RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1277
(1312 letters)
>gnl|CDD|217865 pfam04054, Not1, CCR4-Not complex component, Not1. The Ccr4-Not
complex is a global regulator of transcription that
affects genes positively and negatively and is thought to
regulate transcription factor TFIID.
Length = 375
Score = 341 bits (877), Expect = e-106
Identities = 128/258 (49%), Positives = 166/258 (64%), Gaps = 11/258 (4%)
Query: 1056 HQKVLSAYCSVLHILRPSKQPGFAYAWLEIVAHRTFIGRMLVITPHQKGWPLYAQLLIDI 1115
+ A+ LH L+P K PGF +AWLE+++HR F+ RML P+QKGWPLY +LLID+
Sbjct: 18 DSQFYLAFAEYLHSLQPIKYPGFVFAWLELISHRMFLPRML-RLPNQKGWPLYVKLLIDL 76
Query: 1116 FKFLAPFLRNVELSKPNLTFYKGVLRVLLVLLHDFPEFLCDYHYQFCDVIPANCIQMRNL 1175
KFL FL+N LS YKG LR+LLVLLHDFPEFL +YHYQ CD IP NCIQ+RNL
Sbjct: 77 LKFLDEFLKNANLSDAVKVLYKGTLRILLVLLHDFPEFLIEYHYQLCDAIPPNCIQLRNL 136
Query: 1176 ILSAFPGNMRLPDPFTPNLKVDTLADINQAPRMHADFASLIQPATFKKDLDAYLKTRSPV 1235
ILSAFP NM+LPDPFTP LKVD L +I +AP++ D + +Q A KK +D YL+ R
Sbjct: 137 ILSAFPKNMKLPDPFTPGLKVDRLPEIKEAPKILYDPVADLQSAGLKKPVDNYLRIRPSE 196
Query: 1236 TFLAEVRAAVQVSHE--------PGSRYNTELMNAIVLYVGTQAILSIRAKSLSPNNKTI 1287
+ L + + +S + + N +L+NA+VL+VG QA+L I KS + N T
Sbjct: 197 SLLRTICNGLYLSEDEQTVGIGYDPVKVNVKLINALVLHVGIQAVLEILKKSQNANFNTK 256
Query: 1288 AHSAHMDIFLNFAVDLDT 1305
S HM + N A +LD
Sbjct: 257 --SPHMALLSNLANELDP 272
>gnl|CDD|221802 pfam12842, DUF3819, Domain of unknown function (DUF3819). This is
an uncharacterized domain that is found on the CCR4-Not
complex component Not1. Not1 is a global regulator of
transcription that affects genes positively and
negatively and is thought to regulate transcription
factor TFIID.
Length = 147
Score = 192 bits (489), Expect = 1e-56
Identities = 72/150 (48%), Positives = 102/150 (68%), Gaps = 3/150 (2%)
Query: 265 QPVLKPLVRTAVERSIHEWISLVVERAVKIAVNTAEQIVKKDFALDPDEGRMRSAAHHIA 324
P LK LV+ A++R+I E IS VVER+V IA T E++V+KDFAL+PDE ++R AAH++
Sbjct: 1 HPDLKRLVQLALDRAIREIISPVVERSVTIAAITTEELVRKDFALEPDENKLRRAAHNMV 60
Query: 325 RNLTAGMAMITCRDQLQQSIKANLKHLFTTAITNATPQQKELMDQTVTICAGDNMELACA 384
R+L +A++TC++ L++SI NL+ L T T +EL +Q V I DN+ELACA
Sbjct: 61 RSLAGSLALVTCKEPLRESISNNLRSLLQ---TLLTSPDQELPEQAVQILVNDNLELACA 117
Query: 385 FIQKTAIEKALPDIDKHLAGEYERRKHARS 414
I+K A EKA+ +ID+ LA E E R+ R
Sbjct: 118 LIEKAAAEKAVREIDEKLAPEIELRRRHRE 147
Score = 134 bits (340), Expect = 2e-36
Identities = 46/94 (48%), Positives = 69/94 (73%)
Query: 559 QPVLKPLVRTAVERSIHEWISLVVERAVKIAVNTAEQIVKKDFALDPDEGRMRSAAHHIA 618
P LK LV+ A++R+I E IS VVER+V IA T E++V+KDFAL+PDE ++R AAH++
Sbjct: 1 HPDLKRLVQLALDRAIREIISPVVERSVTIAAITTEELVRKDFALEPDENKLRRAAHNMV 60
Query: 619 RNLTAGMAMITCRDQLQQSIKANLKHLFTTAITV 652
R+L +A++TC++ L++SI NL+ L T +T
Sbjct: 61 RSLAGSLALVTCKEPLRESISNNLRSLLQTLLTS 94
>gnl|CDD|227434 COG5103, CDC39, Cell division control protein, negative regulator of
transcription [Cell division and chromosome partitioning
/ Transcription].
