RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254781115|ref|YP_003065528.1| poly(A) polymerase protein
[Candidatus Liberibacter asiaticus str. psy62]
(416 letters)
>gnl|CDD|183958 PRK13299, PRK13299, tRNA CCA-pyrophosphorylase; Provisional.
Length = 394
Score = 170 bits (432), Expect = 8e-43
Identities = 104/371 (28%), Positives = 175/371 (47%), Gaps = 44/371 (11%)
Query: 31 IVGGAVRDSLMNLSVQDIDIATTILPDRVMRIFSKTRYKVIPTSISYGTIKIICRKKYFD 90
VGG+VRD L+ + D+DIAT+ P+ V IF +T + I +GT+ ++ + ++
Sbjct: 25 FVGGSVRDYLLGRPIHDVDIATSAYPEEVKAIFPRT----VDVGIEHGTVLVLENGEEYE 80
Query: 91 ITTLRSDLITDGRY------AKVVFTRDWKADSLRRDFTINALYADQQGKVIDYVGGLND 144
+TT R T+ Y ++V F R + D RRDFTINA+ D+ G++ID GL D
Sbjct: 81 VTTFR----TESEYVDYRRPSEVTFVRSLEEDLKRRDFTINAIAMDENGEIIDLFDGLED 136
Query: 145 LRNRTIKFIGDAHHRILEDYLRILRFFRFFAHYGEKNIDSDGLVASIKAKKGLKILSSER 204
L+NR I+ +G+A R ED LR++R RF + G ++++ A L+ +S ER
Sbjct: 137 LKNRLIRAVGNAEERFQEDALRMMRAVRFASQLGFD-LETETFEAMKTQAPLLEKISVER 195
Query: 205 IWSEINKLLEAKNPLNAIVHMYNGGIFKEI-FLDVQEISLDQLSQVIEAEQVFEWKIDSL 263
I+ E KLL + + G++ + L +E +L +L+Q FE +
Sbjct: 196 IFVEFEKLLLGPFWRKGLKLLIETGLYNYLPGLKGKEENLLKLTQ--LLWFSFETSEQAW 253
Query: 264 LRFIVLISWQDKKSILSMAKKFSLP-REIRYF--LISFFNCNFNQKTLSIPEIKKLFYLY 320
++ + ++ KS L K L + I+ L++ + + E L Y Y
Sbjct: 254 AALLISLKIENIKSFLKAWK---LSNKFIKDVVKLLALYALRSERS----WEKLDL-YQY 305
Query: 321 GDKVMIAKLKIFLALHYNNLTHQDTCFILQVLSDI-----IHWKKPLFPLTGDDVVK-YG 374
G ++ + LA + + ++ IH KK L + G D++K +G
Sbjct: 306 GKEIAL------LAEDLRQAQGLS--VDEEAIQELYQALPIHDKKEL-AVNGGDLLKHFG 356
Query: 375 IPPGKKVGNIL 385
PG +G L
Sbjct: 357 KKPGPWLGETL 367
>gnl|CDD|131739 TIGR02692, tRNA_CCA_actino, tRNA adenylyltransferase. The enzyme
tRNA adenylyltransferase, also called
tRNA-nucleotidyltransferase and CCA-adding enzyme, can
add or repair the required CCA triplet at the 3'-end of
tRNA molecules. Genes encoding tRNA include the CCA tail
in some but not all bacteria, and this enzyme may be
required for viability. Members of this family represent
a distinct clade within the larger family pfam01743
(tRNA nucleotidyltransferase/poly(A) polymerase family
protein). The example from Streptomyces coelicolor was
shown to act as a CCA-adding enzyme and not as a poly(A)
polymerase.
