RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2133
(207 letters)
>gnl|CDD|238017 cd00060, FHA, Forkhead associated domain (FHA); found in eukaryotic
and prokaryotic proteins. Putative nuclear signalling
domain. FHA domains may bind phosphothreonine,
phosphoserine and sometimes phosphotyrosine. In
eukaryotes, many FHA domain-containing proteins localize
to the nucleus, where they participate in establishing
or maintaining cell cycle checkpoints, DNA repair, or
transcriptional regulation. Members of the FHA family
include: Dun1, Rad53, Cds1, Mek1,
KAPP(kinase-associated protein phosphatase),and Ki-67 (a
human nuclear protein related to cell proliferation).
Length = 102
Score = 74.7 bits (184), Expect = 8e-18
Identities = 31/102 (30%), Positives = 50/102 (49%), Gaps = 8/102 (7%)
Query: 2 LKSGQIVNTIDLSTRSFYCVGRE-RNTHLNLLHPTVSRYHAILQYKSTFDEKDPARGFYV 60
L L Y +GR+ N + L P+VSR HA+++Y D G +
Sbjct: 7 LSGDASGRRYYLDPGGTYTIGRDSDNCDIVLDDPSVSRRHAVIRY-------DGDGGVVL 59
Query: 61 YDLGSTHGTFLNRCKIKPKMYVRIHVGHMLSFGSSTRFFILQ 102
DLGST+GTF+N ++ P VR+ G ++ G+++ F +
Sbjct: 60 IDLGSTNGTFVNGQRVSPGEPVRLRDGDVIRLGNTSISFRFE 101
>gnl|CDD|215951 pfam00498, FHA, FHA domain. The FHA (Forkhead-associated) domain
is a phosphopeptide binding motif.
Length = 67
Score = 71.1 bits (175), Expect = 8e-17
Identities = 26/75 (34%), Positives = 41/75 (54%), Gaps = 8/75 (10%)
Query: 19 YCVGRERNTHLNLLHPTVSRYHAILQYKSTFDEKDPARGFYVYDLGSTHGTFLNRCKIKP 78
+GR + + L P+VSR HA ++Y FY+ DLGST+GTF+N ++ P
Sbjct: 1 VTIGRSPDCDIVLDDPSVSRRHAEIRYDGG-------GRFYLEDLGSTNGTFVNGQRLGP 53
Query: 79 KMYVRIHVGHMLSFG 93
+ VR+ G ++ G
Sbjct: 54 E-PVRLRDGDVIRLG 67
>gnl|CDD|214578 smart00240, FHA, Forkhead associated domain. Found in eukaryotic
and prokaryotic proteins. Putative nuclear signalling
domain.
Length = 52
Score = 54.1 bits (131), Expect = 2e-10
Identities = 21/57 (36%), Positives = 31/57 (54%), Gaps = 8/57 (14%)
Query: 21 VGRERNT-HLNLLHPTVSRYHAILQYKSTFDEKDPARGFYVYDLGSTHGTFLNRCKI 76
+GR + L P++SR HA++ Y FY+ DLGST+GTF+N +I
Sbjct: 3 IGRSSEDCDIQLDGPSISRRHAVIVYDGG-------GRFYLIDLGSTNGTFVNGKRI 52
>gnl|CDD|224630 COG1716, COG1716, FOG: FHA domain [Signal transduction mechanisms].
Length = 191
Score = 48.4 bits (115), Expect = 3e-07
Identities = 28/107 (26%), Positives = 49/107 (45%), Gaps = 13/107 (12%)
Query: 21 VGRERNTHLNLLHPTVSRYHAILQYKSTFDEKDPARGFYVYDLGSTHGTFLNRCKIKPKM 80
+GR+ + + L VSR HA L+ + ++ DLGST+GT++N K++ +
Sbjct: 93 IGRDPDNDIVLDDDVVSRRHAELRREGNE--------VFLEDLGSTNGTYVNGEKVRQR- 143
Query: 81 YVRIHVGHMLSFGSSTR---FFILQGPSEDEEEESELSVSELKEQRR 124
V + G ++ G + IL D + S EL+E+
Sbjct: 144 -VLLQDGDVIRLGGTLAERLRIILTELEIDGVDPVATSAKELEEEGL 189
>gnl|CDD|217503 pfam03344, Daxx, Daxx Family. The Daxx protein (also known as the
Fas-binding protein) is thought to play a role in
apoptosis, but precise role played by Daxx remains to be
determined. Daxx forms a complex with Axin.
Length = 715
Score = 36.0 bits (83), Expect = 0.009
Identities = 25/81 (30%), Positives = 36/81 (44%)
Query: 106 EDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEETD 165
E EEE E E +E++ E+E+ E E E+ +E + +EEE EG S G GD E E D
Sbjct: 443 ESVEEEEEEEEEEEEEEQESEEEEGEDEEEEEEVEADNGSEEEMEGSSEGDGDGEEPEED 502
Query: 166 LSENPYASTNNEELYLDDPKK 186
+ +
Sbjct: 503 AERRNSEMAGISRMSEGQQPR 523
>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein. TolA couples the inner
membrane complex of itself with TolQ and TolR to the
outer membrane complex of TolB and OprL (also called
Pal). Most of the length of the protein consists of
low-complexity sequence that may differ in both length
and composition from one species to another,
complicating efforts to discriminate TolA (the most
divergent gene in the tol-pal system) from paralogs such
as TonB. Selection of members of the seed alignment and
criteria for setting scoring cutoffs are based largely
conserved operon struction. //The Tol-Pal complex is
required for maintaining outer membrane integrity. Also
involved in transport (uptake) of colicins and
filamentous DNA, and implicated in pathogenesis.
Transport is energized by the proton motive force. TolA
is an inner membrane protein that interacts with
periplasmic TolB and with outer membrane porins ompC,
phoE and lamB [Transport and binding proteins, Other,
Cellular processes, Pathogenesis].
Length = 346
Score = 34.4 bits (79), Expect = 0.027
Identities = 13/43 (30%), Positives = 22/43 (51%)
Query: 108 EEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDE 150
+ EE + E K ++ E + K EK ++EAK + E+E
Sbjct: 113 QAEEKQKQAEEAKAKQAAEAKAKAEAEAEKKAKEEAKKQAEEE 155
Score = 32.9 bits (75), Expect = 0.088
Identities = 13/48 (27%), Positives = 24/48 (50%), Gaps = 3/48 (6%)
Query: 106 EDEEEESELSVSELKEQRRQEK---EKKEREALEKSLEQEAKTEEEDE 150
E +++ E + E + + + EKK +E +K E+EAK + E
Sbjct: 116 EKQKQAEEAKAKQAAEAKAKAEAEAEKKAKEEAKKQAEEEAKAKAAAE 163
Score = 31.0 bits (70), Expect = 0.38
Identities = 9/45 (20%), Positives = 23/45 (51%)
Query: 104 PSEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEE 148
++ +++ E E ++QR E+ +++ + E+ AK E+
Sbjct: 65 KEQERQKKLEQQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAEQ 109
Score = 29.4 bits (66), Expect = 1.4
Identities = 14/48 (29%), Positives = 22/48 (45%), Gaps = 2/48 (4%)
Query: 105 SEDEEEESELSVSELKEQRRQE--KEKKEREALEKSLEQEAKTEEEDE 150
+ E++ E EQ RQ+ +++ E K EQ AK EE +
Sbjct: 71 KKLEQQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQ 118
Score = 27.5 bits (61), Expect = 4.9
Identities = 12/35 (34%), Positives = 19/35 (54%), Gaps = 4/35 (11%)
Query: 120 KEQRRQEKEKKEREALEKSL----EQEAKTEEEDE 150
EQ ++ E+K+++A E E +AK E E E
Sbjct: 107 AEQAAKQAEEKQKQAEEAKAKQAAEAKAKAEAEAE 141
Score = 27.1 bits (60), Expect = 6.8
Identities = 11/31 (35%), Positives = 17/31 (54%)
Query: 118 ELKEQRRQEKEKKEREALEKSLEQEAKTEEE 148
EL+++ EK K+ E K E++ K EE
Sbjct: 93 ELEQRAAAEKAAKQAEQAAKQAEEKQKQAEE 123
>gnl|CDD|221122 pfam11490, DNA_pol3_alph_N, DNA polymerase III polC-type
N-terminus. This is an N-terminal domain of DNA
polymerase III polC subunit A that is found only in
Firmicutes. DNA polymerase polC-type III enzyme
functions as the 'replicase' in low G + C Gram-positive
bacteria. Purine asymmetry is a characteristic of
organisms with a heterodimeric DNA polymerase III
alpha-subunit constituted by polC which probably plays a
direct role in the maintenance of strand-biased gene
distribution; since, among prokaryotic genomes, the
distribution of genes on the leading and lagging strands
of the replication fork is known to be biased. The
domain is associated with DNA_pol3_alpha pfam07733.
Length = 180
Score = 33.8 bits (78), Expect = 0.027
Identities = 16/44 (36%), Positives = 30/44 (68%)
Query: 107 DEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDE 150
DE+E SE + E +EQ+ +E+ K EALE ++EA+ +++++
Sbjct: 136 DEDESSEEEIEEFEEQKEEEEAKLAEEALEALKKKEAEKKKKEK 179
>gnl|CDD|218312 pfam04889, Cwf_Cwc_15, Cwf15/Cwc15 cell cycle control protein.
This family represents Cwf15/Cwc15 (from
Schizosaccharomyces pombe and Saccharomyces cerevisiae
respectively) and their homologues. The function of
these proteins is unknown, but they form part of the
spliceosome and are thus thought to be involved in mRNA
splicing.
Length = 241
Score = 32.4 bits (74), Expect = 0.099
Identities = 17/44 (38%), Positives = 29/44 (65%)
Query: 105 SEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEE 148
+D E+E+ + EL++ +++ E+KERE EK+ E+E EEE
Sbjct: 137 DDDSEDETAALLRELEKIKKERAEEKEREEEEKAAEEEKAREEE 180
Score = 29.7 bits (67), Expect = 1.0
Identities = 12/48 (25%), Positives = 20/48 (41%), Gaps = 2/48 (4%)
Query: 105 SEDEEEESELSVSELKEQ--RRQEKEKKEREALEKSLEQEAKTEEEDE 150
+++ + + R EK KKER ++ E+E EEE
Sbjct: 129 DSSDDDSDDDDSEDETAALLRELEKIKKERAEEKEREEEEKAAEEEKA 176
>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1. This domain
family is found in eukaryotes, and is approximately 40
amino acids in length. The family is found in
association with pfam07719, pfam00515. There is a single
completely conserved residue L that may be functionally
important. NARP1 is the mammalian homologue of a yeast
N-terminal acetyltransferase that regulates entry into
the G(0) phase of the cell cycle.
Length = 516
Score = 33.0 bits (76), Expect = 0.100
Identities = 17/61 (27%), Positives = 25/61 (40%), Gaps = 13/61 (21%)
Query: 104 PSEDEEEESELSVSEL-------------KEQRRQEKEKKEREALEKSLEQEAKTEEEDE 150
P E EE E L K +++ EKE+ E+ A +K E AK + +
Sbjct: 391 PLLAEGEEEEGENGNLSPAERKKLRKKQRKAEKKAEKEEAEKAAAKKKAEAAAKKAKGPD 450
Query: 151 G 151
G
Sbjct: 451 G 451
>gnl|CDD|218397 pfam05044, Prox1, Homeobox prospero-like protein (PROX1). The
homeobox gene Prox1 is expressed in a subpopulation of
endothelial cells that, after budding from veins, gives
rise to the mammalian lymphatic system. Prox1 has been
found to be an early specific marker for the developing
liver and pancreas in the mammalian foregut endoderm.
This family contains an atypical homeobox domain.
Length = 908
Score = 33.1 bits (75), Expect = 0.11
Identities = 22/99 (22%), Positives = 48/99 (48%), Gaps = 14/99 (14%)
Query: 90 LSFGSSTRFFILQGPSEDEEEESELSVSELKEQRRQEK----------EKKEREALEKSL 139
L+ + R +L P + ++ +L VS KEQ+R+E+ +K+ R+ +K +
Sbjct: 267 LNSRENKRKQML--PQQQQQSFDQL-VSPRKEQKREERRQLKQQLRDMQKQLRQLQQKYV 323
Query: 140 E-QEAKTEEEDEGISWGMGDDAEEETDLSENPYASTNNE 177
+ ++ + D+ I +G+ +E+ S + AS +
Sbjct: 324 QIYDSTDDSTDDDIHEDIGNLSEDSPSRSNSLDASAPDN 362
>gnl|CDD|226920 COG4547, CobT, Cobalamin biosynthesis protein CobT
(nicotinate-mononucleotide:5, 6-dimethylbenzimidazole
phosphoribosyltransferase) [Coenzyme metabolism].
