RPS-BLAST 2.2.22 [Sep-27-2009]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= gi|254780904|ref|YP_003065317.1| tRNA/rRNA methyltransferase
[Candidatus Liberibacter asiaticus str. psy62]
(268 letters)
>d1gz0a1 c.116.1.1 (A:78-243) RlmB, C-terminal domain {Escherichia
coli [TaxId: 562]}
Length = 166
Score = 68.3 bits (166), Expect = 6e-13
Identities = 29/165 (17%), Positives = 56/165 (33%), Gaps = 12/165 (7%)
Query: 6 PQLQNSAKGP-VIILVDPQLGENIGMVARAMWNFNLTQLRLVNPRDGWPSEKARSSSANA 64
P L S P ++IL N+G R+ + + + R + A+ + A
Sbjct: 9 PDLIASLDQPFLLILDGVTDPHNLGACLRSADAAGVHAVIVPKDRSAQLNATAKKVACGA 68
Query: 65 DCVIDSVRVFSNLKEAIADLHFIYATTARNRNNFKSVLAPKEAAIVLNERIFSGQNVGII 124
+ +R +NL + L L + + ++
Sbjct: 69 AESVPLIR-VTNLARTMRMLQEENIWIVGTAGEADHTL----------YQSKMTGRLALV 117
Query: 125 FGRERWGLTNEEIALSNAIISFPVNPLFPSLNISQAVLLMVWECM 169
G E G+ + +IS P+ SLN+S A + ++E +
Sbjct: 118 MGAEGEGMRRLTREHCDELISIPMAGSVSSLNVSVATGICLFEAV 162
>d1mxia_ c.116.1.1 (A:) Hypothetical tRNA/rRNA methyltransfease
HI0766 (YibK homologue) {Haemophilus influenzae [TaxId:
727]}
Length = 156
Score = 62.9 bits (152), Expect = 3e-11
Identities = 24/155 (15%), Positives = 51/155 (32%), Gaps = 15/155 (9%)
Query: 17 IILVDPQLGENIGMVARAMWNFNLTQLRLVNPRDGWPSEKARSSSANADCVIDSVRVFSN 76
I+L +P++ +N G + R N +L L+ P +K S ++
Sbjct: 4 IVLYEPEIPQNTGNIIRLCANTGF-RLHLIEPLGFTWDDKRLRRSGLDYHEFAEIKRHKT 62
Query: 77 LKEAIADLHFIYATTARNRNNFKSVLAPKEAAIVLNERIFSGQNVGIIFGRERWGLTNEE 136
+ + + + ++ ++FG E G+
Sbjct: 63 FEAFLESEKPKRLFALTTKGCPA------------HSQVKFKLGDYLMFGPETRGIPMSI 110
Query: 137 I--ALSNAIISFPVNPLFPSLNISQAVLLMVWECM 169
+ I P+ S+N+S +V + V+E
Sbjct: 111 LNEMPMEQKIRIPMTANSRSMNLSNSVAVTVYEAW 145
>d1v2xa_ c.116.1.1 (A:) tRNA (Gm18) methyltransferase TrmH {Thermus
thermophilus [TaxId: 274]}
Length = 191
Score = 56.9 bits (136), Expect = 2e-09
Identities = 31/186 (16%), Positives = 70/186 (37%), Gaps = 13/186 (6%)
Query: 8 LQNSAKGPVIILVDPQLGENIGMVARAMWNFNLTQLRLVNPRDGWPSEKARSSSANADCV 67
L+ ++L + N+ + R + + VNP G P+ S ++
Sbjct: 16 LRRRQPDLTVLLENVHKPHNLSAILRTCDAVGVLEAHAVNPTGGVPTFNETSGGSHKWVY 75
Query: 68 IDSVRVFSNLKEAIADLHFIYATTARNRNNFKSVLAPKEAAIVLNERIFSGQNVGIIFGR 127
+ + + F TA + + + ++FG
Sbjct: 76 LRVHPDLHEAFRFLKERGFTVYATALREDARD------------FREVDYTKPTAVLFGA 123
Query: 128 ERWGLTNEEIALSNAIISFPVNPLFPSLNISQAVLLMVWECMENSIVSSEKNVKEQNTPA 187
E+WG++ E +AL++ I P+ + SLN+S A ++++E + + + + + P
Sbjct: 124 EKWGVSEEALALADGAIKIPMLGMVQSLNVSVAAAVILFEAQRQRLKAGLYD-RPRLDPE 182
Query: 188 TKGELL 193
++L
Sbjct: 183 LYQKVL 188
>d1ipaa1 c.116.1.1 (A:106-263) RrmA (RrmH), C-terminal domain
{Thermus thermophilus [TaxId: 274]}
Length = 158
Score = 51.9 bits (123), Expect = 6e-08
Identities = 23/163 (14%), Positives = 56/163 (34%), Gaps = 13/163 (7%)
Query: 7 QLQNSAKGPVIILVDPQLGENIGMVARAMWNFNLTQLRLVNPRDGWPSEKARSSSANADC 66
+ + S +++ V + N+G V R+ + + D + + R+ +
Sbjct: 4 EYRPSPDALILVAVGLEKPGNLGAVLRSADAAGAEAVLVAGGVDLYSPQVIRN---STGV 60
Query: 67 VIDSVRVFSNLKEAIADLHFIYATTARNRNNFKSVLAPKEAAIVLNERIFSGQNVGIIFG 126
V + ++ E + + + +++ V I G
Sbjct: 61 VFSLRTLAASESEVLDWIKQHNLPLVATTPHAEAL----------YWEANLRPPVAIAVG 110
Query: 127 RERWGLTNEEIALSNAIISFPVNPLFPSLNISQAVLLMVWECM 169
E GL + + + P+ SLN+S + L+++E +
Sbjct: 111 PEHEGLRAAWLEAAQTQVRIPMQGQADSLNVSVSAALLLYEAL 153
>d1smyd_ e.29.1.2 (D:) RNA-polymerase beta-prime {Thermus
thermophilus [TaxId: 274]}
Length = 1504
Score = 30.5 bits (68), Expect = 0.15
