Query 012264
Match_columns 467
No_of_seqs 177 out of 314
Neff 3.9
Searched_HMMs 46136
Date Fri Mar 29 00:47:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012264.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012264hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2027 Spindle pole body prot 100.0 9.6E-57 2.1E-61 459.5 20.5 182 31-212 1-183 (388)
2 PF03398 Ist1: Regulator of Vp 100.0 9.6E-57 2.1E-61 412.8 15.6 165 26-191 1-165 (165)
3 KOG3232 Vacuolar assembly/sort 93.1 2.7 5.9E-05 40.8 13.4 124 54-192 39-168 (203)
4 KOG3230 Vacuolar assembly/sort 87.9 30 0.00066 34.4 16.0 164 15-192 3-175 (224)
5 PF03357 Snf7: Snf7; InterPro 72.5 36 0.00079 30.5 9.6 153 27-191 4-157 (171)
6 PF03882 KicB: KicB killing fa 69.8 73 0.0016 34.8 12.3 95 23-118 158-257 (440)
7 COG3437 Response regulator con 69.1 1.1E+02 0.0024 32.8 13.5 91 81-194 188-282 (360)
8 PF08167 RIX1: rRNA processing 61.6 1.4E+02 0.003 27.8 12.7 128 46-194 22-152 (165)
9 PF10607 CLTH: CTLH/CRA C-term 50.6 1.1E+02 0.0023 27.0 8.3 25 49-73 3-27 (145)
10 PRK05260 condesin subunit F; P 49.1 1.4E+02 0.0029 32.9 10.1 79 24-103 159-239 (440)
11 TIGR03321 alt_F1F0_F0_B altern 48.5 88 0.0019 30.9 8.2 77 103-186 157-244 (246)
12 PRK14136 recX recombination re 46.7 1.6E+02 0.0034 31.1 9.9 126 48-188 176-307 (309)
13 PRK13989 cell division topolog 39.7 34 0.00075 29.3 3.3 46 9-60 1-53 (84)
14 COG1405 SUA7 Transcription ini 39.2 1.3E+02 0.0029 30.9 8.0 118 75-194 93-232 (285)
15 PRK13991 cell division topolog 37.1 50 0.0011 28.6 3.9 47 9-60 1-52 (87)
16 PF12238 MSA-2c: Merozoite sur 33.6 87 0.0019 31.1 5.4 86 10-95 31-116 (205)
17 TIGR01215 minE cell division t 33.0 98 0.0021 26.2 5.0 46 9-60 1-51 (81)
18 cd05394 RasGAP_RASA2 RASA2 (or 32.4 1.7E+02 0.0036 30.8 7.5 32 83-116 130-161 (313)
19 PLN02976 amine oxidase 30.5 1E+03 0.023 30.8 14.6 196 29-275 1253-1452(1713)
20 PF05099 TerB: Tellurite resis 30.0 1.3E+02 0.0029 26.1 5.6 114 92-209 5-129 (140)
21 KOG1497 COP9 signalosome, subu 29.0 7.1E+02 0.015 27.1 11.4 133 45-194 20-161 (399)
22 COG0851 MinE Septum formation 29.0 62 0.0013 28.3 3.2 46 9-60 1-52 (88)
23 PF00570 HRDC: HRDC domain Blo 28.0 42 0.0009 26.0 1.8 63 80-148 2-67 (68)
24 PF05928 Zea_mays_MuDR: Zea ma 27.9 61 0.0013 31.6 3.2 23 250-272 8-30 (207)
25 PRK00423 tfb transcription ini 27.7 92 0.002 31.9 4.7 66 110-190 164-233 (310)
26 PF08542 Rep_fac_C: Replicatio 26.6 1.8E+02 0.0038 23.6 5.4 42 52-95 9-50 (89)
27 PF00452 Bcl-2: Apoptosis regu 26.1 1E+02 0.0023 25.7 4.0 49 130-192 1-51 (101)
28 smart00502 BBC B-Box C-termina 26.0 3.8E+02 0.0083 22.2 10.0 36 108-143 86-123 (127)
29 PRK00296 minE cell division to 26.0 98 0.0021 26.6 3.9 46 9-60 1-52 (86)
30 COG5602 SIN3 Histone deacetyla 25.1 2.9E+02 0.0062 33.4 8.3 77 61-152 547-628 (1163)
31 cd05137 RasGAP_CLA2_BUD2 CLA2/ 24.9 2.8E+02 0.0061 29.9 7.9 37 78-116 193-229 (395)
32 PF06786 UPF0253: Uncharacteri 21.9 2.5E+02 0.0054 23.5 5.2 47 87-136 2-50 (66)
33 PRK13988 cell division topolog 21.9 2.8E+02 0.0062 24.5 6.0 47 8-60 3-54 (97)
34 PF07352 Phage_Mu_Gam: Bacteri 21.8 4.4E+02 0.0095 24.1 7.5 64 28-98 4-67 (149)
35 PRK13430 F0F1 ATP synthase sub 21.4 2.1E+02 0.0045 29.0 5.8 37 127-170 213-249 (271)
36 cd05128 RasGAP_GAP1_like The G 21.3 8.8E+02 0.019 25.3 10.4 36 81-119 129-164 (315)
37 PF10475 DUF2450: Protein of u 20.6 6.9E+02 0.015 25.2 9.3 101 12-113 59-176 (291)
No 1
>KOG2027 consensus Spindle pole body protein [Cytoskeleton]
Probab=100.00 E-value=9.6e-57 Score=459.45 Aligned_cols=182 Identities=58% Similarity=0.933 Sum_probs=175.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHhHhhhhccCCCChhH
Q 012264 31 MAVARIKLLRNKREAVVRQMRRDIALLLQSKQDATARIRVEHVIREQNVLAANEFIELFCELIVARLSIIAKRRECPADL 110 (467)
Q Consensus 31 LAisRLklLqnKr~a~~kq~RrDIAqLL~~Gk~e~ARIRVE~LIrED~~ieayEILElYCELLlaRl~lIek~KeCP~eL 110 (467)
||++||++|||||+++++|+|+|||+||+.|+.++|+|||||||+|||+|+||||||+|||||++||++|+++++||.||
T Consensus 1 l~~~Rl~lLknKk~a~~kq~RrdIA~lL~sg~~~~A~~RvE~li~ee~~~~a~e~le~fCelll~R~~~i~~~~~cp~~l 80 (388)
T KOG2027|consen 1 LAINRLKLLKNKKEALAKQLRRDIADLLKSGQDERARIRVEHLIREENLLEAYEILELFCELLLARLSLIEKQKECPDDL 80 (388)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhhcccCCHHH
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhCCCCCCchhHHHHHHHHHHHHcHHHHHHHhhcCCCCCCCHHHHhhcCCCCCCHHHHHHHHHHHHHHcCCC
Q 012264 111 KEGIASVIFAAPRCSEIPELGAIRDIFEKKYGKDFVSAATDLRPNSGVNRMLIEKLSVRTPTGEVKLKVMKEIAKEFQID 190 (467)
Q Consensus 111 kEAIsSLIfAApR~sDlPEL~~LR~~f~~KYGKeFv~aA~Elr~~~~VN~kIi~KLSv~~Ps~elv~kyL~EIAkEy~I~ 190 (467)
+|||+|||||||||+|||||++||++|+.|||++|+..|++++++|+||++||+||++..|+.++|.+||+|||++|+|+
T Consensus 81 ~EAVsSlifAA~R~~EvpEL~~i~~~f~~kYGk~f~~~a~~l~p~~~Vn~kiiekLs~~~P~~e~k~k~lkEIA~ey~v~ 160 (388)
T KOG2027|consen 81 KEAVSSLIFAAPRLSEVPELREIRDLFVKKYGKEFVKAAIELRPGNGVNRKIIEKLSVEAPPKELKEKYLKEIAKEYNVN 160 (388)
T ss_pred HHHHHHHHHHhccccccHHHHHHHHHHHHHHhHHHHHHHHhccccCCcCHHHHHHhcCCCCcHHHHHHHHHHHHHHhCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCchhHHHhcCc-chhhcCCCC
Q 012264 191 WDTTESEMELLKP-AEERIGGPD 212 (467)
Q Consensus 191 wdp~~~e~el~~~-~e~~l~gp~ 212 (467)
|++++.+.....+ .++.+.++.
T Consensus 161 ~~~~~~~~~~~~~~~~~~~~~~s 183 (388)
T KOG2027|consen 161 WEPDSLSTSEEKSNHEDLLIDPS 183 (388)
T ss_pred cccCccccccCCCchhhcccccc
Confidence 9999999888877 445555544
No 2
>PF03398 Ist1: Regulator of Vps4 activity in the MVB pathway; InterPro: IPR005061 This is a eukaryotic protein family of unknown function.; PDB: 3GGZ_B 3GGY_B 3FRR_A 3FRS_A.
Probab=100.00 E-value=9.6e-57 Score=412.79 Aligned_cols=165 Identities=53% Similarity=0.923 Sum_probs=154.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHhHhhhhccCC
Q 012264 26 KTAAKMAVARIKLLRNKREAVVRQMRRDIALLLQSKQDATARIRVEHVIREQNVLAANEFIELFCELIVARLSIIAKRRE 105 (467)
Q Consensus 26 Kt~LKLAisRLklLqnKr~a~~kq~RrDIAqLL~~Gk~e~ARIRVE~LIrED~~ieayEILElYCELLlaRl~lIek~Ke 105 (467)
|++||||++||+++|+||.++++++|+|||+||++|+.++||+|||+||+||+++++||+||+|||+|++|+++|+++++
T Consensus 1 K~~lkla~~Rl~~l~~K~~~~~~~~rkdIa~LL~~g~~~~Ar~rvE~li~ed~~~e~~e~Le~yce~l~~r~~~i~~~k~ 80 (165)
T PF03398_consen 1 KTQLKLAISRLKLLQNKRQAQAKQARKDIAQLLKNGKEESARIRVEQLIREDNMIEAYEILELYCELLLARFSLIEKSKE 80 (165)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCT-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHCT-TS
T ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccC
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CChhHHHHHHHHHhhCCCCCCchhHHHHHHHHHHHHcHHHHHHHhhcCCCCCCCHHHHhhcCCCCCCHHHHHHHHHHHHH
Q 012264 106 CPADLKEGIASVIFAAPRCSEIPELGAIRDIFEKKYGKDFVSAATDLRPNSGVNRMLIEKLSVRTPTGEVKLKVMKEIAK 185 (467)
Q Consensus 106 CP~eLkEAIsSLIfAApR~sDlPEL~~LR~~f~~KYGKeFv~aA~Elr~~~~VN~kIi~KLSv~~Ps~elv~kyL~EIAk 185 (467)
||++|+|||+|||||||||+|+|||++||++|+.|||++|+.+|++|+ +++||++|++||++.+|+.++|.+||+|||+
T Consensus 81 ~p~~l~eAi~siiyAa~r~~elpEL~~vr~~l~~kyG~~f~~~a~~~~-~~~Vn~~iv~kLs~~~p~~~~v~~~L~eIA~ 159 (165)
T PF03398_consen 81 CPPELKEAISSIIYAAPRCGELPELQEVRKQLAEKYGKEFVEAAMENR-DNGVNPRIVEKLSVKPPSEELVEKYLKEIAK 159 (165)
T ss_dssp SSCCHHHHHHHHHHHHHHHTTTCCHHHHHHHHHCCC-HHHHHHHHTTT-TTTS-HHHHHHCS-S---CCHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHhhhccCChhHHHHHHHHHHHhCHHHHHHHHHhc-CCCcCHHHHHHcCCCCcCHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999998 7999999999999999999999999999999
Q ss_pred HcCCCC
Q 012264 186 EFQIDW 191 (467)
Q Consensus 186 Ey~I~w 191 (467)
+|||+|
T Consensus 160 e~~i~w 165 (165)
T PF03398_consen 160 EYGIPW 165 (165)
T ss_dssp HCT-SH
T ss_pred HcCCCC
Confidence 999999
No 3
>KOG3232 consensus Vacuolar assembly/sorting protein DID2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.13 E-value=2.7 Score=40.83 Aligned_cols=124 Identities=21% Similarity=0.269 Sum_probs=81.0
Q ss_pred HHHHHhcCchhhhhHHHHHHHHHhhhHHHHHHHHHH--HHHHHHhHhhhhccCCCChhHHHHHHHHHhhCCCCCCchhHH
Q 012264 54 IALLLQSKQDATARIRVEHVIREQNVLAANEFIELF--CELIVARLSIIAKRRECPADLKEGIASVIFAAPRCSEIPELG 131 (467)
Q Consensus 54 IAqLL~~Gk~e~ARIRVE~LIrED~~ieayEILElY--CELLlaRl~lIek~KeCP~eLkEAIsSLIfAApR~sDlPEL~ 131 (467)
+-.-|+.|..+.|||-+|+-||-.+ +++.+|-+- .+-+.+|+..--+.+.+...+---|-++=-|-.- .. |.
