RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1888
(386 letters)
>gnl|CDD|217217 pfam02759, RUN, RUN domain. This domain is present in several
proteins that are linked to the functions of GTPases in
the Rap and Rab families. They could hence play
important roles in multiple Ras-like GTPase signalling
pathways. The domain is comprises six conserved regions,
which in some proteins have considerable insertions
between them. The domain core is thought to take up a
predominantly alpha fold, with basic amino acids in
regions A and D possibly playing a functional role in
interactions with Ras GTPases.
Length = 128
Score = 126 bits (320), Expect = 8e-36
Identities = 48/128 (37%), Positives = 74/128 (57%), Gaps = 5/128 (3%)
Query: 100 HFFIVLEHVLRHGLKPK---KGLLGPKKELWDILQLVEKLNPEASDITASVRDLPTVKTH 156
LE +L HGLK + L ++ W +L+ V KL P A ++ SV++LP + T
Sbjct: 1 SLCPALEALLSHGLKRRSLDAAGLLRERSFWSLLERVGKLVPPAEELIRSVQELPQIHTP 60
Query: 157 MGRARAWLRLALMQKKLADYLQVLVDHRDDILVEYFETDALLMSDEAIVILGKLLS-LNV 215
GR RAW+RLAL +K L +L +L+ ++ ++L +Y+E ALL E + IL LL L+
Sbjct: 61 DGRFRAWIRLALNEKVLESWLSLLLSNK-ELLSKYYEPWALLRDPEFVSILLGLLVGLSA 119
Query: 216 IDCNLCVK 223
+D NL +
Sbjct: 120 LDFNLDLD 127
>gnl|CDD|214736 smart00593, RUN, domain involved in Ras-like GTPase signaling.
Length = 64
Score = 57.2 bits (139), Expect = 6e-11
Identities = 25/65 (38%), Positives = 37/65 (56%), Gaps = 2/65 (3%)
Query: 160 ARAWLRLALMQKKLADYLQVLVDHRDDILVEYFETDALLMSDEAIVILGKLL-SLNVIDC 218
RAW+RLAL +K L+ +L +L+ ++L +Y+E A L E L LL L+ +D
Sbjct: 1 FRAWIRLALNEKLLSSWLNLLLSDE-ELLSKYYEPWAFLRDPEEGEQLLGLLVGLSALDF 59
Query: 219 NLCVK 223
NL V
Sbjct: 60 NLPVD 64
>gnl|CDD|191114 pfam04859, DUF641, Plant protein of unknown function (DUF641).
Plant protein of unknown function.
Length = 132
Score = 34.6 bits (80), Expect = 0.022
Identities = 17/67 (25%), Positives = 32/67 (47%), Gaps = 2/67 (2%)
Query: 319 LKNQLANSSQHTSNLS-VHEV-GLKAEMEVAMKLLERDVHQKQDTIIELRRQLEDIKMIN 376
+ + + Q + + E L E+ +K LE +V K I LR +LE++ + N
Sbjct: 66 RRKRQKGAPQDAILAAEIQEQRSLLKTYEIMVKKLEAEVRAKDSEIDSLREKLEELLVAN 125
Query: 377 LEMYKKL 383
++ K+L
Sbjct: 126 SKLEKRL 132
>gnl|CDD|234501 TIGR04211, SH3_and_anchor, SH3 domain protein. Members of this
protein family have a signal peptide, a strongly
conserved SH3 domain, a variable region, and then a
C-terminal hydrophobic transmembrane alpha helix region.
Length = 198
Score = 33.1 bits (76), Expect = 0.13
Identities = 29/132 (21%), Positives = 58/132 (43%), Gaps = 12/132 (9%)
Query: 251 EVTSQVEDNMSLVLDQKN---YIEELNRHLNATVGNLQTQVESLTTTNALMREDLSIAEK 307
EV + +D S V K ++ L+R+L+ T + ++ L A ++E+L+ ++
Sbjct: 31 EVLERSDDGYSRVRTPKGREGWV--LSRYLSDTPS-ARERLPELQQELAELQEELAELQE 87
Query: 308 NLRILIQENENLKNQLANSSQHTSNLSVHEVGLKAEMEVAMKL------LERDVHQKQDT 361
L L QEN+ LK +L+ L +K A++L L ++ + +
Sbjct: 88 QLAELQQENQELKQELSTLEAELERLQKELARIKQLSANAIELDEENRELREELAELKQE 147
Query: 362 IIELRRQLEDIK 373
L + E ++
Sbjct: 148 NEALEAENERLQ 159
>gnl|CDD|234342 TIGR03752, conj_TIGR03752, integrating conjugative element protein,
PFL_4705 family. Members of this protein family are
found occasionally on plasmids such as the Pseudomonas
putida toluene catabolic TOL plasmid pWWO_p085. Usually,
however, they are found on the bacterial main chromosome
in regions flanked by markers of conjugative transfer
and/or transposition [Mobile and extrachromosomal
element functions, Plasmid functions].