Length = 620
Score = 32.9 bits (75), Expect = 0.12
Identities = 20/75 (26%), Positives = 31/75 (41%), Gaps = 8/75 (10%)
Query: 106 EDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEETD 165
+E E S+ S + E E E+ E +A E S + E+ +ED + G+DA
Sbjct: 251 REESEGSDESEEDEAEATDGEGEEGEMDAAEASEDSESDESDED---TETPGEDA----- 302
Query: 166 LSENPYASTNNEELY 180
P+ E Y
Sbjct: 303 RPATPFTELMEEVDY 317
>gnl|CDD|215214 PLN02381, PLN02381, valyl-tRNA synthetase.
Length = 1066
Score = 32.9 bits (75), Expect = 0.13
Identities = 18/83 (21%), Positives = 37/83 (44%), Gaps = 5/83 (6%)
Query: 102 QGPSEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAE 161
+ E EL + KE++ +EKE K+ +A +K E +AK + + + +E
Sbjct: 6 SEAEKKILTEEELERKKKKEEKAKEKELKKLKAAQK--EAKAKLQAQQASDGTNVPKKSE 63
Query: 162 EETDLSENPYASTNNEELYLDDP 184
+++ + N E ++D
Sbjct: 64 KKSRKRD---VEDENPEDFIDPD 83
>gnl|CDD|237063 PRK12329, nusA, transcription elongation factor NusA; Provisional.
Length = 449
Score = 32.1 bits (73), Expect = 0.17
Identities = 16/76 (21%), Positives = 28/76 (36%)
Query: 104 PSEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEE 163
+E ++E + V+EL QR +E+ + EQ + EE+ + E E
Sbjct: 373 SAEYDQEAEDAKVAELISQREEEEALQREAEERLEAEQAERAEEDARLRELYPLPEDEFE 432
Query: 164 TDLSENPYASTNNEEL 179
+ EE
Sbjct: 433 DEDELEEAQPEEEEEA 448
>gnl|CDD|219924 pfam08597, eIF3_subunit, Translation initiation factor eIF3
subunit. This is a family of proteins which are
subunits of the eukaryotic translation initiation factor
3 (eIF3). In yeast it is called Hcr1. The Saccharomyces
cerevisiae protein eIF3j (HCR1) has been shown to be
required for processing of 20S pre-rRNA and binds to 18S
rRNA and eIF3 subunits Rpg1p and Prt1p.
Length = 242
Score = 31.9 bits (73), Expect = 0.17
Identities = 23/68 (33%), Positives = 33/68 (48%), Gaps = 7/68 (10%)
Query: 106 EDEEEESELSVSELK-------EQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGD 158
EDEE+E E + K + + +EKEK +RE EK L + + EDE
Sbjct: 41 EDEEKEEEKAKVAAKAKAKKALKAKIEEKEKAKREKEEKGLRELEEDTPEDELAEKLRLR 100
Query: 159 DAEEETDL 166
+EE+DL
Sbjct: 101 KLQEESDL 108
>gnl|CDD|221175 pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polymerase III subunit
Rpc31. RNA polymerase III contains seventeen subunits
in yeasts and in human cells. Twelve of these are akin
to RNA polymerase I or II and the other five are RNA pol
III-specific, and form the functionally distinct groups
(i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31,
Rpc34 and Rpc82 form a cluster of enzyme-specific
subunits that contribute to transcription initiation in
S.cerevisiae and H.sapiens. There is evidence that these
subunits are anchored at or near the N-terminal Zn-fold
of Rpc1, itself prolonged by a highly conserved but RNA
polymerase III-specific domain.
Length = 221
Score = 31.6 bits (72), Expect = 0.17
Identities = 15/64 (23%), Positives = 33/64 (51%), Gaps = 4/64 (6%)
Query: 120 KEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEETDLSENPYASTNNEEL 179
+++ EKK +E + +++E + +EE+E +D +++ D ++ Y N E
Sbjct: 149 IDEKLSMLEKKLKELEAEDVDEEDEKDEEEEEEEEEEDEDFDDDDDDDDDDY----NAEN 204
Query: 180 YLDD 183
Y D+
Sbjct: 205 YFDN 208
>gnl|CDD|227615 COG5296, COG5296, Transcription factor involved in TATA site
selection and in elongation by RNA polymerase II
[Transcription].
Length = 521
Score = 31.9 bits (72), Expect = 0.21
Identities = 14/54 (25%), Positives = 23/54 (42%)
Query: 110 EESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEE 163
E E SE + ++ K+ KE E E+ L++E +E + D E
Sbjct: 156 EREERLYSERHIELQRFKDYKELEESEQGLQEEYTPSYAEEAVEDISRTDDFAE 209
>gnl|CDD|219900 pfam08553, VID27, VID27 cytoplasmic protein. This is a family of
fungal and plant proteins and contains many hypothetical
proteins. VID27 is a cytoplasmic protein that plays a
potential role in vacuolar protein degradation.
Length = 794
Score = 31.6 bits (72), Expect = 0.27
Identities = 22/76 (28%), Positives = 33/76 (43%), Gaps = 5/76 (6%)
Query: 105 SEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEG-ISWGMGDDAEEE 163
E E++ + S L+ E ER+ E+ E+E + E+EDEG D+ EE
Sbjct: 365 KETEQDYILDAFSALE----IEDANTERDDEEEEDEEEEEEEDEDEGPSKEHSDDEEFEE 420
Query: 164 TDLSENPYASTNNEEL 179
D+ S N L
Sbjct: 421 DDVESKYEDSDGNSSL 436
>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger. [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 1096
Score = 31.5 bits (71), Expect = 0.30
Identities = 14/31 (45%), Positives = 21/31 (67%)
Query: 103 GPSEDEEEESELSVSELKEQRRQEKEKKERE 133
G SE+EEEE E E +E+ +E+E++E E
Sbjct: 861 GDSEEEEEEEEEEEEEEEEEEEEEEEEEENE 891
Score = 30.3 bits (68), Expect = 0.86
Identities = 20/84 (23%), Positives = 28/84 (33%), Gaps = 7/84 (8%)
Query: 102 QGPSEDEEEESELS-------VSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISW 154
G EE E S + ++ E E K E + E K E+E EG
Sbjct: 641 TGERTGEEGERPTEAEGENGEESGGEAEQEGETETKGENESEGEIPAERKGEQEGEGEIE 700
Query: 155 GMGDDAEEETDLSENPYASTNNEE 178
D + ET+ E + E
Sbjct: 701 AKEADHKGETEAEEVEHEGETEAE 724
Score = 27.3 bits (60), Expect = 7.4
Identities = 13/31 (41%), Positives = 20/31 (64%)
Query: 106 EDEEEESELSVSELKEQRRQEKEKKEREALE 136
E+EEEE E E +E+ +E+E +E +LE
Sbjct: 867 EEEEEEEEEEEEEEEEEEEEEEENEEPLSLE 897
Score = 27.3 bits (60), Expect = 8.3
Identities = 16/73 (21%), Positives = 29/73 (39%)
Query: 106 EDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEETD 165
E++E E + + E E+E ++ + + E+ +G G D+EEE +
Sbjct: 809 AGEKDEHEGQSETQADDTEVKDETGEQELNAENQGEAKQDEKGVDGGGGSDGGDSEEEEE 868
Query: 166 LSENPYASTNNEE 178
E EE
Sbjct: 869 EEEEEEEEEEEEE 881
Score = 26.9 bits (59), Expect = 10.0
Identities = 26/110 (23%), Positives = 40/110 (36%), Gaps = 14/110 (12%)
Query: 102 QGPSEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEE---------EDEGI 152
+ E E + S E+ +R+ E+E E E K + + +TE E EG
Sbjct: 668 EQEGETETKGENESEGEIPAERKGEQEG-EGEIEAKEADHKGETEAEEVEHEGETEAEGT 726
Query: 153 SW----GMGDDAEEETDLSENPYASTNNEELYLDDPKKTLRGWFDREGKG 198
G++ EE D E + E D + G + EGK
Sbjct: 727 EDEGEIETGEEGEEVEDEGEGEAEGKHEVETEGDRKETEHEGETEAEGKE 776
>gnl|CDD|218177 pfam04615, Utp14, Utp14 protein. This protein is found to be part
of a large ribonucleoprotein complex containing the U3
snoRNA. Depletion of the Utp proteins impedes production
of the 18S rRNA, indicating that they are part of the
active pre-rRNA processing complex. This large RNP
complex has been termed the small subunit (SSU)
processome.
Length = 728
Score = 31.2 bits (71), Expect = 0.36
Identities = 23/78 (29%), Positives = 33/78 (42%), Gaps = 2/78 (2%)
Query: 103 GPSEDE-EEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDE-GISWGMGDDA 160
GP E E ES+ E K + +++KE E E LE E + + S +
Sbjct: 426 GPENGEKEAESKKLKKENKNEFKEKKESDEEEELEDEEEAKVEKVANKLLKRSEKAQKEE 485
Query: 161 EEETDLSENPYASTNNEE 178
EEE ENP+ T +
Sbjct: 486 EEEELDEENPWLKTTSSV 503
Score = 28.1 bits (63), Expect = 4.3
Identities = 15/82 (18%), Positives = 25/82 (30%), Gaps = 5/82 (6%)
Query: 106 EDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEETD 165
E+ +EE S+ RR+ + + E ++ E E + EEE
Sbjct: 405 EESDEEENEEPSKKNVGRRKFGPENGEKEAESKKLKKENKNEFKEKK-----ESDEEEEL 459
Query: 166 LSENPYASTNNEELYLDDPKKT 187
E L +K
Sbjct: 460 EDEEEAKVEKVANKLLKRSEKA 481
>gnl|CDD|218311 pfam04888, SseC, Secretion system effector C (SseC) like family.
SseC is a secreted protein that forms a complex together
with SecB and SecD on the surface of Salmonella. All
these proteins are secreted by the type III secretion
system. Many mucosal pathogens use type III secretion
systems for the injection of effector proteins into
target cells. SecB, SseC and SecD are inserted into the
target cell membrane. where they form a small pore or
translocon. In addition to SseC, this family includes
the bacterial secreted proteins PopB, PepB, YopB and
EspD which are thought to be directly involved in pore
formation, and type III secretion system translocon.
Length = 303
Score = 30.9 bits (70), Expect = 0.40
Identities = 7/42 (16%), Positives = 28/42 (66%), Gaps = 2/42 (4%)
Query: 105 SEDEEEESELSVSELKE--QRRQEKEKKEREALEKSLEQEAK 144
S+ E++++ + +L+ ++++K ++ +E ++K++E+ +
Sbjct: 10 SKLAEKQAKSKLQQLERARDKQEKKAEEYQEQIKKAIEKAEE 51
>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 = 31.2 bits (70), Expect = 0.41
Identities = 21/73 (28%), Positives = 40/73 (54%), Gaps = 8/73 (10%)
Query: 114 LSVSELKEQRRQEKEKKEREALEKSL-EQEAKTEEEDEGISWGMGDDAEEETDLSENPYA 172
L+ S+L ++R + EK +REA +K+ E+E + E+E E + E E + A
Sbjct: 572 LASSKLAKKREEAVEKAKREAEQKAREEREREKEKEKE-------REREREREAERAAKA 624
Query: 173 STNNEELYLDDPK 185
S+++ E + +P+
Sbjct: 625 SSSSHESRMSEPQ 637
Score = 27.3 bits (60), Expect = 7.0
Identities = 19/80 (23%), Positives = 35/80 (43%), Gaps = 6/80 (7%)
Query: 109 EEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEETDLSE 168
EE E + E +++ R+E+E+ EK E+E + E E E + E+ +SE
Sbjct: 582 EEAVEKAKREAEQKAREERER------EKEKEKEREREREREAERAAKASSSSHESRMSE 635
Query: 169 NPYASTNNEELYLDDPKKTL 188
+ + + P T+
Sbjct: 636 PQLSGPAHMRPSFEPPPTTI 655
>gnl|CDD|217829 pfam03985, Paf1, Paf1. Members of this family are components of
the RNA polymerase II associated Paf1 complex. The Paf1
complex functions during the elongation phase of
transcription in conjunction with Spt4-Spt5 and
Spt16-Pob3i.
Length = 431
Score = 30.9 bits (70), Expect = 0.46
Identities = 11/60 (18%), Positives = 27/60 (45%)
Query: 106 EDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEETD 165
EDE+EE E E +E+ ++ E++ ++ E + + D ++ +++
Sbjct: 372 EDEDEEEEQRSDEHEEEEGEDSEEEGSQSREDGSSESSSDVGSDSESKADKESASDSDSE 431
>gnl|CDD|220369 pfam09731, Mitofilin, Mitochondrial inner membrane protein.
Mitofilin controls mitochondrial cristae morphology.
Mitofilin is enriched in the narrow space between the
inner boundary and the outer membranes, where it forms a
homotypic interaction and assembles into a large
multimeric protein complex. The first 78 amino acids
contain a typical amino-terminal-cleavable mitochondrial
presequence rich in positive-charged and hydroxylated
residues and a membrane anchor domain. In addition, it
has three centrally located coiled coil domains.
Length = 493
Score = 30.8 bits (70), Expect = 0.46
Identities = 13/42 (30%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 105 SEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTE 146
E+ E + L++Q R E E+ E+E L K E++ + E
Sbjct: 206 EEELLARLESKEAALEKQLRLEFER-EKEELRKKYEEKLRQE 246
>gnl|CDD|220383 pfam09756, DDRGK, DDRGK domain. This is a family of proteins of
approximately 300 residues, found in plants and
vertebrates. They contain a highly conserved DDRGK
motif.