T Consensus 39 ~kkAi~kgN~dvArIyAeNAIRkkn--e~~n~LrlssRvDAVaaRvqTavtmr~Vt~sM~gVvK~md~alkt-mN---Le 112 (203)
T KOG3232|consen 39 LKKAIQKGNMDVARIYAENAIRKKN--EAVNYLRLSSRVDAVAARVQTAVTMRKVTKSMAGVVKSMDSALKT-MN---LE 112 (203)
T ss_pred HHHHHHhcchHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CC---HH
Confidence 4456889999999999999999876 455555543 6778888877666655554443222222211111 12 33
Q ss_pred HHHHHHHHHHcHHHHHHHhhcCCCCCCCHHHHhhcCC----CCCCHHHHHHHHHHHHHHcCCCCC
Q 012264 132 AIRDIFEKKYGKDFVSAATDLRPNSGVNRMLIEKLSV----RTPTGEVKLKVMKEIAKEFQIDWD 192 (467)
Q Consensus 132 ~LR~~f~~KYGKeFv~aA~Elr~~~~VN~kIi~KLSv----~~Ps~elv~kyL~EIAkEy~I~wd 192 (467)
.| .+++.||-+.|... .|...++++--. -..+...|..+|.+.|.|+|+++.
T Consensus 113 ki-s~~MDkFE~qFedl--------dvqt~~me~~m~~st~l~tpq~~Vd~Lmq~vADeaGlEln 168 (203)
T KOG3232|consen 113 KI-SQLMDKFEKQFEDL--------DVQTEVMEKAMSGSTALSTPQGDVDSLMQQVADEAGLELN 168 (203)
T ss_pred HH-HHHHHHHHHHhhhh--------hhHHHHHHHhccCcccccCChhHHHHHHHHHHHHhchhhh
Confidence 33 46778999999643 244445555422 234578899999999999999985
No 4
>KOG3230 consensus Vacuolar assembly/sorting protein DID4 [Intracellular trafficking, secretion, and vesicular transport]
Probab=87.94 E-value=30 Score=34.40 Aligned_cols=164 Identities=17% Similarity=0.222 Sum_probs=110.8
Q ss_pred hhcCCCChhhH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhhhhHHHHHHHHHhhhHHHHHHHHHHH
Q 012264 15 LFFKKFNSSKC----KTAAKMAVARIKLLRNKREAVVRQMRRDIALLLQSKQDATARIRVEHVIREQNVLAANEFIELFC 90 (467)
Q Consensus 15 lf~~~f~~sKc----Kt~LKLAisRLklLqnKr~a~~kq~RrDIAqLL~~Gk~e~ARIRVE~LIrED~~ieayEILElYC 90 (467)
+|++..+|.-+ |..|.-|+--|.-=+.+-+.+-|.+-.||=..-++|+.+-.+|-+-+|||--+++.=|..+---.
T Consensus 3 lFgk~~tp~e~Lr~nqRal~~a~ReleRer~~le~qeKklvaeIKk~AK~gq~~A~KimAkdLvRtR~~i~kf~~~kaqi 82 (224)
T KOG3230|consen 3 LFGKKKTPAELLRENQRALNKATRELERERQKLELQEKKLVAEIKKTAKQGQMDAVKIMAKDLVRTRRYIKKFQNMKAQI 82 (224)
T ss_pred cccCCCCHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 78888887543 34444554444444555555556666777778899999999999999999999999999999999
Q ss_pred HHHHHhHhhhhccCCCChhHHHHHHHHHhhCCCCCCchhHHHHHHHHHHHHc-----HHHHHHHhhcCCCCCCCHHHHhh
Q 012264 91 ELIVARLSIIAKRRECPADLKEGIASVIFAAPRCSEIPELGAIRDIFEKKYG-----KDFVSAATDLRPNSGVNRMLIEK 165 (467)
Q Consensus 91 ELLlaRl~lIek~KeCP~eLkEAIsSLIfAApR~sDlPEL~~LR~~f~~KYG-----KeFv~aA~Elr~~~~VN~kIi~K 165 (467)
.-+..|+..|..+...-..++.|- -.+-+-.|-=.+|-++.|-..|...-- .|+...|+|+.-+. ..
T Consensus 83 qaVSl~iQtlkss~sma~aMkGaT-kam~~MNrqmnlpq~qkIm~eFekQse~Mdm~~Emm~daIDdal~~-~e------ 154 (224)
T KOG3230|consen 83 QAVSLRIQTLKSSTSMAQAMKGAT-KAMAGMNRQMNLPQIQKIMQEFEKQSEIMDMKEEMMDDAIDDALGD-DE------ 154 (224)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHH-HHHHHHhhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc-cc------
Confidence 999999999987655555555443 234444554499999998888764321 35666666643221 11
Q ss_pred cCCCCCCHHHHHHHHHHHHHHcCCCCC
Q 012264 166 LSVRTPTGEVKLKVMKEIAKEFQIDWD 192 (467)
Q Consensus 166 LSv~~Ps~elv~kyL~EIAkEy~I~wd 192 (467)
-.--+.++|.++|.|| ||+..
T Consensus 155 --dEEEtd~lvnqVLDEi----Gvdl~ 175 (224)
T KOG3230|consen 155 --DEEETDDLVNQVLDEI----GVDLA 175 (224)
T ss_pred --hhHHHHHHHHHHHHHH----cccHH
Confidence 1112355677777766 66653
No 5
>PF03357 Snf7: Snf7; InterPro: IPR005024 This is a family of eukaryotic proteins which are variously described as either hypothetical protein, developmental protein or related to yeast SNF7. The family contains human CHMP1. CHMP1 (CHromatin Modifying Protein; CHarged Multivesicular body Protein), is encoded by an alternative open reading frame in the PRSM1 gene [] and is conserved in both complex and simple eukaryotes. CHMP1 contains a predicted bipartite nuclear localisation signal and distributes as distinct forms to the cytoplasm and the nuclear matrix in all cell lines tested. Human CHMP1 is strongly implicated in multivesicular body formation. A multivesicular body is a vesicle-filled endosome that targets proteins to the interior of lysosomes. Immunocytochemistry and biochemical fractionation localise CHMP1 to early endosomes and CHMP1 physically interacts with SKD1/VPS4, a highly conserved protein directly linked to multivesicular body sorting in yeast. Similar to the action of a mutant SKD1 protein, over expression of a fusion derivative of human CHMP1 dilates endosomal compartments and disrupts the normal distribution of several endosomal markers. Genetic studies in Saccharomyces cerevisiae (Baker's yeast) further support a conserved role of CHMP1 in vesicle trafficking. Deletion of CHM1, the budding yeast homologue of CHMP1, results in defective sorting of carboxypeptidases S and Y and produces abnormal, multi-lamellar prevacuolar compartments. This phenotype classifies CHM1 as a member of the class E vacuolar protein sorting genes []. ; GO: 0015031 protein transport; PDB: 2V6X_B 2W2U_D 2GD5_D 3FRT_B 3FRV_A 4ABM_D 3EAB_H 3HTU_D.
Probab=72.54 E-value=36 Score=30.49 Aligned_cols=153 Identities=10% Similarity=0.133 Sum_probs=81.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHhHhhhhccCCC
Q 012264 27 TAAKMAVARIKLLRNKREAVVRQMRRDIALLLQSKQDATARIRVEHVIREQNVLAANEFIELFCELIVARLSIIAKRREC 106 (467)
Q Consensus 27 t~LKLAisRLklLqnKr~a~~kq~RrDIAqLL~~Gk~e~ARIRVE~LIrED~~ieayEILElYCELLlaRl~lIek~KeC 106 (467)
..|+.++.+|.-...+-+..++.....|-.+++.|+-+.|++-+...++-+..++-+.-.-.-.+-+..++........+
T Consensus 4 ~~Lk~~~~~L~~~~~~le~~i~~~~~~~k~~~~~~~~~~A~~~lk~~k~~~k~~~~~~~~~~~l~~~~~~ie~a~~~~~v 83 (171)
T PF03357_consen 4 LKLKKTIRRLEKQIKRLEKKIKKLEKKAKKAIKKGNKERAKIYLKRKKRLEKQLEKLLNQLSNLESVLLQIETAQSNQQV 83 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHCTT-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35788888888888888899999999999999999999999888888776666665555444555555555544433222
Q ss_pred ChhHHHHHHHHHhhCCCCCCchhHHHHHHHHHHHHcHHHHHHHhhcCCCCCCCHHHHhhcCC-CCCCHHHHHHHHHHHHH
Q 012264 107 PADLKEGIASVIFAAPRCSEIPELGAIRDIFEKKYGKDFVSAATDLRPNSGVNRMLIEKLSV-RTPTGEVKLKVMKEIAK 185 (467)
Q Consensus 107 P~eLkEAIsSLIfAApR~sDlPEL~~LR~~f~~KYGKeFv~aA~Elr~~~~VN~kIi~KLSv-~~Ps~elv~kyL~EIAk 185 (467)
=..|+.+...|==...-+ +++.+..+-+-|..- .... ..|+..|-.-+.. ...+.+.+..-|.++..