Length = 472
Score = 33.5 bits (77), Expect = 0.21
Identities = 16/75 (21%), Positives = 31/75 (41%), Gaps = 5/75 (6%)
Query: 298 MREDLSIAEKNLRILIQENENLKNQLANSSQHTSN-LSVHEVGLKAEMEVAMKLLERDVH 356
+R+ L+ L ENE L+ + + Q + E+ ++ L+ +
Sbjct: 71 LRKRLAKLISENEALKAENERLQKREQSIDQQIQQAVQ----SETQELTKEIEQLKSERQ 126
Query: 357 QKQDTIIELRRQLED 371
Q Q I +L+R+L
Sbjct: 127 QLQGLIDQLQRRLAG 141
>gnl|CDD|225437 COG2882, FliJ, Flagellar biosynthesis chaperone [Cell motility and
secretion / Intracellular trafficking and secretion /
Posttranslational modification, protein turnover,
chaperones].
Length = 148
Score = 31.6 bits (72), Expect = 0.34
Identities = 22/102 (21%), Positives = 45/102 (44%), Gaps = 5/102 (4%)
Query: 285 QTQVESLTTTNALMREDLSIAEKNLRILIQENENLKNQLANSSQHTSNLSVHEVGLKAEM 344
+ + E + +R + AE+ L++L + L + S +S +
Sbjct: 15 KKEEEEAAIELSKIRSEKENAEEQLKMLSGYRNEYEQNLN--EKLKSGVSAAQWQ---NY 69
Query: 345 EVAMKLLERDVHQKQDTIIELRRQLEDIKMINLEMYKKLQAL 386
+ + LE + Q+Q + +LR+Q+E + I E +L+AL
Sbjct: 70 QQFISQLEVAIDQQQSQLSKLRKQVEQKREIWQEKQIELKAL 111
>gnl|CDD|214534 smart00138, MeTrc, Methyltransferase, chemotaxis proteins.
Methylates methyl-accepting chemotaxis proteins to form
gamma-glutamyl methyl ester residues.
Length = 264
Score = 31.5 bits (72), Expect = 0.63
Identities = 12/45 (26%), Positives = 21/45 (46%), Gaps = 1/45 (2%)
Query: 149 DLPTVKTHMGRARAWLRL-ALMQKKLADYLQVLVDHRDDILVEYF 192
L K + ++R RL L K ++YL++L HR + +
Sbjct: 18 VLTDYKRTLLQSRLSRRLRVLGLKDFSEYLELLTSHRGEEELAEL 62
>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common
bacterial type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. This family
represents the SMC protein of most bacteria. The smc
gene is often associated with scpB (TIGR00281) and scpA
genes, where scp stands for segregation and condensation
protein. SMC was shown (in Caulobacter crescentus) to be
induced early in S phase but present and bound to DNA
throughout the cell cycle [Cellular processes, Cell
division, DNA metabolism, Chromosome-associated
proteins].
Length = 1179
Score = 31.2 bits (71), Expect = 1.0
Identities = 22/125 (17%), Positives = 44/125 (35%), Gaps = 7/125 (5%)
Query: 251 EVTSQVEDNMSLVLDQKNYIEELN---RHLNATVGNLQTQVESLTTTNALMREDLSIAEK 307
E+ ++E+ + N I L + L + NL+ Q+E L + L +
Sbjct: 278 ELEEEIEELQKELYALANEISRLEQQKQILRERLANLERQLEELEAQLEELESKLDELAE 337
Query: 308 NLRILIQENENLKNQLANSSQHTSNLSVHEVGLKAEMEVAMKLLERDVHQKQDTIIELRR 367
L E E +L + E+E ++ LE + + + +L
Sbjct: 338 EL----AELEEKLEELKEELESLEAELEELEAELEELESRLEELEEQLETLRSKVAQLEL 393
Query: 368 QLEDI 372
Q+ +
Sbjct: 394 QIASL 398
Score = 30.0 bits (68), Expect = 2.3
Identities = 29/136 (21%), Positives = 59/136 (43%), Gaps = 14/136 (10%)