Length = 189
Score = 30.4 bits (69), Expect = 0.49
Identities = 18/59 (30%), Positives = 29/59 (49%), Gaps = 3/59 (5%)
Query: 106 EDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEET 164
E+ EEE E E + + R+E+ +KE+E EK ++ E+EG D+ E
Sbjct: 46 EELEEEREKKKEEEERKEREEQARKEQEEYEK---LKSSFVVEEEGTDKLSADEESNEL 101
>gnl|CDD|221466 pfam12220, U1snRNP70_N, U1 small nuclear ribonucleoprotein of 70kDa
MW N terminal. This domain is found in eukaryotes. This
domain is about 90 amino acids in length. This domain is
found associated with pfam00076. This domain is part of
U1 snRNP, which is the pre-mRNA binding protein of the
penta-snRNP spliceosome complex. It extends over a
distance of 180 A from its RNA binding domain, wraps
around the core domain of U1 snRNP consisting of the
seven Sm proteins and finally contacts U1-C, which is
crucial for 5'-splice-site recognition.
Length = 94
Score = 29.2 bits (66), Expect = 0.50
Identities = 12/40 (30%), Positives = 26/40 (65%)
Query: 106 EDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKT 145
+D ++E +E ++R+ ++++++E LEK LE+E K
Sbjct: 48 KDYKDEPPPEPTETWLEKREREKREKKEKLEKKLEEELKE 87
>gnl|CDD|227278 COG4942, COG4942, Membrane-bound metallopeptidase [Cell division
and chromosome partitioning].
Length = 420
Score = 30.5 bits (69), Expect = 0.55
Identities = 12/49 (24%), Positives = 21/49 (42%), Gaps = 7/49 (14%)
Query: 106 EDEEEESELSVSELKEQR------RQEKEKKEREALEKSLEQEAKTEEE 148
E+ E +SE + Q+ +E++K + L L + K EE
Sbjct: 181 AAEQAELTTLLSEQRAQQAKLAQLLEERKKTLAQ-LNSELSADQKKLEE 228
>gnl|CDD|234767 PRK00448, polC, DNA polymerase III PolC; Validated.
Length = 1437
Score = 30.6 bits (70), Expect = 0.57
Identities = 12/43 (27%), Positives = 27/43 (62%)
Query: 108 EEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDE 150
E ++S+ + + + Q+ +E EK +EALE + EA+ +++ +
Sbjct: 164 EIDDSKEELEKFEAQKEEEDEKLAKEALEAMKKLEAEKKKQSK 206
>gnl|CDD|218538 pfam05285, SDA1, SDA1. This family consists of several SDA1
protein homologues. SDA1 is a Saccharomyces cerevisiae
protein which is involved in the control of the actin
cytoskeleton. The protein is essential for cell
viability and is localised in the nucleus.
Length = 317
Score = 30.4 bits (69), Expect = 0.58
Identities = 14/44 (31%), Positives = 24/44 (54%)
Query: 105 SEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEE 148
S D E+E E + K + ++E E + E + E+EA+ E+E
Sbjct: 129 SSDSEDEEEKDEAAKKAKEDSDEELSEEDEEEAAEEEEAEAEKE 172
Score = 28.5 bits (64), Expect = 2.7
Identities = 15/37 (40%), Positives = 23/37 (62%)
Query: 133 EALEKSLEQEAKTEEEDEGISWGMGDDAEEETDLSEN 169
E LEK E+E K +E ++G+ DD EEE ++ E+
Sbjct: 73 ELLEKWKEEERKKKEAEQGLESDDDDDEEEEWEVEED 109
Score = 27.7 bits (62), Expect = 4.8
Identities = 17/46 (36%), Positives = 23/46 (50%), Gaps = 1/46 (2%)
Query: 105 SEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDE 150
D+E ES S E +E+ K+ KE E S E E + EE+E
Sbjct: 122 ESDKEIESSDSEDE-EEKDEAAKKAKEDSDEELSEEDEEEAAEEEE 166
>gnl|CDD|220371 pfam09736, Bud13, Pre-mRNA-splicing factor of RES complex. This
entry is characterized by proteins with alternating
conserved and low-complexity regions. Bud13 together
with Snu17p and a newly identified factor,
Pml1p/Ylr016c, form a novel trimeric complex. called The
RES complex, pre-mRNA retention and splicing complex.
Subunits of this complex are not essential for viability
of yeasts but they are required for efficient splicing
in vitro and in vivo. Furthermore, inactivation of this
complex causes pre-mRNA leakage from the nucleus. Bud13
contains a unique, phylogenetically conserved C-terminal
region of unknown function.
Length = 141
Score = 29.6 bits (67), Expect = 0.60
Identities = 21/75 (28%), Positives = 31/75 (41%), Gaps = 11/75 (14%)
Query: 123 RRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDD--------AEEETDLSENPYAST 174
R + E+K E + E+E K E+E E WG G EE P A
Sbjct: 10 RIIDIEEKREEKEREKEEKERKEEKEKE---WGKGLVQKEEREKRLEELEKAKNKPLARY 66
Query: 175 NNEELYLDDPKKTLR 189
++E Y ++ K+ R
Sbjct: 67 ADDEDYDEELKEQER 81
>gnl|CDD|177296 PHA00728, PHA00728, hypothetical protein.
Length = 151
Score = 29.9 bits (67), Expect = 0.60
Identities = 20/61 (32%), Positives = 28/61 (45%)
Query: 128 EKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEETDLSENPYASTNNEELYLDDPKKT 187
+ E E L+K E+ K E E + + +EE ENPY TN L +PK T
Sbjct: 3 KLTEVEQLKKENEELKKKLAELEALMNNESAEEDEELQEIENPYTVTNRAISELVEPKDT 62
Query: 188 L 188
+
Sbjct: 63 M 63
>gnl|CDD|220413 pfam09805, Nop25, Nucleolar protein 12 (25kDa). Members of this
family of proteins are part of the yeast nuclear pore
complex-associated pre-60S ribosomal subunit. The family
functions as a highly conserved exonuclease that is
required for the 5'-end maturation of 5.8S and 25S
rRNAs, demonstrating that 5'-end processing also has a
redundant pathway. Nop25 binds late pre-60S ribosomes,
accompanying them from the nucleolus to the nuclear
periphery; and there is evidence for both physical and
functional links between late 60S subunit processing and
export.
Length = 134
Score = 29.2 bits (66), Expect = 0.69
Identities = 21/72 (29%), Positives = 38/72 (52%), Gaps = 4/72 (5%)
Query: 118 ELKEQRRQ--EKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEETDLSENPYASTN 175
++E+R+Q EK+ KER+ K LE+E ++E++ + D ++E + P +
Sbjct: 56 RIREERKQELEKQLKERKEALKLLEEEN--DDEEDAETEDTEDVEDDEWEGFPEPTVTDY 113
Query: 176 NEELYLDDPKKT 187
EE +D KT
Sbjct: 114 EEEYIDEDKYKT 125
>gnl|CDD|205436 pfam13256, DUF4047, Domain of unknown function (DUF4047). This
presumed domain is functionally uncharacterized. This
domain family is found in bacteria, and is approximately
130 amino acids in length. There are two conserved
sequence motifs: TEA and FPKT.
Length = 123
Score = 29.1 bits (65), Expect = 0.70
Identities = 15/51 (29%), Positives = 27/51 (52%)
Query: 99 FILQGPSEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEED 149
IL ++E S+ L+++ KE++E+ A+E+ Q+ TE ED
Sbjct: 42 VILHEYEGMKKEVKATSIEVLEQRLVSWKEQREKVAVEREALQKIYTEIED 92
>gnl|CDD|225368 COG2811, NtpF, Archaeal/vacuolar-type H+-ATPase subunit H [Energy
production and conversion].
Length = 108
Score = 28.9 bits (65), Expect = 0.76
Identities = 17/55 (30%), Positives = 34/55 (61%)
Query: 111 ESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEETD 165
++E+S E E+ ++E E+ +EA E++ E + EEE E ++ + ++A EE +
Sbjct: 14 KAEISADEEIEEAKEEAEQIIKEAREEAREIIEEAEEEAEKLAQEILEEAREEAE 68
>gnl|CDD|222581 pfam14181, YqfQ, YqfQ-like protein. The YqfQ-like protein family
includes the B. subtilis YqfQ protein, also known as
VrrA, which is functionally uncharacterized. This family
of proteins is found in bacteria. Proteins in this
family are typically between 146 and 237 amino acids in
length. There are two conserved sequence motifs: QYGP
and PKLY.
Length = 155
Score = 29.3 bits (66), Expect = 0.80
Identities = 13/44 (29%), Positives = 20/44 (45%)
Query: 104 PSEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEE 147
+EE E + E + + KEKK+RE + E+E E
Sbjct: 99 EETEEESTDETEQEDPPETKTESKEKKKREVPKPKTEKEKPKTE 142
Score = 28.6 bits (64), Expect = 1.4
Identities = 16/47 (34%), Positives = 25/47 (53%)
Query: 104 PSEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDE 150
S+DEEEE+E ++ EQ + K E + +K + KTE+E
Sbjct: 93 SSDDEEEETEEESTDETEQEDPPETKTESKEKKKREVPKPKTEKEKP 139
>gnl|CDD|148051 pfam06213, CobT, Cobalamin biosynthesis protein CobT. This family
consists of several bacterial cobalamin biosynthesis
(CobT) proteins. CobT is involved in the transformation
of precorrin-3 into cobyrinic acid.
Length = 282
Score = 29.8 bits (67), Expect = 0.86
Identities = 13/51 (25%), Positives = 24/51 (47%)
Query: 121 EQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEETDLSENPY 171
E + E E E K E + + EEE+ G S + +D++ ++ E+
Sbjct: 215 EPESADSEDNEDEDDPKEDEDDDQGEEEESGSSDSLSEDSDASSEEMESGE 265
>gnl|CDD|152492 pfam12057, DUF3538, Domain of unknown function (DUF3538). This
presumed domain is functionally uncharacterized. This
domain is found in eukaryotes. This domain is about 120
amino acids in length. This domain is found associated
with pfam00240. This domain has a conserved SDL
sequence motif.
Length = 118
Score = 29.0 bits (65), Expect = 0.87
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 32 LHPTVSRYHAILQYKSTFDEKD 53
L P + RY+ ILQ TFDE D
Sbjct: 15 LQPFLQRYYDILQNDPTFDEND 36
>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein
TolA; Provisional.
Length = 387
Score = 29.8 bits (67), Expect = 0.91
Identities = 13/43 (30%), Positives = 22/43 (51%), Gaps = 5/43 (11%)
Query: 108 EEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDE 150
+++ EL + EQ R ++ +KER A QE K + E+
Sbjct: 86 QQQAEELQQKQAAEQERLKQLEKERLA-----AQEQKKQAEEA 123
Score = 29.0 bits (65), Expect = 1.8
Identities = 10/43 (23%), Positives = 22/43 (51%)
Query: 106 EDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEE 148
+ E+ L E + QE++K+ EA +++ ++ + EE
Sbjct: 95 KQAAEQERLKQLEKERLAAQEQKKQAEEAAKQAALKQKQAEEA 137
Score = 28.6 bits (64), Expect = 2.5
Identities = 10/45 (22%), Positives = 21/45 (46%)
Query: 106 EDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDE 150
+ EE + +E + ++ EKE+ + +K E+ AK +
Sbjct: 87 QQAEELQQKQAAEQERLKQLEKERLAAQEQKKQAEEAAKQAALKQ 131
Score = 27.1 bits (60), Expect = 6.6
Identities = 10/41 (24%), Positives = 15/41 (36%)
Query: 110 EESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDE 150
E + ++ E +KK K EAK + E E
Sbjct: 150 EAEAKRAAAAAKKAAAEAKKKAEAEAAKKAAAEAKKKAEAE 190
>gnl|CDD|219978 pfam08701, GN3L_Grn1, GNL3L/Grn1 putative GTPase. Grn1 (yeast) and
GNL3L (human) are putative GTPases which are required
for growth and play a role in processing of nucleolar
pre-rRNA. This family contains a potential nuclear
localisation signal.
Length = 80
Score = 28.0 bits (63), Expect = 0.96
Identities = 8/31 (25%), Positives = 19/31 (61%)
Query: 118 ELKEQRRQEKEKKEREALEKSLEQEAKTEEE 148
E++E++R+++E+KER + E+ +
Sbjct: 50 EIEEKKRKQEEEKERRKEARKAERAEARKRG 80
>gnl|CDD|130712 TIGR01651, CobT, cobaltochelatase, CobT subunit. This model
describes Pseudomonas denitrificans CobT gene product,
which is a cobalt chelatase subunit that functions in
cobalamin biosynthesis. Cobalamin (vitamin B12) can be
synthesized via several pathways, including an aerobic
pathway (found in Pseudomonas denitrificans) and an
anaerobic pathway (found in P. shermanii and Salmonella
typhimurium). These pathways differ in the point of
cobalt insertion during corrin ring formation. There are
apparently a number of variations on these two pathways,
where the major differences seem to be concerned with
the process of ring contraction. Confusion regarding the
functions of enzymes found in the aerobic vs. anaerobic
pathways has arisen because nonhomologous genes in these
different pathways were given the same gene symbols.