T Consensus 84 ~~al~~~~~~Lk~~~~~i-~~~~v~~~~d~~~e~----~e~~-------~ei~~~l~~~~~~~~~~dd~ele~eL~~l~~ 151 (171)
T PF03357_consen 84 VKALKQSSKALKKINKQI-NLDKVEKLMDDFQEE----MEDQ-------DEISEALSDSMDQVDDVDDEELEEELEQLED 151 (171)
T ss_dssp SSS----SHHHHHHHHST-TSCCHHHHHHHHHHH----HHHH-------TS----------------TTSTTCHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHH----HHHH-------HHHHHHHHccccCCCCCCHHHHHHHHHHHHH
Confidence 222222221111111122 455655555544432 1110 1233333222221 22334445566777777
Q ss_pred HcCCCC
Q 012264 186 EFQIDW 191 (467)
Q Consensus 186 Ey~I~w 191 (467)
+....-
T Consensus 152 e~~~~~ 157 (171)
T PF03357_consen 152 EIEEEE 157 (171)
T ss_dssp CCCTTS
T ss_pred HHhhhh
Confidence 666554
No 6
>PF03882 KicB: KicB killing factor; InterPro: IPR005582 This family contains MukF, which are proteins involved in chromosome condensation, segregation and cell cycle progression. MukE (IPR007385 from INTERPRO) along with MukF interact with MukB (IPR007406 from INTERPRO) in vivo forming a complex, which is required for chromosome condensation and segregation in Escherichia coli []. The Muk complex appears to be similar to the SMC-ScpA-ScpB complex in other prokaryotes where MukB is the homologue of SMC []. ScpA (IPR003768 from INTERPRO) and ScpB (IPR005234 from INTERPRO) have little sequence similarity to MukE or MukF, though they are predicted to be structurally similar, being predominantly alpha-helical with coiled coil regions. ; GO: 0005509 calcium ion binding, 0006260 DNA replication, 0007059 chromosome segregation, 0005737 cytoplasm; PDB: 1T98_B 3RPU_X 3EUH_B 3EUK_J 3EUJ_B.
Probab=69.76 E-value=73 Score=34.80 Aligned_cols=95 Identities=17% Similarity=0.146 Sum_probs=75.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhhhhHHHHHHHHHh--hhHHHHHHHHHHHHHHHHhHhhh
Q 012264 23 SKCKTAAKMAVARIKLLRNKREAVVRQMRRDIALLLQSKQDATARIRVEHVIREQ--NVLAANEFIELFCELIVARLSII 100 (467)
Q Consensus 23 sKcKt~LKLAisRLklLqnKr~a~~kq~RrDIAqLL~~Gk~e~ARIRVE~LIrED--~~ieayEILElYCELLlaRl~lI 100 (467)
.-+|-.++-...+|.+-|+--..+..+.|.|||.||.+. ...|-..+|+||.|- .+-|+-++|+-=-+-|.+.+--|
T Consensus 158 a~LkySVaeifd~Idl~QR~MDeqQ~~vk~eIA~LL~qd-W~~AI~~Ce~LL~EtsgtLRELqdtL~aagd~lqa~Ll~I 236 (440)
T PF03882_consen 158 APLKYSVAEIFDSIDLNQRAMDEQQQSVKEEIAALLNQD-WRAAIQSCEQLLDETSGTLRELQDTLEAAGDKLQAQLLRI 236 (440)
T ss_dssp HHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-GGGGHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hcccccHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHchh-HHHHHHHHHHHHHHHHhhHHHHHHHHHHhHHHHHHHHHHH
Confidence 457777778889999999999999999999999999876 777999999999974 67889999999999998888888
Q ss_pred hcc---CCCChhHHHHHHHHH
Q 012264 101 AKR---RECPADLKEGIASVI 118 (467)
Q Consensus 101 ek~---KeCP~eLkEAIsSLI 118 (467)
+.. +.-..=+.+++.+|.
T Consensus 237 Qe~~~~~~~l~~v~~l~~~Lq 257 (440)
T PF03882_consen 237 QEAVMGRDELEFVDNLIFDLQ 257 (440)
T ss_dssp HHHHHCSSS-HHHHHHHHHHH
T ss_pred HHHHhcCccHHHHHHHHHHHH
Confidence 753 333333455555543
No 7
>COG3437 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]
Probab=69.11 E-value=1.1e+02 Score=32.77 Aligned_cols=91 Identities=22% Similarity=0.273 Sum_probs=50.1
Q ss_pred HHHHHHHHHHHHHHHhHhhhhccCCCChhHHHHHHHHHhhCCCCCCchhHHHHHHHHHHHHcH----HHHHHHhhcCCCC
Q 012264 81 AANEFIELFCELIVARLSIIAKRRECPADLKEGIASVIFAAPRCSEIPELGAIRDIFEKKYGK----DFVSAATDLRPNS 156 (467)
Q Consensus 81 eayEILElYCELLlaRl~lIek~KeCP~eLkEAIsSLIfAApR~sDlPEL~~LR~~f~~KYGK----eFv~aA~Elr~~~ 156 (467)
+-.+=+..||++|..+++ |.|....+|+-|+.+.||=-+..= +-+-.|=|+ ||. ++.. ..
T Consensus 188 ~H~~Rv~~~~~~lAe~lg-----------Lse~~v~~i~~AapLHDIGKvaiP-D~ILlKpg~Lt~ee~~--imk~--H~ 251 (360)
T COG3437 188 DHLERVAQYSELLAELLG-----------LSEEEVDLIKKAAPLHDIGKVAIP-DSILLKPGKLTSEEFE--IMKG--HP 251 (360)
T ss_pred hHHHHHHHHHHHHHHHhC-----------CCHHHHHHHHhccchhhcccccCC-hHHhcCCCCCCHHHHH--HHhc--ch
Confidence 334556788999999888 566667777776666666211110 111112222 111 1111 01
Q ss_pred CCCHHHHhhcCCCCCCHHHHHHHHHHHHHHcCCCCCCc
Q 012264 157 GVNRMLIEKLSVRTPTGEVKLKVMKEIAKEFQIDWDTT 194 (467)
Q Consensus 157 ~VN~kIi~KLSv~~Ps~elv~kyL~EIAkEy~I~wdp~ 194 (467)
.+..+++.++.. .++...|||..|.=.||.+
T Consensus 252 ~~G~~il~~s~~-------~mq~a~eIa~~HHErwDGs 282 (360)
T COG3437 252 ILGAEILKSSER-------LMQVAAEIARHHHERWDGS 282 (360)
T ss_pred HHHHHHHHHHHH-------HHHHHHHHHHHhhhccCCC
Confidence 122233332221 6889999999999999976
No 8
>PF08167 RIX1: rRNA processing/ribosome biogenesis
Probab=61.56 E-value=1.4e+02 Score=27.75 Aligned_cols=128 Identities=20% Similarity=0.205 Sum_probs=82.6
Q ss_pred HHHHHHHHHHHHHhcCchhhhhHHHHHHHHHhhhHHH--HHHHHHHHHHHHHh-HhhhhccCCCChhHHHHHHHHHhhCC
Q 012264 46 VVRQMRRDIALLLQSKQDATARIRVEHVIREQNVLAA--NEFIELFCELIVAR-LSIIAKRRECPADLKEGIASVIFAAP 122 (467)
Q Consensus 46 ~~kq~RrDIAqLL~~Gk~e~ARIRVE~LIrED~~iea--yEILElYCELLlaR-l~lIek~KeCP~eLkEAIsSLIfAAp 122 (467)
...+...-|-.||+.+. +..|-.++.-=.-+++. +|++..+|...+.. +.+|++ .+-+.-++-||.+|-.--.
T Consensus 22 ~l~~l~~ri~~LL~s~~---~~~rw~G~~Ll~~~~~~~~~e~l~~~~~~W~~~Ll~~L~~-~~~~~~~~~ai~~L~~l~~ 97 (165)
T PF08167_consen 22 ALHKLVTRINSLLQSKS---AYSRWAGLCLLKVTVEQCSWEILLSHGSQWLRALLSILEK-PDPPSVLEAAIITLTRLFD 97 (165)
T ss_pred HHHHHHHHHHHHhCCCC---hhhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHHH
Confidence 34445555778887654 55566666666666666 89995555554444 455554 4445556666766655556
Q ss_pred CCCCchhHHHHHHHHHHHHcHHHHHHHhhcCCCCCCCHHHHhhcCCCCCCHHHHHHHHHHHHHHcCCCCCCc
Q 012264 123 RCSEIPELGAIRDIFEKKYGKDFVSAATDLRPNSGVNRMLIEKLSVRTPTGEVKLKVMKEIAKEFQIDWDTT 194 (467)
Q Consensus 123 R~sDlPEL~~LR~~f~~KYGKeFv~aA~Elr~~~~VN~kIi~KLSv~~Ps~elv~kyL~EIAkEy~I~wdp~ 194 (467)
+....||| .|++.+-+-++ |+..++.+-.+ ..-.+.++..|..+-..|--.+.|-
T Consensus 98 ~~~~~p~l--~Rei~tp~l~~-~i~~ll~l~~~--------------~~~~~~~l~~L~~ll~~~ptt~rp~ 152 (165)
T PF08167_consen 98 LIRGKPTL--TREIATPNLPK-FIQSLLQLLQD--------------SSCPETALDALATLLPHHPTTFRPF 152 (165)
T ss_pred HhcCCCch--HHHHhhccHHH-HHHHHHHHHhc--------------cccHHHHHHHHHHHHHHCCccccch
Confidence 77799999 88888887555 88777654321 4456677788888777776666553
No 9
>PF10607 CLTH: CTLH/CRA C-terminal to LisH motif domain; InterPro: IPR019589 This entry represents the CRA (or CT11-RanBPM) domain, which is a protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi) and which is found in Ran-binding proteins such as Ran-binding protein 9 (RanBP9 or RanBPM) and RanBP10. RanBPM is a scaffolding protein important in regulating cellular function in both the immune system and the nervous system, and may act as an adapter protein to couple membrane receptors to intracellular signaling pathways. This domain is at the C terminus of the proteins and is the binding domain for the CRA motif, which is comprised of approximately 100 amino acids at the C-terminal of RanBPM. It was found to be important for the interaction of RanBPM with fragile X mental retardation protein (FMRP), but its functional significance has yet to be determined [].
Probab=50.63 E-value=1.1e+02 Score=27.04 Aligned_cols=25 Identities=12% Similarity=0.036 Sum_probs=21.6
Q ss_pred HHHHHHHHHHhcCchhhhhHHHHHH
Q 012264 49 QMRRDIALLLQSKQDATARIRVEHV 73 (467)
Q Consensus 49 q~RrDIAqLL~~Gk~e~ARIRVE~L 73 (467)
+.|++|.+.|..|+.+.|.-+++..
T Consensus 3 ~~r~~I~~~I~~g~i~~Ai~w~~~~ 27 (145)
T PF10607_consen 3 KERKKIRQAILNGDIDPAIEWLNEN 27 (145)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHc
Confidence 4688999999999999998888665
No 10
>PRK05260 condesin subunit F; Provisional
Probab=49.10 E-value=1.4e+02 Score=32.87 Aligned_cols=79 Identities=20% Similarity=0.171 Sum_probs=68.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhhhhHHHHHHHHHh--hhHHHHHHHHHHHHHHHHhHhhhh
Q 012264 24 KCKTAAKMAVARIKLLRNKREAVVRQMRRDIALLLQSKQDATARIRVEHVIREQ--NVLAANEFIELFCELIVARLSIIA 101 (467)
Q Consensus 24 KcKt~LKLAisRLklLqnKr~a~~kq~RrDIAqLL~~Gk~e~ARIRVE~LIrED--~~ieayEILElYCELLlaRl~lIe 101 (467)
-+|-.++-...+|.+-|+--.++..+.|.|||.||.+. ...|-..+|.++.|- .+-|+-++|+-=-+-|.+.+-.|+
T Consensus 159 ~LkySVaeifd~Idl~QR~mDeqQ~~vk~eIA~LL~qd-W~~AI~~Ce~LLdEtsgtLRELqdtL~aagD~lqaqLl~IQ 237 (440)
T PRK05260 159 PLKYSVAEIFDSIDLTQRLMDEQQQQVKDDIAQLLNKD-WRAAISSCELLLSETSGTLRELQDTLEAAGDKLQANLLRIQ 237 (440)
T ss_pred cCcCcHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHhHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 45666777888999999999999999999999999887 777999999999974 678899999999999999988887
Q ss_pred cc
Q 012264 102 KR 103 (467)
Q Consensus 102 k~ 103 (467)
..
