RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13226
(218 letters)
>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger. [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 1096
Score = 41.5 bits (97), Expect = 2e-04
Identities = 46/212 (21%), Positives = 102/212 (48%), Gaps = 14/212 (6%)
Query: 4 KEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQE-R 62
+ E +G+ I ERKG++ E + E + ++ K E + +++E + E + + + E
Sbjct: 678 ENESEGE---IPAERKGEQ-EGEGEIEAKEADHKGETEAEEVEHEGETEAEGTEDEGEIE 733
Query: 63 KGQKMEVKEERQGQKMRIKQ--ERKGQKMEVKEERQGQKMRIKQERKGQ-------KMEV 113
G++ E E+ + K E +G + E + E + + + E +G+ +M+
Sbjct: 734 TGEEGEEVEDEGEGEAEGKHEVETEGDRKETEHEGETEAEGKEDEDEGEIQAGEDGEMKG 793
Query: 114 KEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIIRTLT 173
E +G+ + G+K E + + + Q + + + + E+ E QG+ + + +
Sbjct: 794 DEGAEGKVEHEGETEAGEKDEHEGQSETQADDTEVKDETGEQELNAENQGEAKQDEKGVD 853
Query: 174 GRGRERGREREEGREREKEEEEKKKNRKRKKD 205
G G G + EE E E+EEEE+++ + +++
Sbjct: 854 GGGGSDGGDSEEEEEEEEEEEEEEEEEEEEEE 885
Score = 35.0 bits (80), Expect = 0.030
Identities = 46/222 (20%), Positives = 90/222 (40%), Gaps = 26/222 (11%)
Query: 15 KQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQG-----QKMRIKQERKGQKMEV 69
ER G++ E E +G+ E G + E + E + + I ERKG++ E
Sbjct: 641 TGERTGEEGERPTEAEGEN----GEESGGEAEQEGETETKGENESEGEIPAERKGEQ-EG 695
Query: 70 KEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQE-RKGQKMEVKEERQGQKMRIKQ-- 126
+ E + ++ K E + +++E + E + + + E G++ E E+ + K
Sbjct: 696 EGEIEAKEADHKGETEAEEVEHEGETEAEGTEDEGEIETGEEGEEVEDEGEGEAEGKHEV 755
Query: 127 ERKGQKMEVKEERQGQKMRIKQERKGQ-------------KMEVKEERQGQKMRIIRTLT 173
E +G + E + E + + + E +G+ E K E +G+ +
Sbjct: 756 ETEGDRKETEHEGETEAEGKEDEDEGEIQAGEDGEMKGDEGAEGKVEHEGETEAGEKDEH 815
Query: 174 GRGRERGREREEGREREKEEEEKKKNRKRKKDNNLGGGGGGE 215
E + E ++ E+E +N+ K + G GGG
Sbjct: 816 EGQSETQADDTEVKDETGEQELNAENQGEAKQDEKGVDGGGG 857
Score = 32.3 bits (73), Expect = 0.23
Identities = 45/216 (20%), Positives = 96/216 (44%), Gaps = 16/216 (7%)
Query: 2 EVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQE 61
E EE G+ ++ + + + E +G+ I ERKG++ E + E + ++ K E
Sbjct: 658 ENGEESGGEA----EQEGETETKGENESEGE---IPAERKGEQ-EGEGEIEAKEADHKGE 709
Query: 62 RKGQKMEVKEERQGQKMRIKQE-RKGQKMEVKEERQGQKMRIKQ--ERKGQKMEVKEERQ 118
+ +++E + E + + + E G++ E E+ + K E +G + E + E +
Sbjct: 710 TEAEEVEHEGETEAEGTEDEGEIETGEEGEEVEDEGEGEAEGKHEVETEGDRKETEHEGE 769
Query: 119 GQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIIRTLTGRGRE 178
+ + E +G E++ G+ M+ + +G+ E G+K + +
Sbjct: 770 TEAEGKEDEDEG---EIQAGEDGE-MKGDEGAEGKVEHEGETEAGEKDEHEGQSETQADD 825
Query: 179 RGREREEGREREKEEEEKKKNRKRKKDNNLGGGGGG 214
+ E G E+E E + + ++ +K + GGG G
Sbjct: 826 TEVKDETG-EQELNAENQGEAKQDEKGVDGGGGSDG 860
>gnl|CDD|237171 PRK12678, PRK12678, transcription termination factor Rho;
Provisional.