Thus, cobT in the aerobic pathway (P. denitrificans) is
not a homolog of cobT in the anaerobic pathway (S.
typhimurium). It should be noted that E. coli
synthesizes cobalamin only when it is supplied with the
precursor cobinamide, which is a complex intermediate.
Additionally, all E. coli cobalamin synthesis genes
(cobU, cobS and cobT) were named after their Salmonella
typhimurium homologs which function in the anaerobic
cobalamin synthesis pathway. This model describes the
aerobic cobalamin pathway Pseudomonas denitrificans CobT
gene product, which is a cobalt chelatase subunit, with
a MW ~70 kDa. The aerobic pathway cobalt chelatase is a
heterotrimeric, ATP-dependent enzyme that catalyzes
cobalt insertion during cobalamin biosynthesis. The
other two subunits are the P. denitrificans CobS
(TIGR01650) and CobN (pfam02514 CobN/Magnesium
Chelatase) proteins. To avoid potential confusion with
the nonhomologous Salmonella typhimurium/E.coli cobT
gene product, the P. denitrificans gene symbol is not
used in the name of this model [Biosynthesis of
cofactors, prosthetic groups, and carriers, Heme,
porphyrin, and cobalamin].
Length = 600
Score = 29.9 bits (67), Expect = 0.98
Identities = 23/90 (25%), Positives = 35/90 (38%), Gaps = 14/90 (15%)
Query: 104 PSEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEE 163
SEDEE+ + +E EQ Q + + E + E EA E + G + D ++
Sbjct: 208 ESEDEEDGDDDQPTE-NEQEEQGEGEGEGQEGSAPQESEATDRESESGEEEMVQSDQDDL 266
Query: 164 TDLSE-------------NPYASTNNEELY 180
D S+ P+ ST E Y
Sbjct: 267 PDESDDDSETPGEGARPARPFTSTGGEPDY 296
Score = 28.0 bits (62), Expect = 4.2
Identities = 19/99 (19%), Positives = 35/99 (35%), Gaps = 6/99 (6%)
Query: 103 GPSEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEED------EGISWGM 156
G + E+E + + E ++E+ + E E E S QE++ + + E +
Sbjct: 204 GDDTESEDEEDGDDDQPTENEQEEQGEGEGEGQEGSAPQESEATDRESESGEEEMVQSDQ 263
Query: 157 GDDAEEETDLSENPYASTNNEELYLDDPKKTLRGWFDRE 195
D +E D SE P + + F
Sbjct: 264 DDLPDESDDDSETPGEGARPARPFTSTGGEPDYKVFTTA 302
>gnl|CDD|233137 TIGR00811, sit, silicon transporter. Marine diatoms such as
Cylindrotheca fusiformis encode at least six silicon
transport protein homologues which exhibit similar size
and topology. One characterized member of the family
(Sit1) functions in the energy-dependent uptake of
either Silicic acid [Si(OH)4] or Silicate [Si(OH)3O-] by
a Na+ symport mechanism. The system is found in marine
diatoms which make their "glass houses" out of silicon
[Transport and binding proteins, Other].
Length = 545
Score = 29.9 bits (67), Expect = 1.1
Identities = 24/103 (23%), Positives = 39/103 (37%), Gaps = 14/103 (13%)
Query: 84 IHVGHMLSFGSSTRFFILQGPSEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEA 143
+H G + G++ +L P+ EE + LS E RR+ K RE + + A
Sbjct: 448 VHAGREFTMGTN----VLNDPANWEEAIANLSALETFSVRRERMLKNIREL--REMINNA 501
Query: 144 KTEEEDEGISWGMGDDAEEETDLSENPYASTNNEELYLDDPKK 186
++EE + + + L N EE KK
Sbjct: 502 ISDEEKTTFEAALAIEVKALDKL--------NAEEEEEATNKK 536
>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional.
Length = 2084
Score = 30.1 bits (67), Expect = 1.1
Identities = 13/43 (30%), Positives = 24/43 (55%)
Query: 106 EDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEE 148
E ++ E E + +E ++ E++KK+ E +K+ E E K E
Sbjct: 1651 ELKKAEEENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEA 1693
Score = 29.7 bits (66), Expect = 1.4
Identities = 18/68 (26%), Positives = 35/68 (51%)
Query: 101 LQGPSEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDA 160
L+ E++++ +L E +E+++ E+ KK E + +EAK EED+ +
Sbjct: 1625 LKKAEEEKKKVEQLKKKEAEEKKKAEELKKAEEENKIKAAEEAKKAEEDKKKAEEAKKAE 1684
Query: 161 EEETDLSE 168
E+E +E
Sbjct: 1685 EDEKKAAE 1692
Score = 29.3 bits (65), Expect = 1.7
Identities = 19/68 (27%), Positives = 36/68 (52%)
Query: 101 LQGPSEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDA 160
+ EDE++ +E E +E ++ E+ KK+ +K E+ K EEE++ + +A
Sbjct: 1680 AKKAEEDEKKAAEALKKEAEEAKKAEELKKKEAEEKKKAEELKKAEEENKIKAEEAKKEA 1739
Query: 161 EEETDLSE 168
EE+ +E
Sbjct: 1740 EEDKKKAE 1747
Score = 28.2 bits (62), Expect = 4.3
Identities = 16/60 (26%), Positives = 29/60 (48%), Gaps = 5/60 (8%)
Query: 108 EEEESELSVSELK-----EQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEE 162
EEE+++ +E ++++ E+ KK E +K+ E K EE + +AEE
Sbjct: 1655 AEEENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEALKKEAEEAKKAEELKKKEAEE 1714
Score = 27.8 bits (61), Expect = 4.7
Identities = 20/91 (21%), Positives = 39/91 (42%)
Query: 105 SEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEET 164
+E+ ++ EL E +E+++ E+ KK E + E+ K EED+ + D EE+
Sbjct: 1698 AEEAKKAEELKKKEAEEKKKAEELKKAEEENKIKAEEAKKEAEEDKKKAEEAKKDEEEKK 1757
Query: 165 DLSENPYASTNNEELYLDDPKKTLRGWFDRE 195
++ E + + + D E
Sbjct: 1758 KIAHLKKEEEKKAEEIRKEKEAVIEEELDEE 1788
>gnl|CDD|237035 PRK12280, rplW, 50S ribosomal protein L23; Reviewed.
Length = 158
Score = 29.0 bits (65), Expect = 1.2
Identities = 9/43 (20%), Positives = 24/43 (55%)
Query: 106 EDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEE 148
E+ E+E + E +E+ + +K+++E EK + ++ ++
Sbjct: 93 EESEKEQKEVSKETEEKEAIKAKKEKKEKKEKKVAEKLAKKKS 135
>gnl|CDD|221275 pfam11861, DUF3381, Domain of unknown function (DUF3381). This
domain is functionally uncharacterized. This domain is
found in eukaryotes. This presumed domain is typically
between 156 to 174 amino acids in length. This domain is
found associated with pfam07780, pfam01728.
Length = 154
Score = 28.8 bits (65), Expect = 1.2
Identities = 11/32 (34%), Positives = 21/32 (65%)
Query: 104 PSEDEEEESELSVSELKEQRRQEKEKKEREAL 135
E +E E +++LK ++R+E E+K++E L
Sbjct: 116 EEEQIDELLEKELAKLKREKRRENERKQKEIL 147
Score = 27.6 bits (62), Expect = 2.8
Identities = 10/41 (24%), Positives = 22/41 (53%)
Query: 106 EDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTE 146
E EE + E + EL E+ + ++++R E+ ++ K +
Sbjct: 110 EVEELDEEEQIDELLEKELAKLKREKRRENERKQKEILKEQ 150
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 29.5 bits (67), Expect = 1.4
Identities = 17/82 (20%), Positives = 38/82 (46%), Gaps = 7/82 (8%)
Query: 107 DEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEETDL 166
++ ++ K ++++E+EKKE++ + +++ + EEE++ + EEE +
Sbjct: 405 SKKATKKIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEK-------EKKEEEKEE 457
Query: 167 SENPYASTNNEELYLDDPKKTL 188
E EE + TL
Sbjct: 458 EEEEAEEEKEEEEEKKKKQATL 479
>gnl|CDD|235334 PRK05035, PRK05035, electron transport complex protein RnfC;
Provisional.
Length = 695
Score = 29.5 bits (67), Expect = 1.5
Identities = 14/49 (28%), Positives = 24/49 (48%), Gaps = 9/49 (18%)
Query: 106 EDEEEESELSVSELKE-----QRRQEKEKKEREALEKSLEQEAKTEEED 149
E E++++E + K Q R E+EK REA K + +++D
Sbjct: 442 EQEKKKAEEA----KARFEARQARLEREKAAREARHKKAAEARAAKDKD 486
Score = 28.0 bits (63), Expect = 4.3
Identities = 15/85 (17%), Positives = 28/85 (32%), Gaps = 4/85 (4%)
Query: 106 EDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDD----AE 161
E E+ E + E R + + AL + ++A + + D+ A
Sbjct: 463 EREKAAREARHKKAAEARAAKDKDAVAAALARVKAKKAAATQPIVIKAGARPDNSAVIAA 522
Query: 162 EETDLSENPYASTNNEELYLDDPKK 186
E ++ + DPKK
Sbjct: 523 REARKAQARARQAEKQAAAAADPKK 547
>gnl|CDD|216289 pfam01080, Presenilin, Presenilin. Mutations in presenilin-1 are a
major cause of early onset Alzheimer's disease. It has
been found that presenilin-1 binds to beta-catenin
in-vivo. This family also contains SPE proteins from
C.elegans.
Length = 403
Score = 29.4 bits (66), Expect = 1.5
Identities = 18/55 (32%), Positives = 26/55 (47%), Gaps = 1/55 (1%)
Query: 105 SEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDE-GISWGMGD 158
S+DE + SE +E ++ E SL K EEE+E G+ G+GD
Sbjct: 278 SDDESDSSETESQSDSSLAPEEDAAEQPEVQSNSLPSNEKREEEEERGVKLGLGD 332
>gnl|CDD|237744 PRK14521, rpsP, 30S ribosomal protein S16; Provisional.
Length = 186
Score = 28.6 bits (64), Expect = 1.5
Identities = 13/64 (20%), Positives = 25/64 (39%)
Query: 115 SVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEETDLSENPYAST 174
+S+ K+ ++ + E++ E E A+ + + A EE + E P
Sbjct: 120 KLSKAKKAAKKAALEAEKKVNEARAEAVAEKKAAEAAAVAAEEAAAAEEEEAEEAPAEEA 179
Query: 175 NNEE 178
EE
Sbjct: 180 PAEE 183
>gnl|CDD|183610 PRK12585, PRK12585, putative monovalent cation/H+ antiporter
subunit G; Reviewed.
Length = 197
Score = 28.9 bits (64), Expect = 1.6
Identities = 17/55 (30%), Positives = 30/55 (54%)
Query: 108 EEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEE 162
E E E + E ++Q QE+E++E+ E+S + E + E+DE + D E+
Sbjct: 143 EWERREEKIDEREDQEEQEREREEQTIEEQSDDSEHEIIEQDESETESDDDKTEK 197
Score = 28.1 bits (62), Expect = 3.0
Identities = 20/60 (33%), Positives = 36/60 (60%), Gaps = 4/60 (6%)
Query: 106 EDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEETD 165
E+ EE E E K R+++E++ERE E+++E+++ + E E I D++E E+D
Sbjct: 136 EELEERMEWERREEKIDEREDQEEQEREREEQTIEEQSD-DSEHEIIE---QDESETESD 191
Score = 27.0 bits (59), Expect = 6.0
Identities = 13/29 (44%), Positives = 20/29 (68%)
Query: 122 QRRQEKEKKEREALEKSLEQEAKTEEEDE 150
Q + EK ++ERE LE+ +E E + E+ DE
Sbjct: 125 QEQIEKARQEREELEERMEWERREEKIDE 153
>gnl|CDD|234352 TIGR03779, Bac_Flav_CT_M, Bacteroides conjugative transposon TraM
protein. Members of this protein family are designated
TraM and are found in a proposed transfer region of a
class of conjugative transposon found in the Bacteroides
lineage [Cellular processes, DNA transformation].