Query: 250 EEVTSQVEDNMSLVLDQKNYIEELNRHLNATVGNLQTQVESLTTTNALMREDLSIAEKNL 309
EE+ ++E+ + + + + EL + L L+ ++E L + +S K+L
Sbjct: 680 EELEEKIEELEEKIAELEKALAELRKELE----ELEEELEQLRKELEELSRQISALRKDL 735
Query: 310 RILIQENENLKNQLANSSQHTSNLSVHEVGL----------KAEMEVAMKLLERDVHQKQ 359
L E E L+ ++A S+ + L L AE E ++ LE + Q +
Sbjct: 736 ARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEELAEAEAEIEELEAQIEQLK 795
Query: 360 DTIIELRRQLEDIKMI 375
+ + LR L++++
Sbjct: 796 EELKALREALDELRAE 811
Score = 28.9 bits (65), Expect = 5.3
Identities = 23/107 (21%), Positives = 48/107 (44%), Gaps = 3/107 (2%)
Query: 270 IEELNRHLNATVGNLQTQVESLTTTNALMREDLSIAEKNLRILIQENENLKNQLANSSQH 329
+EE L+ + L+ ++E L E+L+ AE + L + E LK +L +
Sbjct: 745 LEERIAQLSKELTELEAEIEELEERLEEAEEELAEAEAEIEELEAQIEQLKEELKALREA 804
Query: 330 TSNLS--VHEVGLKA-EMEVAMKLLERDVHQKQDTIIELRRQLEDIK 373
L + + +A + ++ LER + + + +L Q+E++
Sbjct: 805 LDELRAELTLLNEEAANLRERLESLERRIAATERRLEDLEEQIEELS 851
Score = 28.9 bits (65), Expect = 5.3
Identities = 26/130 (20%), Positives = 56/130 (43%), Gaps = 7/130 (5%)
Query: 249 PEEVTSQVEDNMSLVLDQKNYIEELNRHLNATVGNLQTQVESLTTTNALMREDLSIAEKN 308
EE+ S++E +L+++ +EE L + + L ++ L + + +R +L +
Sbjct: 868 IEELESELE----ALLNERASLEEALALLRSELEELSEELRELESKRSELRRELEELREK 923
Query: 309 LRILIQENENLKNQLANSSQHTSNLSVHEVGLKAEMEVAMKLLERDVHQKQDTIIELRRQ 368
L L E L+ ++ N LS E E +E D + + + L +
Sbjct: 924 LAQLELRLEGLEVRIDNL---QERLSEEYSLTLEEAEALENKIEDDEEEARRRLKRLENK 980
Query: 369 LEDIKMINLE 378
++++ +NL
Sbjct: 981 IKELGPVNLA 990
Score = 28.5 bits (64), Expect = 8.8
Identities = 26/140 (18%), Positives = 57/140 (40%), Gaps = 7/140 (5%)
Query: 250 EEVTSQVEDNMSLVLDQKNYIEELNRHLNATVGNLQTQVESLTTTNALMREDLSIAEKNL 309
EE+ +Q+E + + ++EL L E L + ++ E+ L
Sbjct: 785 EELEAQIEQLKEELKALREALDELRAELTLLNEEAANLRERL----ESLERRIAATERRL 840
Query: 310 RILIQENENLKNQLANSSQHTSNLSVHEVGLKAEMEVAMKL---LERDVHQKQDTIIELR 366
L ++ E L + + + L L++E+E + LE + + + EL
Sbjct: 841 EDLEEQIEELSEDIESLAAEIEELEELIEELESELEALLNERASLEEALALLRSELEELS 900
Query: 367 RQLEDIKMINLEMYKKLQAL 386
+L +++ E+ ++L+ L
Sbjct: 901 EELRELESKRSELRRELEEL 920
>gnl|CDD|192773 pfam11559, ADIP, Afadin- and alpha -actinin-Binding. This family
is found in mammals where it is localised at cell-cell
adherens junctions, and in Sch. pombe and other fungi
where it anchors spindle-pole bodies to spindle
microtubules. It is a coiled-coil structure, and in
pombe, it is required for anchoring the minus end of
spindle microtubules to the centrosome equivalent, the
spindle-pole body. The name ADIP derives from the family
being composed of Afadin- and alpha -Actinin-Binding
Proteins Localised at Cell-Cell Adherens Junctions.