Length = 672
Score = 40.7 bits (96), Expect = 3e-04
Identities = 21/197 (10%), Positives = 59/197 (29%), Gaps = 11/197 (5%)
Query: 18 RKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQK 77
RKG+ + +E +G +Q + + +
Sbjct: 47 RKGELIAAIKEARGGGAAAAAATPAAPAAAARRAARAAAAARQAEQPAAEAAAAKAEAAP 106
Query: 78 MRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKE 137
+ E + R ++ ++ ++ +G + + R +E
Sbjct: 107 AARAAAAAAAEAASAPEAAQARERRERGEAARRGAARKAGEGGEQPATEARADAAERTEE 166
Query: 138 ERQGQKMRIKQERKGQKMEVKEERQGQKMRIIRTLTGRGRERGREREEGREREKEEEEKK 197
E + + + R+G + + + E + + R + R +E+ +++
Sbjct: 167 EERDE-----RRRRGDREDRQAEAERGERG------RREERGRDGDDRDRRDRREQGDRR 215
Query: 198 KNRKRKKDNNLGGGGGG 214
+ R R+ + G
Sbjct: 216 EERGRRDGGDRRGRRRR 232
Score = 37.6 bits (88), Expect = 0.004
Identities = 19/176 (10%), Positives = 54/176 (30%)
Query: 40 RKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQK 99
RKG+ + +E +G +Q + + +
Sbjct: 47 RKGELIAAIKEARGGGAAAAAATPAAPAAAARRAARAAAAARQAEQPAAEAAAAKAEAAP 106
Query: 100 MRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKE 159
+ E + R ++ ++ ++ +G + + R +E
Sbjct: 107 AARAAAAAAAEAASAPEAAQARERRERGEAARRGAARKAGEGGEQPATEARADAAERTEE 166
Query: 160 ERQGQKMRIIRTLTGRGRERGREREEGREREKEEEEKKKNRKRKKDNNLGGGGGGE 215
E + ++ R + ER ER ++ +++ + +R++ + G +
Sbjct: 167 EERDERRRRGDREDRQAEAERGERGRREERGRDGDDRDRRDRREQGDRREERGRRD 222
Score = 35.3 bits (82), Expect = 0.018
Identities = 26/167 (15%), Positives = 65/167 (38%), Gaps = 9/167 (5%)
Query: 49 EERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKG 108
+ + ++ R + R+G + E + + + ER ++ R ++ R+G
Sbjct: 125 AQARERRERGEAARRGAARKAGEGGEQPATEARADA--------AERTEEEERDERRRRG 176
Query: 109 QKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRI 168
+ + + E + + ++ER + + ++ ++ER + + R+ ++ R
Sbjct: 177 DREDRQAEAERGERGRREERGRDGDDRDRRDRREQGDRREERGRRDGGDRRGRRRRRDRR 236
Query: 169 IRTLTGRGRERGREREEGREREKEEEEKKKNRKRKKDNNLGGGGGGE 215
RE +R+ + ++ R R + GG GG E
Sbjct: 237 DAR-GDDNREDRGDRDGDDGEGRGGRRGRRFRDRDRRGRRGGDGGNE 282
Score = 34.1 bits (79), Expect = 0.047
Identities = 29/172 (16%), Positives = 68/172 (39%), Gaps = 9/172 (5%)
Query: 27 EERQGQKMRIKQERKGQKMEVKEERQGQKMRI---KQERKGQKMEVKEERQGQKMRIKQE 83
+ + ++ R + R+G + E + ER ++ + R+G + + E
Sbjct: 125 AQARERRERGEAARRGAARKAGEGGEQPATEARADAAERTEEEERDERRRRGDREDRQAE 184
Query: 84 RKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQK 143
+ + +EER + + ++ + +EER + ++ R+ ++ + R +
Sbjct: 185 AERGERGRREERGRDGDDRDRRDRREQGDRREERGRRDGGDRRGRRRRR----DRRDARG 240
Query: 144 MRIKQERKGQKMEVKEERQGQKMR--IIRTLTGRGRERGREREEGREREKEE 193
+++R + + E R G++ R R GR G E RE +
Sbjct: 241 DDNREDRGDRDGDDGEGRGGRRGRRFRDRDRRGRRGGDGGNEREPELREDDV 292
>gnl|CDD|184287 PRK13735, PRK13735, conjugal transfer mating pair stabilization
protein TraG; Provisional.
