RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7892
(240 letters)
>gnl|CDD|215740 pfam00134, Cyclin_N, Cyclin, N-terminal domain. Cyclins regulate
cyclin dependent kinases (CDKs). Human cyclin-O is a
Uracil-DNA glycosylase that is related to other cyclins.
Cyclins contain two domains of similar all-alpha fold,
of which this family corresponds with the N-terminal
domain.
Length = 127
Score = 129 bits (326), Expect = 3e-38
Identities = 49/131 (37%), Positives = 81/131 (61%), Gaps = 6/131 (4%)
Query: 95 IFEYLKSREAEFQI-KDYLPFQSSTEKGNINAEMRSVLVDWMVEVQETFELNHETLYLAV 153
I+ YL+ E E + DYL Q +IN +MR++L+DW+VEV E F+L ETLYLAV
Sbjct: 2 IYAYLRELEEEDRPPPDYLDQQ-----PDINPKMRAILIDWLVEVHEEFKLLPETLYLAV 56
Query: 154 KLVDLYLGKVVCSRLNLQLLGATAIFVSSKFDDRIPPQLSDLEYICSHTYSIQDLKDMEI 213
+D +L K R LQL+G T + +++K+++ PP + D YI + Y+ +++ ME+
Sbjct: 57 NYLDRFLSKQPVPRTKLQLVGVTCLLIAAKYEEIYPPSVEDFVYITDNAYTKEEILRMEL 116
Query: 214 KLVTAIGFDLG 224
+++ + +DL
Sbjct: 117 LILSTLNWDLS 127
>gnl|CDD|227357 COG5024, COG5024, Cyclin [Cell division and chromosome
partitioning].
Length = 440
Score = 113 bits (285), Expect = 2e-29
Identities = 67/204 (32%), Positives = 98/204 (48%), Gaps = 9/204 (4%)
Query: 35 VLKSKQTTVSEKKEKSLIEHFDKEIQLE-DKLEVTGPPSDV--DDFDKETWEDPLQVSCY 91
+ + +K E SL + E QL D+ + D D EDPL V Y
Sbjct: 121 SYEPMIDYILKKDENSLSPYELDENQLALDEKQAESKRESQSWQDLDATDQEDPLMVPEY 180
Query: 92 AMHIFEYLKSREAEF-QIKDYLPFQSSTEKGNINAEMRSVLVDWMVEVQETFELNHETLY 150
A IFEYL E +YL QS MRS+LVDW+VEV F L ETL+
Sbjct: 181 ASDIFEYLLKLELIDLPNPNYLIKQS-----LYEWSMRSILVDWLVEVHGKFGLLPETLF 235
Query: 151 LAVKLVDLYLGKVVCSRLNLQLLGATAIFVSSKFDDRIPPQLSDLEYICSHTYSIQDLKD 210
LA+ ++D +L V S QL+G +A+F++SK+++ P + DL Y ++ D+
Sbjct: 236 LAINIIDRFLSSRVVSLEKYQLVGISALFIASKYEEVNCPSIKDLVYATDGAFTRDDIIR 295
Query: 211 MEIKLVTAIGFDLGIPLSYRFLRR 234
E ++ + F++ P FLRR
Sbjct: 296 AERYMLEVLDFNISWPSPMSFLRR 319
>gnl|CDD|238003 cd00043, CYCLIN, Cyclin box fold. Protein binding domain
functioning in cell-cycle and transcription control.
Present in cyclins, TFIIB and Retinoblastoma (RB).The
cyclins consist of 8 classes of cell cycle regulators
that regulate cyclin dependent kinases (CDKs). TFIIB is
a transcription factor that binds the TATA box. Cyclins,
TFIIB and RB contain 2 copies of the domain.
Length = 88
Score = 74.2 bits (183), Expect = 2e-17
Identities = 27/90 (30%), Positives = 50/90 (55%), Gaps = 2/90 (2%)
Query: 127 MRSVLVDWMVEVQETFELNHETLYLAVKLVDLYLGKVVCSRLNLQLLGATAIFVSSKFDD 186
MR +D++ V + L+ ETL LAV L+D +L + L+ A A+++++K ++
Sbjct: 1 MRPTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEE 60
Query: 187 RIPPQLSDLEYICSHTYSIQDLKDMEIKLV 216
IPP L DL ++ + +++ ME L+
Sbjct: 61 -IPPWLKDLVHVT-GYATEEEILRMEKLLL 88
>gnl|CDD|214641 smart00385, CYCLIN, domain present in cyclins, TFIIB and
Retinoblastoma. A helical domain present in cyclins and
TFIIB (twice) and Retinoblastoma (once). A protein
recognition domain functioning in cell-cycle and
transcription control.