Length = 149
Score = 29.6 bits (67), Expect = 1.4
Identities = 16/49 (32%), Positives = 26/49 (53%)
Query: 276 HLNATVGNLQTQVESLTTTNALMREDLSIAEKNLRILIQENENLKNQLA 324
L T+ L+TQ+E L AL++ EK L+ L Q+ +N K ++
Sbjct: 68 RLQNTIERLKTQLEDLERELALLQAKERQLEKKLKTLEQKLKNEKEEVQ 116
>gnl|CDD|225616 COG3074, COG3074, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 79
Score = 28.0 bits (62), Expect = 1.8
Identities = 14/54 (25%), Positives = 25/54 (46%)
Query: 280 TVGNLQTQVESLTTTNALMREDLSIAEKNLRILIQENENLKNQLANSSQHTSNL 333
T+ LQ ++E L N + +++ A+ L +ENE LK + + L
Sbjct: 19 TITLLQMEIEELKEKNNSLSQEVQNAQHQREALERENEQLKEEQNGWQERLRAL 72
>gnl|CDD|130673 TIGR01612, 235kDa-fam, reticulocyte binding/rhoptry protein. This
model represents a group of paralogous families in
plasmodium species alternately annotated as reticulocyte
binding protein, 235-kDa family protein and rhoptry
protein. Rhoptry protein is localized on the cell surface
and is extremely large (although apparently lacking in
repeat structure) and is important for the process of
invasion of the RBCs by the parasite. These proteins are
found in P. falciparum, P. vivax and P. yoelii.
Length = 2757
Score = 30.0 bits (67), Expect = 2.7
Identities = 29/118 (24%), Positives = 51/118 (43%), Gaps = 13/118 (11%)
Query: 242 SACYHDHPEEVTSQVEDNMSLVLDQKNYIEELNRHLN--ATVGNLQTQVESLTTTN---- 295
A +D PEE+ ++E+ ++ + +KN +E+ + LN A + +T +E + N
Sbjct: 1161 KAISNDDPEEIEKKIENIVTKIDKKKNIYDEIKKLLNEIAEIEKDKTSLEEVKGINLSYG 1220
Query: 296 ----ALMREDLSIAEKNLRILIQENENLKNQLAN---SSQHTSNLSVHEVGLKAEMEV 346
L E + +K +I+ E L S N E+ +KAEME
Sbjct: 1221 KNLGKLFLEKIDEEKKKSEHMIKAMEAYIEDLDEIKEKSPEIENEMGIEMDIKAEMET 1278
>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 = 29.9 bits (68), Expect = 2.8
Identities = 19/79 (24%), Positives = 33/79 (41%), Gaps = 15/79 (18%)
Query: 298 MREDLSIAEKNLRILIQENENLKNQLANSSQHTSNLSVHEVGLKAEMEVAMKLLERDVHQ 357
R +L E+ L Q E L ++ + + NL E L E+++ +
Sbjct: 74 RRNELQRLERRLL---QREETLDRKMESLDKKEENLEKKEKELSN--------KEKNLDE 122
Query: 358 KQDTIIEL----RRQLEDI 372
K++ + EL R +LE I
Sbjct: 123 KEEELEELIAEQREELERI 141
>gnl|CDD|237024 PRK11922, PRK11922, RNA polymerase sigma factor; Provisional.
Length = 231
Score = 29.2 bits (66), Expect = 3.0
Identities = 19/42 (45%), Positives = 26/42 (61%), Gaps = 5/42 (11%)
Query: 129 ILQLVEKLNPEASDITASVRDLP--TVKTHMGRARAWLRLAL 168
+L++VE+L+ E TA LP TVKT + RAR LR +L
Sbjct: 159 VLRVVEELSVEE---TAQALGLPEETVKTRLHRARRLLRESL 197
>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 = 29.7 bits (66), Expect = 3.2
Identities = 12/21 (57%), Positives = 13/21 (61%)
Query: 33 LDDVEVRVRDPPELRSPSPEP 53
LD+ E PP RSPSPEP
Sbjct: 516 LDEAEEPESPPPPPRSPSPEP 536
>gnl|CDD|240411 PTZ00419, PTZ00419, valyl-tRNA synthetase-like protein;
Provisional.
Length = 995
Score = 29.6 bits (67), Expect = 3.2
Identities = 29/133 (21%), Positives = 54/133 (40%), Gaps = 10/133 (7%)
Query: 193 ETDALLMSDEAIVI-LGKLLSLNVIDCNLCVKEEDLDCQQGVID--FSLYLRSACYHDHP 249
E L+ S E ++ L K+ S++VI E C V+D +YL + D
Sbjct: 869 ELIELIESAENLISTLAKIGSVSVIPPIEEEAEVPKGCGFDVVDNKVIIYLNLDEFIDLK 928
Query: 250 EEVTSQVEDNMSLVLDQKNYIEELNRHLNATVGNLQTQV-ESLTTTNALMREDLSIAEKN 308
+E+ + L +E + ++ N + +V E + N ++L+ K
Sbjct: 929 KELAKLEKKLAKLQ----KSLESYLKKISIP--NYEDKVPEDVRKLNDEKIDELNEEIKQ 982
Query: 309 LRILIQENENLKN 321
L I+E ++L
Sbjct: 983 LEQAIEELKSLLK 995
>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC,
primarily archaeal type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. It is found
in a single copy and is homodimeric in prokaryotes, but
six paralogs (excluded from this family) are found in
eukarotes, where SMC proteins are heterodimeric. This
family represents the SMC protein of archaea and a few
bacteria (Aquifex, Synechocystis, etc); the SMC of other
bacteria is described by TIGR02168. The N- and
C-terminal domains of this protein are well conserved,
but the central hinge region is skewed in composition
and highly divergent [Cellular processes, Cell division,
DNA metabolism, Chromosome-associated proteins].