Length = 466
Score = 114 bits (286), Expect = 7e-26
Identities = 73/245 (29%), Positives = 111/245 (45%), Gaps = 24/245 (9%)
Query: 31 IVGGAVRDSLMNLSVQDIDIATTILPDRVMRIFSKTRYKVIPTSISYGTIKIICRKKYFD 90
+VGG+VRD+L+ D+D T P+ + I V T I++GT+ + +
Sbjct: 32 LVGGSVRDALLGRLGHDLDFTTDARPEETLAILRPWADAVWDTGIAFGTVGAEKDGQQIE 91
Query: 91 ITTLRSDLIT-DGRYAKVVFTRDWKADSLRRDFTINALY----ADQQGKVIDYVGGLNDL 145
ITT RSD R +V F + D +RRDFT+NA+ AD + D VGGL+DL
Sbjct: 92 ITTFRSDSYDGTSRKPEVTFGDTLEGDLIRRDFTVNAMAVRIPADGSLEFHDPVGGLDDL 151
Query: 146 RNRTIKFIGDAHHRILEDYLRILRFFRFFAHYGEKNIDSDGLVASIKAKKGLKILSSERI 205
+ + +D LR+LR RF + G + + A + ++ +S+ER+
Sbjct: 152 LAKVLDTPATPEQSFGDDPLRMLRAARFVSQLGFE-VAPRVRAAMTEMADQIERISAERV 210
Query: 206 WSEINKLLEAKNPLNAIVHMYNGGIFKEIFL-----------------DVQEISLDQLSQ 248
E++KLL +P I M G+ + L DV E SL L Q
Sbjct: 211 RVELDKLLLGDHPRAGIDLMVETGL-ADRVLPEIPALRLEIDEHHQHKDVYEHSLTVLRQ 269
Query: 249 VIEAE 253
I+ E
Sbjct: 270 AIDLE 274
>gnl|CDD|130997 TIGR01942, pcnB, poly(A) polymerase. This model describes the pcnB
family of poly(A) polymerases (also known as plasmid
copy number protein). These enzymes sequentially add
adenosine nucleotides to the 3' end of RNAs, targeting
them for degradation by the cell. This was originally
described for anti-sense RNAs, but was later
demonstrated for mRNAs as well. Members of this family
are as yet limited to the gamma- and
beta-proteobacteria, with putative members in the
Chlamydiacae and spirochetes. This family has homology
to tRNA nucleotidyltransferase (cca).
Length = 410
Score = 112 bits (282), Expect = 1e-25
Identities = 67/203 (33%), Positives = 108/203 (53%), Gaps = 10/203 (4%)
Query: 16 INILSLLNKGEDKSCIVGGAVRDSLMNLSVQDIDIATTILPDRVMRIFSKTRYKVIPTSI 75
+N++ L ++ IVGGAVRD L+ + +D D+ T+ P+ V ++F +R ++
Sbjct: 19 LNVVERLKGAGYQAYIVGGAVRDLLLGIEPKDFDVVTSATPEEVRKLFRNSR--IVGRR- 75
Query: 76 SYGTIKIICRKKYFDITTLRSDLIT----DGRYAKVVFTRDWKADSLRRDFTINALYAD- 130
+ + + ++ ++ T RS + +GR K + D+ RRDFT+NALY D
Sbjct: 76 -FRLVHVSFGRQIIEVATFRSGHKSSVNAEGRILKDNVYGTLEEDAWRRDFTVNALYYDP 134
Query: 131 QQGKVIDYVGGLNDLRNRTIKFIGDAHHRILEDYLRILRFFRFFAHYGEKNIDSDGLVAS 190
+ +IDYVGG+ DL+NR ++ IGD R ED +R+LR RF E ID
Sbjct: 135 SREVIIDYVGGMEDLKNRRLRLIGDPRSRYQEDPVRMLRALRFSVKL-EFTIDESTARPI 193
Query: 191 IKAKKGLKILSSERIWSEINKLL 213
++ LK + R++ EI KLL
Sbjct: 194 RESAPLLKGIPPARLFEEILKLL 216
>gnl|CDD|182810 PRK10885, cca, multifunctional tRNA nucleotidyl
transferase/2'3'-cyclic
phosphodiesterase/2'nucleotidase/phosphatase; Reviewed.