Length = 83
Score = 69.2 bits (170), Expect = 1e-15
Identities = 22/84 (26%), Positives = 45/84 (53%), Gaps = 2/84 (2%)
Query: 133 DWMVEVQETFELNHETLYLAVKLVDLYLGKVVCSRLNLQLLGATAIFVSSKFDDRIPPQL 192
D++ V + L+ ETL LAV L+D +L + + L+ A A++++SK ++ P
Sbjct: 1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPPWTK 60
Query: 193 SDLEYICSHTYSIQDLKDMEIKLV 216
+ Y + ++ +++ ME L+
Sbjct: 61 ELVHY--TGYFTEEEILRMERLLL 82
>gnl|CDD|225417 COG2862, COG2862, Predicted membrane protein [Function unknown].
Length = 169
Score = 30.7 bits (70), Expect = 0.34
Identities = 29/93 (31%), Positives = 38/93 (40%), Gaps = 13/93 (13%)
Query: 142 FELNHETLYLAV-KLVDLYLGKVVCSRLNLQLLGATAIFVSSKFDDRIPPQLSDLEYICS 200
F++ L LA LVDL L V L + G +FVS K D + S L
Sbjct: 49 FDMGENDLILAALSLVDLLL---VAGLLVMVSFGGYELFVS-KLDIAEEDKPSWLG---- 100
Query: 201 HTYSIQDLKDMEIKLVTAIGFDLGIPLSYRFLR 233
I DL D++ KL +I + L FL
Sbjct: 101 ----IVDLSDLKQKLAASIVAISSVHLLKVFLN 129
>gnl|CDD|217507 pfam03350, UPF0114, Uncharacterized protein family, UPF0114.
Length = 124
Score = 29.1 bits (66), Expect = 0.99
Identities = 24/80 (30%), Positives = 35/80 (43%), Gaps = 12/80 (15%)
Query: 141 TFELNHETLYLAV-KLVDLYLGKVVCSRLNLQLLGATAIFVSSKFDDRIPPQLSDLEYIC 199
F ++ L LAV +L+DL+L + L + G +FVS K D P L +
Sbjct: 43 VFTIDETDLILAVLELIDLFLIGTL---LLIVGFGGYELFVS-KLDIAEHPDLPEW---- 94
Query: 200 SHTYSIQDLKDMEIKLVTAI 219
I L D++ KL I
Sbjct: 95 ---LGIVSLDDLKQKLAGVI 111
>gnl|CDD|237863 PRK14949, PRK14949, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 944
Score = 29.3 bits (66), Expect = 2.0
Identities = 19/101 (18%), Positives = 34/101 (33%), Gaps = 17/101 (16%)
Query: 11 SALEDLNLTNSNNKKAESQNSRKT-------VLKSKQTTVSEKKEKSLIEHFDKEIQLE- 62
S L+ L+ + KK+ + KT SK + + + S D + +L
Sbjct: 624 SDLDALSPKEGDGKKSSADRKPKTPPSRAPPASLSKPASSPDASQTSASFDLDPDFELAT 683
Query: 63 ---------DKLEVTGPPSDVDDFDKETWEDPLQVSCYAMH 94
PP D +D+ WE+ +V+
Sbjct: 684 HQSVPEAALASGSAPAPPPVPDPYDRPPWEEAPEVASANDG 724
>gnl|CDD|133021 cd02541, UGPase_prokaryotic, Prokaryotic UGPase catalyses the
synthesis of UDP-glucose. Prokaryotic UDP-Glucose
Pyrophosphorylase (UGPase) catalyzes a reversible
production of UDP-Glucose and pyrophosphate (PPi) from
glucose-1-phosphate and UTP. UDP-glucose plays pivotal
roles in galactose utilization, in glycogen synthesis,
and in the synthesis of the carbohydrate moieties of
glycolipids , glycoproteins , and proteoglycans. UGPase
is found in both prokaryotes and eukaryotes, although
prokaryotic and eukaryotic forms of UGPase catalyze the
same reaction, they share low sequence similarity.