Length = 942
Score = 37.8 bits (88), Expect = 0.003
Identities = 36/179 (20%), Positives = 64/179 (35%), Gaps = 28/179 (15%)
Query: 24 EVKEERQGQKMRIKQER-KGQKMEVKEE---RQGQKMRIKQERKGQKMEVKEERQGQKMR 79
E+ E R+ QE+ + E G+ M G + + + QG +
Sbjct: 787 EIAERRRAMAWSFVQEQVQPGVDNAWRESRGDIGKGMESVPSGGGSQD-IIADHQGHQAI 845
Query: 80 IKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEER 139
I+Q + Q I+ + K Q + E +G + +G++ VK +
Sbjct: 846 IEQ-------------RTQDSGIRNDVKHQVDNMVTEYEGNIGDTQNSIRGEENTVKGQY 892
Query: 140 QGQKMRIKQERKGQKMEVKEERQGQKMRIIRTLTGRGRERGREREEGREREKEEEEKKK 198
+ K E Q + EE+ Q+ + G EE +R KE ++K K
Sbjct: 893 SELQNHHKTEALSQNNKYNEEKSAQE-----RMPG-----ADSPEELMKRAKEYQDKHK 941
Score = 36.3 bits (84), Expect = 0.009
Identities = 31/165 (18%), Positives = 59/165 (35%), Gaps = 18/165 (10%)
Query: 2 EVKEERQGQKMRIKQER-KGQKMEVKEE---RQGQKMRIKQERKGQKMEVKEERQGQKMR 57
E+ E R+ QE+ + E G+ M G + + + QG +
Sbjct: 787 EIAERRRAMAWSFVQEQVQPGVDNAWRESRGDIGKGMESVPSGGGSQD-IIADHQGHQAI 845
Query: 58 IKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEER 117
I+Q + Q I+ + K Q + E +G + +G++ VK +
Sbjct: 846 IEQ-------------RTQDSGIRNDVKHQVDNMVTEYEGNIGDTQNSIRGEENTVKGQY 892
Query: 118 QGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQ 162
+ K E Q + EE+ Q+ + + M+ +E Q
Sbjct: 893 SELQNHHKTEALSQNNKYNEEKSAQERMPGADSPEELMKRAKEYQ 937
>gnl|CDD|240439 PTZ00491, PTZ00491, major vault protein; Provisional.
Length = 850
Score = 36.1 bits (84), Expect = 0.011
Identities = 32/155 (20%), Positives = 73/155 (47%), Gaps = 22/155 (14%)
Query: 21 QKMEVKEERQGQ------KMRIKQERKGQKMEVKEERQGQKMRIKQERKG----QKM--E 68
Q +E +ER ++ I+ K Q+ + Q ++QE +G QKM +
Sbjct: 636 QSVEPVDERTRDSLQKSVQLAIEITTKSQEAAA----RHQAELLEQEARGRLERQKMHDK 691
Query: 69 VKEERQGQKMRIKQERKGQKMEVKEERQGQ-KMRIKQERKGQKMEVKEERQGQKMRIKQE 127
K E Q K+ ++ + + +E GQ + E + + +E + E + ++R K
Sbjct: 692 AKAEEQRTKL-LELQAESAAVE----SSGQSRAEALAEAEARLIEAEAEVEQAELRAKAL 746
Query: 128 RKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQ 162
R + E+++ R+ Q++ ++ E+ ++E+ + ++
Sbjct: 747 RIEAEAELEKLRKRQELELEYEQAQNELEIAKAKE 781
Score = 35.0 bits (81), Expect = 0.029
Identities = 25/120 (20%), Positives = 60/120 (50%), Gaps = 12/120 (10%)
Query: 6 ERQGQKMRIKQERKG----QKM--EVKEERQGQKMRIKQERKGQKMEVKEERQGQ-KMRI 58
+ Q ++QE +G QKM + K E Q K+ ++ + + +E GQ +
Sbjct: 667 AARHQAELLEQEARGRLERQKMHDKAKAEEQRTKL-LELQAESAAVE----SSGQSRAEA 721
Query: 59 KQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQ 118
E + + +E + E + ++R K R + E+++ R+ Q++ ++ E+ ++E+ + ++
Sbjct: 722 LAEAEARLIEAEAEVEQAELRAKALRIEAEAELEKLRKRQELELEYEQAQNELEIAKAKE 781
>gnl|CDD|217393 pfam03154, Atrophin-1, Atrophin-1 family. Atrophin-1 is the
protein product of the dentatorubral-pallidoluysian
atrophy (DRPLA) gene. DRPLA OMIM:125370 is a progressive
neurodegenerative disorder. It is caused by the
expansion of a CAG repeat in the DRPLA gene on
chromosome 12p. This results in an extended
polyglutamine region in atrophin-1, that is thought to
confer toxicity to the protein, possibly through
altering its interactions with other proteins. The
expansion of a CAG repeat is also the underlying defect
in six other neurodegenerative disorders, including
Huntington's disease. One interaction of expanded
polyglutamine repeats that is thought to be pathogenic
is that with the short glutamine repeat in the
transcriptional coactivator CREB binding protein, CBP.
