RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780325|ref|YP_003064738.1| mutator MutT protein [Candidatus Liberibacter asiaticus str. psy62] (141 letters) >gnl|CDD|181607 PRK08999, PRK08999, hypothetical protein; Provisional. Length = 312 Score = 139 bits (353), Expect = 3e-34 Identities = 52/129 (40%), Positives = 71/129 (55%), Gaps = 2/129 (1%) Query: 7 KKILLVVACAVFEPGGKVLLSCRPKDKSHGEFWEFPGGKIEDGETPEEALTRELFEELAI 66 K + V A + + G++LL+ RP+ K G WEFPGGK+E GET E+AL REL EEL I Sbjct: 2 MKRIHVAAGVIRDADGRILLARRPEGKHQGGLWEFPGGKVEPGETVEQALARELQEELGI 61 Query: 67 VVKPFSLVPLTFISHPYEKFHLLMPFFVCHCFEGIPQSCEGQQLQWVALDDLQNYSMLPA 126 V + PL + H Y + + ++G P EGQ L WVA D+L Y PA Sbjct: 62 EVT--AARPLITVRHDYPDKRVRLDVRRVTAWQGEPHGREGQPLAWVAPDELAVYPFPPA 119 Query: 127 DLSLISFLR 135 + ++ LR Sbjct: 120 NQPIVRALR 128 >gnl|CDD|182721 PRK10776, PRK10776, nucleoside triphosphate pyrophosphohydrolase; Provisional. Length = 129 Score = 100 bits (251), Expect = 1e-22 Identities = 44/130 (33%), Positives = 68/130 (52%), Gaps = 2/130 (1%) Query: 7 KKILLVVACAVFEPGGKVLLSCRPKDKSHGEFWEFPGGKIEDGETPEEALTRELFEELAI 66 K L + + P ++ ++ R D WEFPGGKIE GETPE+AL REL EE+ I Sbjct: 1 MKKLQIAVGIIRNPNNEIFITRRAADAHMAGKWEFPGGKIEAGETPEQALIRELQEEVGI 60 Query: 67 VVKPFSLVPLTFISHPYEKFHLLMPFFVCHCFEGIPQSCEGQQLQWVALDDLQNYSMLPA 126 V+ +L + + + H+ + F++ +EG P EGQ +WV+ L PA Sbjct: 61 TVQHATL--FEKLEYEFPDRHITLWFWLVESWEGEPWGKEGQPGRWVSQVALNADEFPPA 118 Query: 127 DLSLISFLRK 136 + +I+ L+ Sbjct: 119 NEPIIAKLKA 128 >gnl|CDD|182536 PRK10546, PRK10546, pyrimidine (deoxy)nucleoside triphosphate pyrophosphohydrolase; Provisional. Length = 135 Score = 84.8 bits (210), Expect = 7e-18 Identities = 49/128 (38%), Positives = 65/128 (50%), Gaps = 11/128 (8%) Query: 8 KILLVVACAVFEPGGKVLLSCRPKDKSHGEFWEFPGGKIEDGETPEEALTRELFEELAIV 67 K++ VVA A+ E GK+LL+ RP WEF GGK+E GE+ +AL REL EEL I Sbjct: 2 KMIDVVA-AIIERDGKILLAQRPAHSDQAGLWEFAGGKVEPGESQPQALIRELREELGIE 60 Query: 68 VKPFSLVPLTFISHPYE----KFHLLMPFFVCHCFEGIPQSCEGQQLQWVALDDLQNYSM 123 V SH E + H L + V F G Q+ E Q L W ++ Y + Sbjct: 61 ATVGEYVA----SHQREVSGRRIH-LHAWHVPD-FHGELQAHEHQALVWCTPEEALRYPL 114 Query: 124 LPADLSLI 131 PAD+ L+ Sbjct: 115 APADIPLL 122 >gnl|CDD|129674 TIGR00586, mutt, mutator mutT protein. All proteins in this family for which functions are known are involved in repairing oxidative damage to dGTP (they are 8-oxo-dGTPases). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). Length = 128 Score = 73.8 bits (181), Expect = 1e-14 Identities = 35/129 (27%), Positives = 55/129 (42%), Gaps = 2/129 (1%) Query: 7 KKILLVVACAVFEPGGKVLLSCRPKDKSHGEFWEFPGGKIEDGETPEEALTRELFEELAI 66 KK+ + + G+++++ R + EFPGGK E GETPE+A+ REL EE+ I Sbjct: 1 KKLQQIAVGIIRNENGEIIITRRADGHMFAKLLEFPGGKEEGGETPEQAVVRELEEEIGI 60 Query: 67 VVKPFSLVPLTFISHPYEKFHLLMPFFVCHCFEGIPQSCEGQQLQWVALDDLQNYSMLPA 126 L Y + L + + G P + WV + L + A Sbjct: 61 PQHFSEFEKL--EYEFYPRHITLWFWLLERWEGGPPGKEGQPEEWWVLVGLLADDFFPAA 118 Query: 127 DLSLISFLR 135 + +I LR Sbjct: 119 NPVIIKLLR 127 >gnl|CDD|131752 TIGR02705, nudix_YtkD, nucleoside triphosphatase YtkD. The functional assignment to the proteins of this family is contentious. Reference challenges the findings of reference, both in interpretation and in enzyme assay results. This protein belongs to the nudix family and shares some sequence identity with E. coli MutT but appears not to be functionally interchangeable with it. Length = 156 Score = 49.3 bits (118), Expect = 3e-07 Identities = 24/59 (40%), Positives = 30/59 (50%), Gaps = 15/59 (25%) Query: 21 GGKVLLSCRPKDKSHGEFW----------EFPGGKIEDGETPEEALTRELFEELAIVVK 69 VL+ R KD+ W EFPGGK+E GET +EA RE+ EE +VK Sbjct: 24 PNHVLVIPRYKDQ-----WLLTEHKRRGLEFPGGKVEPGETSKEAAIREVMEETGAIVK 77 >gnl|CDD|179094 PRK00714, PRK00714, RNA pyrophosphohydrolase; Reviewed. Length = 156 Score = 49.4 bits (119), Expect = 3e-07 Identities = 21/51 (41%), Positives = 29/51 (56%), Gaps = 3/51 (5%) Query: 13 VACAVFEPGGKVLLSCRPKDKSHGEFWEFPGGKIEDGETPEEALTRELFEE 63 V + G+V R + H W+FP G I+ GETPE+A+ REL+EE Sbjct: 11 VGIILLNRQGQVFWGRR-IGQGHS--WQFPQGGIDPGETPEQAMYRELYEE 58 >gnl|CDD|185369 PRK15472, PRK15472, nucleoside triphosphatase NudI; Provisional. Length = 141 Score = 49.0 bits (117), Expect = 5e-07 Identities = 35/125 (28%), Positives = 50/125 (40%), Gaps = 15/125 (12%) Query: 12 VVACAVFEPGGKVLLSCRPKDKSHGEF---WEFPGGKIEDGETPEEALTRELFEELAIVV 68 + C + + G LL D+ G F W GG +E GE EEAL RE+ EEL + Sbjct: 5 TIVCPLIQNDGAYLLCKMADDR--GVFPGQWALSGGGVEPGERIEEALRREIREELGEQL 62 Query: 69 KPFSLVPLTFISHPYEKFH-------LLMPFFVCHCFEGIPQSC---EGQQLQWVALDDL 118 + P TF K + + M + + C E Q WV +DL Sbjct: 63 LLTEITPWTFRDDIRTKTYADGRKEEIYMIYLIFDCVSANRDVKINEEFQDYAWVKPEDL 122 Query: 119 QNYSM 123 +Y + Sbjct: 123 VHYDL 127 >gnl|CDD|183303 PRK11762, nudE, adenosine nucleotide hydrolase NudE; Provisional. Length = 185 Score = 39.0 bits (92), Expect = 5e-04 Identities = 15/23 (65%), Positives = 16/23 (69%) Query: 41 FPGGKIEDGETPEEALTRELFEE 63 FP G I+ GETP EA REL EE Sbjct: 78 FPKGLIDPGETPLEAANRELKEE 100 >gnl|CDD|180046 PRK05379, PRK05379, bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional. Length = 340 Score = 38.1 bits (89), Expect = 7e-04 Identities = 19/42 (45%), Positives = 22/42 (52%), Gaps = 1/42 (2%) Query: 22 GKVLLSCRPKDKSHGEFWEFPGGKIEDGETPEEALTRELFEE 63 G VLL R + G W PGG +E ET +A REL EE Sbjct: 214 GHVLLVRRRAEPGKG-LWALPGGFLEQDETLLDACLRELREE 254 >gnl|CDD|179643 PRK03759, PRK03759, isopentenyl-diphosphate delta-isomerase; Provisional. Length = 184 Score = 36.5 bits (85), Expect = 0.002 Identities = 31/122 (25%), Positives = 46/122 (37%), Gaps = 