Length = 2005
Score = 179 bits (454), Expect = 4e-45
Identities = 134/620 (21%), Positives = 249/620 (40%), Gaps = 73/620 (11%)
Query: 3 RASIEFNFHVLYSNFLDEIKLPDVTDMVIKETYRNIKVLLRSDKGIANFSDRTLLKNLGH 62
R++ E N LY ++ + D+ ++T +K+LL D + S++ +LKNLG
Sbjct: 831 RSTAEENCRRLYGKVVERLGSKDLYLRFSRKTLEFLKMLL--DYRCESPSEKKVLKNLGS 888
Query: 63 WLGMLTLGRNRPILMVDLDLKSLVAEAYKKGQQELLYVVPFVAKVMESCSRSKLISEVEI 122
WLG +TL +N+PI D K + E+ + + +L+VVPFV+K + S S +
Sbjct: 889 WLGRITLAKNKPITSEQFDFKKFLVESVECRR--ILFVVPFVSKFLRQASCSIIFKPPNP 946
Query: 123 FLASLVTLVGVQNTLLPSSLHALIEALVALRRTRDAHSAVALIQKDLVPSYYLKDPDNLK 182
++ ++ L+ ++ P L E LR H V L + PS L + LK
Sbjct: 947 WVMGILKLLSELHSCAPRVLRLKFEIEGLLR-----HLNVEL--VPIKPSKSLGNHLVLK 999
Query: 183 FSELQLAVTHKKPPPQALTQPAINAQSSGAAAQTMAAQSSTPPLTMQQPPEPRYSYTSVN 242
+ K+ P L + AQ + SS +T
Sbjct: 1000 ------SRLEKELPEDVLNAK--FPDGTDYLAQYIIEDSSQITVTDLV------------ 1039
Query: 243 VANIGNIAPHIVINSQLALFQAQPVLKPLVRTAVERSIHEWISLVVERAVKIAVNTAEQI 302
++G +P +K L + A++ S+ E VVE++ IA+ T +
Sbjct: 1040 ARHVG---------------SPKPAIKNLTQLALDLSVREICGAVVEKSCGIAIQTTMAL 1084
Query: 303 VKKDFALDPDEGRMRSAAHHIARNLTAGMAMITCRDQLQQSIKANLKHLFTTAITNATPQ 362
KKDFA++ ++ + AA ++ NL +A++T ++ L+ I N++ +
Sbjct: 1085 FKKDFAMEVEKSMLYVAARNMVVNLAKFLALVTAQEPLKACISGNVRSYA--------MK 1136
Query: 363 QKELMD---QTVTICAGDNMELACAFIQKTAIEKALPDIDKHLAGEY-ERRKHARSEQRR 418
++D + V A +N ++AC I++ + K I + ER +H ++
Sbjct: 1137 LCSVLDFSAEKVDKIAMENQDVACRLIERAGVSKVSESISAEIEHMIVERVRHRKTTPNL 1196
Query: 419 YCDSQVLTYQAERMPEQIRLKVGGVTPQQMAVYEEFAR----NIPGFQPLSERDAALFLP 474
+ +P + L +G TPQQ ++YE+F R I G +A
Sbjct: 1197 PFVDPAAANLSLNLPSSLELSIGKATPQQFSLYEDFDRLSLSTIMGHIEKIAINAIDTDS 1256
Query: 475 KPEPP--PPGPPVSAFNGVDEMGTIYDKLISEVEIFLASL---VTLVGVQNTLLPSSL-H 528
+ N ++ Y + + ++ L L + +N + + H
Sbjct: 1257 ADSTDALNNNLNNTVENEANQTALEYQENLLIIKAQLVQLSKKIPYSSKKN--VIADEEH 1314
Query: 529 ALIEALVALRRT--RDAHSAVALIQKLALFQAQPVLKPLVRTAVERSIHEWISLVVERAV 586
L++ T R ++A L Q L + S E +S +E+