Length = 1164
Score = 29.7 bits (67), Expect = 3.6
Identities = 21/85 (24%), Positives = 41/85 (48%), Gaps = 5/85 (5%)
Query: 302 LSIAEKNLRILIQENENLKNQLANSSQHTSNLSVHEVGLKAEMEVAMKLLERDVHQKQDT 361
+ EK + L QE E LK +L + S+L +K+E+ K LE + + ++
Sbjct: 718 IGEIEKEIEQLEQEEEKLKERLEELEEDLSSLEQEIENVKSEL----KELEARIEELEED 773
Query: 362 IIELRRQLEDIK-MINLEMYKKLQA 385
+ +L L D++ ++ ++QA
Sbjct: 774 LHKLEEALNDLEARLSHSRIPEIQA 798
Score = 28.5 bits (64), Expect = 8.5
Identities = 20/109 (18%), Positives = 45/109 (41%), Gaps = 5/109 (4%)
Query: 266 QKNYIEELNRHLNATVGNLQTQVESLTTTNALMREDLSIAEKNLRILIQENENLKNQLAN 325
E+++ L A + L+ ++E + E+ + ++ L L E E + + A
Sbjct: 324 LAKLEAEIDK-LLAEIEELEREIEEERKRRDKLTEEYAELKEELEDLRAELEEVDKEFAE 382
Query: 326 SSQHTSNLSVHEVGLKAEMEVAMKLLERDVHQKQDTIIELRRQLEDIKM 374
+ + LK E+ L+R++ + Q+ + L +L D+
Sbjct: 383 TRDELKDYREKLEKLKREINE----LKRELDRLQEELQRLSEELADLNA 427
>gnl|CDD|222469 pfam13949, ALIX_LYPXL_bnd, ALIX V-shaped domain binding to HIV.
The binding of the LYPxL motif of late HIV p6Gag and
EIAV p9Gag to this domain is necessary for viral
budding.This domain is generally central between an
N-terminal Bro1 domain, pfam03097 and a C-terminal
proline-rich domain. The retroviruses thus used this
domain to hijack the ESCRT system of the cell.
Length = 292
Score = 28.8 bits (65), Expect = 4.0
Identities = 22/101 (21%), Positives = 44/101 (43%), Gaps = 3/101 (2%)
Query: 271 EELNRHLNATVGNLQTQVESLTTTNALMREDLSIAEKNLRILIQENENLKNQLANSSQHT 330
EL L + + +E + ++A +R L E+NL +L E L+ L +SS +
Sbjct: 76 SELTAELREELRKYRGYLEQASESDAQLRSKLEEHEENLELLSGPEEELEALLPSSSP-S 134
Query: 331 SNLSVHEVGLKAEMEVAMKLLERDVHQKQDTIIELRRQLED 371
V E + + + L +++ + EL+ + +D
Sbjct: 135 KTPEVSEQ--ISRLRELLNKLNELKAEREKLLEELKEKAQD 173
>gnl|CDD|109649 pfam00601, Flu_NS2, Influenza non-structural protein (NS2). NS2
may play a role in promoting normal replication of the
genomic RNAs by preventing the replication of
short-length RNA species.
Length = 94
Score = 27.2 bits (60), Expect = 4.3
Identities = 16/57 (28%), Positives = 27/57 (47%)
Query: 290 SLTTTNALMREDLSIAEKNLRILIQENENLKNQLANSSQHTSNLSVHEVGLKAEMEV 346
SL N L RE+L + +R LI E+ + NS + + L ++ + E E+
Sbjct: 30 SLQERNRLWREELYQKFEEIRWLILEHRTVLANTENSFEQITFLQALQLLYEVEDEI 86
>gnl|CDD|235057 PRK02628, nadE, NAD synthetase; Reviewed.