This interaction draws CBP away from its usual nuclear
location to the expanded polyglutamine repeat protein
aggregates that are characteristic of the polyglutamine
neurodegenerative disorders. This interferes with
CBP-mediated transcription and causes cytotoxicity.
Length = 979
Score = 36.2 bits (83), Expect = 0.012
Identities = 23/88 (26%), Positives = 36/88 (40%), Gaps = 24/88 (27%)
Query: 130 GQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIIRTLTGRGRERGREREEGRER 189
K+ K E +K + + E+K +EER+ RE+ +E+E RER
Sbjct: 574 SSKLAKKREEAVEKAKREAEQK-----AREERE--------------REKEKEKERERER 614
Query: 190 EKEEEEKKK-----NRKRKKDNNLGGGG 212
E+E E K + R + L G
Sbjct: 615 EREAERAAKASSSSHESRMSEPQLSGPA 642
>gnl|CDD|176473 cd06444, DNA_pol_A, Family A polymerase primarily fills DNA gaps
that arise during DNA repair, recombination and
replication. DNA polymerase family A, 5'-3' polymerase
domain. Family A polymerase functions primarily to fill
DNA gaps that arise during DNA repair, recombination and
replication. DNA-dependent DNA polymerases can be
classified into six main groups based upon phylogenetic
relationships with E. coli polymerase I (classA), E.
coli polymerase II (class B), E.coli polymerase III
(class C), euryarchaeota polymerase II (class D), human
polymerase beta (class X), E. coli UmuC/DinB and
eukaryotic RAP 30/Xeroderma pigmentosum variant (class
Y). Family A polymerases are found primarily in
organisms related to prokaryotes and include prokaryotic
DNA polymerase I, mitochondrial polymerase gamma, and
several bacteriophage polymerases including those from
odd-numbered phage (T3, T5, and T7). Prokaryotic
polymerase I (pol I) has two functional domains located
on the same polypeptide; a 5'-3' polymerase and a 5'-3'
exonuclease. Pol I uses its 5' nuclease activity to
remove the ribonucleotide portion of newly synthesized
Okazaki fragments and the DNA polymerase activity to
fill in the resulting gap. The structure of these
polymerases resembles in overall morphology a cupped
human right hand, with fingers (which bind an incoming
nucleotide and interact with the single-stranded
template), palm (which harbors the catalytic amino acid
residues and also binds an incoming dNTP) and thumb
(which binds double-stranded DNA) subdomains.
Length = 347
Score = 35.1 bits (81), Expect = 0.019
Identities = 14/78 (17%), Positives = 25/78 (32%)
Query: 126 QERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIIRTLTGRGRERGREREE 185
Q R+ E + R K + R+G++ +RTL GR R
Sbjct: 180 QLRRISTKEAAALIELFFSRFPAFPKAMEYVEDAARRGERGGYVRTLLGRRSPPPDIRWT 239
Query: 186 GREREKEEEEKKKNRKRK 203
+ + + +R
Sbjct: 240 EVVSDPAAASRARRVRRA 257
>gnl|CDD|178945 PRK00247, PRK00247, putative inner membrane protein translocase
component YidC; Validated.
Length = 429
Score = 33.7 bits (77), Expect = 0.066
Identities = 21/119 (17%), Positives = 50/119 (42%), Gaps = 9/119 (7%)
Query: 21 QKMEVKEERQGQKMRIKQERKGQKMEVKE-----ERQGQKMRIKQERKGQKMEVKEERQG 75
Q+ + +E+++ +K + R+ + + E + IK+ R K E +
Sbjct: 290 QRAQYREKQKEKKAFLWTLRRNRLRMIITPWRAPELHAENAEIKKTRT----AEKNEAKA 345
Query: 76 QKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKME 134
+K I Q+R+ + E+ E + ++ + ++ VK +++G E + E
Sbjct: 346 RKKEIAQKRRAAEREINREARQERAAAMARARARRAAVKAKKKGLIDASPNEDTPSENE 404
