RPS-BLAST 2.2.22 [Sep-27-2009]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= gi|254781115|ref|YP_003065528.1| poly(A) polymerase protein
[Candidatus Liberibacter asiaticus str. psy62]
(416 letters)
>d1miwa1 a.173.1.1 (A:140-404) tRNA CCA-adding enzyme, C-terminal
domains {Bacillus stearothermophilus [TaxId: 1422]}
Length = 265
Score = 111 bits (279), Expect = 8e-26
Identities = 44/262 (16%), Positives = 94/262 (35%), Gaps = 8/262 (3%)
Query: 150 IKFIGDAHHRILEDYLRILRFFRFFAHYGEKNIDSDGLVASIKAKKGLKILSSERIWSEI 209
I+ +G+A R ED LR++R RF + G + D A ++ L +S ER+ E+
Sbjct: 2 IRTVGEAEKRFREDALRMMRAVRFVSELGFA-LAPDTEQAIVQNAPLLAHISVERMTMEM 60
Query: 210 NKLLEAKNPLNAIVHMYNGGIFKEIFLDVQEISLDQLSQVIEAEQVFEWKIDSLLRFIVL 269
KLL A+ + G+ + ++ + + A + W R+ +L
Sbjct: 61 EKLLGGPFAARALPLLAETGLNAYLP----GLAGKEKQLRLAAAYRWPWLAAREERWALL 116
Query: 270 ISWQDKKSILSMAKKFSLPREIRYFLISFFNCNFNQKTLSIPEIKKLFYLYGDKVMIAKL 329
+ + + LP ++ + + + + G + ++
Sbjct: 117 CHALGVQESRPFLRAWKLPNKVVDEAGAILTALADIPR-PEAWTNEQLFSAGLERALSVE 175
Query: 330 KIFLALHYNNLTHQDTCFILQVLSDIIHWKKPLFPLTGDDVVK-YGIPPGKKVGNILVHC 388
+ A + + + + K + G DV++ G P G V L
Sbjct: 176 TVRAAFTGAPPG-PWHEKLRRRFASLPIKTKGELAVNGKDVIEWVGKPAGPWVKEALDAI 234
Query: 389 KQEWINSSFQLSQEDLHHLLRK 410
+ +N + +E ++ L +
Sbjct: 235 WRAVVNGEVENEKERIYAWLME 256
>d1ou5a2 d.218.1.4 (A:-1-150) tRNA CCA-adding enzyme, head domain
{Human (Homo sapiens), mitochondrial [TaxId: 9606]}
Length = 152
Score = 105 bits (263), Expect = 6e-24
Identities = 56/148 (37%), Positives = 80/148 (54%), Gaps = 4/148 (2%)
Query: 5 VQHKWFH---DSDLINILSLLNKGEDKSCIVGGAVRDSLMNLSVQDIDIATTILPDRVMR 61
+Q F L ++ L K + I GGAVRD L + QDID ATT P ++
Sbjct: 5 LQSPEFQSLFTEGLKSLTELFVKENHELRIAGGAVRDLLNGVKPQDIDFATTATPTQMKE 64
Query: 62 IFSKT-RYKVIPTSISYGTIKIICRKKYFDITTLRSDLITDGRYAKVVFTRDWKADSLRR 120
+F + +GTI ++ F+ITTLR D+ TDGR+A+V FT DW+ D+ RR
Sbjct: 65 MFQSAGIRMINNRGEKHGTITARLHEENFEITTLRIDVTTDGRHAEVEFTTDWQKDAERR 124
Query: 121 DFTINALYADQQGKVIDYVGGLNDLRNR 148
D TIN+++ G + DY G DL+N+
Sbjct: 125 DLTINSMFLGFDGTLFDYFNGYEDLKNK 152
>d1miwa2 d.218.1.4 (A:1-139) tRNA CCA-adding enzyme, head domain
{Bacillus stearothermophilus [TaxId: 1422]}
Length = 139
Score = 103 bits (258), Expect = 2e-23
Identities = 49/137 (35%), Positives = 75/137 (54%), Gaps = 6/137 (4%)
Query: 14 DLINILSLLNKGEDKSCIVGGAVRDSLMNLSVQDIDIATTILPDRVMRIFSKTRYKVIPT 73
+ + I+ L + + VGGAVRD L+ + D+DIAT+ LP+ VM IF K I
Sbjct: 7 EALGIIQQLKQHGYDAYFVGGAVRDLLLGRPIGDVDIATSALPEDVMAIF----PKTIDV 62
Query: 74 SISYGTIKIICRKKYFDITTLRSD--LITDGRYAKVVFTRDWKADSLRRDFTINALYADQ 131