T Consensus 238 ~~ 239 (440)
T PRK05260 238 DA 239 (440)
T ss_pred HH
Confidence 53
No 11
>TIGR03321 alt_F1F0_F0_B alternate F1F0 ATPase, F0 subunit B. CC and in principle may run in either direction. This model represents the F0 subunit B of this apparent second ATP synthase.
Probab=48.49 E-value=88 Score=30.88 Aligned_cols=77 Identities=16% Similarity=0.145 Sum_probs=49.2
Q ss_pred cCCCChhHHHHHHHHHhhC---CCC-C----CchhHHHHHHHHHHHHcHHHHHHHhhcCCCCCCCHHHHhhcCCCCCCH-
Q 012264 103 RRECPADLKEGIASVIFAA---PRC-S----EIPELGAIRDIFEKKYGKDFVSAATDLRPNSGVNRMLIEKLSVRTPTG- 173 (467)
Q Consensus 103 ~KeCP~eLkEAIsSLIfAA---pR~-s----DlPEL~~LR~~f~~KYGKeFv~aA~Elr~~~~VN~kIi~KLSv~~Ps~- 173 (467)
-...|++-+.++..++... .++ + +=.+...|+..|..+||++.. + ...|+|.|+.=+.++..+.
T Consensus 157 l~~l~~~~~~~l~~~~~~~~~~~~v~sa~~l~~~~~~~i~~~l~~~~~~~v~-----~--~~~vdp~ligGi~l~~g~~~ 229 (246)
T TIGR03321 157 LRTLDPDEKAALAEALADSGNPVLVRSAFELPEEQREQIRDTIRETLGPEIR-----L--RFQTEPDLIGGIELTAGGHK 229 (246)
T ss_pred hhcCCHHHHHHHHHHHhCCCCceEEEecCCCCHHHHHHHHHHHHHHHCCCee-----E--EeeeCchhcCceEEEECCEE
Confidence 3577888788885555532 111 1 334777999999999997532 1 3578888888777766653
Q ss_pred --HHHHHHHHHHHHH
Q 012264 174 --EVKLKVMKEIAKE 186 (467)
Q Consensus 174 --elv~kyL~EIAkE 186 (467)
..+-.+|.++.+.
T Consensus 230 id~Si~~~L~~l~~~ 244 (246)
T TIGR03321 230 LAWSVDDYLESLEED 244 (246)
T ss_pred EechHHHHHHHHHhh
Confidence 2345566666544
No 12
>PRK14136 recX recombination regulator RecX; Provisional
Probab=46.67 E-value=1.6e+02 Score=31.06 Aligned_cols=126 Identities=17% Similarity=0.224 Sum_probs=76.5
Q ss_pred HHHHHHHHHHHhc-CchhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHhHhh-----hhccCCCChhHHHHHHHHHhhC
Q 012264 48 RQMRRDIALLLQS-KQDATARIRVEHVIREQNVLAANEFIELFCELIVARLSI-----IAKRRECPADLKEGIASVIFAA 121 (467)
Q Consensus 48 kq~RrDIAqLL~~-Gk~e~ARIRVE~LIrED~~ieayEILElYCELLlaRl~l-----Iek~KeCP~eLkEAIsSLIfAA 121 (467)
...+.||.+.|+. |-.+..--.|=.-+.+.++|.=..+.+.|+..-..+.+- --.+|.++.+|.|.+-..+
T Consensus 176 eRSe~ELr~KL~kkG~~ee~IE~VIerLke~gYLDDeRFAesyVr~R~~kkGp~rIrqELrQKGId~eLIEqALeei--- 252 (309)
T PRK14136 176 EYSRAELARKLAPYADESDSVEPLLDALEREGWLSDARFAESLVHRRASRVGSARIVSELKRHAVGDALVESVGAQL--- 252 (309)
T ss_pred cccHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCcCHHHHHHHHHHHHhhchhHHHHHHHHHHcCCCHHHHHHHHHhc---
Confidence 3456777766665 433333223333334555666666666666543322111 1136889988887654422
Q ss_pred CCCCCchhHHHHHHHHHHHHcHHHHHHHhhcCCCCCCCHHHHhhcCCCCCCHHHHHHHHHHHHHHcC
Q 012264 122 PRCSEIPELGAIRDIFEKKYGKDFVSAATDLRPNSGVNRMLIEKLSVRTPTGEVKLKVMKEIAKEFQ 188 (467)
Q Consensus 122 pR~sDlPEL~~LR~~f~~KYGKeFv~aA~Elr~~~~VN~kIi~KLSv~~Ps~elv~kyL~EIAkEy~ 188 (467)
+..|+..++.++..||+. +.. ...--.+++.-|--+-.+.+++.++|+..-.++|
T Consensus 253 ----eEDE~E~A~~L~eKK~~~-~~~-------d~kek~K~iRfL~rRGFS~D~I~~vLk~~~de~~ 307 (309)
T PRK14136 253 ----RETEFERAQAVWRKKFGA-LPQ-------TPAERAKQARFLAARGFSSATIVKLLKVGDDEFG 307 (309)
T ss_pred ----cHhHHHHHHHHHHHHhcc-cCc-------CHHHHHHHHHHHHHCCCCHHHHHHHHHhchhccc
Confidence 346888999999999975 211 0011246788899999999999999987766653
No 13
>PRK13989 cell division topological specificity factor MinE; Provisional
Probab=39.73 E-value=34 Score=29.26 Aligned_cols=46 Identities=17% Similarity=0.374 Sum_probs=28.8
Q ss_pred HHHHHHhhcCCCChhhHHHHHHHHHHHHHHHH-HHHHH------HHHHHHHHHHHHHhc
Q 012264 9 MKLSIFLFFKKFNSSKCKTAAKMAVARIKLLR-NKREA------VVRQMRRDIALLLQS 60 (467)
Q Consensus 9 ~~~~~~lf~~~f~~sKcKt~LKLAisRLklLq-nKr~a------~~kq~RrDIAqLL~~ 60 (467)
|+||+.+|+++= ..-..|-.||+++- ..|.. ..-++|+||-+.+..
T Consensus 1 M~l~~~f~~~k~------~Sa~vAKeRLqiiLa~dR~~~~~~p~~l~~lk~dil~VIsK 53 (84)
T PRK13989 1 MSILSFLLGEKK------KTASVAKERLQIIIAHERVGGRQPPDYLPALQKELVAVISK 53 (84)
T ss_pred CchHHHhhcCCC------CcHHHHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHHHHHH
Confidence 788888887632 23344667777642 33322 567888888776654
No 14
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=39.18 E-value=1.3e+02 Score=30.94 Aligned_cols=118 Identities=18% Similarity=0.212 Sum_probs=65.3
Q ss_pred HHhhhHHHHHHHHHHHHHHHHhHhhhhc---------cCCC--ChhHHHHHHHHHhhCCCCCCch----hHHHHHHHHHH
Q 012264 75 REQNVLAANEFIELFCELIVARLSIIAK---------RREC--PADLKEGIASVIFAAPRCSEIP----ELGAIRDIFEK 139 (467)
Q Consensus 75 rED~~ieayEILElYCELLlaRl~lIek---------~KeC--P~eLkEAIsSLIfAApR~sDlP----EL~~LR~~f~~ 139 (467)
.|-|+..++..|+.+|+.|.-=-...+. .+.. .-.+.--++..||++.|...+| |+..+...-..
T Consensus 93 ~ernl~~a~~~l~~~~~~l~LP~~v~e~A~~iyr~a~~~~l~rGRsie~v~AA~iY~acR~~~~prtl~eIa~a~~V~~k 172 (285)
T COG1405 93 KERNLITALEELERIASALGLPESVRETAARIYRKAVDKGLLRGRSIESVAAACIYAACRINGVPRTLDEIAKALGVSKK 172 (285)
T ss_pred hhhHHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhhcCCCcCCcHHHHHHHHHHHHHHHcCCCccHHHHHHHHCCCHH
Confidence 4667778888888887765322222211 1122 3345566688999999975555 66666665667
Q ss_pred HHcHHHHHHHhhcCCC-------CCCCHHHHhhcCCCCCCHHHHHHHHHHHHHHcCCCCCCc
Q 012264 140 KYGKDFVSAATDLRPN-------SGVNRMLIEKLSVRTPTGEVKLKVMKEIAKEFQIDWDTT 194 (467)
Q Consensus 140 KYGKeFv~aA~Elr~~-------~~VN~kIi~KLSv~~Ps~elv~kyL~EIAkEy~I~wdp~ 194 (467)
.+|+-|-..+.++... ..| +++..+|... +....+-.-|..-|++.|+.|-..
T Consensus 173 ei~rtyr~~~~~L~l~~~~~~p~~yi-~rf~s~L~l~-~~v~~~a~ei~~~~~~~g~~~Gk~ 232 (285)
T COG1405 173 EIGRTYRLLVRELKLKIPPVDPSDYI-PRFASKLGLS-DEVRRKAIEIVKKAKRAGLTAGKS 232 (285)
T ss_pred HHHHHHHHHHHhcCCCCCCCCHHHHH-HHHHHHcCCC-HHHHHHHHHHHHHHHHhCcccCCC
Confidence 7777775444443211 112 2456666654 333333344444555666666443
No 15
>PRK13991 cell division topological specificity factor MinE; Provisional
Probab=37.10 E-value=50 Score=28.60 Aligned_cols=47 Identities=23% Similarity=0.317 Sum_probs=29.3
Q ss_pred HHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHH-H----HHHHHHHHHHHHHHHhc
Q 012264 9 MKLSIFLFFKKFNSSKCKTAAKMAVARIKLLRNK-R----EAVVRQMRRDIALLLQS 60 (467)
Q Consensus 9 ~~~~~~lf~~~f~~sKcKt~LKLAisRLklLqnK-r----~a~~kq~RrDIAqLL~~ 60 (467)
|+||+-||+++= +..-..|-.||+++--. | -....++|+||-+.+..
T Consensus 1 M~~l~~~f~~k~-----~~Sa~~AKeRLqliLahdR~~~~p~~l~~lk~eil~VIsK 52 (87)
T PRK13991 1 MSFLDGLFGRKR-----DSSSELAKQRLLTVLVHDRVKLTPEMMEQMKADLAEVIKR 52 (87)
T ss_pred CChHHHhhcCCC-----CCcHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHH
Confidence 788998888631 12345677888874333 2 24666777777665554
No 16
>PF12238 MSA-2c: Merozoite surface antigen 2c; InterPro: IPR021060 This family of proteins are restricted to the apicomplexan Babesia bovis. Proteins in this entry are typically between 263 and 318 amino acids in length and plasma membrane glycoproteins. These antigens present on the merozoite surface (MSA) and are involved in the parasite invasion of the bovine erythrocyte. MSA-2c has been suggested as a possible antigen for a vaccine candidate [].