Length = 409
Score = 87.2 bits (217), Expect = 7e-18
Identities = 42/108 (38%), Positives = 58/108 (53%), Gaps = 9/108 (8%)
Query: 116 DSLRRDFTINALYADQQGKVIDYVGGLNDLRNRTIKFIGDAHHRILEDYLRILRFFRF-- 173
D +RRD TINA+ D G++ID GG DL R ++ + A ED LR+LR RF
Sbjct: 87 DLIRRDLTINAMAQDDDGELIDPYGGQRDLEARLLRHVSPA---FAEDPLRVLRVARFAA 143
Query: 174 -FAHYGEKNIDSD--GLVASIKAKKGLKILSSERIWSEINKLLEAKNP 218
FAH G + I + L+ + A L L+ ER+W E + L +NP
Sbjct: 144 RFAHLGFR-IAPETLALMREMVASGELDALTPERVWKETERALMERNP 190
Score = 39.5 bits (93), Expect = 0.002
Identities = 12/18 (66%), Positives = 15/18 (83%)
Query: 32 VGGAVRDSLMNLSVQDID 49
VGGAVRD+L+ L V+D D
Sbjct: 6 VGGAVRDALLGLPVKDRD 23
>gnl|CDD|183239 PRK11623, pcnB, poly(A) polymerase I; Provisional.
Length = 472
Score = 84.8 bits (210), Expect = 4e-17
Identities = 61/176 (34%), Positives = 88/176 (50%), Gaps = 27/176 (15%)
Query: 18 ILSLLNKGEDKSCIVGGAVRDSLMNLSVQDIDIATTILPDRVMRIFSKTRY---KVIPTS 74
+L LNK ++ +VGG VRD L+ +D D+ T P++V ++F R +
Sbjct: 58 VLYRLNKAGYEAYLVGGGVRDLLLGKKPKDFDVTTNATPEQVRKLFRNCRLVGRRFRLAH 117
Query: 75 ISYGTIKIICRKKYFDITTLR-------SDLITDGRYAKVVFTRD-----WKADSLRRDF 122
+ +G +II ++ T R SD T R + RD + D+ RRDF
Sbjct: 118 VMFGP-EII------EVATFRGHHEGNESDRNTSQRGQNGMLLRDNIFGSIEEDAQRRDF 170
Query: 123 TINALY---ADQQGKVIDYVGGLNDLRNRTIKFIGDAHHRILEDYLRILRFFRFFA 175
TIN+LY AD V DYVGG+ DL+ I+ IG+ R ED +R+LR RF A
Sbjct: 171 TINSLYYSVAD--FTVRDYVGGMKDLKEGVIRLIGNPETRYREDPVRMLRAVRFAA 224
>gnl|CDD|139469 PRK13297, PRK13297, tRNA CCA-pyrophosphorylase; Provisional.
Length = 364
Score = 78.9 bits (194), Expect = 2e-15
Identities = 58/196 (29%), Positives = 91/196 (46%), Gaps = 20/196 (10%)
Query: 31 IVGGAVRDSLMNLSVQDID-IATTILPDRVMRIFSKTRYKVIPTSISYGTIKIICRKKYF 89
IVGGAVRD+L+ L D D + P+ + R IP G + +
Sbjct: 16 IVGGAVRDALLGLPAGDRDWVVVGATPEDM------ARRGFIPVG---GDFPVFLHPRTK 66
Query: 90 DITTLRSDLITDGR-YAKVVFTR----DWKADSLRRDFTINALYADQQGKVIDYVGGLND 144
+ L GR Y F + D RRD T+NA+ QG+++D + G+ D
Sbjct: 67 EEYALARTERKSGRGYKGFTFYTGADVTLEQDLQRRDLTVNAIARTPQGELVDPLDGVAD 126
Query: 145 LRNRTIKFIGDAHHRILEDYLRILRFFRFFAHYGEKNI--DSDGLVASIKAKKGLKILSS 202
+R R ++ +G+A ED +RILR RF A +G+ +I ++ L + L
Sbjct: 127 VRARVLRHVGEA---FAEDPVRILRLGRFAARFGDFSIAPETMQLCRRMVEAGEADALVP 183
Query: 203 ERIWSEINKLLEAKNP 218
ER+W E+++ L A+ P
Sbjct: 184 ERVWKEVSRGLMAQAP 199
>gnl|CDD|171962 PRK13298, PRK13298, tRNA CCA-pyrophosphorylase; Provisional.
