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= 0029.0255.p (240 letters) Database: COGmodified 192,987 sequences; 59,019,183 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value RSc0674 [J] COG1187 16S rRNA uridine-516 pseudouridylate synthas... 236 3e-62 NMB1298 [J] COG1187 16S rRNA uridine-516 pseudouridylate synthas... 170 3e-42 NMA1508 [J] COG1187 16S rRNA uridine-516 pseudouridylate synthas... 170 3e-42 BH3273 [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase... 157 2e-38 CAC2676 [J] COG1187 16S rRNA uridine-516 pseudouridylate synthas... 151 1e-36 lin2436 [J] COG1187 16S rRNA uridine-516 pseudouridylate synthas... 147 2e-35 TM0264 [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase... 142 7e-34 SA1574 [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase... 140 3e-33 CC1838 [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase... 137 2e-32 FN0717 [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase... 135 8e-32 >RSc0674 [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases Rso Ralstonia solanacearum Length = 252 Score = 236 bits (603), Expect = 3e-62, Method: Compositional matrix adjust. Identities = 124/234 (52%), Positives = 156/234 (66%), Gaps = 1/234 (0%) Query: 2 AKLTLDRILQSQGFGSRKYCRELIEDGEVVINGEVVDDYRATPDTKDLVLTIFGEEWEYR 61 A+L L RILQSQGFG+R+YC++L+ G V +NG +D A DT LVL + GE W Y Sbjct: 6 ARLPLYRILQSQGFGTRRYCKDLVFAGLVHVNGVEAEDPDAQVDTAGLVLDVDGERWAYH 65 Query: 62 EHVYIAINKPPNIECSRKPSHHPGVLTLLPEQFTWRDVQPVGRLDHDTTGLLLMSDDGAF 121 Y+ ++KP ECS+KP HHP V TLLP R VQ VGRLD DTTGLLL++DDG F Sbjct: 66 ARAYLMLHKPTGFECSQKPRHHPSVYTLLPVPLRERGVQCVGRLDQDTTGLLLLTDDGQF 125 Query: 122 IHAQSSPKRHVPKVYAATTAEPVTEALIAQLKAGVQLHDEPAPLAATRCRQLGENLLEIV 181 +H +SP+ VPKVY TTAEPVT+A + QL GV L DE P+AA + L + Sbjct: 126 VHTLTSPRHQVPKVYEITTAEPVTDAQVTQLCQGVLLEDEDVPVAAAWAERADACHLRMA 185 Query: 182 LEQGKYHQVKRMLAAAGNHCSALRRTAIGGLQLEVLALEEGEWTYLDAEQMALL 235 L QGKYHQVKRM+AAAGNH +AL R+AIGGL L L G+W +L+++ + L Sbjct: 186 LTQGKYHQVKRMVAAAGNHVAALHRSAIGGLTLGA-DLAPGQWRWLESDDLVAL 238 >NMB1298 [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases Nme Neisseria meningitidis MC58 Length = 230 Score = 170 bits (430), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 96/232 (41%), Positives = 