+GT+ ++ + K +++TT ++D R V F R + D RRDFT+NA+ D+
Sbjct: 63 GSKHGTVVVVHKGKAYEVTTFKTDGDYEDYRRPESVTFVRSLEEDLKRRDFTMNAIAMDE 122
Query: 132 QGKVIDYVGGLNDLRNR 148
G +ID GG +R R
Sbjct: 123 YGTIIDPFGGREAIRRR 139
>d1ou5a1 a.173.1.1 (A:151-354) tRNA CCA-adding enzyme, C-terminal
domains {Human (Homo sapiens), mitochondrial [TaxId:
9606]}
Length = 204
Score = 94.0 bits (233), Expect = 2e-20
Identities = 48/196 (24%), Positives = 84/196 (42%), Gaps = 12/196 (6%)
Query: 150 IKFIGDAHHRILEDYLRILRFFRFFAHYGEKN--IDSDGLVASIKAKKGLKILSSERIWS 207
++F+G A RI EDYLRILR+FRF+ +K D + L A + KGL +S ERIW
Sbjct: 2 VRFVGHAKQRIQEDYLRILRYFRFYGRIVDKPGDHDPETLEAIAENAKGLAGISGERIWV 61
Query: 208 EINKLLEAKNPLNAIVHMYNGGIFKEIFLDVQEISLDQLSQVIEAEQVFEWKIDSLLRFI 267
E+ K+L + + I +Y+ + I L SL++ +V ++ V + +
Sbjct: 62 ELKKILVGNHVNHLIHLIYDLDVAPYIGLP-ANASLEEFDKV--SKNVDGFSPKPVTLLA 118
Query: 268 VLISWQDKKSILSMAKKFSLPREIRYFLISFFNCNFNQKTLSIPEIKKLF----YLYGDK 323
L + + + + + +E + L F N + L ++ +
Sbjct: 119 SLFK--VQDDVTKLDLRLKIAKEEKN-LGLFIVKNRKDLIKATDSSDPLKPYQDFIIDSR 175
Query: 324 VMIAKLKIFLALHYNN 339
A ++ L Y
Sbjct: 176 EPDATTRVCELLKYQG 191
>d1vfga2 d.218.1.4 (A:1-136) Poly A polymerase PcnB {Aquifex
aeolicus [TaxId: 63363]}
Length = 136
Score = 88.0 bits (217), Expect = 1e-18
Identities = 36/125 (28%), Positives = 55/125 (44%), Gaps = 4/125 (3%)
Query: 28 KSCIVGGAVRDSLMNLSVQDIDIATTILPDRVMRIFSKTRYKVIPTSISYGTIKIICRKK 87
++ IVGG VRD L+ V D+D + + ++ + +GT + K
Sbjct: 12 RAYIVGGVVRDILLGKEVWDVDFVVEGNAIELAKELARRHGVNVHPFPEFGTAHLKIGKL 71
Query: 88 YFDITTLRSDLITDGRYAKVVFTRDWKADSLRRDFTINALYAD----QQGKVIDYVGGLN 143
+ T R + V K D +RRDFTINA+ G +IDY GGL
Sbjct: 72 KLEFATARRETYPRPGAYPKVEPASLKEDLIRRDFTINAMAISVNLEDYGTLIDYFGGLR 131
Query: 144 DLRNR 148
DL+++
Sbjct: 132 DLKDK 136
>d1vfga1 a.173.1.1 (A:137-351) Poly A polymerase PcnB {Aquifex
aeolicus [TaxId: 63363]}
Length = 215
Score = 62.5 bits (151), Expect = 6e-11
Identities = 35/189 (18%), Positives = 60/189 (31%), Gaps = 18/189 (9%)
Query: 157 HHRILEDYLRILRFFRFFAHYGEKNIDSD--GLVASIKAKKGLKILSSERIWSEINKLLE 214
+ED +RILR RF K + L+ LK R+ +EI L
Sbjct: 7 PVSFIEDPVRILRALRFAGRLNFK-LSRSTEKLLKQAVNLGLLKEAPRGRLINEIKLALR 65
Query: 215 AKNPLNAIVHMYNGGIFKEIFLDVQEISLDQLSQVIEAEQVFEW---------KIDSLLR 265
L + + +EI Q L ++ +V +W L
Sbjct: 66 EDRFLEILELYRKYRVLEEIIEGFQWNE-KVLQKLYALRKVVDWHALEFSEERIDYGWLY 124
Query: 266 FIVLISWQDKKSILSMAKKFSLPREIRYFLISFFN-----CNFNQKTLSIPEIKKLFYLY 320
++LIS D + ++ S P +R +K E+ +L
Sbjct: 125 LLILISNLDYERGKHFLEEMSAPSWVRETYKFMKFKLGSLKEELKKAKENYEVYRLLKPL 184
Query: 321 GDKVMIAKL 329
V++ +
Sbjct: 185 HTSVLLLLM 193