Score = 33.7 bits (77), Expect = 0.066
Identities = 21/119 (17%), Positives = 50/119 (42%), Gaps = 9/119 (7%)
Query: 43 QKMEVKEERQGQKMRIKQERKGQKMEVKE-----ERQGQKMRIKQERKGQKMEVKEERQG 97
Q+ + +E+++ +K + R+ + + E + IK+ R K E +
Sbjct: 290 QRAQYREKQKEKKAFLWTLRRNRLRMIITPWRAPELHAENAEIKKTRT----AEKNEAKA 345
Query: 98 QKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKME 156
+K I Q+R+ + E+ E + ++ + ++ VK +++G E + E
Sbjct: 346 RKKEIAQKRRAAEREINREARQERAAAMARARARRAAVKAKKKGLIDASPNEDTPSENE 404
Score = 32.1 bits (73), Expect = 0.21
Identities = 17/85 (20%), Positives = 35/85 (41%), Gaps = 4/85 (4%)
Query: 6 ERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQ 65
E + IK+ R K E + +K I Q+R+ + E+ E + ++ + +
Sbjct: 324 ELHAENAEIKKTRT----AEKNEAKARKKEIAQKRRAAEREINREARQERAAAMARARAR 379
Query: 66 KMEVKEERQGQKMRIKQERKGQKME 90
+ VK +++G E + E
Sbjct: 380 RAAVKAKKKGLIDASPNEDTPSENE 404
Score = 28.7 bits (64), Expect = 2.3
Identities = 13/67 (19%), Positives = 29/67 (43%)
Query: 2 EVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQE 61
K E + +K I Q+R+ + E+ E + ++ + ++ VK +++G E
Sbjct: 338 AEKNEAKARKKEIAQKRRAAEREINREARQERAAAMARARARRAAVKAKKKGLIDASPNE 397
Query: 62 RKGQKME 68
+ E
Sbjct: 398 DTPSENE 404
Score = 28.7 bits (64), Expect = 3.0
Identities = 11/65 (16%), Positives = 31/65 (47%), Gaps = 1/65 (1%)
Query: 2 EVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQE 61
E E ++ + + K +K E+ ++R+ + I +E + ++ + ++ +K +
Sbjct: 328 ENAEIKKTRTAEKNEA-KARKKEIAQKRRAAEREINREARQERAAAMARARARRAAVKAK 386
Query: 62 RKGQK 66
+KG
Sbjct: 387 KKGLI 391
Score = 28.3 bits (63), Expect = 3.5
Identities = 24/125 (19%), Positives = 46/125 (36%), Gaps = 23/125 (18%)
Query: 87 QKMEVKEERQGQKMRIKQERKGQKMEVKE-----ERQGQKMRIKQERKGQKMEVKEERQG 141
Q+ + +E+++ +K + R+ + + E + IK+ R K E +
Sbjct: 290 QRAQYREKQKEKKAFLWTLRRNRLRMIITPWRAPELHAENAEIKKTRT----AEKNEAKA 345
Query: 142 QKMRIKQERKGQKMEVKEERQGQKMRIIRTLTGRGRERGREREEGREREKEEEEKKKNRK 201
+K I Q+R+ + E+ E + +ER R R + KKK
Sbjct: 346 RKKEIAQKRRAAEREINREAR--------------QERAAAMARARARRAAVKAKKKGLI 391
Query: 202 RKKDN 206
N
Sbjct: 392 DASPN 396
>gnl|CDD|185490 PTZ00163, PTZ00163, hypothetical protein; Provisional.
Length = 230
Score = 32.8 bits (74), Expect = 0.081
Identities = 13/30 (43%), Positives = 18/30 (60%)
Query: 180 GREREEGREREKEEEEKKKNRKRKKDNNLG 209
G + + RER+ EEE +K N K DNN+
Sbjct: 67 GNKNPQKRERKNEEENQKDNTKVDNDNNME 96
>gnl|CDD|225177 COG2268, COG2268, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 548
Score = 33.3 bits (76), Expect = 0.092
Identities = 31/197 (15%), Positives = 78/197 (39%), Gaps = 4/197 (2%)
Query: 2 EVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQE 61
E + E++ + + R + +E++ E+Q +Q R+ + + + E + + +
Sbjct: 227 ENEAEKETEIAIAEANRDAKLVELEVEQQPAGKTAEQTREVKIILAETEAEVAAWKAETR 286
Query: 62 RKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQK 121
R+ ++ E+ E+ Q+ + + E++ Q + E R+ + I++ QK E ++
Sbjct: 287 REAEQAEILAEQAIQEEKAQAEQEVQHAKALEAREMRVGLIER----QKETELEPQERSY 342
Query: 122 MRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIIRTLTGRGRERGR 181
+R+ Q+ + + + E + EE + + + +
Sbjct: 343 FINAAQRQAQEEAKAAANIAEAIGAQAEAAVETARETEEAERAEQAALVAAAEAAEQEQV 402
Query: 182 EREEGREREKEEEEKKK 198
E E K E E +
Sbjct: 403 EIAVRAEAAKAEAEAQA 419
>gnl|CDD|236766 PRK10811, rne, ribonuclease E; Reviewed.