128/232 (55%), Gaps = 5/232 (2%) Query: 4 LTLDRILQSQGFGSRKYCRELIEDGEVVINGEVVDDYRATPDTKDL-VLTIFGEEWEY-- 60 + L + LQ QG GSRK C+ LI G V ING +DD A D+ + L I GE Sbjct: 1 MKLIKYLQYQGIGSRKQCQWLIAGGYVFINGTCMDDTDADIDSSSVETLDIDGEAVTVVP 60 Query: 61 REHVYIAINKPPNIECSRKPSHHPGVLTLLPEQFTWRDVQPVGRLDHDTTGLLLMSDDGA 120 + YI +NKP + E S KP H+ V +L P+ D+Q VGRLD DTTG+LL+++DG Sbjct: 61 EPYFYIMLNKPEDYETSHKPKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGK 120 Query: 121 FIHAQSSPKRHVPKVYAATTAEPVTEALIAQLKAGVQLHDEPAPLAATRCRQLGENLLEI 180 H+ +SP R +PK+Y T P E L LK GV LHDE + A L + Sbjct: 121 LNHSLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVLLHDENETVCAADAVLKNPTTLLL 180 Query: 181 VLEQGKYHQVKRMLAAAGNHCSALRRTAIGGLQLEVLALEEGEWTYLDAEQM 232 + +GKYHQVKRM+AAAGN L R L+ E L+ GEW +++ + Sbjct: 181 TITEGKYHQVKRMIAAAGNRVQHLHRRRFAHLETE--NLKPGEWKFIECPKF 230 >NMA1508 [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases NmA Neisseria meningitidis Z2491 Length = 230 Score = 170 bits (430), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 96/232 (41%), Positives = 128/232 (55%), Gaps = 5/232 (2%) Query: 4 LTLDRILQSQGFGSRKYCRELIEDGEVVINGEVVDDYRATPDTKDL-VLTIFGEEWEY-- 60 + L + LQ QG GSRK C+ LI G V ING +DD A D+ + L I GE Sbjct: 1 MKLIKYLQYQGIGSRKQCQWLIAGGYVFINGTCMDDTDADIDSSSVETLDIDGEAVTVVP 60 Query: 61 REHVYIAINKPPNIECSRKPSHHPGVLTLLPEQFTWRDVQPVGRLDHDTTGLLLMSDDGA 120 + YI +NKP + E S KP H+ V +L P+ D+Q VGRLD DTTG+LL+++DG Sbjct: 61 EPYFYIMLNKPEDYETSHKPKHYRSVFSLFPDNMRNIDMQAVGRLDADTTGVLLITNDGK 120 Query: 121 FIHAQSSPKRHVPKVYAATTAEPVTEALIAQLKAGVQLHDEPAPLAATRCRQLGENLLEI 180 H+ +SP R +PK+Y T P E L LK GV LHDE + A L + Sbjct: 121 LNHSLTSPSRKIPKLYEVTLKHPTGETLCETLKNGVLLHDENETVCAADAVLKNPTTLLL 180 Query: 181 VLEQGKYHQVKRMLAAAGNHCSALRRTAIGGLQLEVLALEEGEWTYLDAEQM 232 + +GKYHQVKRM+AAAGN L R L+ E L+ GEW +++ + Sbjct: 181 TITEGKYHQVKRMIAAAGNRVQHLHRRRFAHLETE--NLKPGEWKFIECPKF 230 >BH3273 [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases Bha Bacillus halodurans Length = 238 Score = 157 bits (397), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 94/245 (38%), Positives = 135/245 (55%), Gaps = 15/245 (6%) Query: 4 LTLDRILQSQGFGSRKYCRELIEDGEVVINGEVVDDYRATPDTKDLVLTIFGEEWEYREH 63 + +D+ L + GFGSRK ++L++ G V + G+ + D + + +T++GEE EY+ + Sbjct: 1 