Probab=33.55 E-value=87 Score=31.14 Aligned_cols=86 Identities=10% Similarity=0.139 Sum_probs=68.1
Q ss_pred HHHHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhhhhHHHHHHHHHhhhHHHHHHHHHH
Q 012264 10 KLSIFLFFKKFNSSKCKTAAKMAVARIKLLRNKREAVVRQMRRDIALLLQSKQDATARIRVEHVIREQNVLAANEFIELF 89 (467)
Q Consensus 10 ~~~~~lf~~~f~~sKcKt~LKLAisRLklLqnKr~a~~kq~RrDIAqLL~~Gk~e~ARIRVE~LIrED~~ieayEILElY 89 (467)
++||...-+.|....-+-..+..+-||.++..+-...-..+...=.++|..|+.+-=..==+||..+|.-+.=|+-|-.+
T Consensus 31 ~lFd~~~~~~~s~q~~ee~F~~l~~sV~~m~~~i~~~n~fl~~~~~~~~~~~~~~~~~YyKkhIy~~d~~v~d~~~lv~~ 110 (205)
T PF12238_consen 31 SLFDETVLSNLSGQSDEEKFKSLFDSVPLMKHKISHMNAFLNDWPPHMLEEGREKMTKYYKKHIYKEDSEVKDYNGLVKF 110 (205)
T ss_pred hhhhHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHccCchhhhhccHHHHHHHHHHhccCcccccccHHHHHHH
Confidence 34555566667777778888999999999999999999999977788998887665555558999999888667778888
Q ss_pred HHHHHH
Q 012264 90 CELIVA 95 (467)
Q Consensus 90 CELLla 95 (467)
|.-.+.
T Consensus 111 ck~Fl~ 116 (205)
T PF12238_consen 111 CKDFLD 116 (205)
T ss_pred HHHHhc
Confidence 876654
No 17
>TIGR01215 minE cell division topological specificity factor MinE. This protein is involved in the process of cell division. This protein prevents the proteins MinC and MinD to inhibit cell division at internal sites, but allows inhibiton at polar sites. This allows for correct cell division at the proper sites.
Probab=33.01 E-value=98 Score=26.24 Aligned_cols=46 Identities=26% Similarity=0.426 Sum_probs=27.0
Q ss_pred HHHHHHhhcCCCChhhHHHHHHHHHHHHHHHH-HHHH----HHHHHHHHHHHHHHhc
Q 012264 9 MKLSIFLFFKKFNSSKCKTAAKMAVARIKLLR-NKRE----AVVRQMRRDIALLLQS 60 (467)
Q Consensus 9 ~~~~~~lf~~~f~~sKcKt~LKLAisRLklLq-nKr~----a~~kq~RrDIAqLL~~ 60 (467)
|+||+-||+++= +.-..|-.||+++- ..|. ....++|+||.+.++.
T Consensus 1 M~l~~~f~~~k~------~Sa~~AKeRLq~iL~~dR~~~~p~~l~~mk~dil~VIsk 51 (81)
T TIGR01215 1 MSLLEFFKSRKK------NSAEVAKDRLKLILAHDRAQLAPEYLEELRKEILEVISK 51 (81)
T ss_pred CchHHHhhcCCC------CcHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHH
Confidence 788887777532 13344667777643 2222 4556777777666554
No 18
>cd05394 RasGAP_RASA2 RASA2 (or GAP1(m)) is a member of the GAP1 family of Ras GTPase-activating proteins that includes GAP1_IP4BP (or RASA3), CAPRI, and RASAL. In vitro, RASA2 has been shown to bind inositol 1,3,4,5-tetrakisphosphate (IP4), the water soluble inositol head group of the lipid second messenger phosphatidylinositol 3,4,5-trisphosphate (PIP3). In vivo studies also demonstrated that RASA2 binds PIP3, and it is recruited to the plasma membrane following agonist stimulation of PI 3-kinase. Furthermore, the membrane translocation is a consequence of the ability of its pleckstrin homology (PH) domain to bind PIP3.
Probab=32.44 E-value=1.7e+02 Score=30.85 Aligned_cols=32 Identities=16% Similarity=0.314 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHhHhhhhccCCCChhHHHHHHH
Q 012264 83 NEFIELFCELIVARLSIIAKRRECPADLKEGIAS 116 (467)
Q Consensus 83 yEILElYCELLlaRl~lIek~KeCP~eLkEAIsS 116 (467)
.+.|..||+.+... ++.....||.+|++....
T Consensus 130 ~~~L~~~~~~~~~~--I~~S~~~~P~~lr~i~~~ 161 (313)
T cd05394 130 KENLRYYVDKVFFC--IVKSSMSCPTVMCDIFYS 161 (313)
T ss_pred HHHHHHHHHHHHHH--HHhCcccCcHHHHHHHHH
Confidence 45566677766653 356666788777665443
No 19
>PLN02976 amine oxidase
Probab=30.52 E-value=1e+03 Score=30.76 Aligned_cols=196 Identities=19% Similarity=0.190 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhhhhHHHHHHHHHhhhHHHHHHHHHHH----HHHHHhHhhhhccC
Q 012264 29 AKMAVARIKLLRNKREAVVRQMRRDIALLLQSKQDATARIRVEHVIREQNVLAANEFIELFC----ELIVARLSIIAKRR 104 (467)
Q Consensus 29 LKLAisRLklLqnKr~a~~kq~RrDIAqLL~~Gk~e~ARIRVE~LIrED~~ieayEILElYC----ELLlaRl~lIek~K 104 (467)
+|.+..|+.+.+.- ...-...+++.| ++.+-...---++++....+-.-=+-.+|++.| +|+.-|++-|-+.
T Consensus 1253 ~~t~~gr~~~~~~~-~~~~~~~~~~~a--~~~~gl~~l~~w~~~~~~~~~~~l~~~~~~ll~~~~~d~~a~r~sg~~~~- 1328 (1713)
T PLN02976 1253 AKTTAGRLHLAKEL-LNLPVETLKSFA--GTKEGLATLNSWILDSMGKDGTQLLRHCVRLLVLVSTDLLAVRLSGIGKT- 1328 (1713)
T ss_pred hcccccHHHHHHHH-HhCCHHHHHHHh--cccchHHHHHHHHHHHhcccHHHHHHHHHHHHhhcchhHHHHHhccchHH-
Q ss_pred CCChhHHHHHHHHHhhCCCCCCchhHHHHHHHHHHHHcHHHHHHHhhcCCCCCCCHHHHhhcCCCCCCHHHHHHHHHHHH
Q 012264 105 ECPADLKEGIASVIFAAPRCSEIPELGAIRDIFEKKYGKDFVSAATDLRPNSGVNRMLIEKLSVRTPTGEVKLKVMKEIA 184 (467)
Q Consensus 105 eCP~eLkEAIsSLIfAApR~sDlPEL~~LR~~f~~KYGKeFv~aA~Elr~~~~VN~kIi~KLSv~~Ps~elv~kyL~EIA 184 (467)
++|=|+. ...+|++.|-.|+..+|=.-|..+-..| .++ ||.-..|..+.-..
T Consensus 1329 -----~k~~~~~--------h~~~~~r~~a~~~~~~w~~~~~~~~~~~---~~~------~~~~~~~~~~~~~~------ 1380 (1713)
T PLN02976 1329 -----VKEKVCV--------HTSRDIRAIASQLVSVWLEVFRREKASN---GGL------KLLRQATANESSKR------ 1380 (1713)
T ss_pred -----HHhhhhh--------cccHHHHHHHHHHHHHHHHHHHHhhhcc---cch------hhhhhccccccccc------
Q ss_pred HHcCCCCCCchhHHHhcCcchhhcCCCCccccCCCCccccCCCcccccCCCCCcccccccCCCCcccccHHHHHHHHHHH
Q 012264 185 KEFQIDWDTTESEMELLKPAEERIGGPDTFFSASSLPVKHVPVQSVEQNRPHTRSVVSNRERGTMQFEDTASAAEAAADS 264 (467)
Q Consensus 185 kEy~I~wdp~~~e~el~~~~e~~l~gp~~~~s~ss~p~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~Da~~AA~AA~eS 264 (467)
.+-.......-....+...+....+....+.+..-..-.. ......-...-+.||-||+|.
T Consensus 1381 ----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~ 1441 (1713)
T PLN02976 1381 ----------------RKLNSPSTDTKGKLSSLENVKTDKSKSESLKSVGRQDIEE---EEGNQIPMSEEEKAAFAAAEA 1441 (1713)
T ss_pred ----------------cccccccccccCcccccccccccccccccchhhhhccccc---cccCCCccCHHHHHHHHHHHH
Q ss_pred HHHHHHHHHHH
Q 012264 265 AKKAVAAAQAA 275 (467)
Q Consensus 265 A~~Aa~AArAA 275 (467)
|.-||.||-.|
T Consensus 1442 ~~~~~~~~~~~ 1452 (1713)
T PLN02976 1442 ARAAAEAAAQA 1452 (1713)
T ss_pred HHHHHHHHHHH
No 20
>PF05099 TerB: Tellurite resistance protein TerB; InterPro: IPR007791 The prokaryotic heat shock protein DnaJ interacts with the chaperone hsp70-like DnaK protein []. Structurally, the DnaJ protein consists of an N-terminal conserved domain (called 'J' domain) of about 70 amino acids, a glycine-rich region ('G' domain') of about 30 residues, a central domain containing four repeats of a CXXCXGXG motif ('CRR' domain) and a C-terminal region of 120 to 170 residues. Direct interaction between DnaK and djlA is needed for the induction of the wcaABCDE operon which is involved in the synthesis of a colanic acid polysaccharide capsule. The colanic acid capsule may help the bacterium survive conditions outside the host [, ]; PDB: 2H5N_D 2JXU_A.
