RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|254781115|ref|YP_003065528.1| poly(A) polymerase protein
[Candidatus Liberibacter asiaticus str. psy62]
(416 letters)
>1ou5_A TRNA CCA-adding enzyme, tRNA-nucleotidyltransferase;
polymerase, translation; 3.40A {Homo sapiens} (A:1-202)
Length = 202
Score = 132 bits (334), Expect = 6e-32
Identities = 57/157 (36%), Positives = 87/157 (55%), Gaps = 1/157 (0%)
Query: 1 MVSIVQHKWFHDSDLINILSLLNKGEDKSCIVGGAVRDSLMNLSVQDIDIATTILPDRVM 60
+ + + L ++ L K + I GGAVRD L + QDID ATT P ++
Sbjct: 45 KLQSPEFQSLFTEGLKSLTELFVKENHELRIAGGAVRDLLNGVKPQDIDFATTATPTQMK 104
Query: 61 RIFSKTRYK-VIPTSISYGTIKIICRKKYFDITTLRSDLITDGRYAKVVFTRDWKADSLR 119
+F + + +GTI ++ F+ITTLR D+ TDGR+A+V FT DW+ D+ R
Sbjct: 105 EMFQSAGIRMINNRGEKHGTITARLHEENFEITTLRIDVTTDGRHAEVEFTTDWQKDAER 164
Query: 120 RDFTINALYADQQGKVIDYVGGLNDLRNRTIKFIGDA 156
RD TIN+++ G + DY G DL+N+ ++F+G A
Sbjct: 165 RDLTINSMFLGFDGTLFDYFNGYEDLKNKKVRFVGHA 201
>3h38_A TRNA nucleotidyl transferase-related protein;
transferase/RNA, nucleotide-binding, RNA-binding; 2.37A
{Thermotoga maritima} PDB: 3h37_A 3h39_A* 3h3a_A*
(A:1-160)
Length = 160
Score = 117 bits (293), Expect = 4e-27
Identities = 34/134 (25%), Positives = 49/134 (36%), Gaps = 5/134 (3%)
Query: 18 ILSLLNKGEDKSCIVGGAVRDSLMNLSVQDIDIATTILPDRVMRIFSKTRYKVIPTSISY 77
+ ++ +VGG VRD L+ + DIDI + + +
Sbjct: 26 LGKFGDEVNMPVYVVGGFVRDLLLGIKNLDIDIVVEGNALEFAEYAKRFLPGKLVKHDKF 85
Query: 78 GTIKIIC-RKKYFDITTLRSDLITDGRYAKVVFTRDWKADSLRRDFTINALYAD----QQ 132
T + DI T R + V K D RRDFTINA+
Sbjct: 86 MTASLFLKGGLRIDIATARLEYYESPAKLPDVEMSTIKKDLYRRDFTINAMAIKLNPKDF 145
Query: 133 GKVIDYVGGLNDLR 146
G +ID+ GG DL+
Sbjct: 146 GLLIDFFGGYRDLK 159
>1miw_A TRNA CCA-adding enzyme; tRNA nucleotidyltransferase,
translation, transferase; HET: ATP; 3.00A {Geobacillus
stearothermophilus} (A:1-138)
Length = 138
Score = 115 bits (290), Expect = 8e-27
Identities = 47/135 (34%), Positives = 73/135 (54%), Gaps = 6/135 (4%)
Query: 14 DLINILSLLNKGEDKSCIVGGAVRDSLMNLSVQDIDIATTILPDRVMRIFSKTRYKVIPT 73
+ + I+ L + + VGGAVRD L+ + D+DIAT+ LP+ V IF K I
Sbjct: 7 EALGIIQQLKQHGYDAYFVGGAVRDLLLGRPIGDVDIATSALPEDVXAIF----PKTIDV 62
Query: 74 SISYGTIKIICRKKYFDITTLRSDLITDG--RYAKVVFTRDWKADSLRRDFTINALYADQ 131
+GT+ ++ + K +++TT ++D + R V F R + D RRDFT NA+ D+
Sbjct: 63 GSKHGTVVVVHKGKAYEVTTFKTDGDYEDYRRPESVTFVRSLEEDLKRRDFTXNAIAXDE 122
Query: 132 QGKVIDYVGGLNDLR 146
G +ID GG +R
Sbjct: 123 YGTIIDPFGGREAIR 137
>1vfg_A A-adding enzyme, poly A polymerase; transferase, RNA, riken
structural genomics/proteomics initiative, RSGI,
structural genomics; HET: APC; 2.80A {Aquifex aeolicus}
(A:1-126)
Length = 126