Length = 410
Score = 28.9 bits (65), Expect = 1.8
Identities = 16/50 (32%), Positives = 23/50 (46%), Gaps = 4/50 (8%)
Query: 99 FILQGPSEDEEEES---ELSVSELKEQRRQEKEKKEREAL-EKSLEQEAK 144
F +++E+E E S L + E +E+ AL EKS E AK
Sbjct: 136 FYEYPKTDEEKELLREVEELESRLATEPSPAPELEEQLALMEKSYELAAK 185
>gnl|CDD|237869 PRK14962, PRK14962, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 472
Score = 29.0 bits (65), Expect = 1.8
Identities = 17/65 (26%), Positives = 35/65 (53%), Gaps = 2/65 (3%)
Query: 83 RIHVGHMLSFGSSTRFFILQGPSEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQE 142
+ V + S +TRF D EE+++ S + KE++++E + KE + ++ +E E
Sbjct: 319 KRLVCKLGSASIATRFSSPNVQENDVEEKNDNSNVQQKEKKKEESKAKEEK--QEDIEFE 376
Query: 143 AKTEE 147
+ +E
Sbjct: 377 KRFKE 381
>gnl|CDD|240402 PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Provisional.
Length = 651
Score = 29.2 bits (66), Expect = 1.8
Identities = 11/31 (35%), Positives = 18/31 (58%)
Query: 120 KEQRRQEKEKKEREALEKSLEQEAKTEEEDE 150
KE++ KE+K L+K E++ K E+ E
Sbjct: 557 KEEKEALKEQKRLRKLKKQEEKKKKELEKLE 587
Score = 28.1 bits (63), Expect = 4.3
Identities = 17/37 (45%), Positives = 22/37 (59%), Gaps = 4/37 (10%)
Query: 108 EEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAK 144
E+EE E LKEQ+R K KK+ E +K LE+ K
Sbjct: 556 EKEEKE----ALKEQKRLRKLKKQEEKKKKELEKLEK 588
Score = 26.9 bits (60), Expect = 8.4
Identities = 18/81 (22%), Positives = 33/81 (40%), Gaps = 13/81 (16%)
Query: 106 EDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEETD 165
ED+ + + + KE+ ++EKE+KE +K L + K EE+ + + E+
Sbjct: 536 EDKPDGPSVWKLDDKEELQREKEEKEALKEQKRLRKLKKQEEKKK-------KELEKLEK 588
Query: 166 LSENPYASTNNEELYLDDPKK 186
P E + K
Sbjct: 589 AKIPP------AEFFKRQEDK 603
>gnl|CDD|220271 pfam09507, CDC27, DNA polymerase subunit Cdc27. This protein forms
the C subunit of DNA polymerase delta. It carries the
essential residues for binding to the Pol1 subunit of
polymerase alpha, from residues 293-332, which are
characterized by the motif D--G--VT, referred to as the
DPIM motif. The first 160 residues of the protein form
the minimal domain for binding to the B subunit, Cdc1,
of polymerase delta, the final 10 C-terminal residues,
362-372, being the DNA sliding clamp, PCNA, binding
motif.
Length = 427
Score = 29.0 bits (65), Expect = 2.0
Identities = 19/78 (24%), Positives = 32/78 (41%), Gaps = 3/78 (3%)
Query: 104 PSEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQ-EAKTEEEDEGISWGMGDDAEE 162
D E E + ++ E E K S E+ E K +E+ + + M D+ E+
Sbjct: 249 GKRDVILEDESAEPTGLDEDEDEDEPKPSGERSDSEEETEEKEKEKRKRLKKMMEDEDED 308
Query: 163 E--TDLSENPYASTNNEE 178
E + E+P +EE
Sbjct: 309 EEMEIVPESPVEEEESEE 326
Score = 27.1 bits (60), Expect = 7.2
Identities = 23/70 (32%), Positives = 34/70 (48%), Gaps = 6/70 (8%)
Query: 103 GPSEDEEEESELSVSEL--KEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDA 160
G EDE+E+ E E+ +EKEK++R+ L+K +E E+EDE +
Sbjct: 264 GLDEDEDEDEPKPSGERSDSEEETEEKEKEKRKRLKKMME----DEDEDEEMEIVPESPV 319
Query: 161 EEETDLSENP 170
EEE P
Sbjct: 320 EEEESEEPEP 329
>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell
envelope biogenesis, outer membrane].
Length = 387
Score = 28.8 bits (64), Expect = 2.0
Identities = 10/41 (24%), Positives = 24/41 (58%)
Query: 108 EEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEE 148
+ +E + E ++Q + E++++E +A + + EQ+ K E
Sbjct: 112 KAQEQQKQAEEAEKQAQLEQKQQEEQARKAAAEQKKKAEAA 152
Score = 27.6 bits (61), Expect = 4.5
Identities = 14/51 (27%), Positives = 27/51 (52%), Gaps = 5/51 (9%)
Query: 101 LQGPSEDEEEESELSVSELKEQRRQEKEK-KEREALEKSLEQEAKTEEEDE 150
L+ E+E + +L+++R + +E+ K+ E EK + E K +EE
Sbjct: 92 LKPKQAAEQER----LKQLEKERLKAQEQQKQAEEAEKQAQLEQKQQEEQA 138
>gnl|CDD|227446 COG5116, RPN2, 26S proteasome regulatory complex component
[Posttranslational modification, protein turnover,
chaperones].
Length = 926
Score = 29.1 bits (65), Expect = 2.1
Identities = 13/68 (19%), Positives = 28/68 (41%), Gaps = 3/68 (4%)
Query: 104 PSEDEEEESELSV--SELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAE 161
S + +V + +K R +++ KE+ +K ++ E+ + E EG + E
Sbjct: 774 ASGKSVRKVNTAVLSTTIKAAARAKQKPKEKGPNDKEIKIESPSVET-EGERCTIKQREE 832
Query: 162 EETDLSEN 169
+ D
Sbjct: 833 KGIDAPAI 840
>gnl|CDD|227466 COG5137, COG5137, Histone chaperone involved in gene silencing
[Transcription / Chromatin structure and dynamics].
Length = 279
Score = 28.8 bits (64), Expect = 2.2
Identities = 18/58 (31%), Positives = 27/58 (46%)
Query: 106 EDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEE 163
EEEE E S+ + +E ++E E E S + E + E E I G++ E E
Sbjct: 187 GREEEEDEEVGSDSYGEGNRELNEEEEEEAEGSDDGEDVVDYEGERIDKKQGEEEEME 244
>gnl|CDD|178515 PLN02927, PLN02927, antheraxanthin epoxidase/zeaxanthin epoxidase.
Length = 668
Score = 28.9 bits (64), Expect = 2.2
Identities = 19/67 (28%), Positives = 29/67 (43%), Gaps = 13/67 (19%)
Query: 36 VSRYHAILQYKSTFDEKDPARGFYVYDLGSTHGTFLN-----RCKIKPKMYVRIHVGHML 90
VS+ HA + YK F++ DL S HGT++ R + P R ++
Sbjct: 581 VSKMHARVIYKDG--------AFFLMDLRSEHGTYVTDNEGRRYRATPNFPARFRSSDII 632
Query: 91 SFGSSTR 97
FGS +
Sbjct: 633 EFGSDKK 639
>gnl|CDD|219563 pfam07767, Nop53, Nop53 (60S ribosomal biogenesis). This nucleolar
family of proteins are involved in 60S ribosomal
biogenesis. They are specifically involved in the
processing beyond the 27S stage of 25S rRNA maturation.
This family contains sequences that bear similarity to
the glioma tumour suppressor candidate region gene 2
protein (p60). This protein has been found to interact
with herpes simplex type 1 regulatory proteins.
Length = 387
Score = 28.5 bits (64), Expect = 2.3
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 120 KEQRRQEKEKKEREALEKSLEQEAKTEEE 148
K QR +EK +KE E K +Q K +
Sbjct: 280 KAQRNKEKRRKELEREAKEEKQLKKKLAQ 308
Score = 27.7 bits (62), Expect = 4.5
Identities = 18/49 (36%), Positives = 28/49 (57%)
Query: 120 KEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEETDLSE 168
E++RQE E+ E + LEK + ++ +E EG+ DD EEE+D
Sbjct: 209 AEKKRQELERVEEKKLEKMAPEASRLDEMSEGLLEESDDDGEEESDDES 257
>gnl|CDD|184860 PRK14858, tatA, twin arginine translocase protein A; Provisional.
Length = 108
Score = 27.5 bits (61), Expect = 2.3
Identities = 11/34 (32%), Positives = 19/34 (55%), Gaps = 2/34 (5%)
Query: 118 ELKEQRRQEKEK--KEREALEKSLEQEAKTEEED 149
+ + + +EKEK K E +++ EAK EE+
Sbjct: 51 QEESRTAEEKEKAEKLAETKKEAEAPEAKAEEDQ 84
>gnl|CDD|179712 PRK04019, rplP0, acidic ribosomal protein P0; Validated.
Length = 330
Score = 28.7 bits (65), Expect = 2.4
Identities = 11/51 (21%), Positives = 24/51 (47%), Gaps = 3/51 (5%)
Query: 107 DEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMG 157
+++ + + E+ + Q +E E E E+E + E +E + G+G
Sbjct: 279 ADKDALDEELKEVLSAQAQAAAAEEEEEEE---EEEEEEEPSEEEAAAGLG 326
>gnl|CDD|216670 pfam01733, Nucleoside_tran, Nucleoside transporter. This is a
family of nucleoside transporters. In mammalian cells
nucleoside transporters transport nucleoside across the
plasma membrane and are essential for nucleotide
synthesis via the salvage pathways for cells that lack
their own de novo synthesis pathways. Also in this
family is mouse and human nucleolar protein HNP36, a
protein of unknown function; although it has been
hypothesised to be a plasma membrane nucleoside
transporter.
Length = 305
Score = 28.5 bits (64), Expect = 2.5
Identities = 12/49 (24%), Positives = 22/49 (44%), Gaps = 1/49 (2%)
Query: 114 LSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEE 162
+S++ LK+ R K + + E + E E EE G D+++
Sbjct: 78 ISLNVLKKLRFY-KYYWQLKERETNEELEQVDEESSGSNLNGTFDNSKP 125
>gnl|CDD|221756 pfam12757, DUF3812, Protein of unknown function (DUF3812). This is
a family of fungal proteins whose function is not known.
Length = 126
Score = 27.6 bits (62), Expect = 2.5
Identities = 11/30 (36%), Positives = 17/30 (56%)
Query: 121 EQRRQEKEKKEREALEKSLEQEAKTEEEDE 150
QR +++EKK E K +EAK E ++
Sbjct: 95 AQRARDEEKKLDEEEAKRQHEEAKEREREK 124
>gnl|CDD|221250 pfam11831, Myb_Cef, pre-mRNA splicing factor component. This
family is a region of the Myb-Related Cdc5p/Cef1
proteins, in fungi, and is part of the pre-mRNA splicing
factor complex.
Length = 363
Score = 28.5 bits (64), Expect = 2.5
Identities = 11/34 (32%), Positives = 19/34 (55%)
Query: 104 PSEDEEEESELSVSELKEQRRQEKEKKEREALEK 137
E+ EEE E ++ ++R +E KE+E L +
Sbjct: 156 EPEEMEEELEEDAADRDARKRAAEEAKEQEELRR 189
>gnl|CDD|217502 pfam03343, SART-1, SART-1 family. SART-1 is a protein involved in
cell cycle arrest and pre-mRNA splicing. It has been
shown to be a component of U4/U6 x U5 tri-snRNP complex
in human, Schizosaccharomyces pombe and Saccharomyces
cerevisiae. SART-1 is a known tumour antigen in a range
of cancers recognised by T cells.
Length = 603
Score = 28.6 bits (64), Expect = 2.6
Identities = 12/67 (17%), Positives = 30/67 (44%), Gaps = 4/67 (5%)
Query: 104 PSEDEEEESELSVSELKEQRRQEKEKKEREALE---KSLEQEAKTEEEDEGISWGMGDDA 160
P +E + K+++ + + K++RE L ++ + + GI +G+D
Sbjct: 27 PGSTKESRDAAAYENWKKRQEEAEAKRKREELREKIAKAREKRERNSKLGGIK-TLGEDD 85
Query: 161 EEETDLS 167
+++ D
Sbjct: 86 DDDDDTK 92
>gnl|CDD|218380 pfam05010, TACC, Transforming acidic coiled-coil-containing protein
(TACC). This family contains the proteins TACC 1, 2 and
3 the genes for which are found concentrated in the
centrosomes of eukaryotic and may play a conserved role
in organising centrosomal microtubules. The human TACC
proteins have been linked to cancer and TACC2 has been
identified as a possible tumour suppressor (AZU-1). The
functional homologue (Alp7) in Schizosaccharomyces pombe
has been shown to be required for organisation of
bipolar spindles.
Length = 207
Score = 28.2 bits (63), Expect = 2.7
Identities = 13/44 (29%), Positives = 22/44 (50%)
Query: 105 SEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEE 148
E + S+ Q KE+ + ++LE++LEQ+ K EE
Sbjct: 150 EEIAQVRSKAKAETAALQASLRKEQMKVQSLEETLEQKNKENEE 193
>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682). The
members of this family are all hypothetical eukaryotic
proteins of unknown function. One member is described as
being an adipocyte-specific protein, but no evidence of
this was found.
