BLASTP 2.2.21 [Jun-14-2009]

Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 0002.0075.p         (211 letters)

Database: COGmodified 
           192,987 sequences; 59,019,183 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

RSc0506 [J] COG0042 tRNA-dihydrouridine synthase Rso Ralstonia s...   194   9e-50
PA4852 [J] COG0042 tRNA-dihydrouridine synthase Pae Pseudomonas ...   186   3e-47
YPO3655 [J] COG0042 tRNA-dihydrouridine synthase Ype Yersinia pe...   164   1e-40
PM1087 [J] COG0042 tRNA-dihydrouridine synthase Pmu Pasteurella ...   160   2e-39
STM3384 [J] COG0042 tRNA-dihydrouridine synthase Sty Salmonella ...   159   3e-39

>RSc0506 [J] COG0042 tRNA-dihydrouridine synthase Rso Ralstonia solanacearum
          Length = 356

 Score =  194 bits (494), Expect = 9e-50,   Method: Compositional matrix adjust.
 Identities = 97/134 (72%), Positives = 113/134 (84%), Gaps = 2/134 (1%)

Query: 54  RARXIIDINMGCPVKKVCNSWCGSALLQNEKLVGRILDAVVNAVD--VPVTLKFRTGWNR 111
           R   IIDINMGCP KKVCN   GSALLQNE LV RI++AVV AV   VPVTLK RTGW+R
Sbjct: 89  RGAQIIDINMGCPAKKVCNVAAGSALLQNEPLVARIVEAVVGAVGDRVPVTLKIRTGWDR 148

Query: 112 ENKNALAIAAMAEQSGIAMLTLHGRTRADGYSGEAEYETIAAVKAAVKIPVVANGDITTP 171
           E++NAL +A +A+++GI+MLT+HGRTRAD Y GEAEYETIAAVKA+V+IPVVANGDI TP
Sbjct: 149 EHRNALTVARIAQEAGISMLTVHGRTRADLYHGEAEYETIAAVKASVRIPVVANGDIGTP 208

Query: 172 ERAKHVLTVTGADA 185
            +A+HVL VTGADA
Sbjct: 209 AKARHVLEVTGADA 222


>PA4852 [J] COG0042 tRNA-dihydrouridine synthase Pae Pseudomonas aeruginosa
          Length = 332

 Score =  186 bits (472), Expect = 3e-47,   Method: Compositional matrix adjust.
 Identities = 88/128 (68%), Positives = 104/128 (81%)

Query: 58  IIDINMGCPVKKVCNSWCGSALLQNEKLVGRILDAVVNAVDVPVTLKFRTGWNRENKNAL 117
           IIDINMGCP KKVCN   GSALL++E LV  ILDAVV AVDVPVTLK RTGW+R+N+N +
Sbjct: 96  IIDINMGCPAKKVCNKAAGSALLRDEALVAEILDAVVRAVDVPVTLKIRTGWDRDNRNGV 155

Query: 118 AIAAMAEQSGIAMLTLHGRTRADGYSGEAEYETIAAVKAAVKIPVVANGDITTPERAKHV 177
            +A +AEQ+GI  L +HGRTRAD Y+GEAEYETIAA+K AV IPV ANGDI +PE+A+ V
Sbjct: 156 TVAKLAEQAGIQALAVHGRTRADLYTGEAEYETIAAIKQAVSIPVFANGDIDSPEKARKV 215

Query: 178 LTVTGADA 185
           +  TG DA
Sbjct: 216 IEQTGVDA 223


>YPO3655 [J] COG0042 tRNA-dihydrouridine synthase Ype Yersinia pestis
          Length = 321

 Score =  164 bits (415), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 82/128 (64%), Positives = 98/128 (76%)

Query: 58  IIDINMGCPVKKVCNSWCGSALLQNEKLVGRILDAVVNAVDVPVTLKFRTGWNRENKNAL 117
           IIDINMGCP KKV     GSALLQ+  LV +IL AVVNAVDVPVTLK RTGW+ E++N +
Sbjct: 93  IIDINMGCPAKKVNRKLAGSALLQHPDLVKQILSAVVNAVDVPVTLKIRTGWSPEHRNCI 152

Query: 118 AIAAMAEQSGIAMLTLHGRTRADGYSGEAEYETIAAVKAAVKIPVVANGDITTPERAKHV 177
            IA +AE  GI  LT+HGRTR+  ++GEAEY++I AVK  V IPV+ANGDIT P +A+ V
Sbjct: 153 EIAQLAENCGIQALTIHGRTRSCLFNGEAEYDSIRAVKQTVSIPVIANGDITDPHKARAV 212

Query: 178 LTVTGADA 185
           L  TGADA
Sbjct: 213 LDYTGADA 220


>PM1087 [J] COG0042 tRNA-dihydrouridine synthase Pmu Pasteurella multocida
          Length = 334

 Score =  160 bits (405), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 78/128 (60%), Positives = 96/128 (75%)

Query: 58  IIDINMGCPVKKVCNSWCGSALLQNEKLVGRILDAVVNAVDVPVTLKFRTGWNRENKNAL 117
           IIDINMGCP KKV     GSALLQ   LV +IL+ VV +V VPVTLK RTGW+++N+N L
Sbjct: 95  IIDINMGCPAKKVNRKMAGSALLQYPDLVKQILNKVVKSVTVPVTLKIRTGWDKDNRNCL 154

Query: 118 AIAAMAEQSGIAMLTLHGRTRADGYSGEAEYETIAAVKAAVKIPVVANGDITTPERAKHV 177
            IA +AEQ GI  LT+HGRTR+  + GEAEY+ I AVK  + IP++ANGDIT+ E+AK+V
Sbjct: 155 EIAKIAEQCGIQALTIHGRTRSCMFEGEAEYDNIKAVKEQLSIPIIANGDITSAEKAKYV 214

Query: 178 LTVTGADA 185
           L  T ADA
Sbjct: 215 LDYTNADA 222


>STM3384 [J] COG0042 tRNA-dihydrouridine synthase Sty Salmonella typhimurium
           LT2
          Length = 321

 Score =  159 bits (403), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 81/128 (63%), Positives = 94/128 (73%)

Query: 58  IIDINMGCPVKKVCNSWCGSALLQNEKLVGRILDAVVNAVDVPVTLKFRTGWNRENKNAL 117
           IIDINMGCP KKV     GSALLQ   LV  IL  VVNAVDVPVTLK RTGW  E++N +
Sbjct: 93  IIDINMGCPAKKVNRKLAGSALLQYPDLVKSILIGVVNAVDVPVTLKIRTGWAPEHRNCV 152

Query: 118 AIAAMAEQSGIAMLTLHGRTRADGYSGEAEYETIAAVKAAVKIPVVANGDITTPERAKHV 177
            IA +AE  GI  LT+HGRTRA  ++GEAEY++I AVK  V IP++ANGDIT P +A+ V
Sbjct: 153 EIAQLAEDCGIQALTIHGRTRACLFNGEAEYDSIRAVKQKVSIPIIANGDITNPHKARAV 212

Query: 178 LTVTGADA 185
           L  TGADA
Sbjct: 213 LDYTGADA 220