Length = 679
Score = 29.1 bits (66), Expect = 4.4
Identities = 10/20 (50%), Positives = 13/20 (65%), Gaps = 2/20 (10%)
Query: 98 LQHFFIVLEHVLRHGLKPKK 117
LQ FF L + LR+G +P K
Sbjct: 569 LQDFF--LYYFLRYGFRPSK 586
>gnl|CDD|218636 pfam05557, MAD, Mitotic checkpoint protein. This family consists
of several eukaryotic mitotic checkpoint (Mitotic arrest
deficient or MAD) proteins. The mitotic spindle
checkpoint monitors proper attachment of the bipolar
spindle to the kinetochores of aligned sister chromatids
and causes a cell cycle arrest in prometaphase when
failures occur. Multiple components of the mitotic
spindle checkpoint have been identified in yeast and
higher eukaryotes. In S.cerevisiae, the existence of a
Mad1-dependent complex containing Mad2, Mad3, Bub3 and
Cdc20 has been demonstrated.
Length = 722
Score = 29.1 bits (65), Expect = 4.5
Identities = 26/126 (20%), Positives = 51/126 (40%), Gaps = 5/126 (3%)
Query: 248 HPEEVTSQVEDNMSLVLDQKNYIEELNRHLNATVGNLQTQVESLTTTNALMREDLSIAEK 307
E Q++ + + +++ L A V LQ ++ +T +R L+ +K
Sbjct: 368 QLETTLQQLQLERQKAVSEILELKKKLEALKALVRRLQRRLTLVTKERDGLRAILNSYDK 427
Query: 308 NLRILIQENENLKNQLANSSQHTSNLSVHEVGLKAEMEVAMKLLERDVHQKQDTIIELRR 367
L ++ QL + +L A+ME + LE DV Q++D L
Sbjct: 428 ELTET-----SVSGQLMKRLEEAEDLVQKVQSHLAKMENQLSELEEDVGQQKDRNNTLET 482
Query: 368 QLEDIK 373
+++ +K
Sbjct: 483 EIKLLK 488
>gnl|CDD|221432 pfam12128, DUF3584, Protein of unknown function (DUF3584). This
protein is found in bacteria and eukaryotes. Proteins in
this family are typically between 943 to 1234 amino
acids in length. This family contains a P-loop motif
suggesting it is a nucleotide binding protein. It may be
involved in replication.
Length = 1198
Score = 29.3 bits (66), Expect = 4.8
Identities = 23/127 (18%), Positives = 53/127 (41%), Gaps = 7/127 (5%)
Query: 254 SQVEDNMSLVLDQKNYIEELNRHLNATVG---NLQTQVESLTTTNALMREDLSIAEKNLR 310
++ V + + +++E H ++ NL Q+ L ++ ++++L+ K+ +
Sbjct: 788 ERIAVRRPEVREYRAFMQETWLHRDSLREERPNLAIQLRELESSAEELQQELTRLIKDTK 847
Query: 311 ILIQENENLKNQLANSSQHTSNLSVHEVGLKAEME-VAMKLLERDVHQKQDTIIELRRQL 369
+ L+ + + L GL+ EM +A + +Q + +I E QL
Sbjct: 848 ---LRRKKLEQERKALEKQLDQLDELLRGLRDEMRQLAELKEPANANQAEGSISERLDQL 904
Query: 370 EDIKMIN 376
E+ K
Sbjct: 905 EEFKRKR 911
>gnl|CDD|227512 COG5185, HEC1, Protein involved in chromosome segregation,
interacts with SMC proteins [Cell division and
chromosome partitioning].
Length = 622
Score = 29.2 bits (65), Expect = 4.9
Identities = 25/122 (20%), Positives = 47/122 (38%), Gaps = 9/122 (7%)
Query: 271 EELNRHLNATVGNLQTQVESLTTTNALMREDLSIAEKNLRILIQENENLK-------NQL 323
+EL V + T + +L T N + E + A K + I+ N+
Sbjct: 256 QELKLGFEKFVHIINTDIANLKTQNDNLYEKIQEAMK-ISQKIKTLREKWRALKSDSNKY 314
Query: 324 ANSSQHTSNLSVHEVGLKAEMEVAMKLLERDVHQKQDTIIELRRQLEDIKMINLEMYKKL 383
N S G +++ ++L E ++ Q I EL +QL + I+ E ++ +
Sbjct: 315 ENYVNAMKQKSQEWPGKLEKLKSEIELKEEEIKALQSNIDELHKQLRK-QGISTEQFELM 373
Query: 384 QA 385
Sbjct: 374 NQ 375
>gnl|CDD|236082 PRK07737, fliD, flagellar capping protein; Validated.