Sbjct: 1315 GLLKEGKNQFETVFRRILESIASSDDKDLECIQLCRYILGHLSKSPSKEEVLSRCLEKIC 1374
Query: 587 KIAVNTAEQIVKK-DFALDP 605
KI+ T ++++ ++ DP
Sbjct: 1375 KISFKTQKEVLGWLIYSNDP 1394
Score = 141 bits (356), Expect = 1e-33
Identities = 88/370 (23%), Positives = 136/370 (36%), Gaps = 72/370 (19%)
Query: 888 TLFVHQMNCHGILKSDELITRFFR--FATSLVVGVSPTPTRSKMFQTLDAYAKLIALLVK 945
+F+ Q+ G + I FF+ + PT + + +DA LI +
Sbjct: 1519 EMFLPQLMERGDYSASLDIRSFFKVSLEHFIRAFHERIPT-AYCYLKIDALPSLIKNRLY 1577
Query: 946 HSGSGEHANSNTKINLLNKVLGIISGVLITDQEARQHEFHQLPYHRIFIMLFLELNVPDP 1005
GS E T L K++ I V R H + R+F + +E
Sbjct: 1578 EEGSTE----GTVSVLFRKIIKDILFVFAEAHRKRAEFVHNYLFFRLFSRILIETLDVID 1633
Query: 1006 VLEAINFQVLSAYCSVLHILRPSKQPGFAYAWLEIVAHRTFIGRMLVITPHQKVLSAYCS 1065
+ S S+ L+PS+ PGF +AWLE+++H+ + ++L++
Sbjct: 1634 EDTSCFVNNRSVVYSIFEALQPSRFPGFTFAWLELLSHKFLLPKVLLV------------ 1681
Query: 1066 VLHILRPSKQPGFAYAWLEIVAHRTFIGRMLVITPHQKGWPLYAQLLIDIFKFLAPFLRN 1125
+ K L+++ L+ KFL
Sbjct: 1682 ----------------------------------NNDKINDLFSEGLMSFLKFLDLSEEG 1707
Query: 1126 VELSKPNLTFYKGVLRVLLVLLHDFPEFLCDYHYQFCDVIPANCIQMRNLILSAFPGNMR 1185
V L L Y G LR +LV LHDFP FL YQ P C+Q+RN++LSA+P ++
Sbjct: 1708 VVLVMEAL--YCGFLRTILVYLHDFPGFLITQIYQLFRRNPLECVQLRNMMLSAYPSDLT 1765
Query: 1186 LPDPFTPNLKVDTLADINQAP-----------------RMHADFASLIQPATFKKDLDAY 1228
P PF LKV I P + A S +Q T K D Y
Sbjct: 1766 YPCPFAQGLKVQEYPHIKNFPNQFRDRIVPLEGQNSFFDLEACLRSALQNRTSVKVTDLY 1825
Query: 1229 LKTRSPVTFL 1238
+ +P+
Sbjct: 1826 IGKNTPLWVY 1835
Score = 72.7 bits (178), Expect = 1e-12
Identities = 26/87 (29%), Positives = 50/87 (57%)
Query: 560 PVLKPLVRTAVERSIHEWISLVVERAVKIAVNTAEQIVKKDFALDPDEGRMRSAAHHIAR 619
P +K L + A++ S+ E VVE++ IA+ T + KKDFA++ ++ + AA ++
Sbjct: 1048 PAIKNLTQLALDLSVREICGAVVEKSCGIAIQTTMALFKKDFAMEVEKSMLYVAARNMVV 1107
Query: 620 NLTAGMAMITCRDQLQQSIKANLKHLF 646
NL +A++T ++ L+ I N++
Sbjct: 1108 NLAKFLALVTAQEPLKACISGNVRSYA 1134
>gnl|CDD|185214 PRK15314, PRK15314, outer membrane protein RatB; Provisional.