Probab=29.97 E-value=1.3e+02 Score=26.09 Aligned_cols=114 Identities=22% Similarity=0.362 Sum_probs=58.1
Q ss_pred HHHHhHhhhhccCCCChhHHHHHHHHHhhCCCC-C--CchhHHHHHHHHHHHHc------HHHHHHHhhcCCCCCCCHHH
Q 012264 92 LIVARLSIIAKRRECPADLKEGIASVIFAAPRC-S--EIPELGAIRDIFEKKYG------KDFVSAATDLRPNSGVNRML 162 (467)
Q Consensus 92 LLlaRl~lIek~KeCP~eLkEAIsSLIfAApR~-s--DlPEL~~LR~~f~~KYG------KeFv~aA~Elr~~~~VN~kI 162 (467)
++....+-.......+.. ..|+..|++...++ | +-.|+..|+.+|...+| .+....+.+......=-..+
T Consensus 5 ~~~~~~~~~~~~~~~~~~-~~a~~~ll~~~a~aDG~v~~~E~~~i~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~ 83 (140)
T PF05099_consen 5 LFKSSLQQQFKRLRQPQE-REALLALLAAVAKADGEVDPEEIEAIRQLLAERFGLSPEEAEELIELADELKQEPIDLEEL 83 (140)
T ss_dssp ----HHHHHHTTT--STT-HHHHHHHHHHHHHTTSS--CHHHHHHHHHHHHCGCGSCHHHHHHHHHHCHHHHHCCHHHHH
T ss_pred chhhhccccccccCCchH-HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHhccccHHHH
Confidence 333444444444444444 77887777766666 3 66799999999999999 33333232221111111356
Q ss_pred HhhcCCCCC--CHHHHHHHHHHHHHHcCCCCCCchhHHHhcCcchhhcC
Q 012264 163 IEKLSVRTP--TGEVKLKVMKEIAKEFQIDWDTTESEMELLKPAEERIG 209 (467)
Q Consensus 163 i~KLSv~~P--s~elv~kyL~EIAkEy~I~wdp~~~e~el~~~~e~~l~ 209 (467)
+..|....+ ....++..|..||..-| ...+.|.+++..--..++
T Consensus 84 ~~~l~~~~~~~~r~~ll~~l~~ia~ADG---~~~~~E~~~l~~ia~~L~ 129 (140)
T PF05099_consen 84 LRELRDSLSPEEREDLLRMLIAIAYADG---EISPEEQEFLRRIAEALG 129 (140)
T ss_dssp HHHHCTS--HHHHHHHHHHHHHHCTCTT---C-SCCHHHHHHHHHHHCT
T ss_pred HHHHHHhhchHHHHHHHHHHHHHHhcCC---CCCHHHHHHHHHHHHHcC
Confidence 666666433 22335566667776655 333445556554444444
No 21
>KOG1497 consensus COP9 signalosome, subunit CSN4 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=29.01 E-value=7.1e+02 Score=27.07 Aligned_cols=133 Identities=21% Similarity=0.225 Sum_probs=80.8
Q ss_pred HHHHHHHHHHHHHHhcCc---hhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHhHhhhhccCCCChhHHHHHHHHHhh-
Q 012264 45 AVVRQMRRDIALLLQSKQ---DATARIRVEHVIREQNVLAANEFIELFCELIVARLSIIAKRRECPADLKEGIASVIFA- 120 (467)
Q Consensus 45 a~~kq~RrDIAqLL~~Gk---~e~ARIRVE~LIrED~~ieayEILElYCELLlaRl~lIek~KeCP~eLkEAIsSLIfA- 120 (467)
.++.|.|.=.+..|.+.. .+-++.-+++++.+++.+-+-. .+..++-.+++ -.|+++...|++.+++
T Consensus 20 ~~~~qyr~~l~~~lt~~~~el~e~~k~~id~~~~~~vslvvsr---qllsl~~~~l~------~l~~e~~Kei~~~~l~~ 90 (399)
T KOG1497|consen 20 DQAEQYRQLLAKVLTNNGMELLEALKRFIDAIVNENVSLVVSR---QLLSLFDVELS------ILEDELRKEISHFTLEK 90 (399)
T ss_pred hHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHcCCchhhhHH---HHHHHHHHHhc------cCCHHHHHHHHHHHHHh
Confidence 345555666666666654 3455667888888887543332 23333444444 4678999999999988
Q ss_pred -CCCCCCch--hHHHHHHHHHHHHcHH--HHHHHhhcCCCCCCCHHHHhhcCCCCCCHHHHHHHHHHHHHHcCCCCCCc
Q 012264 121 -APRCSEIP--ELGAIRDIFEKKYGKD--FVSAATDLRPNSGVNRMLIEKLSVRTPTGEVKLKVMKEIAKEFQIDWDTT 194 (467)
Q Consensus 121 -ApR~sDlP--EL~~LR~~f~~KYGKe--Fv~aA~Elr~~~~VN~kIi~KLSv~~Ps~elv~kyL~EIAkEy~I~wdp~ 194 (467)
-||. .-+ -+..||-+|+.-|-++ |-.+|.-+- +|+..- ..+.-+.+-+...-..||+-|==+=++.
T Consensus 91 iq~rv-isfeEqv~~irl~LAsiYE~Eq~~~~aaq~L~---~I~~~t----g~~~~d~~~kl~l~iriarlyLe~~d~v 161 (399)
T KOG1497|consen 91 IQPRV-ISFEEQVASIRLHLASIYEKEQNWRDAAQVLV---GIPLDT----GQKAYDVEQKLLLCIRIARLYLEDDDKV 161 (399)
T ss_pred ccccc-ccHHHHHHHHHHHHHHHHHHhhhHHHHHHHHh---ccCccc----chhhhhhHHHHHHHHHHHHHHHhcCcHH
Confidence 6886 333 4678999999999884 555554331 222211 1334455666666667887774333333
No 22
>COG0851 MinE Septum formation topological specificity factor [Cell division and chromosome partitioning]
Probab=28.99 E-value=62 Score=28.34 Aligned_cols=46 Identities=30% Similarity=0.491 Sum_probs=27.2
Q ss_pred HHHHHHhhcCCCChhhHHHHHHHHHHHHHHHH-HHH-----HHHHHHHHHHHHHHHhc
Q 012264 9 MKLSIFLFFKKFNSSKCKTAAKMAVARIKLLR-NKR-----EAVVRQMRRDIALLLQS 60 (467)
Q Consensus 9 ~~~~~~lf~~~f~~sKcKt~LKLAisRLklLq-nKr-----~a~~kq~RrDIAqLL~~ 60 (467)
|++|+-||+++=+ .--.|-.||+++- +.| -...-++|+||-..+..
T Consensus 1 Msl~dff~~r~~~------Sa~~AkeRLQiilA~eR~~~~~pd~l~~Lr~eIl~VI~K 52 (88)
T COG0851 1 MSLFDFFFSRKKN------SAETAKERLQLILAHERAAGLQPDYLEQLRKEILEVISK 52 (88)
T ss_pred CcHHHHHHhcCCC------cHHHHHHHHHHhhhhhhhcCCCcchHHHHHHHHHHHHHH
Confidence 7889888877622 1233445666532 223 23567888888666543
No 23
>PF00570 HRDC: HRDC domain Bloom syndrome. Werner syndrome.; InterPro: IPR002121 The HRDC (Helicase and RNase D C-terminal) domain has a putative role in nucleic acid binding. Mutations in the HRDC domain associated with the human BLM gene result in Bloom Syndrome (BS), an autosomal recessive disorder characterised by proportionate pre- and postnatal growth deficiency; sun-sensitive, telangiectatic, hypo- and hyperpigmented skin; predisposition to malignancy; and chromosomal instability [].; GO: 0003676 nucleic acid binding, 0005622 intracellular; PDB: 3SAG_B 3SAH_B 2CPR_A 3SAF_B 3CYM_A 1WUD_A 2HBK_A 2HBJ_A 2HBM_A 2HBL_A ....
Probab=28.05 E-value=42 Score=25.97 Aligned_cols=63 Identities=21% Similarity=0.212 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHHHHHHhHhhhhccCCCChhHHHHHHHHHhhCCCCCCchhHHH---HHHHHHHHHcHHHHHH
Q 012264 80 LAANEFIELFCELIVARLSIIAKRRECPADLKEGIASVIFAAPRCSEIPELGA---IRDIFEKKYGKDFVSA 148 (467)
Q Consensus 80 ieayEILElYCELLlaRl~lIek~KeCP~eLkEAIsSLIfAApR~sDlPEL~~---LR~~f~~KYGKeFv~a 148 (467)
.++|.-|-..++-+....+ +....-++.+....|+.. -|. ++.||.. +......+||.+|.+.
T Consensus 2 ~~~~~~L~~~R~~~A~~~~-~~~~~Il~~~~L~~ia~~---~P~--s~~~L~~i~g~~~~~~~~~g~~il~~ 67 (68)
T PF00570_consen 2 LALLKALKEWREELAREED-VPPYRILSDEALLEIAKR---LPT--SIEELLQIPGMGKRKVRKYGDEILEI 67 (68)
T ss_dssp HHHHHHHHHHHHHHHHHHT-S-HHHHS-HHHHHHHHHH-----S--SHHHHHTSTTCGHHHHHHCHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHcC-cCcccccCHHHHHHHHHh---CCC--CHHHHHHccCCCHHHHHHHHHHHHhh
Confidence 3567777777777776666 333446666666665543 444 5555554 5778888999999763
No 24
>PF05928 Zea_mays_MuDR: Zea mays MURB-like protein (MuDR); InterPro: IPR009227 This family consists of several Zea mays (Maize) specific MURB-like proteins. The transposition of Mu elements underlying Mutator activity in maize requires a transcriptionally active MuDR element. Despite variation in MuDR copy number and RNA levels in Mutator lines, transposition events are consistently late in plant development, and Mu excision frequencies are similar [].
Probab=27.89 E-value=61 Score=31.59 Aligned_cols=23 Identities=35% Similarity=0.294 Sum_probs=16.9
Q ss_pred ccccHHHHHHHHHHHHHHHHHHH
Q 012264 250 QFEDTASAAEAAADSAKKAVAAA 272 (467)
Q Consensus 250 ~~~Da~~AA~AA~eSA~~Aa~AA 272 (467)
--.|+-+||+||+-.|+.|.-|+
T Consensus 8 ~ia~~v~aaraaavaa~earc~~ 30 (207)
T PF05928_consen 8 VIADVVDAARAAAVAASEARCVV 30 (207)
T ss_pred HHHHHHHHHHHHHHHHhhhhhhh
Confidence 34678889998888877766553
No 25
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=27.73 E-value=92 Score=31.91 Aligned_cols=66 Identities=20% Similarity=0.433 Sum_probs=34.3
Q ss_pred HHHHHHHHHhhCCCCCCch----hHHHHHHHHHHHHcHHHHHHHhhcCCCCCCCHHHHhhcCCCCCCHHHHHHHHHHHHH
Q 012264 110 LKEGIASVIFAAPRCSEIP----ELGAIRDIFEKKYGKDFVSAATDLRPNSGVNRMLIEKLSVRTPTGEVKLKVMKEIAK 185 (467)
Q Consensus 110 LkEAIsSLIfAApR~sDlP----EL~~LR~~f~~KYGKeFv~aA~Elr~~~~VN~kIi~KLSv~~Ps~elv~kyL~EIAk 185 (467)
+.--++..||.|-|...+| |+..+-..-....|+.|-. |++.|....|.. .-..|+..++.
T Consensus 164 ~~~i~AAclYiACR~~~~prtl~eI~~~~~v~~k~i~~~~~~--------------l~k~L~~~~~~~-~p~~~i~r~~~ 228 (310)
T PRK00423 164 IEGVVAAALYAACRRCKVPRTLDEIAEVSRVSRKEIGRCYRF--------------LLRELNLKLPPT-DPIDYVPRFAS 228 (310)
T ss_pred HHHHHHHHHHHHHHHcCCCcCHHHHHHHhCCCHHHHHHHHHH--------------HHHHhCCCCCCC-CHHHHHHHHHH
Confidence 3444578889888876666 3333222223334443322 333344333332 13467777777
Q ss_pred HcCCC
Q 012264 186 EFQID 190 (467)
Q Consensus 186 Ey~I~ 190 (467)
..+++
T Consensus 229 ~L~L~ 233 (310)
T PRK00423 229 ELGLS 233 (310)
T ss_pred HcCCC
Confidence 77764
No 26
>PF08542 Rep_fac_C: Replication factor C C-terminal domain; InterPro: IPR013748 Replication factor C (RFC) is a multimeric AAA+ protein complex that loads the DNA polymerase processivity clamp PCNA (Proliferating Cell Nuclear Antigen) onto DNA using ATP to drive the reaction []. PCNA functions at multiple levels in directing DNA metabolic pathways []. When bound to DNA, PCNA organises various proteins involved in DNA replication, DNA repair, DNA modification, and chromatin modelling. Replication factor C consists of five subunits in a spiral arrangement: Rfc1, Rfc2, Rfc3, Rfc4, and Rfc5 subunits. Rfc1 and Rfc2 load the PCNA sliding clamp onto DNA, while Rfc3 binds ATP and also acts as a checkpoint sensor. The RFC complex contains four ATP sites (sites A, B, C, and D) located at subunit interfaces. In each ATP site, an arginine residue from one subunit is located near the gamma-phosphate of ATP bound in the adjacent subunit. These arginine residues act as "arginine fingers" that can potentially perform two functions: sensing that ATP is bound and catalyzing ATP hydrolysis []. This entry represents the core domain found in Rfc1-5.; GO: 0003689 DNA clamp loader activity, 0005524 ATP binding, 0006260 DNA replication, 0005663 DNA replication factor C complex; PDB: 1SXJ_B 2CHG_B 2CHV_F 2CHQ_C 1IQP_A.