Length = 322
Score = 28.4 bits (64), Expect = 2.9
Identities = 18/44 (40%), Positives = 26/44 (59%), Gaps = 7/44 (15%)
Query: 106 EDEEEESELSVSELKEQRRQEKEKKEREALEKSL--EQEAKTEE 147
EEE E E +E +++EK+K+EREA L E++ K EE
Sbjct: 275 AAEEERQE----EAQE-KKEEKKKEEREAKLAKLSPEEQRKLEE 313
>gnl|CDD|219408 pfam07423, DUF1510, Protein of unknown function (DUF1510). This
family consists of several hypothetical bacterial
proteins of around 200 residues in length. The function
of this family is unknown.
Length = 214
Score = 28.2 bits (63), Expect = 2.9
Identities = 17/65 (26%), Positives = 33/65 (50%), Gaps = 3/65 (4%)
Query: 106 EDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEETD 165
E +EEE E + SE KE + +++ E E+ E++ E++ ++ +E+E +
Sbjct: 64 EVKEEEKEAANSEDKEDKGDAEKEDE-ESEEENEEEDEESSDENEKET--EEKTESNVEK 120
Query: 166 LSENP 170
NP
Sbjct: 121 EITNP 125
>gnl|CDD|220759 pfam10446, DUF2457, Protein of unknown function (DUF2457). This is
a family of uncharacterized proteins.
Length = 449
Score = 28.4 bits (63), Expect = 3.0
Identities = 17/64 (26%), Positives = 34/64 (53%), Gaps = 1/64 (1%)
Query: 124 RQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEETDLSENPYASTNNEELYLDD 183
R+ ++ E EA+E+ + E +++D+ DD +E+ D E+ ST +++ DD
Sbjct: 39 RKLGKEAEEEAMEEEDDDEEDDDDDDDEDEDDDDDDDDED-DEDEDDDDSTLHDDSSADD 97
Query: 184 PKKT 187
+T
Sbjct: 98 GNET 101
Score = 28.0 bits (62), Expect = 3.8
Identities = 23/101 (22%), Positives = 42/101 (41%), Gaps = 11/101 (10%)
Query: 103 GPSEDEEEESELSVSELKEQ----RRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGD 158
SE E+++ + KE+ +KE R+ L K E+EA EE+D+ D
Sbjct: 6 ASSELEDDDWVRGSLDYKEKLTLNDTMKKENAIRK-LGKEAEEEAMEEEDDDE-----ED 59
Query: 159 DAEEETDLSENPYASTNNEELYLDDPKKTLRGWFDREGKGF 199
D +++ + ++ + ++ DD TL G
Sbjct: 60 DDDDDDEDEDDDDDDDDEDDEDEDDDDSTLH-DDSSADDGN 99
>gnl|CDD|226396 COG3879, COG3879, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 247
Score = 28.1 bits (63), Expect = 3.0
Identities = 13/71 (18%), Positives = 23/71 (32%), Gaps = 9/71 (12%)
Query: 89 MLSFGSSTRFFILQ---------GPSEDEEEESELSVSELKEQRRQEKEKKEREALEKSL 139
MLS + + G S + +L Q++ E E LE L
Sbjct: 21 MLSISLAMLLAGVMLAAVFQTSKGESVRRARDLDLVKELRSLQKKVNTLAAEVEDLENKL 80
Query: 140 EQEAKTEEEDE 150
+ ++ D+
Sbjct: 81 DSVRRSVLTDD 91
>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 28.4 bits (63), Expect = 3.2
Identities = 13/62 (20%), Positives = 29/62 (46%), Gaps = 2/62 (3%)
Query: 106 EDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDE--GISWGMGDDAEEE 163
ED +++ ++E E+ ++ ++ + E+S E K++EE E + D +
Sbjct: 4045 EDIQQDDFSDLAEDDEKMNEDGFEENVQENEESTEDGVKSDEELEQGEVPEDQAIDNHPK 4104
Query: 164 TD 165
D
Sbjct: 4105 MD 4106
>gnl|CDD|220634 pfam10220, DUF2146, Uncharacterized conserved protein (DUF2146).
This is a family of proteins conserved from plants to
humans. In Dictyostelium it is annotated as Mss11p but
this could not be confirmed. Mss11p is required for the
activation of pseudo-hyphal and invasive growth by
Ste12p in yeast.
Length = 890
Score = 28.3 bits (63), Expect = 3.2
Identities = 12/59 (20%), Positives = 20/59 (33%), Gaps = 1/59 (1%)
Query: 90 LSFGSSTRFFILQGPSEDEEE-ESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEE 147
S S F EE ++ + +E K RE ++L ++ T E
Sbjct: 593 PSDASDLNFSTASSSEASSEESDNYARPTSRSGTDEEEASKTAREKRPQALARQPSTTE 651
>gnl|CDD|224307 COG1389, COG1389, DNA topoisomerase VI, subunit B [DNA replication,
recombination, and repair].
Length = 538
Score = 28.1 bits (63), Expect = 3.5
Identities = 18/64 (28%), Positives = 31/64 (48%), Gaps = 13/64 (20%)
Query: 103 GPSEDEEEESELSVSE--------LKEQRRQEKEKKEREALEKSLEQEAK-----TEEED 149
+ E E L++ E L +RR+ +E+K+R+ +EK L + AK E+ +
Sbjct: 438 ADVPEIENEIRLALMEVARKLKLYLSRKRREMEERKKRKTIEKYLPEIAKKLAEILEKPE 497
Query: 150 EGIS 153
E I
Sbjct: 498 EDIR 501
>gnl|CDD|223394 COG0317, SpoT, Guanosine polyphosphate
pyrophosphohydrolases/synthetases [Signal transduction
mechanisms / Transcription].
Length = 701
Score = 28.0 bits (63), Expect = 3.7
Identities = 12/32 (37%), Positives = 17/32 (53%)
Query: 119 LKEQRRQEKEKKEREALEKSLEQEAKTEEEDE 150
K+Q R E + RE LEK L + +E +E
Sbjct: 475 FKKQDRDENVEAGRELLEKELSRLGLPKELEE 506
>gnl|CDD|239286 cd02988, Phd_like_VIAF, Phosducin (Phd)-like family, Viral
inhibitor of apoptosis (IAP)-associated factor (VIAF)
subfamily; VIAF is a Phd-like protein that functions in
caspase activation during apoptosis. It was identified
as an IAP binding protein through a screen of a human
B-cell library using a prototype IAP. VIAF lacks a
consensus IAP binding motif and while it does not
function as an IAP antagonist, it still plays a
regulatory role in the complete activation of caspases.
VIAF itself is a substrate for IAP-mediated
ubiquitination, suggesting that it may be a target of
IAPs in the prevention of cell death. The similarity of
VIAF to Phd points to a potential role distinct from
apoptosis regulation. Phd functions as a cytosolic
regulator of G protein by specifically binding to G
protein betagamma (Gbg)-subunits. The C-terminal domain
of Phd adopts a thioredoxin fold, but it does not
contain a CXXC motif. Phd interacts with G protein beta
mostly through the N-terminal helical domain.
Length = 192
Score = 27.6 bits (62), Expect = 3.7
Identities = 14/44 (31%), Positives = 21/44 (47%)
Query: 104 PSEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEE 147
P E+EEE EL++ E E ++K E + E + EE
Sbjct: 20 PKEEEEEALELAIQEAHENALEKKLLDELDEELDEEEDDRFLEE 63
>gnl|CDD|236729 PRK10636, PRK10636, putative ABC transporter ATP-binding protein;
Provisional.
Length = 638
Score = 28.2 bits (63), Expect = 3.7
Identities = 18/74 (24%), Positives = 33/74 (44%), Gaps = 9/74 (12%)
Query: 104 PSEDEEEESELSVSELKEQRRQEKE--------KKEREALEKSLEQ-EAKTEEEDEGISW 154
E +E + S K+Q+R+E E +KE LEK +E+ A+ + +E +
Sbjct: 529 TDEAPKENNANSAQARKDQKRREAELRTQTQPLRKEIARLEKEMEKLNAQLAQAEEKLGD 588
Query: 155 GMGDDAEEETDLSE 168
D + +L+
Sbjct: 589 SELYDQSRKAELTA 602
>gnl|CDD|240329 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2
subunit 1; Provisional.
Length = 319
Score = 27.7 bits (62), Expect = 4.0
Identities = 11/44 (25%), Positives = 21/44 (47%), Gaps = 3/44 (6%)
Query: 126 EKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEETDLSEN 169
E+ E LE + E + EE+D S ++ E+E + ++
Sbjct: 274 GDEEDLEELLE---KAEEEEEEDDYSESEDEDEEDEDEEEEEDD 314
>gnl|CDD|236766 PRK10811, rne, ribonuclease E; Reviewed.
Length = 1068
Score = 28.1 bits (63), Expect = 4.3
Identities = 14/60 (23%), Positives = 29/60 (48%), Gaps = 5/60 (8%)
Query: 105 SEDEEEESELSVSELKEQRRQEKEKKEREALEKS-LEQEAKTEEEDEGISWGMGDDAEEE 163
+ E +E + ++ ++Q+ +E++ R EK +QEAK +E + E+E
Sbjct: 655 ESQQAEVTEKARTQDEQQQAPRRERQRRRNDEKRQAQQEAKALNVEEQSV----QETEQE 710
>gnl|CDD|222665 pfam14303, NAM-associated, No apical meristem-associated C-terminal
domain. This domain is found in a number of different
types of plant proteins including NAM-like proteins.
Length = 147
Score = 27.3 bits (61), Expect = 4.3
Identities = 10/29 (34%), Positives = 18/29 (62%)
Query: 120 KEQRRQEKEKKEREALEKSLEQEAKTEEE 148
KE+ R++K K ++E EK E+E + +
Sbjct: 69 KEKLRRDKLKAKKEEAEKEKEKEERFMKA 97
>gnl|CDD|218333 pfam04931, DNA_pol_phi, DNA polymerase phi. This family includes
the fifth essential DNA polymerase in yeast EC:2.7.7.7.
Pol5p is localised exclusively to the nucleolus and
binds near or at the enhancer region of rRNA-encoding
DNA repeating units.
Length = 784
Score = 27.9 bits (62), Expect = 4.4
Identities = 23/84 (27%), Positives = 32/84 (38%), Gaps = 9/84 (10%)
Query: 101 LQGPSEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDA 160
Q E EEE+ + +L+E E E + E E E + + EEDE DDA
Sbjct: 641 HQQLFEGEEEDED----DLEETDDDEDECEAIEDSESESESDGEDGEEDEQ-----EDDA 691
Query: 161 EEETDLSENPYASTNNEELYLDDP 184
E + A L+ P
Sbjct: 692 EANEGVVPIDKAVRRALPKVLNLP 715
>gnl|CDD|202096 pfam02029, Caldesmon, Caldesmon.
Length = 431
Score = 27.7 bits (61), Expect = 4.8
Identities = 12/45 (26%), Positives = 20/45 (44%)
Query: 106 EDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDE 150
E+ EE ++ SE K R +E ++ E + E+E E
Sbjct: 124 EEVEETEGVTKSEQKNDWRDAEECQKEEKEPEPEEEEKPKRGSLE 168
>gnl|CDD|239202 cd02808, GltS_FMN, Glutamate synthase (GltS) FMN-binding domain.
GltS is a complex iron-sulfur flavoprotein that
catalyzes the reductive synthesis of L-glutamate from
2-oxoglutarate and L-glutamine via intramolecular
channelling of ammonia, a reaction in the plant, yeast
and bacterial pathway for ammonia assimilation. It is a
multifunctional enzyme that functions through three
distinct active centers, carrying out L-glutamine
hydrolysis, conversion of 2-oxoglutarate into
L-glutamate, and electron uptake from an electron
donor.
Length = 392
Score = 27.5 bits (62), Expect = 5.1
Identities = 5/22 (22%), Positives = 10/22 (45%), Gaps = 1/22 (4%)
Query: 73 RCKIKPKMYVRIHVGHMLSFGS 94
+ K+ ++ M SFG+
Sbjct: 69 NAEKPLKLDSPFNISAM-SFGA 89
>gnl|CDD|216108 pfam00769, ERM, Ezrin/radixin/moesin family. This family of
proteins contain a band 4.1 domain (pfam00373), at their
amino terminus. This family represents the rest of these
proteins.
Length = 244
Score = 27.4 bits (61), Expect = 5.1
Identities = 20/64 (31%), Positives = 31/64 (48%), Gaps = 5/64 (7%)
Query: 105 SEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEET 164
++ E EE E + EL+E+ +QE+E E + LEK + EEE+ + EE
Sbjct: 24 AQKELEEYEETALELEEKLKQEEE--EAQLLEKK---ADELEEENRRLEEEAAASEEERE 78
Query: 165 DLSE 168
L
Sbjct: 79 RLEA 82
>gnl|CDD|218970 pfam06278, DUF1032, Protein of unknown function (DUF1032). This
family consists of several conserved eukaryotic proteins
of unknown function.