29/122 (23%) Query: 15 CAVFEPGGKVLLSCRPKDKSHGEFWEFPG-------GKIEDGETPEEALTRELFEELAIV 67 C +F+ G++L++ R K +PG G + GE+ E+A+ R EEL + Sbjct: 39 CYLFDADGRLLVTRRALSKKT-----WPGVWTNSCCGHPQPGESLEDAVIRRCREELGVE 93 Query: 68 VKPFSLVPLTFISHPYEKFHLLMP-----FFVCHCFEGI------PQSCEGQQLQWVALD 116 + LV F ++ P VC F P E QWV Sbjct: 94 ITDLELVLPDF------RYRATDPNGIVENEVCPVFAARVTSALQPNPDEVMDYQWVDPA 147 Query: 117 DL 118 DL Sbjct: 148 DL 149 >gnl|CDD|181858 PRK09438, nudB, dihydroneopterin triphosphate pyrophosphatase; Provisional. Length = 148 Score = 36.4 bits (85), Expect = 0.003 Identities = 22/59 (37%), Positives = 31/59 (52%), Gaps = 6/59 (10%) Query: 11 LVVACAVFEPGGKVLLSCRPKDKSHGEFWEFPGGKIEDGETPEEALTRELFEELAIVVK 69 LVV ++ P VL+ R D +FW+ G +E+GETP + RE+ EE I V Sbjct: 11 LVV---IYTPDLGVLMLQRADDP---DFWQSVTGSLEEGETPAQTAIREVKEETGIDVL 63 >gnl|CDD|182682 PRK10729, nudF, ADP-ribose pyrophosphatase NudF; Provisional. Length = 202 Score = 33.6 bits (77), Expect = 0.017 Identities = 12/30 (40%), Positives = 17/30 (56%) Query: 40 EFPGGKIEDGETPEEALTRELFEELAIVVK 69 E G IE+GE+ E+ RE EE ++V Sbjct: 85 EMVAGMIEEGESVEDVARREAIEEAGLIVG 114 >gnl|CDD|178944 PRK00241, nudC, NADH pyrophosphatase; Reviewed. Length = 256 Score = 31.0 bits (71), Expect = 0.11 Identities = 13/26 (50%), Positives = 17/26 (65%) Query: 44 GKIEDGETPEEALTRELFEELAIVVK 69 G +E GET E+ + RE+ EE I VK Sbjct: 163 GFVEVGETLEQCVAREVMEESGIKVK 188 >gnl|CDD|177959 PLN02325, PLN02325, nudix hydrolase. Length = 144 Score = 31.0 bits (70), Expect = 0.13 Identities = 22/52 (42%), Positives = 25/52 (48%), Gaps = 2/52 (3%) Query: 13 VACAVFE-PGGKVLLSCRPKDKSHGEFWEFPGGKIEDGETPEEALTRELFEE 63 VA VF G VLL R F PGG +E GE+ EE RE+ EE Sbjct: 10 VAVVVFLLKGNSVLLGRRRSSIGDSTF-ALPGGHLEFGESFEECAAREVKEE 60 >gnl|CDD|129162 TIGR00052, TIGR00052, nudix-type nucleoside diphosphatase, YffH/AdpP family. Length = 185 Score = 28.6 bits (64), Expect = 0.61 Identities = 13/30 (43%), Positives = 16/30 (53%) Query: 40 EFPGGKIEDGETPEEALTRELFEELAIVVK 69 E G +E GE+PE+ RE EE VK Sbjct: 80 ELSAGMVEKGESPEDVARREAIEEAGYQVK 109 >gnl|CDD|185332 PRK15434, PRK15434, GDP-mannose mannosyl hydrolase NudD; Provisional. Length = 159 Score = 28.6 bits (64), Expect = 0.62 Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 1/45 (2%) Query: 22 GKVLLSCRPKDKSHGEFWEFPGGKIEDGETPEEALTRELFEELAI 66 G+ LL R + G +W PGG+++ ET E A R EL + Sbjct: 29 GEFLLGKRTNRPAQG-YWFVPGGRVQKDETLEAAFERLTMAELGL 72 >gnl|CDD|181809 PRK09376, rho, transcription termination factor Rho; Provisional. Length = 416 Score = 27.8 bits (63), Expect = 1.1 Identities = 17/46 (36%), Positives = 23/46 (50%), Gaps = 15/46 (32%) Query: 45 KIE--DGETPEEALTRELFEELAIVVKPFSLVPLTFISHPYEKFHL 88 K+E +GE PE+A R LFE +L PL +P E+ L Sbjct: 115 KVETVNGEDPEKARNRPLFE---------NLTPL----YPNERLRL 147 >gnl|CDD|185291 PRK15393, PRK15393, NUDIX hydrolase YfcD; Provisional. Length = 180 Score = 27.5 bits (61), Expect = 1.3 Identities = 20/53 (37%), Positives = 26/53 (49%), Gaps = 2/53 (3%) Query: 22 GKVLLSCRP--KDKSHGEFWEFPGGKIEDGETPEEALTRELFEELAIVVKPFS 72 GK+L+ R KD G GG ++ GE E+ RE EEL I PF+ Sbjct: 49 GKILVQRRTETKDFLPGMLDATAGGVVQAGEQLLESARREAEEELGIAGVPFA 101 >gnl|CDD|179648 PRK03776, PRK03776, phosphoglycerol transferase I; Provisional. Length = 762 Score = 27.0 bits (60), Expect = 1.8 Identities = 11/26 (42%), Positives = 15/26 (57%) Query: 61 FEELAIVVKPFSLVPLTFISHPYEKF 86 FEEL+ + FSL LT +H + F Sbjct: 316 FEELSRSGQRFSLFTLTVDTHHPDGF 341 >gnl|CDD|183935 PRK13271, treA, trehalase; Provisional. Length = 569 Score = 26.8 bits (59), Expect = 2.1 Identities = 12/24 (50%), Positives = 13/24 (54%), Gaps = 9/24 (37%) Query: 107 GQQ---------LQWVALDDLQNY 121 GQQ LQWVA + LQNY Sbjct: 448 GQQWDAPNGWAPLQWVATEGLQNY 471 >gnl|CDD|177550 PHA03173, PHA03173, UL37 tegument protein; Provisional. Length = 1028 Score = 26.5 bits (59), Expect = 2.5 Identities = 10/33 (30%), Positives = 13/33 (39%), Gaps = 1/33 (3%) Query: 45 KIEDGETPEEALTRELFEELAIVVKPFSLVPLT 77 + G T L E F E + P +LVP Sbjct: 244 TRDRGATAPSRLL-EQFAEDVREIDPAALVPPG 275 >gnl|CDD|177970 PLN02336, PLN02336, phosphoethanolamine N-methyltransferase. Length = 475 Score = 26.3 bits (58), Expect = 2.7 Identities = 12/25 (48%), Positives = 15/25 (60%), Gaps = 2/25 (8%) Query: 19 EPGGKVLLS--CRPKDKSHGEFWEF 41 +PGGKVL+S CR EF E+ Sbjct: 360 KPGGKVLISDYCRSPGTPSPEFAEY 384 >gnl|CDD|130156 TIGR01084, mutY, A/G-specific adenine glycosylase. This equivalog model identifies mutY members of the pfam00730 superfamily (HhH-GPD: Helix-hairpin-helix and Gly/Pro rich loop followed by a conserved aspartate). The major members of the superfamily are nth and mutY. Length = 275 Score = 25.8 bits (57), Expect = 4.0 Identities = 11/41 (26%), Positives = 16/41 (39%) Query: 9 ILLVVACAVFEPGGKVLLSCRPKDKSHGEFWEFPGGKIEDG 49 + G+VLL RP+ G + FP + ED Sbjct: 226 ERTTYFLVLQNYDGEVLLEQRPEKGLWGGLYCFPQFEDEDS 266 >gnl|CDD|163013 TIGR02776, NHEJ_ligase_prk, DNA ligase D. Members of this protein family are DNA ligases involved in the repair of DNA double-stranded breaks by non-homologous end joining (NHEJ). The system of the bacterial Ku protein (TIGR02772) plus this DNA ligase is seen in about 20 % of bacterial genomes to date and at least one archaeon (Archeoglobus fulgidus). This model describes a central and a C-terminal domain. These two domains may be permuted, as in genus Mycobacterium, or divided into tandem ORFs, and therefore not be identified by this model. An additional N-terminal 3'-phosphoesterase (PE) domain present in some but not all examples of this ligase is not included in the seed alignment for