Length = 1068
Score = 31.2 bits (71), Expect = 0.42
Identities = 34/150 (22%), Positives = 72/150 (48%), Gaps = 5/150 (3%)
Query: 16 QERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQG 75
QE+ K E K ERQ + + +Q + + E ++ R + R +E + + + + Q
Sbjct: 589 QEQPAPKAEAKPERQQDRRKPRQNNRRDRNERRDTRDNRTRREGRENREENRRNRRQAQQ 648
Query: 76 QKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQ---KMRIKQERKGQK 132
Q ++ ++ + E + Q+ ++ER+ ++ + E+RQ Q K +E+ Q+
Sbjct: 649 QTAETRESQQAEVTEKARTQDEQQQAPRRERQRRRND--EKRQAQQEAKALNVEEQSVQE 706
Query: 133 MEVKEERQGQKMRIKQERKGQKMEVKEERQ 162
E +E Q + R KQ + QK+ +++
Sbjct: 707 TEQEERVQQVQPRRKQRQLNQKVRIEQSVA 736
Score = 28.1 bits (63), Expect = 5.0
Identities = 29/149 (19%), Positives = 68/149 (45%), Gaps = 1/149 (0%)
Query: 2 EVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQE 61
E K ERQ + + +Q + + E ++ R + R +E + + + + Q Q ++
Sbjct: 597 EAKPERQQDRRKPRQNNRRDRNERRDTRDNRTRREGRENREENRRNRRQAQQQTAETRES 656
Query: 62 RKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQK 121
++ + E + Q+ ++ER+ ++ + K + Q + + E + + +EER Q
Sbjct: 657 QQAEVTEKARTQDEQQQAPRRERQRRRNDEKRQAQQEAKALNVEEQSVQETEQEERVQQV 716
Query: 122 M-RIKQERKGQKMEVKEERQGQKMRIKQE 149
R KQ + QK+ +++ + + E
Sbjct: 717 QPRRKQRQLNQKVRIEQSVAEEAVAPVVE 745
>gnl|CDD|234750 PRK00409, PRK00409, recombination and DNA strand exchange inhibitor
protein; Reviewed.
Length = 782
Score = 31.0 bits (71), Expect = 0.54
Identities = 31/144 (21%), Positives = 63/144 (43%), Gaps = 15/144 (10%)
Query: 21 QKMEVKEERQGQKMR----IKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQ 76
+E E QK + +E + K E++E+++ + + + + E ++
Sbjct: 523 ASLEELERELEQKAEEAEALLKEAEKLKEELEEKKEKLQEEEDKLLEEAEKEAQQ----- 577
Query: 77 KMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVK 136
IK+ +K +KE RQ QK K ++ +R + K+++K ++ E +
Sbjct: 578 --AIKEAKKEADEIIKELRQLQKGGYAS-VKAHELIEARKRLNKANEKKEKKKKKQKEKQ 634
Query: 137 EERQ-GQKMRIKQERKGQKMEVKE 159
EE + G +++ GQK EV
Sbjct: 635 EELKVGDEVKYLS--LGQKGEVLS 656
>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional.
Length = 2084
Score = 30.5 bits (68), Expect = 0.78
Identities = 34/200 (17%), Positives = 101/200 (50%), Gaps = 6/200 (3%)
Query: 10 QKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEV 69
+ + ++++ + +E ++ ++ RI++ K + E K + + K + + K ++++
Sbjct: 1568 EAKKAEEDKNMALRKAEEAKKAEEARIEEVMKLYEEEKKMKAEEAKKAEEAKIKAEELKK 1627
Query: 70 KEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERK 129
EE + + ++K++ +K + +E ++ ++ + + K +++++ ++ + +E +
Sbjct: 1628 AEEEKKKVEQLKKKEAEEKKKAEELKKAEEENKIKAAEEAKKAEEDKKKAEEAKKAEEDE 1687
Query: 130 GQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIIRTLTGRGRERGREREEGR-- 187
+ E ++ + + ++ +K + E K+ + +K + + E +E EE +
Sbjct: 1688 KKAAEALKKEAEEAKKAEELKKKEAEEKKKAEELKKAEEENKI--KAEEAKKEAEEDKKK 1745
Query: 188 --EREKEEEEKKKNRKRKKD 205
E +K+EEEKKK KK+
Sbjct: 1746 AEEAKKDEEEKKKIAHLKKE 1765
Score = 29.7 bits (66), Expect = 1.3
Identities = 34/212 (16%), Positives = 101/212 (47%), Gaps = 4/212 (1%)
Query: 1 MEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQ 60
M+ +E ++ ++ +IK E + E K++ + K + +E+K + E+K+ + K++ +
Sbjct: 1607 MKAEEAKKAEEAKIKAEELKKAEEEKKKVEQLKKKEAEEKK-KAEELKKAEEENKIKAAE 1665
Query: 61 ERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQ 120