Length = 565
Score = 27.6 bits (61), Expect = 5.2
Identities = 19/76 (25%), Positives = 29/76 (38%), Gaps = 7/76 (9%)
Query: 114 LSVSELKEQRRQEKEKKEREALEKSLEQEAK----TEE---EDEGISWGMGDDAEEETDL 166
L +KE+ +++ R E+ L E + EE ED G DD + D
Sbjct: 340 LYWKHVKERLETQRQMLRRRGAERWLPDEEQKLWPLEEDRLEDSVEDDGDADDFSDPEDY 399
Query: 167 SENPYASTNNEELYLD 182
E P E+ + D
Sbjct: 400 LEPPEGLDPEEQAFQD 415
>gnl|CDD|227458 COG5129, MAK16, Nuclear protein with HMG-like acidic region
[General function prediction only].
Length = 303
Score = 27.3 bits (60), Expect = 5.2
Identities = 24/91 (26%), Positives = 39/91 (42%), Gaps = 11/91 (12%)
Query: 102 QGPSEDEEEESELSVSELKEQRRQEKEKKEREALEKSL---EQEAKTEEEDEGISWGMGD 158
+ EEEE + E EKEK +++ LEK L + +E E+E +
Sbjct: 199 EKERYVEEEEESDTELEA-VTDDSEKEKTKKKDLEKWLGSDQSMETSESEEE-------E 250
Query: 159 DAEEETDLSENPYASTNNEELYLDDPKKTLR 189
+E E+D E+ + DD KK+ +
Sbjct: 251 SSESESDEDEDEDNKGKIRKRKTDDAKKSRK 281
>gnl|CDD|219882 pfam08524, rRNA_processing, rRNA processing. This is a family of
proteins that are involved in rRNA processing. In a
localisation study they were found to localise to the
nucleus and nucleolus. The family also includes other
metazoa members from plants to mammals where the protein
has been named BR22 and is associated with TTF-1,
thyroid transcription factor 1. In the lungs, the family
binds TTF-1 to form a complex which influences the
expression of the key lung surfactant protein-B (SP-B)
and -C (SP-C), the small hydrophobic surfactant proteins
that maintain surface tension in alveoli.
Length = 150
Score = 26.8 bits (59), Expect = 5.5
Identities = 15/49 (30%), Positives = 28/49 (57%)
Query: 102 QGPSEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDE 150
+G + E+E +E V KE R+ EK+KK E E + +++ + E++
Sbjct: 45 EGYAVPEKESAEKQVKSSKEDRKFEKKKKLDEKKEIAKQRKREQREKEL 93
>gnl|CDD|218391 pfam05029, TIMELESS_C, Timeless protein C terminal region. The
timeless (tim) gene is essential for circadian function
in Drosophila. Putative homologues of Drosophila tim
have been identified in both mice and humans (mTim and
hTIM, respectively). Mammalian TIM is not the true
orthologue of Drosophila TIM, but is the likely
orthologue of a fly gene, timeout (also called tim-2).
mTim has been shown to be essential for embryonic
development, but does not have substantiated circadian
function. Some family members contain a SANT domain in
this region.
Length = 507
Score = 27.8 bits (61), Expect = 5.5
Identities = 14/48 (29%), Positives = 22/48 (45%)
Query: 103 GPSEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDE 150
+ E + +S L++Q +QEK L+ L + A EEDE
Sbjct: 270 VSAFQVEGSTLISAENLRQQLKQEKTSWPLLWLQSCLIRAADDREEDE 317
>gnl|CDD|233055 TIGR00617, rpa1, replication factor-a protein 1 (rpa1). All
proteins in this family for which functions are known
are part of a multiprotein complex made up of homologs
of RPA1, RPA2 and RPA3 that bind ssDNA and function in
the recognition of DNA damage for nucleotide excision
repairThis family is based on the phylogenomic analysis
of JA Eisen (1999, Ph.D. Thesis, Stanford University)
[DNA metabolism, DNA replication, recombination, and
repair].
Length = 608
Score = 27.4 bits (61), Expect = 5.7
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 188 LRGWFDREGKGFP 200
L+GW+D EGKG
Sbjct: 407 LKGWYDNEGKGTM 419
>gnl|CDD|235665 PRK05996, motB, flagellar motor protein MotB; Validated.
Length = 423
Score = 27.4 bits (61), Expect = 5.7
Identities = 12/49 (24%), Positives = 20/49 (40%), Gaps = 1/49 (2%)
Query: 125 QEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAE-EETDLSENPYA 172
+ ++K + E+ E + + + GD E DL NPYA
Sbjct: 91 EGEQKPGKSKFEEDQRVEGSSAVTGDDTTRTSGDQTNYSEADLFRNPYA 139
>gnl|CDD|223520 COG0443, DnaK, Molecular chaperone [Posttranslational modification,
protein turnover, chaperones].
Length = 579
Score = 27.7 bits (62), Expect = 5.7
Identities = 18/89 (20%), Positives = 35/89 (39%), Gaps = 11/89 (12%)
Query: 100 ILQGPSEDEEEESELSVSELKEQRRQEKEKKER-----------EALEKSLEQEAKTEEE 148
++ S +EE E V + + +K+ +E +LEK+L++ K EE
Sbjct: 476 TIKASSGLSDEEIERMVEDAEANAALDKKFRELVEARNEAESLIYSLEKALKEIVKVSEE 535
Query: 149 DEGISWGMGDDAEEETDLSENPYASTNNE 177
++ D EE + + + E
Sbjct: 536 EKEKIEEAITDLEEALEGEKEEIKAKIEE 564
>gnl|CDD|221775 pfam12794, MscS_TM, Mechanosensitive ion channel inner membrane
domain 1. The small mechanosensitive channel, MscS, is
a part of the turgor-driven solute efflux system that
protects bacteria from lysis in the event of osmotic
shock. The MscS protein alone is sufficient to form a
functional mechanosensitive channel gated directly by
tension in the lipid bilayer. The MscS proteins are
heptamers of three transmembrane subunits with seven
converging M3 domains, and this domain is one of the
inner membrane domains.
Length = 339
Score = 27.2 bits (61), Expect = 5.7
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 122 QRRQEKEKKEREALEKSLEQEAKTEEEDE 150
+R E + E E+S E A+T EE E
Sbjct: 265 AKRAEILAQRAEEEEESSEGAAETIEEPE 293
>gnl|CDD|222867 PHA02546, 47, endonuclease subunit; Provisional.
Length = 340
Score = 27.3 bits (61), Expect = 5.8
Identities = 12/36 (33%), Positives = 17/36 (47%), Gaps = 4/36 (11%)
Query: 50 DEKDPARGFYVYDLGSTHGTFLNRCKIKPKMYVRIH 85
DE DP RGF+V+D + F+ + RI
Sbjct: 210 DENDP-RGFWVFDTETHKLEFIANPTT---WHRRIT 241
>gnl|CDD|171561 PRK12528, PRK12528, RNA polymerase sigma factor; Provisional.
Length = 161
Score = 26.7 bits (59), Expect = 5.9
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 123 RRQEKEKKEREALEKSLEQEAKTEEE 148
RRQ+ E+ EAL + E+ A +EEE
Sbjct: 71 RRQDLERAYLEALAQLPERVAPSEEE 96
>gnl|CDD|191716 pfam07263, DMP1, Dentin matrix protein 1 (DMP1). This family
consists of several mammalian dentin matrix protein 1
(DMP1) sequences. The dentin matrix acidic
phosphoprotein 1 (DMP1) gene has been mapped to human
chromosome 4q21. DMP1 is a bone and teeth specific
protein initially identified from mineralised dentin.
DMP1 is primarily localised in the nuclear compartment
of undifferentiated osteoblasts. In the nucleus, DMP1
acts as a transcriptional component for activation of
osteoblast-specific genes like osteocalcin. During the
early phase of osteoblast maturation, Ca(2+) surges into
the nucleus from the cytoplasm, triggering the
phosphorylation of DMP1 by a nuclear isoform of casein
kinase II. This phosphorylated DMP1 is then exported out
into the extracellular matrix, where it regulates
nucleation of hydroxyapatite. DMP1 is a unique molecule
that initiates osteoblast differentiation by
transcription in the nucleus and orchestrates
mineralised matrix formation extracellularly, at later
stages of osteoblast maturation. The DMP1 gene has been
found to be ectopically expressed in lung cancer
although the reason for this is unknown.
Length = 514
Score = 27.3 bits (60), Expect = 6.3
Identities = 22/78 (28%), Positives = 40/78 (51%), Gaps = 1/78 (1%)
Query: 107 DEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEETDL 166
+ +E+SE + S+ Q Q+ + + + QE +E ++E +S GD+ + T
Sbjct: 311 ESQEDSEENQSQEDSQEVQDPSSESSQEADLP-SQENSSESQEEVVSESRGDNPDNTTSH 369
Query: 167 SENPYASTNNEELYLDDP 184
SE+ S ++EE LD P
Sbjct: 370 SEDQEDSESSEEDSLDTP 387
>gnl|CDD|224308 COG1390, NtpE, Archaeal/vacuolar-type H+-ATPase subunit E [Energy
production and conversion].
Length = 194
Score = 27.0 bits (60), Expect = 6.8
Identities = 17/45 (37%), Positives = 26/45 (57%)
Query: 106 EDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDE 150
+ EEE+E + E +E+ + KE+ +REA E E K E+E E
Sbjct: 13 REAEEEAEEILEEAREEAEKIKEEAKREAEEAIEEILRKAEKEAE 57
>gnl|CDD|219256 pfam06991, Prp19_bind, Splicing factor, Prp19-binding domain. This
family represents the C-terminus (approximately 300
residues) of proteins that are involved as binding
partners for Prp19 as part of the nuclear pore complex.
The family in Drosophila is necessary for pre-mRNA
splicing, and the human protein has been found in
purifications of the spliceosome. In the past this
family was thought, erroneously, to be associated with
microfibrillin.
Length = 277
Score = 27.2 bits (60), Expect = 6.9
Identities = 16/50 (32%), Positives = 29/50 (58%), Gaps = 4/50 (8%)
Query: 105 SEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQ----EAKTEEEDE 150
++DE EE E +L+E +R +++++ERE +E+ + TEEE
Sbjct: 108 TDDENEEEEYEAWKLRELKRIKRDREEREEMEREKAEIEKMRNMTEEERR 157
>gnl|CDD|236335 PRK08724, fliD, flagellar capping protein; Validated.
Length = 673
Score = 27.1 bits (60), Expect = 6.9
Identities = 13/41 (31%), Positives = 23/41 (56%)
Query: 110 EESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDE 150
E+ EL+ + K+ R + E +ERE LEK + +A ++
Sbjct: 384 EKGELTPEQAKQIARAKLEPEERERLEKIDKAQAALKQAQS 424
>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown].
Length = 434
Score = 27.1 bits (60), Expect = 6.9
Identities = 13/48 (27%), Positives = 24/48 (50%), Gaps = 3/48 (6%)
Query: 102 QGPSEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEED 149
EE E++ +LK++ E EKK++E ++ E+ K E +
Sbjct: 390 DETDASEEAEAKAKEEKLKQE---ENEKKQKEQADEDKEKRQKDERKK 434
>gnl|CDD|217840 pfam04006, Mpp10, Mpp10 protein. This family includes proteins
related to Mpp10 (M phase phosphoprotein 10). The U3
small nucleolar ribonucleoprotein (snoRNP) is required
for three cleavage events that generate the mature 18S
rRNA from the pre-rRNA. In Saccharomyces cerevisiae,
depletion of Mpp10, a U3 snoRNP-specific protein, halts
18S rRNA production and impairs cleavage at the three U3
snoRNP-dependent sites.
Length = 613
Score = 27.3 bits (60), Expect = 7.5
Identities = 21/64 (32%), Positives = 27/64 (42%)
Query: 105 SEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEET 164
S D+EEE E S E E E E SLE + E ED+ ++A EE
Sbjct: 114 SADDEEEEEEDESLEDEMIDDEDEADLFNESESSLEDLSDDETEDDEEKKMEEEEAGEEK 173
Query: 165 DLSE 168
+ E
Sbjct: 174 ESVE 177
>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional.
Length = 520
Score = 27.0 bits (61), Expect = 7.7
Identities = 20/42 (47%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 106 EDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEE 147
E EEE E EL EQ++QE EKKE E E EQ + E
Sbjct: 106 EKREEELEKKEKEL-EQKQQELEKKEEELEELIEEQLQELER 146
>gnl|CDD|146016 pfam03179, V-ATPase_G, Vacuolar (H+)-ATPase G subunit. This family
represents the eukaryotic vacuolar (H+)-ATPase
(V-ATPase) G subunit. V-ATPases generate an acidic
environment in several intracellular compartments.
Correspondingly, they are found as membrane-attached
proteins in several organelles. They are also found in
the plasma membranes of some specialised cells.
V-ATPases consist of peripheral (V1) and membrane
integral (V0) heteromultimeric complexes. The G subunit
is part of the V1 subunit, but is also thought to be
strongly attached to the V0 complex. It may be involved
in the coupling of ATP degradation to H+ translocation.
Length = 105
Score = 26.0 bits (58), Expect = 7.8
Identities = 14/44 (31%), Positives = 24/44 (54%), Gaps = 6/44 (13%)
Query: 109 EEESELSVSELKEQRRQEKEKKE------REALEKSLEQEAKTE 146
+EE+E + E + QR E ++ E R LEK +E+E + +
Sbjct: 35 KEEAEKEIEEYRAQREAEFKEFEAEHSGSRGELEKKIEKETEEK 78
>gnl|CDD|188306 TIGR03319, RNase_Y, ribonuclease Y. Members of this family are
RNase Y, an endoribonuclease. The member from Bacillus
subtilis, YmdA, has been shown to be involved in
turnover of yitJ riboswitch [Transcription, Degradation
of RNA].