this model; This alignment models only the central ATP-dependent ligase domain and the C-terminal polymerase domain. Most examples of genes for this ligase are adjacent to the gene for Ku. Length = 552 Score = 25.4 bits (56), Expect = 4.9 Identities = 11/57 (19%), Positives = 21/57 (36%), Gaps = 12/57 (21%) Query: 56 LTRELFEELAIVVKPFS----------LVPLTFISHPYEKFHLLMPFFVCHCFEGIP 102 L ++L +EL +V F +VPL + +++ L + P Sbjct: 415 LMKQLLDELGLV--SFVKTSGGKGLHVVVPLRPNTFTWDETKLFAKAIAEYLARQFP 469 >gnl|CDD|183022 PRK11183, PRK11183, D-lactate dehydrogenase; Provisional. Length = 564 Score = 25.2 bits (56), Expect = 5.6 Identities = 10/13 (76%), Positives = 11/13 (84%) Query: 46 IEDGETPEEALTR 58 I+ GETPEE LTR Sbjct: 186 IDLGETPEEILTR 198 >gnl|CDD|178232 PLN02625, PLN02625, uroporphyrin-III C-methyltransferase. Length = 263 Score = 25.4 bits (56), Expect = 6.2 Identities = 13/38 (34%), Positives = 18/38 (47%) Query: 42 PGGKIEDGETPEEALTRELFEELAIVVKPFSLVPLTFI 79 P +E G TPE+ + E++A V LV T I Sbjct: 206 PAAAVERGTTPEQRVVFGTLEDIAEDVAAAGLVSPTVI 243 >gnl|CDD|129044 smart00808, FABD, F-actin binding domain (FABD). FABD is the F-actin binding domain of Bcr-Abl and its cellular counterpart c-Abl. The Bcr-Abl tyrosine kinase causes different forms of leukemia in humans. Depending on its position within the cell, Bcr-Abl differentially affects cellular growth. The FABD forms a compact left-handed four-helix bundle in solution. Length = 126 Score = 25.2 bits (55), Expect = 7.0 Identities = 10/46 (21%), Positives = 19/46 (41%), Gaps = 3/46 (6%) Query: 47 EDGETPEEALTRELFEELAIVV-KPFSLVPLTFISHPY--EKFHLL 89 P +A+++++ EL ++ S SH +K H L Sbjct: 15 PAERIPSDAISKDMILELTELLESALSSSSEQPASHSQWLDKGHQL 60 >gnl|CDD|151547 pfam11103, DUF2887, Protein of unknown function (DUF2887). This bacterial family of proteins has no known function. Length = 200 Score = 24.9 bits (55), Expect = 7.9 Identities = 8/26 (30%), Positives = 15/26 (57%) Query: 106 EGQQLQWVALDDLQNYSMLPADLSLI 131 Q++Q + LD+L +L L+L+ Sbjct: 117 NSQRVQRIYLDELGEAELLSLGLALM 142 Database: CddB Posted date: Feb 4, 2011 9:54 PM Number of letters in database: 5,994,473 Number of sequences in database: 21,608 Lambda K H 0.325 0.142 0.452 Gapped Lambda K H 0.267 0.0723 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 2,449,036 Number of extensions: 148428 Number of successful extensions: 378 Number of sequences better than 10.0: 1 Number of HSP's gapped: 373 Number of HSP's successfully gapped: 29 Length of query: 141 Length of database: 5,994,473 Length adjustment: 84 Effective length of query: 57 Effective length of database: 4,179,401 Effective search space: 238225857 Effective search space used: 238225857 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: 40 (21.6 bits) S2: 52 (23.8 bits)