Length = 2435
Score = 33.3 bits (75), Expect = 1.1
Identities = 43/167 (25%), Positives = 64/167 (38%), Gaps = 30/167 (17%)
Query: 171 PSYYLKDPDNLKFSELQLAVTHKKP---PPQALTQPAINAQSSGAAAQTMA-AQSSTPPL 226
P Y P S+ A+T P P + Q+ A T+ A ++TP
Sbjct: 72 PVDYSAKPSQFSTSDAGSALTLTNPHDTEGDIFAVPPLVWQAERAPTVTLVWADAATPDT 131
Query: 227 TMQQPPEPRYSYTSVNVANIGNIAPHIVINSQLALFQAQPVLKPLVRTAVERSIHEWISL 286
+ P S+ + N+A H+V+ SQL A P L L RT V
Sbjct: 132 PLDPQPVSNISFCAQNLA-----GRHLVVWSQLDTSTAIPPLWLLTRTGV---------- 176
Query: 287 VVERAVKIAVNTAEQIVKKDFALD--PDEGR-MRSAAHHIARNLTAG 330
NTA +++ + FA+D P G + AA H+ +L A
Sbjct: 177 --------PYNTAVEVLDQKFAVDIAPAVGDPVTLAADHLDESLNAA 215
>gnl|CDD|99936 cd05504, Bromo_Acf1_like, Bromodomain; Acf1_like or BAZ1A_like
subfamily. Bromo adjacent to zinc finger 1A (BAZ1A) was
identified as a novel human bromodomain gene by cDNA
library screening. The Drosophila homologue, Acf1, is
part of the CHRAC (chromatin accessibility complex) and
regulates ISWI-induced nucleosome remodeling.
Bromodomains are 110 amino acid long domains, that are
found in many chromatin associated proteins.
Bromodomains can interact specifically with acetylated
lysine.
Length = 115
Score = 30.8 bits (70), Expect = 1.3
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 138 LPSSLHALIEALVALRRTRDAHSAVALIQKDLVPSYY 174
P +L AL + LV + + +D+ + + K VP YY
Sbjct: 10 GPLNLSALEQLLVEIVKHKDSWPFLRPVSKIEVPDYY 46
>gnl|CDD|216016 pfam00602, Flu_PB1, Influenza RNA-dependent RNA polymerase subunit
PB1. Two GTP binding sites exist in this protein.
Length = 740
Score = 32.5 bits (74), Expect = 2.0
Identities = 18/77 (23%), Positives = 30/77 (38%), Gaps = 3/77 (3%)
Query: 240 SVNVANIGNIAPHIVINSQLALFQAQPVLKPLVRTAVERS--IHEWISLVVERAVKIAVN 297
S ++A + + +IN+ L+ AQ L+ + + H S V R +K
Sbjct: 520 SADLAIGMTVIKNNMINNNLSPSTAQMALR-IFIKDYRYTYRCHRGDSKVGTRRMKELKE 578
Query: 298 TAEQIVKKDFALDPDEG 314
+ KD L D G
Sbjct: 579 FIRETCGKDGLLIADGG 595
>gnl|CDD|215036 PLN00034, PLN00034, mitogen-activated protein kinase kinase;
Provisional.