Score = 114 bits (287), Expect = 2e-26
Identities = 30/127 (23%), Positives = 49/127 (38%), Gaps = 3/127 (2%)
Query: 18 ILSLLNKGEDKSCIVGGAVRDSLMNLSVQDIDIATTILPDRVMRIFSKTRYKVIPTSISY 77
+ + + ++ IVGG VRD L+ V D+D + + ++ + +
Sbjct: 2 VGQIAKEMGLRAYIVGGVVRDILLGKEVWDVDFVVEGNAIELAKELARRHGVNVHPFPEF 61
Query: 78 GTIKIICRKKYFDITTLRSDLITDGRYAKVVFTRDWKADSLRRDFTINALYADQQGKVID 137
GT + K + T R + V K D +RRDFTINA+ +
Sbjct: 62 GTAHLKIGKLKLEFATARRETYPRPGAYPKVEPASLKEDLIRRDFTINAMAISVNL---E 118
Query: 138 YVGGLND 144
G L D
Sbjct: 119 DYGTLID 125
>1vfg_A A-adding enzyme, poly A polymerase; transferase, RNA, riken
structural genomics/proteomics initiative, RSGI,
structural genomics; HET: APC; 2.80A {Aquifex aeolicus}
(A:127-222)
Length = 96
Score = 87.9 bits (218), Expect = 2e-18
Identities = 25/97 (25%), Positives = 41/97 (42%), Gaps = 3/97 (3%)
Query: 140 GGLNDLRNRTIKFIGDAHHRILEDYLRILRFFRFFAHYGEK-NIDSDGLVASIKAKKGLK 198
GGL DL+++ I+ + +ED +RILR RF K + ++ L+ LK
Sbjct: 2 GGLRDLKDKVIRVLHP--VSFIEDPVRILRALRFAGRLNFKLSRSTEKLLKQAVNLGLLK 59
Query: 199 ILSSERIWSEINKLLEAKNPLNAIVHMYNGGIFKEIF 235
R+ +EI L L + + +EI
Sbjct: 60 EAPRGRLINEIKLALREDRFLEILELYRKYRVLEEII 96
>3h38_A TRNA nucleotidyl transferase-related protein;
transferase/RNA, nucleotide-binding, RNA-binding; 2.37A
{Thermotoga maritima} PDB: 3h37_A 3h39_A* 3h3a_A*
(A:161-247)
Length = 87
Score = 79.0 bits (195), Expect = 1e-15
Identities = 23/87 (26%), Positives = 41/87 (47%), Gaps = 3/87 (3%)
Query: 150 IKFIGDAHHRILEDYLRILRFFRFFAHYGEK-NIDSDGLVASIKAKKGLKILSSERIWSE 208
I+ + ++D RILR RF + + ++ L+ + L+ + R+ E
Sbjct: 3 IRVLHTL--SFVDDPTRILRAIRFEQRFDFRIEETTERLLKQAVEEGYLERTTGPRLRQE 60
Query: 209 INKLLEAKNPLNAIVHMYNGGIFKEIF 235
+ K+LE KNPL +I M + K +F
Sbjct: 61 LEKILEEKNPLKSIRRMAQFDVIKHLF 87
>1miw_A TRNA CCA-adding enzyme; tRNA nucleotidyltransferase,
translation, transferase; HET: ATP; 3.00A {Geobacillus
stearothermophilus} (A:139-242)
Length = 104
Score = 77.2 bits (190), Expect = 4e-15
Identities = 25/88 (28%), Positives = 37/88 (42%), Gaps = 1/88 (1%)
Query: 148 RTIKFIGDAHHRILEDYLRILRFFRFFAHYGEKNIDSDGLVASIKAKKGLKILSSERIWS 207
R I+ +G+A R ED LR R RF + G + D A ++ L +S ER
Sbjct: 1 RIIRTVGEAEKRFREDALRXXRAVRFVSELG-FALAPDTEQAIVQNAPLLAHISVERXTX 59
Query: 208 EINKLLEAKNPLNAIVHMYNGGIFKEIF 235
E KLL A+ + G+ +
Sbjct: 60 EXEKLLGGPFAARALPLLAETGLNAYLP 87
>1ou5_A TRNA CCA-adding enzyme, tRNA-nucleotidyltransferase;
polymerase, translation; 3.40A {Homo sapiens}
(A:203-282)
Length = 80
Score = 74.8 bits (184), Expect = 2e-14
Identities = 31/78 (39%), Positives = 45/78 (57%), Gaps = 2/78 (2%)
Query: 159 RILEDYLRILRFFRFFAHYGEK--NIDSDGLVASIKAKKGLKILSSERIWSEINKLLEAK 216