Probab=26.59 E-value=1.8e+02 Score=23.58 Aligned_cols=42 Identities=17% Similarity=0.212 Sum_probs=33.0
Q ss_pred HHHHHHHhcCchhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHH
Q 012264 52 RDIALLLQSKQDATARIRVEHVIREQNVLAANEFIELFCELIVA 95 (467)
Q Consensus 52 rDIAqLL~~Gk~e~ARIRVE~LIrED~~ieayEILElYCELLla 95 (467)
++|.+.+.+|....++..++.++.+ -+.+.+||...-+.|..
T Consensus 9 ~~i~~~~~~~~~~~~~~~~~~l~~~--G~s~~~Il~~l~~~l~~ 50 (89)
T PF08542_consen 9 EEILESCLNGDFKEARKKLYELLVE--GYSASDILKQLHEVLVE 50 (89)
T ss_dssp HHHHHHHHHTCHHHHHHHHHHHHHT--T--HHHHHHHHHHHHHT
T ss_pred HHHHHHHHhCCHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHH
Confidence 4778888889999999999999998 66788888777666654
No 27
>PF00452 Bcl-2: Apoptosis regulator proteins, Bcl-2 family; InterPro: IPR000712 Apoptosis, or programmed cell death (PCD), is a common and evolutionarily conserved property of all metazoans []. In many biological processes, apoptosis is required to eliminate supernumerary or dangerous (such as pre-cancerous) cells and to promote normal development. Dysregulation of apoptosis can, therefore, contribute to the development of many major diseases including cancer, autoimmunity and neurodegenerative disorders. In most cases, proteins of the caspase family execute the genetic programme that leads to cell death. Bcl-2 proteins are central regulators of caspase activation, and play a key role in cell death by regulating the integrity of the mitochondrial and endoplasmic reticulum (ER) membranes []. At least 20 Bcl-2 proteins have been reported in mammals, and several others have been identified in viruses. Bcl-2 family proteins fall roughly into three subtypes, which either promote cell survival (anti-apoptotic) or trigger cell death (pro-apoptotic). All members contain at least one of four conserved motifs, termed Bcl-2 Homology (BH) domains. Bcl-2 subfamily proteins, which contain at least BH1 and BH2, promote cell survival by inhibiting the adapters needed for the activation of caspases. Pro-apoptotic members potentially exert their effects by displacing the adapters from the pro-survival proteins; these proteins belong either to the Bax subfamily, which contain BH1-BH3, or to the BH3 subfamily, which mostly only feature BH3 []. Thus, the balance between antagonistic family members is believed to play a role in determining cell fate. Members of the wider Bcl-2 family, which also includes Bcl-x, Bcl-w and Mcl-1, are described by their similarity to Bcl-2 protein, a member of the pro-survival Bcl-2 subfamily []. Full-length Bcl-2 proteins feature all four BH domains, seven alpha-helices, and a C-terminal hydrophobic motif that targets the protein to the outer mitochondrial membrane, ER and nuclear envelope. Active cell suicide (apoptosis) is induced by events such as growth factor withdrawal and toxins. It is controlled by regulators, which have either an inhibitory effect on programmed cell death (anti-apoptotic) or block the protective effect of inhibitors (pro-apoptotic) [, ]. Many viruses have found a way of countering defensive apoptosis by encoding their own anti-apoptosis genes preventing their target-cells from dying too soon. All proteins belonging to the Bcl-2 family [] contain either a BH1, BH2, BH3, or BH4 domain. All anti-apoptotic proteins contain BH1 and BH2 domains, some of them contain an additional N-terminal BH4 domain (Bcl-2, Bcl-x(L), Bcl-w), which is never seen in pro-apoptotic proteins, except for Bcl-x(S). On the other hand, all pro-apoptotic proteins contain a BH3 domain (except for Bad) necessary for dimerisation with other proteins of Bcl-2 family and crucial for their killing activity, some of them also contain BH1 and BH2 domains (Bax, Bak). The BH3 domain is also present in some anti-apoptotic protein, such as Bcl-2 or Bcl-x(L). Proteins that are known to contain these domains include vertebrate Bcl-2 (alpha and beta isoforms) and Bcl-x (isoforms (Bcl-x(L) and Bcl-x(S)); mammalian proteins Bax and Bak; mouse protein Bid; Xenopus laevis proteins Xr1 and Xr11; human induced myeloid leukemia cell differentiation protein MCL1 and Caenorhabditis elegans protein ced-9.; GO: 0042981 regulation of apoptosis; PDB: 2WH6_A 1K3K_A 1AF3_A 3PK1_B 2K7W_A 1F16_A 3PL7_C 2VM6_A 3I1H_A 3MQP_A ....
Probab=26.08 E-value=1e+02 Score=25.68 Aligned_cols=49 Identities=31% Similarity=0.518 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHcHHHHHHHhhcCCCCCCCHHHHhhcCCCCC--CHHHHHHHHHHHHHHcCCCCC
Q 012264 130 LGAIRDIFEKKYGKDFVSAATDLRPNSGVNRMLIEKLSVRTP--TGEVKLKVMKEIAKEFQIDWD 192 (467)
Q Consensus 130 L~~LR~~f~~KYGKeFv~aA~Elr~~~~VN~kIi~KLSv~~P--s~elv~kyL~EIAkEy~I~wd 192 (467)
|+.|-+.|..+|...|-. +++.|....| ..+....++.+|-...+|.|-
T Consensus 1 L~~i~~~~e~~~~~~f~~--------------~~~~l~~~~~~~~~~~f~~v~~~lf~d~~inWG 51 (101)
T PF00452_consen 1 LRRIADELERKYEDFFEN--------------MLNQLNINTPDNAYETFNEVAEELFEDGGINWG 51 (101)
T ss_dssp HHHHHHHHHHHHHHHHHH--------------HHHHHCSSSTTTHHHHHHHHHHHHTTTSSTCHH
T ss_pred CHHHHHHHHHHHHHHHHH--------------HHHHhCCCCcchHHHHHHHHHHHHhccCCCCHH
Confidence 678889999999998864 4455555444 345556667777666688884
No 28
>smart00502 BBC B-Box C-terminal domain. Coiled coil region C-terminal to (some) B-Box domains
Probab=26.04 E-value=3.8e+02 Score=22.24 Aligned_cols=36 Identities=8% Similarity=0.088 Sum_probs=22.1
Q ss_pred hhHHHHHHHHHhhCCCC--CCchhHHHHHHHHHHHHcH
Q 012264 108 ADLKEGIASVIFAAPRC--SEIPELGAIRDIFEKKYGK 143 (467)
Q Consensus 108 ~eLkEAIsSLIfAApR~--sDlPEL~~LR~~f~~KYGK 143 (467)
..+...-.++=|+-..+ ++-.|+...+..+..+++.
T Consensus 86 ~~l~~l~~~~~~~e~~l~~~~~~e~L~~~~~i~~rl~~ 123 (127)
T smart00502 86 QKQEKLSHAINFTEEALNSGDPTELLLSKKLIIERLQN 123 (127)
T ss_pred HHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHH
Confidence 33444444444554444 4667888888888888754
No 29
>PRK00296 minE cell division topological specificity factor MinE; Reviewed
Probab=26.03 E-value=98 Score=26.60 Aligned_cols=46 Identities=26% Similarity=0.432 Sum_probs=26.9
Q ss_pred HHHHHHhhcCCCChhhHHHHHHHHHHHHHHHHH-HH-----HHHHHHHHHHHHHHHhc
Q 012264 9 MKLSIFLFFKKFNSSKCKTAAKMAVARIKLLRN-KR-----EAVVRQMRRDIALLLQS 60 (467)
Q Consensus 9 ~~~~~~lf~~~f~~sKcKt~LKLAisRLklLqn-Kr-----~a~~kq~RrDIAqLL~~ 60 (467)
|+||+-|++++ ++.-..|-.||+++-- .| .....++|+||.+.+..
T Consensus 1 M~l~~~f~~kk------~~Sa~~AKeRLq~iL~~dR~~~~~p~~l~~lk~dIl~VIsK 52 (86)
T PRK00296 1 MSLLDFFRSRK------KSTANVAKERLQIIVAHERSSRGEPDYLPQLRKEILEVIAK 52 (86)
T ss_pred CchHHhhccCC------CCcHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHH
Confidence 67787666543 2244557777777432 21 23466777777766654
No 30
>COG5602 SIN3 Histone deacetylase complex, SIN3 component [Chromatin structure and dynamics]
Probab=25.07 E-value=2.9e+02 Score=33.41 Aligned_cols=77 Identities=14% Similarity=0.138 Sum_probs=45.4
Q ss_pred CchhhhhHHHHHHHHH-hhh----HHHHHHHHHHHHHHHHhHhhhhccCCCChhHHHHHHHHHhhCCCCCCchhHHHHHH
Q 012264 61 KQDATARIRVEHVIRE-QNV----LAANEFIELFCELIVARLSIIAKRRECPADLKEGIASVIFAAPRCSEIPELGAIRD 135 (467)
Q Consensus 61 Gk~e~ARIRVE~LIrE-D~~----ieayEILElYCELLlaRl~lIek~KeCP~eLkEAIsSLIfAApR~sDlPEL~~LR~ 135 (467)
++++.|..|+|.==.| |.+ +....+||..|+.+..- ...+ . -+|-.|+=--+|-...+++
T Consensus 547 NqyEEaL~kiEeERyEyDr~Iea~~~~Ik~Le~i~d~~~~~-~e~E----------k----a~~~Lp~glg~~S~sIyKk 611 (1163)
T COG5602 547 NQYEEALFKIEEERYEYDRHIEATQRTIKALEQIIDKIKDM-EESE----------K----ANKTLPGGLGLPSKSIYKK 611 (1163)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc-hhhH----------H----HHhcCCCcCCCccHHHHHH
Confidence 4677888887642211 222 23344555666654321 1111 1 1344444226788889999
Q ss_pred HHHHHHcHHHHHHHhhc
Q 012264 136 IFEKKYGKDFVSAATDL 152 (467)
Q Consensus 136 ~f~~KYGKeFv~aA~El 152 (467)
.+..-|||+-+..++|.