Identities = 15/73 (20%), Positives = 26/73 (35%)
Query: 170 ENSIVSSEKNVKEQNTPATKGELLSFLDYLEISLEERGYFRPVEKKKKMLDDLYSIFIRP 229
IV K P K +LL+ +Y E+ ++ + ++ D +
Sbjct: 129 SKYIVLDPKGAILNGVPVEKRQLLTDEEYRELRYGKQETYPLPPGVDALVKDGEEVVKGQ 188
Query: 230 ELMREEVFLLRGI 242
EL V L G+
Sbjct: 189 ELAPGVVSRLDGV 201
>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae
[TaxId: 727]}
Length = 205
Score = 27.1 bits (59), Expect = 1.4
Identities = 19/95 (20%), Positives = 35/95 (36%), Gaps = 14/95 (14%)
Query: 16 VIILVDPQLGENIGMVARAMWNFNLTQLRLVNPRDGWPSEKARSSSAN----------AD 65
V+ L+ + + TQL RD E+ + + AD
Sbjct: 111 VVPLLIENKLTALCDRILVVDVSPQTQLARSAQRDNNNFEQIQRIMNSQVSQQERLKWAD 170
Query: 66 CVIDS----VRVFSNLKEAIADLHFIYATTARNRN 96
VI++ + +L++ + +LH Y A N+N
Sbjct: 171 DVINNDAELAQNLPHLQQKVLELHQFYLQQAENKN 205
>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4
[TaxId: 10331]}
Length = 333
Score = 27.3 bits (60), Expect = 1.5
Identities = 13/62 (20%), Positives = 23/62 (37%), Gaps = 3/62 (4%)
Query: 190 GELLSFLDYLEISLEERGYFRPVEKKKKMLDD-LYSIFIRPELMREEVFLLRGIVSTLDK 248
GEL + + + F+ L D L+++F EL+ + +L LD
Sbjct: 217 GELPTSCGAYKHRATQMDAFQER--VSPELGDTLFALFKTQELLDDRGVILEVHAWALDA 274
Query: 249 FS 250
Sbjct: 275 LM 276
>d1xrsa_ c.1.19.4 (A:) D-lysine 5,6-aminomutase alpha subunit, KamD
{Clostridium sticklandii [TaxId: 1511]}
Length = 516
Score = 25.9 bits (57), Expect = 3.4
Identities = 10/36 (27%), Positives = 18/36 (50%), Gaps = 6/36 (16%)
Query: 131 GLTNEEIALSNAIISFPVNPLFPS---LNISQAVLL 163
GL E++ L +A F ++P + +SQA +
Sbjct: 328 GLPEEQMGLGHA---FEMDPELKNGFLYELSQAQMA 360
>d1i7da_ e.10.1.1 (A:) DNA topoisomerase III {Escherichia coli
[TaxId: 562]}
Length = 620
Score = 26.1 bits (56), Expect = 3.6
Identities = 10/53 (18%), Positives = 21/53 (39%), Gaps = 6/53 (11%)
Query: 185 TPATKGELLSFL---DYLEISLEERGYFRPVEKKKKMLDDLYSIFIRPELMRE 234
T AT+ ++ L +L ++ Y + K + L + RP++
Sbjct: 524 TEATRAGIIELLFKRGFLT---KKGRYIHSTDAGKALFHSLPEMATRPDMTAH 573
>d3ecfa1 d.17.4.21 (A:2-129) Uncharacterized protein Ava4193
{Anabaena variabilis [TaxId: 1172]}
Length = 128
Score = 25.7 bits (56), Expect = 3.7
Identities = 8/34 (23%), Positives = 17/34 (50%)
Query: 188 TKGELLSFLDYLEISLEERGYFRPVEKKKKMLDD 221
TKG L + ++ + E Y P+ K ++++
Sbjct: 82 TKGTLYTLHNFFRLDEEGIVYVWPMFDPKAVMEN 115
>d1xm7a_ d.159.1.8 (A:) Hypothetical protein aq_1666 {Aquifex
aeolicus [TaxId: 63363]}
Length = 188
Score = 24.8 bits (53), Expect = 9.1
Identities = 7/58 (12%), Positives = 16/58 (27%), Gaps = 3/58 (5%)
Query: 80 AIADLHFIYATTARNRNNFKSVLAPKEAAIV-LNERIFSGQNVGIIFGRERWGLTNEE 136
I+D HF + + + L + + + G W ++
Sbjct: 6 FISDTHFYHENIINLN-PEVRFKGFEIVILTNLLKVLKPEDTL-YHLGDFTWHFNDKN 61
Database: scop70_1_75
Posted date: Mar 27, 2010 6:21 PM
Number of letters in database: 2,407,596
Number of sequences in database: 13,730
Lambda K H
0.318 0.133 0.380
Gapped
Lambda K H
0.267 0.0571 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 939,628
Number of extensions: 42998
Number of successful extensions: 117
Number of sequences better than 10.0: 1
Number of HSP's gapped: 113
Number of HSP's successfully gapped: 16
Length of query: 268
Length of database: 2,407,596
Length adjustment: 84
Effective length of query: 184
Effective length of database: 1,254,276
Effective search space: 230786784
Effective search space used: 230786784
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.2 bits)