Length = 353
Score = 32.1 bits (73), Expect = 2.1
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 463 PLSERDAALFLPKPEPPPPGP-PVSAFNGVDEMGTIYDKLISEVE 506
PL +RD +L +P P PPP S+ + K +SE+E
Sbjct: 33 PLPQRDPSLAVPLPLPPPSSSSSSSSSSSASGSAPSAAKSLSELE 77
>gnl|CDD|219061 pfam06495, Transformer, Fruit fly transformer protein. This family
consists of transformer proteins from several Drosophila
species and also from Ceratitis capitata (Mediterranean
fruit fly). The transformer locus (tra) produces an RNA
processing protein that alternatively splices the
doublesex pre-mRNA in the sex determination hierarchy of
Drosophila melanogaster.
Length = 182
Score = 30.8 bits (69), Expect = 3.4
Identities = 18/79 (22%), Positives = 25/79 (31%), Gaps = 7/79 (8%)
Query: 407 ERRKHARSEQRRYCDSQVLTYQAERMPEQIRLKVG--GVTPQQMAVYEEFARNIPGFQPL 464
ERR+ +RS R +++T G PQ + F + L
Sbjct: 97 ERRRRSRSRSRYSRTPRIITVPVPVPAADYPYAYGWPPPAPQFSGMQGAF-----PYGML 151
Query: 465 SERDAALFLPKPEPPPPGP 483
F P P PP P
Sbjct: 152 PRPVPPYFAPYPRPPAPFR 170
>gnl|CDD|215225 PLN02401, PLN02401, diacylglycerol o-acyltransferase.
Length = 446
Score = 31.3 bits (71), Expect = 3.5
Identities = 38/157 (24%), Positives = 56/157 (35%), Gaps = 35/157 (22%)
Query: 48 IANFSDRTLLKNLGHWLGMLTLGRNRPILMVDLDLKSLVAEAYKKGQQELLYVVPFVAKV 107
I N L G W +L R+ P+ M L L V P A +
Sbjct: 71 IENLMKYGWLIRTGFWFSSRSL-RDWPLFMCCLSLP----------------VFPLAAFL 113
Query: 108 MESCSRSKLISE-VEIFLASLVTLVGV----------QNTLLPSSLHALIEALVALRRTR 156
+E + K ISE V IFL ++T V + +L L+ +V L+
Sbjct: 114 VEKLAYRKYISEPVVIFLHIIITTAEVLYPVLVILRCDSAVLSGVTLMLLACIVWLKLVS 173
Query: 157 DAHS-----AVA-LIQKDLVPSYYLKDPDNLKFSELQ 187
AH+ A+A I K PS +P+ +
Sbjct: 174 YAHTNYDMRALAKSIDKGEAPSTSA-NPEVSYDVTFK 209
>gnl|CDD|239040 cd02125, PA_VSR, PA_VSR: Protease-associated (PA) domain-containing
plant vacuolar sorting receptor (VSR). This group
includes various PA domain-containing VSRs such as
garden pea BP-80, pumpkin PV72, and various Arabidopsis
VSRs including AtVSR1. In contrast to most eukaryotes,
which only have one or two VSRs, plants have several.