RI EDYLRILR+FRF+ +K + D + L A + KGL +S ERIW E+ K+L
Sbjct: 2 RIQEDYLRILRYFRFYGRIVDKPGDHDPETLEAIAENAKGLAGISGERIWVELKKILVGN 61
Query: 217 NPLNAIVHMYNGGIFKEI 234
+ + I +Y+ + I
Sbjct: 62 HVNHLIHLIYDLDVAPYI 79
>1ou5_A TRNA CCA-adding enzyme, tRNA-nucleotidyltransferase;
polymerase, translation; 3.40A {Homo sapiens}
(A:283-448)
Length = 166
Score = 68.5 bits (167), Expect = 2e-12
Identities = 27/169 (15%), Positives = 62/169 (36%), Gaps = 11/169 (6%)
Query: 243 LDQLSQVIEAEQVFEWKIDSLLRFIVLISWQDKKSILSMAKKFSLPR-EIRYFLISFFNC 301
L++ +V + + + L + + + + + + E L N
Sbjct: 7 LEEFDKVSKNVD--GFSPKPVTLLASLFK--VQDDVTKLDLRLKIAKEEKNLGLFIVKNR 62
Query: 302 NFNQKTLSIPEIKKLFYLYGDKVMIAKLKIFLALHYNNLTHQDTCFILQVLSDIIHWKKP 361
K + K + + + +L ++ W P
Sbjct: 63 KDLIKATDSSDPLKPYQDFIIDSREPDATTRVC------ELLKYQGEHCLLKEMQQWSIP 116
Query: 362 LFPLTGDDVVKYGIPPGKKVGNILVHCKQEWINSSFQLSQEDLHHLLRK 410
FP++G D+ K GI GK++G +L +++W S +Q+ +++L ++K
Sbjct: 117 PFPVSGHDIRKVGISSGKEIGALLQQLREQWKKSGYQMEKDELLSYIKK 165
>1cmb_A Met APO-repressor; DNA-binding regulatory protein; 1.80A
{Escherichia coli} (A:1-75)
Length = 75
Score = 30.1 bits (67), Expect = 0.57
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
>1miw_A TRNA CCA-adding enzyme; tRNA nucleotidyltransferase,
translation, transferase; HET: ATP; 3.00A {Geobacillus
stearothermophilus} (A:345-404)
Length = 60
Score = 29.2 bits (66), Expect = 0.94
Identities = 11/51 (21%), Positives = 23/51 (45%), Gaps = 1/51 (1%)
Query: 365 LTGDDVVKY-GIPPGKKVGNILVHCKQEWINSSFQLSQEDLHHLLRKLIAS 414
+ G DV+++ G P G V L + +N + +E ++ L + +
Sbjct: 5 VNGKDVIEWVGKPAGPWVKEALDAIWRAVVNGEVENEKERIYAWLXERNRT 55
>1o5h_A Formiminotetrahydrofolate cyclodeaminase; TM1560, structural
genomics, JCSG, PSI, protein structure initiative; 2.80A
{Thermotoga maritima} (A:33-214)
Length = 182
Score = 29.0 bits (65), Expect = 1.3
Identities = 15/118 (12%), Positives = 31/118 (26%), Gaps = 20/118 (16%)
Query: 85 RKKYFDITTLRSDLITDGRYAKVVFTRDWKADSLRRDFTINALYADQQGKVIDYVGGLND 144
+K Y D+ ++ + R A + + + V
Sbjct: 29 KKGYEDVEPEXERIVE-------------AXEEARLKLF---DLAKKDXEAFEKVXKAYK 72
Query: 145 LRNRTI----KFIGDAHHRILEDYLRILRFFRFFAHYGEKNIDSDGLVASIKAKKGLK 198
+ K ++ + A +G KN+ SD L A+ +
Sbjct: 73 SSEGELQNALKEAASVPXDVIRVXKDLAHELEKLAEFGNKNLASDTLNAADLCHAVFQ 130
>1d2s_A SHBG, sex hormone-binding globulin; steroid transport,
laminin G-like domain, jellyroll, androgen binding
protein (ABP); HET: DHT; 1.55A {Homo sapiens} (A:)
Length = 170
Score = 28.4 bits (62), Expect = 1.8
Identities = 15/100 (15%), Positives = 30/100 (30%), Gaps = 2/100 (2%)
Query: 50 IATTILPDRVMRIFSKTRYKVIPTSISYGTIKIICRKKYFDITTLRSDLITDGRYAKVVF 109
+ T + + + + G +I + +T + DGR+ +V