Length = 514
Score = 27.2 bits (61), Expect = 7.9
Identities = 13/43 (30%), Positives = 20/43 (46%)
Query: 108 EEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDE 150
E E EL + QR + + + E L++ +E K EE E
Sbjct: 65 AELERELKERRNELQRLERRLLQREETLDRKMESLDKKEENLE 107
>gnl|CDD|219746 pfam08208, RNA_polI_A34, DNA-directed RNA polymerase I subunit
RPA34.5. This is a family of proteins conserved from
yeasts to human. Subunit A34.5 of RNA polymerase I is a
non-essential subunit which is thought to help Pol I
overcome topological constraints imposed on ribosomal
DNA during the process of transcription.
Length = 193
Score = 26.6 bits (59), Expect = 7.9
Identities = 16/48 (33%), Positives = 26/48 (54%)
Query: 103 GPSEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDE 150
GP + ESE S E + +E E +E E EK ++E K E++++
Sbjct: 123 GPPSELGSESETSEKETTAKVEKEAEVEEEEKKEKKKKKEVKKEKKEK 170
>gnl|CDD|236912 PRK11448, hsdR, type I restriction enzyme EcoKI subunit R;
Provisional.
Length = 1123
Score = 27.2 bits (61), Expect = 8.0
Identities = 17/79 (21%), Positives = 32/79 (40%), Gaps = 8/79 (10%)
Query: 79 KMYVRIHVGHMLSFGSSTRF----FILQGPSEDEEEESELSVSELKEQRRQ-EKEKKERE 133
K+ R+ V ++G F F+ P ED E E+ ++Q E + +E+
Sbjct: 110 KLAFRLAVWFHRTYGKDWDFKPGPFV---PPEDPENLLHALQQEVLTLKQQLELQAREKA 166
Query: 134 ALEKSLEQEAKTEEEDEGI 152
+ E + + EG+
Sbjct: 167 QSQALAEAQQQELVALEGL 185
>gnl|CDD|234029 TIGR02830, spore_III_AG, stage III sporulation protein AG. CC A
comparative genome analysis of all sequenced genomes of
shows a number of proteins conserved strictly among the
endospore-forming subset of the Firmicutes. This
protein, a member of this panel, is found in a spore
formation operon and is designated stage III sporulation
protein AG [Cellular processes, Sporulation and
germination].
Length = 186
Score = 26.5 bits (59), Expect = 8.3
Identities = 12/53 (22%), Positives = 22/53 (41%), Gaps = 4/53 (7%)
Query: 91 SFGSSTRFFILQGPSEDEEEESEL--SVSELKEQRRQEKEKKEREALEKSLEQ 141
F SS P+ ++ E + V + E EK+ + L++ LE+
Sbjct: 22 FFSSSEDIEESDTPNNEKTEPEFVQGEVQKEDEISDYEKQYENE--LKEILEK 72
>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional.
Length = 413
Score = 26.9 bits (59), Expect = 8.5
Identities = 15/86 (17%), Positives = 28/86 (32%), Gaps = 9/86 (10%)
Query: 102 QGPSEDEEEESELSVSELKEQRRQEKEKK---------EREALEKSLEQEAKTEEEDEGI 152
+ +E ++E +E R EKE++ + EE G+
Sbjct: 59 RAVAEQGHRQTESDTETAEESRHGEKEERGQGGPSGSGSESVGSPTPSPSGSAEELASGL 118
Query: 153 SWGMGDDAEEETDLSENPYASTNNEE 178
S + E+ S +P S +
Sbjct: 119 SPENTSGSSPESPASHSPPPSPPSHP 144
>gnl|CDD|225281 COG2425, COG2425, Uncharacterized protein containing a von
Willebrand factor type A (vWA) domain [General function
prediction only].
Length = 437
Score = 27.0 bits (60), Expect = 8.6
Identities = 12/43 (27%), Positives = 21/43 (48%)
Query: 110 EESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGI 152
E E + +L+ + ++ + ERE L ++E E EGI
Sbjct: 110 ERWEELLQDLQREGSEDFLEGEREGLLSEKQEEISLSGEMEGI 152
>gnl|CDD|148630 pfam07133, Merozoite_SPAM, Merozoite surface protein (SPAM). This
family consists of several Plasmodium falciparum SPAM
(secreted polymorphic antigen associated with
merozoites) proteins. Variation among SPAM alleles is
the result of deletions and amino acid substitutions in
non-repetitive sequences within and flanking the alanine
heptad-repeat domain. Heptad repeats in which the a and
d position contain hydrophobic residues generate
amphipathic alpha-helices which give rise to helical
bundles or coiled-coil structures in proteins. SPAM is
an example of a P. falciparum antigen in which a
repetitive sequence has features characteristic of a
well-defined structural element.
Length = 164
Score = 26.4 bits (58), Expect = 8.6
Identities = 15/51 (29%), Positives = 24/51 (47%), Gaps = 3/51 (5%)
Query: 100 ILQGPSEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDE 150
+ ED+EEE E E++E E + E E +E E+E E+ +
Sbjct: 43 VKDEKQEDDEEEEEEDEEEIEEP---EDIEDEEEIVEDEEEEEEDEEDNVD 90
>gnl|CDD|135898 PRK06397, PRK06397, V-type ATP synthase subunit H; Validated.
Length = 111
Score = 26.0 bits (57), Expect = 8.7
Identities = 14/41 (34%), Positives = 22/41 (53%)
Query: 110 EESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDE 150
+E E S+ + + E+E + +EA K E+ KTEEE
Sbjct: 16 KEKEESIDKEIANIKNEQENEIKEAKSKYEEKAKKTEEESL 56
>gnl|CDD|222636 pfam14265, DUF4355, Domain of unknown function (DUF4355). This
family of proteins is found in bacteria and viruses.
Proteins in this family are typically between 180 and
214 amino acids in length.
Length = 125
Score = 26.1 bits (58), Expect = 8.8
Identities = 10/42 (23%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 106 EDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEE 147
E+++ E+E ++++ + + E E ++ E + LE E E
Sbjct: 29 EEKKSEAE-KLAKMSAEEKAEYELEKLEKELEELEAELARRE 69
>gnl|CDD|234055 TIGR02907, spore_VI_D, stage VI sporulation protein D. SpoVID, the
stage VI sporulation protein D, is restricted to
endospore-forming members of the bacteria, all of which
are found among the Firmicutes. It is widely distributed
but not quite universal in this group. Between
well-conserved N-terminal and C-terminal domains is a
poorly conserved, low-complexity region of variable
length, rich enough in glutamic acid to cause spurious
BLAST search results unless a filter is used. The seed
alignment for this model was trimmed, in effect, by
choosing member sequences in which these regions are
relatively short. SpoVID is involved in spore coat
assembly by the mother cell compartment late in the
process of sporulation [Cellular processes, Sporulation
and germination].
Length = 338
Score = 26.8 bits (59), Expect = 8.9
Identities = 18/82 (21%), Positives = 34/82 (41%), Gaps = 5/82 (6%)
Query: 104 PSEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEE 163
P+ ++EEE E +E + ++E +E E +E EA + E DD +E
Sbjct: 146 PAREDEEEEESFSAEFEHPAQEETAGEEERTDEPKVEHEAHEQHEQPAD-----DDPDEW 200
Query: 164 TDLSENPYASTNNEELYLDDPK 185
+ P+ + E ++
Sbjct: 201 KISASEPFQLESEVEASPEEEN 222
>gnl|CDD|234309 TIGR03683, A-tRNA_syn_arch, alanyl-tRNA synthetase. This family of
alanyl-tRNA synthetases is limited to the archaea, and
is a subset of those sequences identified by the model
pfam07973 covering the second additional domain (SAD) of
alanyl and threonyl tRNA synthetases.
Length = 902
Score = 26.9 bits (60), Expect = 8.9
Identities = 15/48 (31%), Positives = 24/48 (50%)
Query: 100 ILQGPSEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEE 147
IL+ P E E + E KEQR++ + K++ A K E ++ E
Sbjct: 755 ILKVPPEQLPETVKRFFEEWKEQRKEIERLKKKLAELKIYELISEAER 802
>gnl|CDD|221389 pfam12037, DUF3523, Domain of unknown function (DUF3523). This
presumed domain is functionally uncharacterized. This
domain is found in eukaryotes. This domain is typically
between 257 to 277 amino acids in length. This domain is
found associated with pfam00004. This domain has a
conserved LER sequence motif.
Length = 276
Score = 26.7 bits (59), Expect = 9.1
Identities = 11/43 (25%), Positives = 25/43 (58%)
Query: 106 EDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQEAKTEEE 148
+E ++ ++ ++QR Q +++ R+ +K LEQ+ + EE
Sbjct: 91 AEERRKTLQEQTQQEQQRAQYQDELARKRYQKELEQQRRQNEE 133
>gnl|CDD|216292 pfam01086, Clathrin_lg_ch, Clathrin light chain.
Length = 225
Score = 26.6 bits (59), Expect = 9.1
Identities = 10/39 (25%), Positives = 20/39 (51%), Gaps = 3/39 (7%)
Query: 104 PSEDEEEESELSVSELKEQRRQEKEKKEREALEKSLEQE 142
E EE E S+ + +E R++ +ER+ + ++E
Sbjct: 103 ADRVEGEEPE-SIRKWRE--RRDLRIEERDEASEKKKEE 138
>gnl|CDD|132187 TIGR03143, AhpF_homolog, putative alkyl hydroperoxide reductase F
subunit. This family of thioredoxin reductase homologs
is found adjacent to alkylhydroperoxide reductase C
subunit predominantly in cases where there is only one C
subunit in the genome and that genome is lacking the F
subunit partner (also a thioredcxin reductase homolog)
that is usually found (TIGR03140).
Length = 555
Score = 27.1 bits (60), Expect = 9.3
Identities = 22/82 (26%), Positives = 30/82 (36%), Gaps = 13/82 (15%)
Query: 124 RQEKEKKEREALEKSLEQEAKTEEEDEGISWGMGDDAEEETDLSENPYASTNNEELYLDD 183
R KE KE+ + + E+E E A E + P A+T L D
Sbjct: 306 RYVKELKEKLGIAEEYEEEEAKE-------------ASEASAAETTPAATTKKGSLLDDS 352
Query: 184 PKKTLRGWFDREGKGFPLFTFL 205
++ L G F R L FL
Sbjct: 353 LRQQLVGIFGRLENPVTLLLFL 374
>gnl|CDD|239316 cd03018, PRX_AhpE_like, Peroxiredoxin (PRX) family, AhpE-like
subfamily; composed of proteins similar to Mycobacterium
tuberculosis AhpE. AhpE is described as a 1-cys PRX
because of the absence of a resolving cysteine. The
structure and sequence of AhpE, however, show greater
similarity to 2-cys PRXs than 1-cys PRXs. PRXs are
thiol-specific antioxidant (TSA) proteins that confer a
protective role in cells through their peroxidase
activity in which hydrogen peroxide, peroxynitrate, and
organic hydroperoxides are reduced and detoxified using
reducing equivalents derived from either thioredoxin,
glutathione, trypanothione and AhpF. The first step of
catalysis is the nucleophilic attack by the peroxidatic
cysteine on the peroxide leading to the formation of a
cysteine sulfenic acid intermediate. The absence of a
resolving cysteine suggests that functional AhpE is
regenerated by an external reductant. The solution
behavior and crystal structure of AhpE show that it
forms dimers and octamers.
Length = 149
Score = 26.1 bits (58), Expect = 9.5
Identities = 8/19 (42%), Positives = 10/19 (52%)
Query: 183 DPKKTLRGWFDREGKGFPL 201
D +LR W + G FPL
Sbjct: 71 DSPFSLRAWAEENGLTFPL 89
>gnl|CDD|216833 pfam01991, vATP-synt_E, ATP synthase (E/31 kDa) subunit. This
family includes the vacuolar ATP synthase E subunit, as
well as the archaebacterial ATP synthase E subunit.
Length = 195
Score = 26.5 bits (59), Expect = 10.0
Identities = 17/46 (36%), Positives = 21/46 (45%), Gaps = 3/46 (6%)
Query: 99 FILQGPSEDEEE---ESELSVSELKEQRRQEKEKKEREALEKSLEQ 141
FI Q E EE E+E K + +E EKK E EK +Q
Sbjct: 1 FIRQEAEEKAEEIRAEAEEEFEIEKAEAVEEAEKKIEEIYEKKEKQ 46
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
0.313 0.133 0.383
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: 10,585,871
Number of extensions: 991289
Number of successful extensions: 3724
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3106
Number of HSP's successfully gapped: 538
Length of query: 207
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 115
Effective length of database: 6,857,034
Effective search space: 788558910
Effective search space used: 788558910
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 57 (25.8 bits)