect = 1e-18
 Identities = 25/73 (34%), Positives = 40/73 (54%), Gaps = 3/73 (4%)

Query: 1  MMVKEFDFDLPPSRIALRPVFPRDSARLMVVHPNLSCPLVISDHLVSDLPAFLNSNDAIV 60
            V  FDF+LP   IA  P+  RD++RLMV+  +      ++D     + +F N  D +V
Sbjct: 5  SKVDLFDFELPERLIAQVPLEQRDASRLMVLDKHTGE---LTDSSFKHIISFFNEGDCLV 61

Query: 61 FNNTKVITAQLNG 73
           NNT+V+ ++  G
Sbjct: 62 LNNTRVVYSKEIG 74


>1vky_A S-adenosylmethionine:tRNA ribosyltransferase- isomerase;
           TM0574, structural genomics, JCSG, protein structure
           initiative, PSI; 2.00A {Thermotoga maritima}
           (A:1-76,A:174-347)
          Length = 250

 Score =  249 bits (638), Expect = 3e-67
 Identities = 84/174 (48%), Positives = 113/174 (64%), Gaps = 1/174 (0%)

Query: 184 YAKIQGSVAAPTAGLHFTSNLLSRLISIGIKVYFVTLHVGAGTFMPVKVEDTDDHIMHSE 243
           YAK +GSVAAPTAGLHFT  L+ +L   G++   V LHVG GTF PVKVE+ + H MH E
Sbjct: 78  YAKEEGSVAAPTAGLHFTPELIEKLKKKGVQFAEVVLHVGIGTFRPVKVEEVEKHKMHEE 137

Query: 244 IGFIDAPTAQALNSVKSRGGRIVSVGTTSLRLLETATTEDGIINPWSGFTNIFITPGYRF 303
              +   T + L   + RG RIV+VGTT++R LET          + G T++FI P + F
Sbjct: 138 FYQVPKETVRKLRETRERGNRIVAVGTTTVRTLETIAR-LPEQEEYVGKTDLFIYPPFEF 196

Query: 304 RAVDILMSNFHLPKSTLLMLVSAFCGIEETKKMYQHAISHAYRFYSYGDTSLLF 357
           + VD L++NFHLP+STLLMLV+AF G +   + Y+ A+   YRF+S+GD  L+ 
Sbjct: 197 KLVDALVTNFHLPRSTLLMLVAAFAGKDFVMEAYREAVKRRYRFFSFGDAMLIL 250



 Score = 87.9 bits (218), Expect = 2e-18
 Identities = 28/67 (41%), Positives = 39/67 (58%), Gaps = 3/67 (4%)

Query: 1  MMVKEFDFDLPPSRIALRPVFPRDSARLMVVHPNLSCPLVISDHLVSDLPAFLNSNDAIV 60
          M V EFD++LPP  IA  PV PRD++RLMV+H        I   +  ++  +L   D +V
Sbjct: 13 MKVSEFDYELPPELIAQEPVEPRDASRLMVLHRKTQR---IEHRIFREIIEYLEPGDLLV 69

Query: 61 FNNTKVI 67
           N +KVI
Sbjct: 70 LNVSKVI 76


>1yy3_A S-adenosylmethionine:tRNA ribosyltransferase- isomerase;
           beta-barrel, QUEA, quein queuosine, tRNA- modification;
           2.88A {Bacillus subtilis} (A:68-170)
          Length = 103

 Score = 76.8 bits (189), Expect = 4e-15
 Identities = 32/116 (27%), Positives = 52/116 (44%), Gaps = 13/116 (11%)

Query: 67  ITAQLNGVRFCHINRREKEISCTLHMRVSPNSWSVYARPSKVIKKGDILHFFSQDGQSRL 126
           + A+L G +         ++   L  + + + W   A+P+K +KKG ++ F    G  RL
Sbjct: 1   LPARLFGTK----EDTGAKVELLLLKQETGDKWETLAKPAKRVKKGTVVTF----GDGRL 52

Query: 127 EATVIDKWNTGEILLVFSISGIELERQISLVGTIPLPPYIARKRPIDARDYVDYQT 182
           +A   ++   G   + F   GI  E  +  +G +PLPPYI         D   YQT
Sbjct: 53  KAICTEELEHGGRKMEFQYDGIFYEV-LESLGEMPLPPYIKE----QLDDKERYQT 103


>1vky_A S-adenosylmethionine:tRNA ribosyltransferase- isomerase;
           TM0574, structural genomics, JCSG, protein structure
           initiative, PSI; 2.00A {Thermotoga maritima} (A:77-173)
          Length = 97

 Score = 73.3 bits (180), Expect = 4e-14
 Identities = 29/114 (25%), Positives = 42/114 (36%), Gaps = 18/114 (15%)