Sbjct: 34 VRTWDPEGVIFYGDTNPKDDWFMLGLRDGRPEIQLHNHWAQLTVGAGPRLDDGRWHQVEV 93
Query: 110 TRDWKADSLRRDFTINALYADQQGKVID--YVGGLNDLRN 147
+ + L D G I +GGL +
Sbjct: 94 KMEGDSVLLEVDGEEVLRLRQVSGHPIMRIALGGLLFPAS 133
>2im5_A Nicotinate phosphoribosyltransferase; structural genomics,
NYSGXRC, PSI, protein structure initiative; 2.20A
{Porphyromonas gingivalis} (A:26-138,A:339-372)
Length = 147
Score = 27.7 bits (62), Expect = 2.6
Identities = 14/68 (20%), Positives = 24/68 (35%), Gaps = 1/68 (1%)
Query: 119 RRDFTINALYADQQGKVIDYVGGLNDLRNRTIKFIGDAHHRILEDYLRILRFFRFFAHYG 178
R +A+ I + L+ L +F+ + Y+ L FRF
Sbjct: 12 RNRQGFTEEFAELVRGEIRAMAALS-LTRDEKEFLQRELPYLPPIYIDFLDGFRFDPEEV 70
Query: 179 EKNIDSDG 186
+ID+ G
Sbjct: 71 TVSIDAQG 78
>2dj1_A Protein disulfide-isomerase A4; protein ERP-72, ERP72, CAI,
structural genomics, NPPSFA; NMR {Mus musculus} (A:)
Length = 140
Score = 27.1 bits (59), Expect = 4.2
Identities = 12/85 (14%), Positives = 28/85 (32%), Gaps = 5/85 (5%)
Query: 84 CRKKYFDITTLRSDLITDGRYAKVVFTRDWKADSLRRDFTINA---LYADQQGKVIDYVG 140
C++ + + S L + V A L F ++ + ++G+ +DY G
Sbjct: 49 CKQFAPEYEKIASTLKDNDPPIAVAKIDATSASMLASKFDVSGYPTIKILKKGQAVDYDG 108
Query: 141 GLN--DLRNRTIKFIGDAHHRILED 163
++ + + E
Sbjct: 109 SRTQEEIVAKVREVSQPDWTPPPEV 133
>2w37_A Ornithine carbamoyltransferase, catabolic; transcarbamylase,
metal binding-site, hexamer, cytoplasm, arginine
metabolism; 2.10A {Lactobacillus hilgardii} (A:174-332)
Length = 159
Score = 27.0 bits (59), Expect = 4.6
Identities = 6/29 (20%), Positives = 11/29 (37%)
Query: 145 LRNRTIKFIGDAHHRILEDYLRILRFFRF 173
L+ T+ F+GD + + L
Sbjct: 1 LQGLTLTFMGDGRNNVANSLLVTGAILGV 29
>3grf_A Ornithine carbamoyltransferase; ornithine transcarbamoylase,
arginine degradation pathway, giardia lamblia, drug
target; 2.00A {Giardia intestinalis} (A:158-292)
Length = 135
Score = 26.9 bits (59), Expect = 5.4
Identities = 4/29 (13%), Positives = 10/29 (34%)
Query: 145 LRNRTIKFIGDAHHRILEDYLRILRFFRF 173
+ + GD+ + + D +R
Sbjct: 2 FKGIKFAYCGDSMNNVTYDLMRGCALLGM 30
>2dj2_A Protein disulfide-isomerase A4; protein ERP-72, ERP72, CAI,
structural genomics, NPPSFA; NMR {Mus musculus} (A:)
Length = 120
Score = 26.7 bits (58), Expect = 5.7
Identities = 12/78 (15%), Positives = 26/78 (33%), Gaps = 5/78 (6%)
Query: 84 CRKKYFDITTLRSDLITDGRYAKVVFTRDWKADSLRRDFTIN---ALYADQQGKVIDYVG 140
C+K + +L + + L + F ++ L ++G+ DY G
Sbjct: 39 CKKLAPEYEKAAKELSKRSPPIPLAKVDATEQTDLAKRFDVSGYPTLKIFRKGRPFDYNG 98
Query: 141 GLN--DLRNRTIKFIGDA 156
+ + I+ G
Sbjct: 99 PREKYGIVDYMIEQSGSG 116
>2jyl_A Capsid protein P24 (Ca); HIV-1, carboxy-terminal,
dimerization domain, CTD, 3D- NMR, capsid protein (Ca),