E K +++++ ++ + +E + + E ++ + + ++ +K + E K+ + +
Sbjct: 1666 EAK---KAEEDKKKAEEAKKAEEDEKKAAEALKKEAEEAKKAEELKKKEAEEKKKAEELK 1722
Query: 121 KMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIIRTLTGRGRERG 180
K + + K ++ + + E +K ++ + +K ++ ++ ++ + +
Sbjct: 1723 KAEEENKIKAEEAKKEAEEDKKKAEEAKKDEEEKKKIAHLKKEEEKKAEEIRKEKEAVIE 1782
Query: 181 REREEGREREKEEEEKKKNRKRKKDNNLGGGG 212
E +E E+ + E +KK N+ GG
Sbjct: 1783 EELDEEDEKRRMEVDKKIKDIFDNFANIIEGG 1814
Score = 28.6 bits (63), Expect = 3.7
Identities = 33/203 (16%), Positives = 86/203 (42%)
Query: 2 EVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQE 61
E ++ +K ++ + K + +E ++ ++ R +E + + ++ IK E
Sbjct: 1216 EARKAEDAKKAEAVKKAEEAKKDAEEAKKAEEERNNEEIRKFEEARMAHFARRQAAIKAE 1275
Query: 62 RKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQK 121
+ E+K+ + +K ++ + +K + +++ ++ + E K + E K++ K
Sbjct: 1276 EARKADELKKAEEKKKADEAKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKKADAAK 1335
Query: 122 MRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIIRTLTGRGRERGR 181
+ ++ +K + E E K + E K+E +K + ++
Sbjct: 1336 KKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKAEEKKKADE 1395
Query: 182 EREEGREREKEEEEKKKNRKRKK 204
+++ E +K+ +E KK KK
Sbjct: 1396 AKKKAEEDKKKADELKKAAAAKK 1418
Score = 27.4 bits (60), Expect = 7.9
Identities = 34/206 (16%), Positives = 84/206 (40%), Gaps = 4/206 (1%)
Query: 4 KEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERK 63
E + + E E + +K K++ K + +E+++ + + K E
Sbjct: 1344 AAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKAEEKKKADEAKKKAEED 1403
Query: 64 GQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMR 123
+K + ++ K + + +K + + K + +K ++ K + +E ++ ++ +
Sbjct: 1404 KKKADELKKAAAAKKKADEAKKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKAEEAK 1463
Query: 124 IKQERKGQKMEVK----EERQGQKMRIKQERKGQKMEVKEERQGQKMRIIRTLTGRGRER 179
K E + E K E ++ + + K E +K + ++ K + ++
Sbjct: 1464 KKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKKADEAKKAEEAKK 1523
Query: 180 GREREEGREREKEEEEKKKNRKRKKD 205
E ++ E +K +E KK K+K D
Sbjct: 1524 ADEAKKAEEAKKADEAKKAEEKKKAD 1549
>gnl|CDD|221432 pfam12128, DUF3584, Protein of unknown function (DUF3584). This
protein is found in bacteria and eukaryotes. Proteins in
this family are typically between 943 to 1234 amino
acids in length. This family contains a P-loop motif
suggesting it is a nucleotide binding protein. It may be
involved in replication.
Length = 1198
Score = 29.7 bits (67), Expect = 1.4
Identities = 36/174 (20%), Positives = 81/174 (46%), Gaps = 6/174 (3%)
Query: 2 EVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQ-----ERKGQKMEVKEERQGQKM 56
E +EERQ K R++Q+ + + ++KE R + ++E+ E+++G
Sbjct: 281 EEQEERQEAKNRLRQQLRTLEDQLKEARDELNQELSAANAKLAADRSELELLEDQKGAFE 340
Query: 57 RIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEE 116
E+ ++ + + + + R ++ Q + R+KQ+ K Q E+
Sbjct: 341 DADIEQLQADLDQLPSIRSE-LEEVEARLDALTGKHQDVQRKYERLKQKIKEQLERDLEK 399
Query: 117 RQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIIR 170
+ I++E+ QK ++E+ Q + +++Q+ + K+E EE ++R+ R
Sbjct: 400 NNERLAAIREEKDRQKAAIEEDLQALESQLRQQLEAGKLEFNEEEYELELRLGR 453
>gnl|CDD|240271 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional.