T Consensus 612 vik~VY~KEhA~eile~ 628 (1163)
T COG5602 612 VIKKVYDKEHAPEILEA 628 (1163)
T ss_pred HHHHHhchhhHHHHHHH
Confidence 99999999988877663
No 31
>cd05137 RasGAP_CLA2_BUD2 CLA2/BUD2 functions as a GTPase-activating protein (GAP) for BUD1/RSR1 and is necessary for proper bud-site selection in yeast. BUD2 has sequence similarity to the catalytic domain of RasGAPs, and stimulates the hydrolysis of BUD1-GTP to BUD1-GDP. Elimination of Bud2p activity by mutation causes a random budding pattern with no growth defect. Overproduction of Bud2p also alters the budding pattern.
Probab=24.94 E-value=2.8e+02 Score=29.89 Aligned_cols=37 Identities=16% Similarity=0.142 Sum_probs=26.0
Q ss_pred hhHHHHHHHHHHHHHHHHhHhhhhccCCCChhHHHHHHH
Q 012264 78 NVLAANEFIELFCELIVARLSIIAKRRECPADLKEGIAS 116 (467)
Q Consensus 78 ~~ieayEILElYCELLlaRl~lIek~KeCP~eLkEAIsS 116 (467)
.+-+=.+.|..||+.++.+ ++.....||.+|+.-+..
T Consensus 193 ~l~~n~~~L~~~~~~~~~~--I~~S~~~~P~~lR~i~~~ 229 (395)
T cd05137 193 IIEHNWERLISLTEEIWKR--IANTSNDLPQEIRHILKY 229 (395)
T ss_pred HHHHHHHHHHHHHHHHHHH--HHHHHHhCCHHHHHHHHH
Confidence 3344456777788888776 456677999999876655
No 32
>PF06786 UPF0253: Uncharacterised protein family (UPF0253); InterPro: IPR009624 This is a group of proteins of unknown function.
Probab=21.91 E-value=2.5e+02 Score=23.47 Aligned_cols=47 Identities=21% Similarity=0.403 Sum_probs=36.1
Q ss_pred HHHHHHHHHhHhhhhc--cCCCChhHHHHHHHHHhhCCCCCCchhHHHHHHH
Q 012264 87 ELFCELIVARLSIIAK--RRECPADLKEGIASVIFAAPRCSEIPELGAIRDI 136 (467)
Q Consensus 87 ElYCELLlaRl~lIek--~KeCP~eLkEAIsSLIfAApR~sDlPEL~~LR~~ 136 (467)
..|||++-.+...|-+ +.-+|.-+-.+|-+|=.-+.- .+||+ .+|++
T Consensus 2 ~~YCeliR~~ya~IgSGd~gYiP~Ai~calk~Ln~iAad-~~Lp~--~vRE~ 50 (66)
T PF06786_consen 2 QVYCELIRELYAQIGSGDQGYIPDAIGCALKTLNDIAAD-EALPE--DVREQ 50 (66)
T ss_pred cHHHHHHHHHHHHhcCCccccCcHHHHHHHHHHHHHHcc-cccCH--HHHHH
Confidence 4689999999999986 457899999999998766665 36775 34443
No 33
>PRK13988 cell division topological specificity factor MinE; Provisional
Probab=21.88 E-value=2.8e+02 Score=24.51 Aligned_cols=47 Identities=26% Similarity=0.342 Sum_probs=29.1
Q ss_pred HHHHHHHhhcCCCChhhHHHHHHHHHHHHHHH-HHHH----HHHHHHHHHHHHHHHhc
Q 012264 8 TMKLSIFLFFKKFNSSKCKTAAKMAVARIKLL-RNKR----EAVVRQMRRDIALLLQS 60 (467)
Q Consensus 8 ~~~~~~~lf~~~f~~sKcKt~LKLAisRLklL-qnKr----~a~~kq~RrDIAqLL~~ 60 (467)
+|.||+.||+++= ..-..|-.||+++ -.-| -....++|+||.+.+..
T Consensus 3 ~~~~l~~lf~~k~------~Sa~~AK~RLk~iL~~dR~~~sp~~l~~mk~dIl~VIsk 54 (97)
T PRK13988 3 LRDLLEKLFGRQP------ASASTARERLQLVLAHDRADLSPELLEQMRKEILEVVAR 54 (97)
T ss_pred HHHHHHHHhcCCC------CcHHHHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHHHH
Confidence 5788888886522 1334566677763 3333 35677888888776654
No 34
>PF07352 Phage_Mu_Gam: Bacteriophage Mu Gam like protein; InterPro: IPR009951 The Gam protein, originally characterised in Bacteriophage Mu, protects linear double stranded DNA from exonuclease degradation in vitro and in vivo []. This protein is also found in many bacterial species as part of a suspected prophage. Further studies have shown that Gam is a functional counterpart of the eukaryotic Ku protein, which has key roles in DNA repair and in certain transposition events. Gam displays DNA binding characteristics remarkably similar to those of human Ku []. In addition, Gam can interfere with Ty1 retrotransposition in Saccharomyces cerevisiae (Baker's yeast). These data reveal structural and functional parallels between bacteriophage Gam and eukaryotic Ku and suggest that their functions have been evolutionarily conserved [].; GO: 0003690 double-stranded DNA binding, 0042262 DNA protection; PDB: 2P2U_B.
Probab=21.76 E-value=4.4e+02 Score=24.13 Aligned_cols=64 Identities=14% Similarity=0.196 Sum_probs=47.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHhHh
Q 012264 28 AAKMAVARIKLLRNKREAVVRQMRRDIALLLQSKQDATARIRVEHVIREQNVLAANEFIELFCELIVARLS 98 (467)
Q Consensus 28 ~LKLAisRLklLqnKr~a~~kq~RrDIAqLL~~Gk~e~ARIRVE~LIrED~~ieayEILElYCELLlaRl~ 98 (467)
.+.-|+.+|+-++.+....-..+-.+|+++=..-..+.+.+. ..+-.+-..|..||+.-...+.
T Consensus 4 ~a~~al~ki~~l~~~~~~i~~~~~~~I~~i~~~~~~~~~~l~-------~~i~~l~~~l~~y~e~~r~e~~ 67 (149)
T PF07352_consen 4 EADWALRKIAELQREIARIEAEANDEIARIKEWYEAEIAPLQ-------NRIEYLEGLLQAYAEANRDELT 67 (149)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHH-------HHHHHHHHHHHHHHHCTHHHH-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHCHHhcc
Confidence 466788999999999999999999999887666555444443 3344556688999998777766
No 35
>PRK13430 F0F1 ATP synthase subunit delta; Provisional
Probab=21.43 E-value=2.1e+02 Score=28.97 Aligned_cols=37 Identities=19% Similarity=0.315 Sum_probs=26.0
Q ss_pred chhHHHHHHHHHHHHcHHHHHHHhhcCCCCCCCHHHHhhcCCCC
Q 012264 127 IPELGAIRDIFEKKYGKDFVSAATDLRPNSGVNRMLIEKLSVRT 170 (467)
Q Consensus 127 lPEL~~LR~~f~~KYGKeFv~aA~Elr~~~~VN~kIi~KLSv~~ 170 (467)
=.+...|++.|..+||++.. + ...|+|.|+-=+.++.
T Consensus 213 ~~q~~~L~~~L~k~~g~~V~-----l--~~~VDpsLIGGivI~v 249 (271)
T PRK13430 213 DEQKQRLAAALSRIYGRPVH-----L--NSEVDPSVLGGMRVQV 249 (271)
T ss_pred HHHHHHHHHHHHHHHCCceE-----E--EeeECccccCcEEEEE
Confidence 35688999999999998642 2 2568887776555443
No 36
>cd05128 RasGAP_GAP1_like The GAP1 family of Ras GTPase-activating proteins includes GAP1(m) (or RASA2), GAP1_IP4BP (or RASA3), Ca2+ -promoted Ras inactivator (CAPRI, or RASAL4), and Ras GTPase activating-like proteins (RASAL) or RASAL1. The members are characterized by a conserved domain structure comprising N-terminal tandem C2 domains, a highly conserved central RasGAP domain, and a C-terminal pleckstrin homology domain that is associated with a Bruton's tyrosine kinase motif. While this domain structure is conserved, a small change in the function of each individual domain and the interaction between domains has a marked effect on the regulation of each protein.
Probab=21.27 E-value=8.8e+02 Score=25.31 Aligned_cols=36 Identities=8% Similarity=0.174 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHHHhHhhhhccCCCChhHHHHHHHHHh
Q 012264 81 AANEFIELFCELIVARLSIIAKRRECPADLKEGIASVIF 119 (467)
Q Consensus 81 eayEILElYCELLlaRl~lIek~KeCP~eLkEAIsSLIf 119 (467)
.-.+.|..||+.++.++ +.....||.+|+.- +..|+
T Consensus 129 ~n~~~L~~~~~~~~~~I--~~S~~~~P~~lr~i-~~~l~ 164 (315)
T cd05128 129 NNRENLRYYLDRLFEAI--TKSSVSCPTVMCDI-FYQLR 164 (315)
T ss_pred HHHHHHHHHHHHHHHHH--HHHHHhCCHHHHHH-HHHHH
Confidence 34456677777776654 34456899999864 44444
No 37
>PF10475 DUF2450: Protein of unknown function N-terminal domain (DUF2450) ; InterPro: IPR019515 This entry represents Vacuolar protein sorting-associated protein 54, and is thought to be involved in retrograde transport from early and late endosomes to late Golgi found in eukaryotes, but its function is not known.
Probab=20.59 E-value=6.9e+02 Score=25.24 Aligned_cols=101 Identities=20% Similarity=0.223 Sum_probs=56.0
Q ss_pred HHHhhcCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHH-------------HHHHHHHHhc----CchhhhhHHHHHHH
Q 012264 12 SIFLFFKKFNSSKCKTAAKMAVARIKLLRNKREAVVRQM-------------RRDIALLLQS----KQDATARIRVEHVI 74 (467)
Q Consensus 12 ~~~lf~~~f~~sKcKt~LKLAisRLklLqnKr~a~~kq~-------------RrDIAqLL~~----Gk~e~ARIRVE~LI 74 (467)
.+++|..--+-..+...|..|+..++-+|++-...-... |.-+.+|++. ...-.+..+++.++
T Consensus 59 s~~f~~a~~~v~el~~~l~~a~~~~~~~R~~L~~~~~~~~~~~L~Il~~~rkr~~l~~ll~~L~~i~~v~~~~~~l~~ll 138 (291)
T PF10475_consen 59 SDSFFQAMSSVQELQDELEEALVICKNLRRNLKSADENLTKSGLEILRLQRKRQNLKKLLEKLEQIKTVQQTQSRLQELL 138 (291)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444333445666666666666666665533322221 1112222222 33556788889999
Q ss_pred HHhhhHHHHHHHHHHHHHHHHhHhhhhccCCCChhHHHH
Q 012264 75 REQNVLAANEFIELFCELIVARLSIIAKRRECPADLKEG 113 (467)
Q Consensus 75 rED~~ieayEILElYCELLlaRl~lIek~KeCP~eLkEA 113 (467)
.+.++..|+++|...=+++ ..+.-+..-+.++..|.+-
T Consensus 139 ~~~dy~~Al~li~~~~~~l-~~l~~~~c~~~L~~~L~e~ 176 (291)
T PF10475_consen 139 EEGDYPGALDLIEECQQLL-EELKGYSCVRHLSSQLQET 176 (291)
T ss_pred hcCCHHHHHHHHHHHHHHH-HhcccchHHHHHhHHHHHH
Confidence 9999999999888766665 4444443333444444433
Done!