Query: 69  AQLNGVRFCHINRREKEISCTLHMRVSPNSWSVYARPSKVIKKGDILHFFSQDGQSRLEA 128
           A+L   +     +    I   L  R+    W    RP + +KKG  L          L A
Sbjct: 2   ARLYARK-----KTGASIEILLIERLEEGIWKCLVRPGQKVKKGTELVIDED-----LSA 51

Query: 129 TVIDKWNTGEILLVFSISGIELERQISLVGTIPLPPYIARKRPIDARDYVDYQT 182
             + +   G  +L F      L  +    G  PLPPYI  + P++      YQT
Sbjct: 52  VCLGRGEDGTRILKFQPQDDRLIFEK---GRTPLPPYIKNEVPLE-----RYQT 97


>3icj_A Uncharacterized metal-dependent hydrolase; structural
           genomics, amidohydrolase, PSI-2, protein structure
           initiative; HET: KCX; 1.95A {Pyrococcus furiosus} PDB:
           3etk_A* 3igh_X* (A:1-96,A:487-534)
          Length = 144

 Score = 28.4 bits (63), Expect = 1.3
 Identities = 21/94 (22%), Positives = 33/94 (35%), Gaps = 15/94 (15%)

Query: 223 GAGTFMPVKVEDTDDHIMHSEIGF---IDAPTAQALNSVKSRGGRIVSVGTTS--LRLLE 277
               FM VK        + +   +              +     R++  G +S  LR+ E
Sbjct: 23  KVKNFMGVKHIGDCMKALINGTIYTSFSPVKKVSG---LVISNERVLYAGDSSTALRIAE 79

Query: 278 TATTEDGIINPWSGFTNIFITPGYR-FRAVDILM 310
            A  E  II+        F+ P  R FRA  I++
Sbjct: 80  LAGGE--IID----LKGKFVMPAERGFRAEYIIL 107


>1lm5_A Subdomain of desmoplakin carboxy-terminal domain (DPCT);
           plakin repeat,, structural protein; 1.80A {Homo sapiens}
           (A:35-161)
          Length = 127

 Score = 27.2 bits (60), Expect = 3.4
 Identities = 9/51 (17%), Positives = 15/51 (29%), Gaps = 1/51 (1%)

Query: 241 HSEIGFIDAPTAQALNSVKSRGGRIVSVGTTSLRLLETATTEDGIINPWSG 291
            + IGF      + + S                R LE      G+++P   
Sbjct: 51  KAFIGFEGVKGKKKM-SAAEAVKEKWLPYEAGQRFLEFQYLTGGLVDPEVH 100


>2ia9_A Putative septation protein spovg; APC85465, bacillus
           subtilis subsp. subtilis STR. 168, structural genomics,
           PSI-2; 3.00A {Bacillus subtilis} (A:)
          Length = 100

 Score = 27.0 bits (60), Expect = 4.0
 Identities = 9/36 (25%), Positives = 19/36 (52%), Gaps = 3/36 (8%)

Query: 103 ARPSKVIKKG---DILHFFSQDGQSRLEATVIDKWN 135
           A PSK    G   DI H  +   + +++  V+++++
Sbjct: 49  AXPSKRTPDGEFRDITHPINSSTRGKIQDAVLNEYH 84


>2i9u_A Cytosine/guanine deaminase related protein; protein
           structure initiative II (PSI-II), amidohydrolase; HET:
           GUN; 2.05A {Clostridium acetobutylicum atcc 824}
           (A:1-69,A:374-439)
          Length = 135

 Score = 25.8 bits (57), Expect = 9.1
 Identities = 18/71 (25%), Positives = 24/71 (33%), Gaps = 6/71 (8%)

Query: 261 RGGRIVSVGTTSLRLLETATTEDG---IINPWSGFTNIFITPGYRFRAVDILMSNFHLPK 317
             G+I SV +      +     D    II P  G        GY F A+ I  SN +   
Sbjct: 37  IDGKIASVSSNLPDKYKGNPIIDFRNNIIIP--GMVGS-FEEGYDFDALVINDSNLYPED 93

Query: 318 STLLMLVSAFC 328
             L   +  F 
Sbjct: 94  YDLTERLERFI 104


  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
   0.323    0.138    0.409 

Gapped
Lambda     K      H
   0.267   0.0551    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 2,759,617
Number of extensions: 122491
Number of successful extensions: 311
Number of sequences better than 10.0: 1
Number of HSP's gapped: 301
Number of HSP's successfully gapped: 12
Length of query: 360
Length of database: 4,956,049
Length adjustment: 90
Effective length of query: 270
Effective length of database: 1,913,599
Effective search space: 516671730
Effective search space used: 516671730
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 55 (25.4 bits)