This may in part be a reflection of having a more
complex vacuolar system with both lytic vacuoles and
storage vacuoles. The lytic vacuole is thought to be
equivalent to the mammalian lysosome and the yeast
vacuole. Pea BP-80 is a type 1 transmembrane protein,
involved in the targeting of proteins to the lytic
vacuole; it has been suggested that this protein also
mediates targeting to the storage vacuole. PV72 and
AtVSR1 may mediate transport of seed storage proteins to
protein storage vacuoles. The significance of the PA
domain to VSRs has not been ascertained. It may be a
protein-protein interaction domain. At peptidase active
sites, the PA domain may participate in substrate
binding and/or promoting conformational changes, which
influence the stability and accessibility of the site to
substrate.
Length = 127
Score = 29.4 bits (66), Expect = 4.7
Identities = 16/33 (48%), Positives = 18/33 (54%)
Query: 201 TQPAINAQSSGAAAQTMAAQSSTPPLTMQQPPE 233
T A NAQ +GAAA +A P LTM P E
Sbjct: 56 TLKAWNAQQAGAAAVLVADNVDEPLLTMDTPEE 88
>gnl|CDD|219797 pfam08326, ACC_central, Acetyl-CoA carboxylase, central region.
The region featured in this family is found in various
eukaryotic acetyl-CoA carboxylases, N-terminal to the
catalytic domain (pfam01039). This enzyme (EC:6.4.1.2)
is involved in the synthesis of long-chain fatty acids,
as it catalyzes the rate-limiting step in this process.
Length = 707
Score = 30.7 bits (70), Expect = 7.0
Identities = 42/194 (21%), Positives = 66/194 (34%), Gaps = 46/194 (23%)
Query: 644 HLFTTAITVIENLLDG-HTHIPN-----------DPELTLRYKD-----LHLRIVKALQD 686
F + + N+L G + N DPEL L R+ L++
Sbjct: 33 QRFRALLNALRNILAGYNEVDMNSTLQELIEVLRDPELPYLEWQEQMSALASRLPPKLEE 92
Query: 687 L--------RAFGVQWTNKQITRCLIECREEYRYNLEAVDTLIRAQLIHLPQYDLALAHS 738
+ + KQ+ R LIE + + R L L ++LA
Sbjct: 93 ELESLVERYESRIASFPAKQL-RKLIE---------KYLALDPRELLERLVAPLVSLAER 142
Query: 739 MENGLNYVAVAFCMQLLQHYLVEERGTAGVTESDML--------NTLEVLIRIA-SHHRQ 789
E GL LL+ YL E + E D++ + L ++ I SH R
Sbjct: 143 YEGGLKSHEHNVVKSLLEEYLSVEELFSNGREEDVILKLRDENKDDLSKVVDIVLSHSRV 202
Query: 790 PPEG--LTALIDML 801
+ + AL+D L
Sbjct: 203 KAKNKLVLALLDQL 216
>gnl|CDD|220182 pfam09328, Phytochelatin_C, Domain of unknown function (DUF1984).
Members of this family of functionally uncharacterized
domains are found at the C-terminus of plant
phytochelatin synthases.
Length = 264
Score = 30.0 bits (68), Expect = 8.0
Identities = 13/57 (22%), Positives = 32/57 (56%)
Query: 523 LPSSLHALIEALVALRRTRDAHSAVALIQKLALFQAQPVLKPLVRTAVERSIHEWIS 579
LP++ I+ + +RR + +S+++ +K L + VL+ + T + + + +W+S
Sbjct: 51 LPANFGDFIKWVAEVRRQEEGNSSLSKEEKERLALKEEVLQQVRETELFKHVTKWLS 107
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
0.322 0.136 0.396
Gapped
Lambda K H
0.267 0.0792 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 67,820,376
Number of extensions: 6937671
Number of successful extensions: 6555
Number of sequences better than 10.0: 1
Number of HSP's gapped: 6541
Number of HSP's successfully gapped: 35
Length of query: 1312
Length of database: 10,937,602
Length adjustment: 108
Effective length of query: 1204
Effective length of database: 6,147,370
Effective search space: 7401433480
Effective search space used: 7401433480
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 65 (28.7 bits)