Length = 501
Score = 29.0 bits (65), Expect = 5.5
Identities = 23/86 (26%), Positives = 37/86 (43%), Gaps = 16/86 (18%)
Query: 286 TQVESLTTTNALMREDLSIAEKNLRILIQENENLKNQLANSSQHTSNLSVHEVGLKAEME 345
Q+ T++N L L I E LR I+EN + QL NS S+ + +E G+
Sbjct: 363 AQIGITTSSNYLDGGKLEIDETKLRQKIKENPDAVYQLFNSG--GSSSNYNEKGI----- 415
Query: 346 VAMKLLERDVHQKQDTIIELRRQLED 371
+ +DT+ E + +E
Sbjct: 416 ---------ARRLRDTLKETIKSIEQ 432
>gnl|CDD|114219 pfam05483, SCP-1, Synaptonemal complex protein 1 (SCP-1).
Synaptonemal complex protein 1 (SCP-1) is the major
component of the transverse filaments of the
synaptonemal complex. Synaptonemal complexes are
structures that are formed between homologous
chromosomes during meiotic prophase.
Length = 787
Score = 28.9 bits (64), Expect = 5.7
Identities = 31/133 (23%), Positives = 58/133 (43%), Gaps = 10/133 (7%)
Query: 254 SQVEDNMSLVLDQKNYIEELNRHLNATVGNLQTQVESLTTTNALMREDLSIAEKNLRILI 313
+Q+E+ L + + E HL + +++ ++ +T + EDL IA K + L
Sbjct: 271 NQLEEKTKLQDENLKELIEKKDHLTKELEDIKMSLQRSMSTQKALEEDLQIATKTICQLT 330
Query: 314 QENENLKNQLANSSQHTSNLSVHEVGLKAEMEVAMKLLERDVHQKQDTIIELRRQLEDIK 373
+E E +L N ++ + V E E LE + +Q L + + +K
Sbjct: 331 EEKEAQMEEL-NKAKAAHSFVV------TEFEATTCSLEELLRTEQQ---RLEKNEDQLK 380
Query: 374 MINLEMYKKLQAL 386
+I +E+ KK L
Sbjct: 381 IITMELQKKSSEL 393
>gnl|CDD|219018 pfam06419, COG6, Conserved oligomeric complex COG6. COG6 is a
component of the conserved oligomeric golgi complex,
which is composed of eight different subunits and is
required for normal golgi morphology and localisation.
Length = 615
Score = 28.8 bits (65), Expect = 5.7
Identities = 11/64 (17%), Positives = 26/64 (40%), Gaps = 1/64 (1%)
Query: 262 LVLDQKNYIEELNRHLNATVGNLQTQVESLTTTNALMREDLSIAEKNLRILIQENENLKN 321
L+ ++E + + + + L T M+ L+ A+++ + L++E L
Sbjct: 29 LLKSNGEILKEF-GPVAEQLKRIGEDLSKLNNTCEEMKSQLNNAKQDTKDLLEEASTLME 87
Query: 322 QLAN 325
Q
Sbjct: 88 QKRQ 91
>gnl|CDD|219737 pfam08172, CASP_C, CASP C terminal. This domain is the C-terminal
region of the CASP family of proteins. It is a Golgi
membrane protein which is thought to have a role in
vesicle transport.
Length = 245
Score = 28.1 bits (63), Expect = 6.5
Identities = 14/36 (38%), Positives = 26/36 (72%)
Query: 351 LERDVHQKQDTIIELRRQLEDIKMINLEMYKKLQAL 386
LE ++ ++ TI LRR+LE +K N+++Y+K++ L
Sbjct: 98 LEEELRKQNQTISSLRRELESLKADNIKLYEKIRYL 133
>gnl|CDD|218681 pfam05667, DUF812, Protein of unknown function (DUF812). This
family consists of several eukaryotic proteins of
unknown function.
Length = 536
Score = 28.6 bits (64), Expect = 6.6
Identities = 21/105 (20%), Positives = 46/105 (43%), Gaps = 7/105 (6%)
Query: 284 LQTQVESLTTTNALMREDLSIAEKNLRILIQE-NENLKNQLANSSQHTSNLSVHE--VGL 340
LQ Q++ L ++ + ++ K L I++ NE L + + + + V L
Sbjct: 275 LQEQIDELESSIEEVLSEI----KALASKIKQVNEELTTVRQENEELEEEYKIKKRTVEL 330
Query: 341 KAEMEVAMKLLERDVHQKQDTIIELRRQLEDIKMINLEMYKKLQA 385
+ E + L+ V + ++EL +Q E + ++ Y+ L+
Sbjct: 331 LPDAENNVAKLQALVVASSERLLELAQQWEAHRTPLIDEYRSLKE 375
>gnl|CDD|234608 PRK00064, recF, recombination protein F; Reviewed.