Length = 1388
Score = 28.1 bits (63), Expect = 4.6
Identities = 29/197 (14%), Positives = 67/197 (34%), Gaps = 10/197 (5%)
Query: 15 KQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQ 74
+QE +K KE+R K + K + + K+E++ +K K +K V +
Sbjct: 1143 EQEEVEEKEIAKEQRLKSKTKGKASKLRKPKLKKKEKKKKK---SSADKSKKASVVGNSK 1199
Query: 75 GQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERK----- 129
K++ + K G +E+K + + +R K +
Sbjct: 1200 RVDSDEKRKLDDKPDNKKSNSSGSDQEDDEEQKTKPKKSSVKRLKSKKNNSSKSSEDNDE 1259
Query: 130 --GQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIIRTLTGRGRERGREREEGR 187
+ + + + R+ + K + + + + R
Sbjct: 1260 FSSDDLSKEGKPKNAPKRVSAVQYSPPPPSKRPDGESNGGSKPSSPTKKKVKKRLEGSLA 1319
Query: 188 EREKEEEEKKKNRKRKK 204
+K+++ +KK ++KK
Sbjct: 1320 ALKKKKKSEKKTARKKK 1336
>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional.
Length = 520
Score = 27.4 bits (62), Expect = 5.8
Identities = 23/99 (23%), Positives = 54/99 (54%), Gaps = 5/99 (5%)
Query: 33 KMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEV- 91
K + +K +E KEE + ++E + ++ E++ + +++ K+E +K+E+
Sbjct: 48 KKEAEAIKKEALLEAKEEIHKLRNEFEKELRERRNELQ--KLEKRLLQKEENLDRKLELL 105
Query: 92 -KEERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERK 129
K E + +K + E+K Q++E KEE +++ +Q ++
Sbjct: 106 EKREEELEKKEKELEQKQQELEKKEEEL-EELIEEQLQE 143
>gnl|CDD|217469 pfam03276, Gag_spuma, Spumavirus gag protein.
Length = 582
Score = 27.2 bits (60), Expect = 7.9
Identities = 16/79 (20%), Positives = 34/79 (43%), Gaps = 1/79 (1%)
Query: 141 GQKMRIKQERKGQKMEVKEERQGQKMRIIRTLTGRGRE-RGREREEGREREKEEEEKKKN 199
GQ +R + Q+ + +GQ+ + R ++ RGR+ + +++ +
Sbjct: 432 GQSIRFLPQSDQQRPVSRGRGRGQRGPRSQPQNQRRQQNRGRQSSQPPRQQQNRSNQNNQ 491
Query: 200 RKRKKDNNLGGGGGGEKLK 218
R+ + N G GG L+
Sbjct: 492 RQSQGPNQGPRGQGGYNLR 510
>gnl|CDD|233503 TIGR01642, U2AF_lg, U2 snRNP auxilliary factor, large subunit,
splicing factor. These splicing factors consist of an
N-terminal arginine-rich low complexity domain followed
by three tandem RNA recognition motifs (pfam00076). The
well-characterized members of this family are auxilliary
components of the U2 small nuclear ribonuclearprotein
splicing factor (U2AF). These proteins are closely
related to the CC1-like subfamily of splicing factors
(TIGR01622). Members of this subfamily are found in
plants, metazoa and fungi.
Length = 509
Score = 27.2 bits (60), Expect = 9.1
Identities = 19/94 (20%), Positives = 37/94 (39%), Gaps = 2/94 (2%)
Query: 116 ERQGQKMRIKQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIIRTLTGR 175
E+ + R + + ++ R + R +ER ++ +R+ R R+L
Sbjct: 10 EKSRGRDRDRSSERPRRRSRDRSRFRDRHRRSRERSYREDSRPRDRRRYDSRSPRSLRYS 69
Query: 176 GRERGREREEGRER--EKEEEEKKKNRKRKKDNN 207
R R+R R R E+ +++ R R N
Sbjct: 70 SVRRSRDRPRRRSRSVRSIEQHRRRLRDRSPSNQ 103
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 26.8 bits (60), Expect = 9.4
Identities = 19/80 (23%), Positives = 43/80 (53%), Gaps = 12/80 (15%)
Query: 125 KQERKGQKMEVKEERQGQKMRIKQERKGQKMEVKEERQGQKMRIIRTLTGRGRERGRERE 184
K +K +K+ K E++ ++ + ++++K + KEE + ++ + +E E
Sbjct: 407 KATKKIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEE------------KEKKEEE 454
Query: 185 EGREREKEEEEKKKNRKRKK 204
+ E E+ EEEK++ ++KK
Sbjct: 455 KEEEEEEAEEEKEEEEEKKK 474
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.306 0.126 0.318
Gapped
Lambda K H
0.267 0.0677 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,771,268
Number of extensions: 1061835
Number of successful extensions: 6059
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3431
Number of HSP's successfully gapped: 979
Length of query: 218
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 125
Effective length of database: 6,812,680
Effective search space: 851585000
Effective search space used: 851585000
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (22.0 bits)
S2: 57 (25.8 bits)