MRIDKFLANMGFGSRKDVKKLLKTGAVRVQGQPIKDPSTHVEPESESITVYGEEVEYKPY 60 Query: 64 VYIAINKPPNIECSRKPSHHPGVLTLLPEQFTWRDVQPVGRLDHDTTGLLLMSDDGAFIH 123 VY+ +NKP + C+ + H V+ LL E+ + PVGRLD DT GLLL+++DG F H Sbjct: 61 VYLMMNKPKGVICATEDLEHETVIDLLGEEERHYEPSPVGRLDKDTVGLLLITNDGKFNH 120 Query: 124 AQSSPKRHVPKVYAATTAEPVTEALIAQLKAGVQLHD----EPAPL----AATRCRQLGE 175 SPK HVPK Y A VTE + GV L D +PA L A R Sbjct: 121 WLMSPKHHVPKTYRALVEGHVTEEDVGAFSHGVVLDDGYVTKPATLHILEAGARSH---- 176 Query: 176 NLLEIVLEQGKYHQVKRMLAAAGNHCSALRRTAIGGLQLEVLALEEGEWTYLDAEQMALL 235 +E++L +GK+HQVKRM A G L R IG L L+ L GE+ L E++ALL Sbjct: 177 --IELILTEGKFHQVKRMFQAVGKRVLELERIKIGNLLLDP-ELARGEYRELTKEEIALL 233 Query: 236 VPDAE 240 + E Sbjct: 234 LEKNE 238 >CAC2676 [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases Cac Clostridium acetobutylicum Length = 242 Score = 151 bits (381), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 83/234 (35%), Positives = 130/234 (55%), Gaps = 6/234 (2%) Query: 6 LDRILQSQGFGSRKYCRELIEDGEVVINGEVVDDYRATPDTKDLVLTIFGEEWEYREHVY 65 LD+I+ + G+GSRK +++I+DG V ++GEVV D D + + + GEE Y++++Y Sbjct: 4 LDKIISNMGYGSRKDVKKIIKDGRVKVDGEVVKDNNKQLDPQKSKIIVNGEEISYKKYIY 63 Query: 66 IAINKPPNIECSRKPSHHPGVLTLLPEQFTWRDVQPVGRLDHDTTGLLLMSDDGAFIHAQ 125 + +NKP + + + V+ LL + + P+GRLD DT GLL +++DG F H Sbjct: 64 LMMNKPDGVISATSDDYDKTVIDLLEVEDQVFEPFPIGRLDKDTVGLLFLTNDGDFNHRL 123 Query: 126 SSPKRHVPKVYAATTAEPVTEALIAQLKAGVQLHD----EPAPLAATRCRQLGENLLEIV 181 SPK HV KVY A + VT + K G+ L D A L + G +++ Sbjct: 124 ISPKWHVDKVYYAKIDKDVTSEDVVAFKEGIVLDDGYKCMSAKLEVLNNSKEGSE-VKVT 182 Query: 182 LEQGKYHQVKRMLAAAGNHCSALRRTAIGGLQLEVLALEEGEWTYLDAEQMALL 235 + +GKYHQVKRM A G L+R + G++L+ LEEGE+ L ++M + Sbjct: 183 VREGKYHQVKRMFEAQGKKVVYLKRISFAGIKLDE-NLEEGEYRELTEDEMKAI 235 >lin2436 [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases Lin Listeria innocua Length = 233 Score = 147 bits (370), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 90/238 (37%), Positives = 136/238 (57%), Gaps = 14/238 (5%) Query: 4 LTLDRILQSQGFGSRKYCRELIEDGEVVINGEVVDDYRA--TPDTKDLVLTIFGEEWEYR 61 + LD++L GFGSRK + L++ G VV+NG + D + PD KD V T+ G Y+ Sbjct: 1 MRLDKLLSHTGFGSRKEVKPLLKSGAVVVNGTIQKDSKTQVNPD-KDQV-TVHGTPVIYQ 58 Query: 62 EHVYIAINKPPNIECSRKPSHHPGVLTLLPEQFTWRDVQPVGRLDHDTTGLLLMSDDGAF 121 E VY ++KP N+ + + + V+ LL ++ T + PVGRLD DT GLL++++DG Sbjct: 59 EFVYFMLHKPQNVVSATEDNLSETVIDLLEQEDTLTNPFPVGRLDKDTEGLLIITNDGTL 118 Query: 122 IHAQSSPKRHVPKVYAATTAEPVTEALIAQLKAGVQLHD----EPAPLAATRCRQLGENL 177 H SPK+H+ K Y A VT + AGV L D +PA L + N Sbjct: 119 AHNLLSPKKHIDKTYYAKIDGDVTAEDVEAFSAGVTLDDGYTCKPAHLEI-----ITPNE 173 Query: 178 LEIVLEQGKYHQVKRMLAAAGNHCSALRRTAIGGLQLEVLALEEGEWTYLDAEQMALL 235 +++ +++GK+HQVKRM AA G S L+R ++G LQL+ +LE GE+ L ++ +L Sbjct: 174 IKVTIQEGKFHQVKRMFAARGKTVSYLKRISMGNLQLDD-SLELGEYRPLTENELLIL 230 >TM0264 [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases Tma Thermotoga maritima Length = 239 Score = 142 bits (358), Expect = 7e-34, Method: Compositional matrix adjust. Identities = 89/229 (38%), Positives = 124/229 (54%), Gaps = 6/229 (2%) Query: 4 LTLDRILQSQGFGSRKYCRELIEDGEVVINGEVVDDYRATPDTKDLVLTIFGEEWEYREH 63 + LDR L + G G+RK ++LI+ G V +NG VV D P ++ + + GE + + Sbjct: 1 MRLDRYLSNSGVGTRKEVKKLIKQGRVTVNGRVVLD-PGHPVLENDAVALDGEVVRFHKK 59 Query: 64 VYIAINKPPNIECSRKPSHHPGVLTLLPEQFTWRDVQPVGRLDHDTTGLLLMSDDGAFIH 123 VYI KP S K H ++ LP + + PVGRLD D GLL++++DG F H Sbjct: 60 VYILFYKPSGYVTSTKDPHSETIMEFLP---PLKGIFPVGRLDKDAEGLLIITNDGDFAH 116 Query: 124 AQSSPKRHVPKVYAATTAEPVTEALIAQLKAGVQLHDEPAPLAATRCRQLGENLLEIVLE 183 SPK V K Y VTE I +LK GV L D A R +L + L+IV+ Sbjct: 117 RVISPKWSVEKEYIVKVEGEVTEDKIEKLKNGVTLRDGFFA-KAKRVEKLSNDTLKIVIT 175 Query: 184 QGKYHQVKRMLAAAGNHCSALRRTAIGGLQLEVLALEEGEWTYLDAEQM 232 +GKYHQ+KRM AA G L+RT IGGL L ++ GE+ +L E++ Sbjct: 176 EGKYHQIKRMTAAVGLKTVHLKRTRIGGLVLPD-DMKPGEYRFLSEEEV 223 >SA1574 [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases Sau Staphylococcus aureus N315 Length = 231 Score = 140 bits (353), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 82/227 (36%), Positives = 125/227 (55%), Gaps = 10/227 (4%) Query: 4 LTLDRILQSQGFGSRKYCRELIEDGEVVINGEVVDDYRATPDTKDLVLTIFGEEWEYREH 63 + +D+ L + G G+R ++L++ G V +N +V+ + + ++ +T+ GE EY E+ Sbjct: 1 MRIDKFLANMGVGTRNEVKQLLKKGLVNVNEQVIKSPKTHIEPENDKITVRGELIEYIEN 60 Query: 64 VYIAINKPPNIECSRKPSHHPGVLTLLPEQFTWRDVQPVGRLDHDTTGLLLMSDDGAFIH 123 VYI +NKP + + H V+ L+PE + ++ PVGRLD DT GLLL+++DG F H Sbjct: 61 VYIMLNKPKGYISATEDHHSKTVIDLIPE-YQHLNIFPVGRLDKDTEGLLLITNDGDFNH 119 Query: 124 AQSSPKRHVPKVYAATTAEPVTEALIAQLKAGVQLHD---EPAPLAATRCRQLGENLLEI 180 