>d1cmca_ a.43.1.5 (A:) Met repressor, MetJ (MetR) {Escherichia coli
[TaxId: 562]}
Length = 104
Score = 29.6 bits (66), Expect = 0.54
Identities = 19/58 (32%), Positives = 29/58 (50%), Gaps = 4/58 (6%)
Query: 174 FAHYGEKNIDSDGLVASIKAKKGLKILSSERIWSEINKLLEAKNP---LNAIVHMYNG 228
+A +G+K+ + SI K LKIL+ ER ++N L A N A +H + G
Sbjct: 11 YAEHGKKSEQVKKITVSIPLKV-LKILTDERTRRQVNNLRHATNSELLCEAFLHAFTG 67
>d1joga_ a.24.16.2 (A:) Hypothetical protein HI0074 {Haemophilus
influenzae [TaxId: 727]}
Length = 135
Score = 27.2 bits (60), Expect = 2.6
Identities = 8/74 (10%), Positives = 22/74 (29%), Gaps = 7/74 (9%)
Query: 167 ILRFFRFFAHYGEKNIDSDGLVASIKAKKGLKILSSERIWSEINKLLEAKNPLNAIVHMY 226
+ R + A +I + G ++ ++ W + N H Y
Sbjct: 55 MKRQLQQDA-INTDDIGAYGFKDILREALRFGLIGDMSKWVAYRDMR------NITSHTY 107
Query: 227 NGGIFKEIFLDVQE 240
+ ++ + +
Sbjct: 108 DQEKAMAVYAQIDD 121
>d1dxha2 c.78.1.1 (A:151-335) Ornithine transcarbamoylase
{Pseudomonas aeruginosa [TaxId: 287]}
Length = 185
Score = 26.3 bits (57), Expect = 4.9
Identities = 6/30 (20%), Positives = 12/30 (40%)
Query: 144 DLRNRTIKFIGDAHHRILEDYLRILRFFRF 173
L + + ++GDA + + L I
Sbjct: 2 PLHDISYAYLGDARNNMGNSLLLIGAKLGM 31
>d1wtya_ a.24.16.2 (A:) Probable nucleotidyltransferase subunit
TTHA0048 {Thermus thermophilus [TaxId: 274]}
Length = 116
Score = 25.6 bits (56), Expect = 8.3
Identities = 10/65 (15%), Positives = 28/65 (43%), Gaps = 6/65 (9%)
Query: 176 HYGEKNIDSDGLVASIKAKKGLKILSSERIWSEINKLLEAKNPLNAIVHMYNGGIFKEIF 235
+ +++ A+I+ + +L + W E+ +L N H Y+ + + I+
Sbjct: 44 FLELQGLEARSPRAAIRGAFQVGLLPEDPFWLEMLELR------NLTNHTYDEALAERIY 97
Query: 236 LDVQE 240
++ +
Sbjct: 98 AELPK 102
>d1vlva2 c.78.1.1 (A:153-313) Ornithine transcarbamoylase
{Thermotoga maritima [TaxId: 2336]}
Length = 161
Score = 25.2 bits (54), Expect = 8.9
Identities = 4/29 (13%), Positives = 10/29 (34%)
Query: 145 LRNRTIKFIGDAHHRILEDYLRILRFFRF 173
L+ + F+GD + + +
Sbjct: 1 LKGVKVVFMGDTRNNVATSLMIACAKMGM 29
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
0.325 0.141 0.420
Gapped
Lambda K H
0.267 0.0499 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,634,878
Number of extensions: 79584
Number of successful extensions: 257
Number of sequences better than 10.0: 1
Number of HSP's gapped: 250
Number of HSP's successfully gapped: 20
Length of query: 416
Length of database: 2,407,596
Length adjustment: 88
Effective length of query: 328
Effective length of database: 1,199,356
Effective search space: 393388768
Effective search space used: 393388768
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: 54 (25.1 bits)