double mutant; NMR {Human immunodeficiency virus 1} PDB:
2k1c_A* (A:)
Length = 105
Score = 26.8 bits (59), Expect = 5.7
Identities = 7/55 (12%), Positives = 18/55 (32%), Gaps = 7/55 (12%)
Query: 217 NPLNAIVHMYNGGIFKEIFL---DVQEISLDQLSQVIEAEQVF----EWKIDSLL 264
+ + + +I + +D+ + + AEQ ++LL
Sbjct: 10 HSSGLVPRGSHMTSILDIRQGPKEPFRDYVDRFYKTLRAEQASQEVKNAATETLL 64
>1duv_G Octase-1, ornithine transcarbamoylase; enzyme-inhibitor
complex; HET: PSQ; 1.70A {Escherichia coli} (G:153-278)
Length = 126
Score = 26.4 bits (58), Expect = 6.3
Identities = 5/29 (17%), Positives = 9/29 (31%)
Query: 145 LRNRTIKFIGDAHHRILEDYLRILRFFRF 173
T+ + GDA + + L
Sbjct: 1 FNEMTLVYAGDARNNMGNSMLEAAALTGL 29
>1jog_A Hypothetical protein HI0074; structural genomics, structure
2 function project, S2F, unknown function; 2.40A
{Haemophilus influenzae} (A:)
Length = 146
Score = 26.4 bits (58), Expect = 7.7
Identities = 6/65 (9%), Positives = 24/65 (36%)
Query: 176 HYGEKNIDSDGLVASIKAKKGLKILSSERIWSEINKLLEAKNPLNAIVHMYNGGIFKEIF 235
+++ + + + K L+ + + +K + ++ N H Y+ ++
Sbjct: 63 RQLQQDAINTDDIGAYGFKDILREALRFGLIGDXSKWVAYRDXRNITSHTYDQEKAXAVY 122
Query: 236 LDVQE 240
+ +
Sbjct: 123 AQIDD 127
>2i6u_A Otcase, ornithine carbamoyltransferase; X-RAY
crystallography, ornithine carbamyoltransferase,
carbamoyl phosphate, L- norvaline; 2.20A {Mycobacterium
tuberculosis} PDB: 2p2g_A (A:146-274)
Length = 129
Score = 26.1 bits (57), Expect = 8.8
Identities = 5/29 (17%), Positives = 9/29 (31%)
Query: 145 LRNRTIKFIGDAHHRILEDYLRILRFFRF 173
LR + + GD + + L
Sbjct: 1 LRGLRLSYFGDGANNMAHSLLLGGVTAGI 29
>1vlv_A Otcase, ornithine carbamoyltransferase; TM1097, structural
genomics, JCSG, protein structure initiative, PSI; 2.25A
{Thermotoga maritima} (A:165-294)
Length = 130
Score = 26.1 bits (57), Expect = 9.0
Identities = 4/29 (13%), Positives = 10/29 (34%)
Query: 145 LRNRTIKFIGDAHHRILEDYLRILRFFRF 173
L+ + F+GD + + +
Sbjct: 1 LKGVKVVFMGDTRNNVATSLMIACAKMGM 29
Database: mmdb70
Posted date: Jun 20, 2010 3:12 AM
Number of letters in database: 4,956,049
Number of sequences in database: 33,805
Lambda K H
0.325 0.141 0.420
Gapped
Lambda K H
0.267 0.0654 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 3,261,147
Number of extensions: 151380
Number of successful extensions: 561
Number of sequences better than 10.0: 1
Number of HSP's gapped: 550
Number of HSP's successfully gapped: 37
Length of query: 416
Length of database: 4,956,049
Length adjustment: 91
Effective length of query: 325
Effective length of database: 1,879,794
Effective search space: 610933050
Effective search space used: 610933050
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: 56 (25.5 bits)