SP +HV K Y +A P+TE I K GV L D +PA L + + Sbjct: 120 ELMSPNKHVSKKYEVISANPITEDDIQAFKEGVTLTDGKVKPAILTY-----IDNQTSHV 174 Query: 181 VLEQGKYHQVKRMLAAAGNHCSALRRTAIGGLQLEVLALEEGEWTYL 227 + +GKYHQVKRM + N LRR I L+L+ L+ GE+ L Sbjct: 175 TIYEGKYHQVKRMFHSIQNEVLHLRRIKIADLELDS-NLDSGEYRLL 220 >CC1838 [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases Ccr Caulobacter vibrioides Length = 241 Score = 137 bits (345), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 82/215 (38%), Positives = 120/215 (55%), Gaps = 7/215 (3%) Query: 6 LDRILQSQGFGSRKYCRELIEDGEVVINGEVVDDYRATPDTKDLV---LTIFGEEWEYRE 62 LDR+L + G+GSRK + L+ G+VV++G ++ D A + +TI G + Sbjct: 4 LDRLLANLGYGSRKEVQALVAGGKVVLDGAILKDAGARIAVDATLPERMTIRGAPVDPPA 63 Query: 63 HVYIAINKPPNIECSRKPSHHPGVLTLLPEQFTWRD--VQPVGRLDHDTTGLLLMSDDGA 120 + + ++KP + CS K + LLP ++ RD + VGRLD DT+GL+L++DDG Sbjct: 64 PLVLIMHKPLGVVCSHKEDGEK-IYDLLPRRWRLRDPGLSTVGRLDKDTSGLILITDDGD 122 Query: 121 FIHAQSSPKRHVPKVYAATTAEPVTEALIAQLKAG-VQLHDEPAPLAATRCRQLGENLLE 179 F+H SPKRHVPK Y AT P+ + AG + L E PL R + + Sbjct: 123 FLHRVISPKRHVPKTYLATLDRPLNGSEGEVFAAGTLMLDSEEKPLLPARLDVVNAHAAR 182 Query: 180 IVLEQGKYHQVKRMLAAAGNHCSALRRTAIGGLQL 214 + + +G+YHQV+RM AA GNH AL R IGG+ L Sbjct: 183 LTITEGRYHQVRRMFAAVGNHVVALHRERIGGIAL 217 >FN0717 [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases Fnu Fusobacterium nucleatum Length = 226 Score = 135 bits (340), Expect = 8e-32, Method: Compositional matrix adjust. Identities = 80/223 (35%), Positives = 120/223 (53%), Gaps = 12/223 (5%) Query: 4 LTLDRILQSQGFGSRKYCRELIEDGEVVINGEVVDDYRATPDTKDLVLTI--FGEEWEYR 61 + LD+ L G GSRK ++LI +GE+ +NG + D A + + TI GE EY+ Sbjct: 1 MRLDKFLVECGIGSRKEVKKLISNGEIAVNG--MSDILAKDNIDENSDTIEYNGERLEYK 58 Query: 62 EHVYIAINKPPNIECSRKPSHHPGVLTLLPEQFTWRDVQPVGRLDHDTTGLLLMSDDGAF 121 E Y +NK + + V+ LLPE +D+ PVGRLD DT GLLL ++DG Sbjct: 59 EFRYYIMNKKAGYITATEDFKEDTVMDLLPEWVIKKDLAPVGRLDKDTEGLLLFTNDGKL 118 Query: 122 IHAQSSPKRHVPKVYAATTAEPVTEALIAQLKAGVQLHD---EPAPLAATRCRQLGENLL 178 H SPK H+ KVY + + + I +L+ GV + + +PA + ++ +N + Sbjct: 119 NHKLLSPKNHIDKVYYVEIEKNILDEDILKLEQGVDIGNYITQPA-----KVEKISDNKI 173 Query: 179 EIVLEQGKYHQVKRMLAAAGNHCSALRRTAIGGLQLEVLALEE 221 + +++GK+HQVK+ML A N LRR + G L L L L E Sbjct: 174 YLTIKEGKFHQVKKMLEAVNNKVCYLRRESFGKLTLNDLTLGE 216