Length = 417
Score = 72.8 bits (179), Expect = 1e-13
Identities = 66/213 (30%), Positives = 91/213 (42%), Gaps = 46/213 (21%)
Query: 28 KSCIVGGAVRDSLMNLSVQDID---------IATTILPDRVMRIF-------SKTRYKVI 71
K +VGGAVRDSL+NL V+D D I +I +V + F + Y +
Sbjct: 2 KIYLVGGAVRDSLLNLPVKDKDWVVVGGTPKILLSINFQQVGKDFPVFLHPETHEEYALA 61
Query: 72 PTS--ISYGTIKIICRKKYFDITTLRSDLITDGRYAKVVFTRDWKADSLRRDFTINALYA 129
T G I TL DLI RRD TINA+
Sbjct: 62 RTERKSGVGYTGFIT--DTSSDVTLEEDLI-------------------RRDLTINAIAQ 100
Query: 130 DQQGKVIDYVGGLNDLRNRTIKFIGDAHHRILEDYLRILRFFRF---FAHYGEK-NIDSD 185
D+ G ID G D++ R ++ + ++ ED LR+LR RF H G K ++
Sbjct: 101 DENGNYIDPFQGKKDIQLRLLRHVSESFI---EDPLRVLRVARFAALLVHLGFKIAKETM 157
Query: 186 GLVASIKAKKGLKILSSERIWSEINKLLEAKNP 218
L+ + K L L+ ERIW+E K L+ NP
Sbjct: 158 ILMCIMVKKHELLYLTPERIWNETEKALKTDNP 190
>gnl|CDD|106256 PRK13296, PRK13296, tRNA CCA-pyrophosphorylase; Provisional.
Length = 360
Score = 53.8 bits (129), Expect = 8e-08
Identities = 60/203 (29%), Positives = 87/203 (42%), Gaps = 34/203 (16%)
Query: 31 IVGGAVRDSLMNLSVQDIDIATTILPDRVMRIFSKTRYKVIPTSISYGTIKIICRKKYF- 89
+VGGAVRD L+ ++ +D D + M ++ G IKI F
Sbjct: 5 LVGGAVRDMLLGITPKDKDWVVVGATEDEM--------------LANGFIKIAANFPVFI 50
Query: 90 ------DITTLRSDLITDGRYA--KVVFTRD--WKADSLRRDFTINALYADQQGKVIDYV 139
+ RS+ T Y +V F++ + D RRD TIN++ DQ KVID
Sbjct: 51 HPQTKQEYALARSEKKTASGYHGFEVNFSKYITLEDDLKRRDLTINSIAIDQNNKVIDPF 110
Query: 140 GGLNDLRNRTIKFIGDAHHRILEDYLRILRFFRFFAHYGEKNI----DSDGLVASIKAKK 195
G DL+NR ++ A +ED LR++R RF A N + L+ +
Sbjct: 111 NGQADLQNRILRHTSIA---FIEDPLRVVRLARFKAQLSNFNFSIAQEMLALIKELVKTG 167
Query: 196 GLKILSSERIWSEINKLLEAKNP 218
L L+ ER+ E K L NP
Sbjct: 168 ELNHLTRERLHIEFVKAL--NNP 188
>gnl|CDD|180184 PRK05654, PRK05654, acetyl-CoA carboxylase subunit beta; Validated.
Length = 292
Score = 28.6 bits (65), Expect = 2.9
Identities = 11/30 (36%), Positives = 18/30 (60%)
Query: 191 IKAKKGLKILSSERIWSEINKLLEAKNPLN 220
I A++ L +L E + E++ LE K+PL
Sbjct: 58 ISARERLDLLLDEGSFVELDAELEPKDPLK 87
>gnl|CDD|179982 PRK05264, PRK05264, transcriptional repressor protein MetJ;
Provisional.