Length = 361
Score = 28.6 bits (65), Expect = 6.7
Identities = 19/79 (24%), Positives = 31/79 (39%), Gaps = 12/79 (15%)
Query: 130 LQLVEKLNPEASDI---------TASVRDLPTVKTHMGRARAWLRLALMQKKLADYLQ-- 178
L+ +E+L P A+ AS+ +V+ + L AL + + D +
Sbjct: 192 LEYLERLAPLAAKTHQEISPEFELASLSYQSSVEDDAEKIEEDLLEALAKNRERDRARGR 251
Query: 179 VLVD-HRDDILVEYFETDA 196
LV HRDD+ A
Sbjct: 252 TLVGPHRDDLRFRINGLPA 270
>gnl|CDD|133043 cd06421, CESA_CelA_like, CESA_CelA_like are involved in the
elongation of the glucan chain of cellulose. Family of
proteins related to Agrobacterium tumefaciens CelA and
Gluconacetobacter xylinus BscA. These proteins are
involved in the elongation of the glucan chain of
cellulose, an aggregate of unbranched polymers of
beta-1,4-linked glucose residues. They are putative
catalytic subunit of cellulose synthase, which is a
glycosyltransferase using UDP-glucose as the substrate.
The catalytic subunit is an integral membrane protein
with 6 transmembrane segments and it is postulated that
the protein is anchored in the membrane at the
N-terminal end.
Length = 234
Score = 27.9 bits (63), Expect = 7.0
Identities = 10/27 (37%), Positives = 13/27 (48%), Gaps = 3/27 (11%)
Query: 91 LDSDHMPLQHFFIVLEHVLRHGLKPKK 117
LD+DH+P F L L + L K
Sbjct: 91 LDADHVPTPDF---LRRTLGYFLDDPK 114
>gnl|CDD|223786 COG0714, COG0714, MoxR-like ATPases [General function prediction
only].
Length = 329
Score = 28.2 bits (63), Expect = 7.4
Identities = 37/194 (19%), Positives = 61/194 (31%), Gaps = 27/194 (13%)
Query: 37 EVRVRDPPELRSPSPEPPLFVA-RNPVIIERRNLVNISKLIVKELIETSQKHGRMLDSDH 95
E +V P P P + +A +NP E L E + R L +
Sbjct: 138 ERQVTVPGLTTIRLPPPFIVIATQNPGEYEG----------TYPLPE-ALL-DRFLLRIY 185
Query: 96 MP-LQHFFIVLEHVLRHGLKPKKGLLGPKKELWDILQLVE--------KLNPEASD---- 142
+ + R G + L K + +L+ ++ E D
Sbjct: 186 VDYPDSEEEERIILARVGGVDELDLESLVKPVLSDEELLRLQKEVKKVPVSDEVIDYIVT 245
Query: 143 ITASVRDLPTVKTHMGRARAWLRLALMQKKLADYLQVLVDHRDDILVEYFETDALLMSDE 202
+ A++R+ P V RA L L + LA DD+ A + E
Sbjct: 246 LVAALREAPDVALGAS-PRASLALLAALRALALLDGRDAVIPDDVKALAEPALAHRLILE 304
Query: 203 AIVILGKLLSLNVI 216
L L L+++
Sbjct: 305 LEAKLSGLSVLDIV 318
>gnl|CDD|225104 COG2193, Bfr, Bacterioferritin (cytochrome b1) [Inorganic ion
transport and metabolism].
Length = 157
Score = 27.7 bits (62), Expect = 7.6
Identities = 13/40 (32%), Positives = 20/40 (50%)
Query: 346 VAMKLLERDVHQKQDTIIELRRQLEDIKMINLEMYKKLQA 385
V+ LLE + +++ I L QL+ I I E Y + Q
Sbjct: 115 VSRDLLEEILADEEEHIDWLETQLDLIAKIGEENYLQSQM 154
>gnl|CDD|100813 PRK01203, PRK01203, prefoldin subunit alpha; Provisional.
Length = 130
Score = 27.2 bits (60), Expect = 8.2
Identities = 13/51 (25%), Positives = 24/51 (47%)
Query: 263 VLDQKNYIEELNRHLNATVGNLQTQVESLTTTNALMREDLSIAEKNLRILI 313
V Q NYIE L +++ + +L + + T + + ++ K L I I
Sbjct: 5 VEAQLNYIESLISSVDSQIDSLNKTLSEVQQTISFLSDNELDNSKELLISI 55
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
0.319 0.135 0.383
Gapped
Lambda K H
0.267 0.0724 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 19,798,522
Number of extensions: 1980851
Number of successful extensions: 2164
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2134
Number of HSP's successfully gapped: 124
Length of query: 386
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 287
Effective length of database: 6,546,556
Effective search space: 1878861572
Effective search space used: 1878861572
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 (21.7 bits)
S2: 60 (26.9 bits)