Length = 267
Score = 28.3 bits (64), Expect = 3.4
Identities = 9/33 (27%), Positives = 21/33 (63%)
Query: 43 VSEKKEKSLIEHFDKEIQLEDKLEVTGPPSDVD 75
V+ + ++++ +HFD+ +LE+ LE G ++
Sbjct: 52 VTGRGKRAIEDHFDRSYELEETLEKKGKTDLLE 84
>gnl|CDD|233777 TIGR02205, septum_zipA, cell division protein ZipA. This model
represents the full length of bacterial cell division
protein ZipA. The N-terminal hydrophobic stretch is an
uncleaved signal-anchor sequence. This is followed by an
unconserved, variable length, low complexity region, and
then a conserved C-terminal region of about 140 amino
acids (see pfam04354) that interacts with the
tubulin-like cell division protein FtsZ [Cellular
processes, Cell division].
Length = 284
Score = 28.3 bits (63), Expect = 3.6
Identities = 15/40 (37%), Positives = 19/40 (47%)
Query: 37 KSKQTTVSEKKEKSLIEHFDKEIQLEDKLEVTGPPSDVDD 76
Q TV + KSL E +E ++ LEVT PP D
Sbjct: 117 NVAQQTVEPRVAKSLPEASPQEEEVGKNLEVTAPPKQKDK 156
>gnl|CDD|237827 PRK14832, PRK14832, undecaprenyl pyrophosphate synthase;
Provisional.
Length = 253
Score = 27.3 bits (60), Expect = 6.5
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 77 FDKETWEDPLQVSCYAMHIFEYLKSRE 103
F E W+ P++ + M +FE L RE
Sbjct: 71 FSTENWQRPIEEVDFLMLLFERLLRRE 97
>gnl|CDD|165265 PHA02956, PHA02956, hypothetical protein; Provisional.
Length = 189
Score = 27.2 bits (60), Expect = 6.9
Identities = 17/63 (26%), Positives = 30/63 (47%), Gaps = 8/63 (12%)
Query: 155 LVDLYLGKVVCSRLNL-QLLGATAIFVSSKFDDRIPPQLSDLEYICSHTYSIQDLKDMEI 213
++D GK++C + + L I D I +L + I +H +Q LKD+ I
Sbjct: 110 IIDSSSGKIICEGIGIIDKLRLHGI-------DFIKDKLFSEDEIINHLVGVQKLKDICI 162
Query: 214 KLV 216
K++
Sbjct: 163 KMI 165
>gnl|CDD|233871 TIGR02444, TIGR02444, TIGR02444 family protein. Members of this
family are bacterial hypothetical proteins, about 160
amino acids in length, found in various Proteobacteria,
including members of the genera Pseudomonas and Vibrio.
The C-terminal region is poorly conserved and is not
included in the model [Hypothetical proteins,
Conserved].
Length = 116
Score = 26.3 bits (58), Expect = 7.6
Identities = 17/75 (22%), Positives = 32/75 (42%), Gaps = 2/75 (2%)
Query: 96 FEYLKSREAEFQIKDYLPFQSSTEKGN--INAEMRSVLVDWMVEVQETFELNHETLYLAV 153
F +L R F ++ Q+ + + +R+V + +T E + L AV
Sbjct: 38 FLWLAERGLAFDEQEIAQVQACAGTWSEDVVRPLRAVRRQLKQHLPDTPEEINAALRAAV 97
Query: 154 KLVDLYLGKVVCSRL 168
K ++L K++ S L
Sbjct: 98 KALELQGEKLLQSDL 112
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
0.316 0.133 0.372
Gapped
Lambda K H
0.267 0.0783 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,824,403
Number of extensions: 1089314
Number of successful extensions: 1022
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1019
Number of HSP's successfully gapped: 30
Length of query: 240
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 146
Effective length of database: 6,768,326
Effective search space: 988175596
Effective search space used: 988175596
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 57 (25.6 bits)