Length = 105
Score = 28.2 bits (63), Expect = 4.3
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: 12 YAEHGKKSEQVKKITVSIPLKV-LKILTDERTRRQVNNLRHATNSELLCEAFLHAFTG 68
>gnl|CDD|129606 TIGR00515, accD, acetyl-CoA carboxylase, carboxyl transferase, beta
subunit. The enzyme acetyl-CoA carboxylase contains a
biotin carboxyl carrier protein or domain, a biotin
carboxylase, and a carboxyl transferase. This model
represents the beta chain of the carboxyl transferase
for cases in which the architecture of the protein is as
in E. coli, in which the carboxyltransferase portion
consists of two non-identical subnits, alpha and beta.
Length = 285
Score = 27.8 bits (62), Expect = 4.8
Identities = 10/30 (33%), Positives = 17/30 (56%)
Query: 191 IKAKKGLKILSSERIWSEINKLLEAKNPLN 220
+ A++ ++ L E + E N LE K+PL
Sbjct: 57 MDARERIESLLDEGSFEEFNSHLEPKDPLK 86
>gnl|CDD|177826 PLN02169, PLN02169, fatty acid (omega-1)-hydroxylase/midchain
alkane hydroxylase.
Length = 500
Score = 28.0 bits (62), Expect = 5.1
Identities = 28/118 (23%), Positives = 51/118 (43%), Gaps = 15/118 (12%)
Query: 254 QVFEWKIDSL----LRFIVLISWQDKKSILSMAKKFSLPREIRYFLISFFNCNFNQKTLS 309
++++W ++ L L F W +L A P+ I + L S F N+ +
Sbjct: 54 RIYDWTVEVLEASNLTFYFKGPWLSGTDMLFTAD----PKNIHHILSSNFG-NYPKG--- 105
Query: 310 IPEIKKLFYLYGDKVMIAKLKIFLALHYNN--LTHQDTCFILQVLSDIIHWKKPLFPL 365
PE KK+F + G+ ++ +++ L +N L H L + S+ K+ L P
Sbjct: 106 -PEFKKIFDVLGEGILTVDFELWEDLRKSNHALFHNQDFIELSLSSNKSKLKEGLVPF 162
>gnl|CDD|183499 PRK12396, PRK12396, 5-methylribose kinase; Reviewed.
Length = 409
Score = 27.9 bits (62), Expect = 5.6
Identities = 38/167 (22%), Positives = 73/167 (43%), Gaps = 31/167 (18%)
Query: 252 AEQVFEWKIDSLLRFI-VLISWQDKKSILSMAKKFSLPR--EIRYFLI---SFFNCNFNQ 305
A+ + + +++LL V+++ ++KK ++ K + P EI L+ F N N
Sbjct: 135 ADDLTTFLVNTLLLTSDVVMNHKEKKELV---KNYINPELCEITEDLVYAEPFTNHNKRN 191
Query: 306 K--TLSIPEIKKLFYLYGDKVM---IAKLKIFLALHYNNLTHQD----TCFILQVLSDII 356
+ L+ I++ ++Y DK + +AKLK + L H D + F+ + +I
Sbjct: 192 ELFPLNEGWIRE--HIYSDKELRLEVAKLKFSFMTNAQALIHGDLHTGSVFVKNDSTKVI 249
Query: 357 HWKKPLFPLTGDDVVKYGIPPGKKVGNILVHCKQEWINSSFQLSQED 403
P F G P G +GN++ + W+N+ +S
Sbjct: 250 ---DPEFAFYG--------PMGYDIGNVMANLMFAWVNADATMSAGA 285
>gnl|CDD|177321 PHA01806, PHA01806, hypothetical protein.
Length = 200
Score = 27.5 bits (61), Expect = 6.3
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 31 IVGGAVRDSLMNLSVQDIDIA 51
+ GGA RD + +DIDIA
Sbjct: 40 LAGGAARDLMHGAEPKDIDIA 60
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 0.141 0.420
Gapped
Lambda K H
0.267 0.0677 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 6,833,590
Number of extensions: 450250
Number of successful extensions: 1166
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1147
Number of HSP's successfully gapped: 31
Length of query: 416
Length of database: 5,994,473
Length adjustment: 96
Effective length of query: 320
Effective length of database: 3,920,105
Effective search space: 1254433600
Effective search space used: 1254433600
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: 58 (26.2 bits)