Query 040655
Match_columns 172
No_of_seqs 104 out of 244
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 10:30:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040655.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040655hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4066 Cell growth regulatory 100.0 1.1E-49 2.3E-54 306.3 12.0 168 3-172 5-177 (177)
2 PF08617 CGI-121: Kinase bindi 100.0 2.1E-48 4.6E-53 304.3 9.2 153 17-169 1-161 (161)
3 PRK14886 KEOPS complex Cgi121- 100.0 5.1E-39 1.1E-43 253.0 11.5 151 19-172 11-166 (167)
4 COG1617 Uncharacterized conser 99.8 4.7E-19 1E-23 136.3 7.1 121 38-171 33-156 (158)
5 cd01445 TST_Repeats Thiosulfat 26.5 54 0.0012 24.5 2.2 16 87-102 82-97 (138)
6 PRK13669 hypothetical protein; 25.3 93 0.002 21.6 3.0 26 38-63 47-74 (78)
7 PF09702 Cas_Csa5: CRISPR-asso 23.8 1E+02 0.0022 22.6 3.0 66 48-124 18-86 (105)
8 PRK01827 thyA thymidylate synt 23.7 52 0.0011 27.9 1.8 31 67-98 48-78 (264)
9 PF04017 DUF366: Domain of unk 20.3 48 0.001 26.7 0.9 12 90-101 21-32 (183)
10 KOG2099 Glycogen phosphorylase 19.6 2.2E+02 0.0048 27.4 5.0 55 7-64 9-63 (843)
No 1
>KOG4066 consensus Cell growth regulatory protein CGR11 [Function unknown]
Probab=100.00 E-value=1.1e-49 Score=306.29 Aligned_cols=168 Identities=26% Similarity=0.515 Sum_probs=160.7
Q ss_pred eecCCCCcEEEEEEeeCCCChHHHHHHHhcCCCCCcEEEEeCCccCCHHHHHHHHHHHHHHhhcCCCCCCChhhhhhhhc
Q 040655 3 VFEMSNGNTLSLSLFTEVTNSKELLDSMQAGTLEPEAAFLNASLIPDVFPVLAAAHKTLIAKSRESLTTRTPHSELVYNY 82 (172)
Q Consensus 3 ~~~~~~~~~v~i~lf~~V~Na~~l~~~l~~~~~~~~~a~ida~~I~s~~hl~~A~~~Al~~~~~g~~~Tk~l~sEIl~~L 82 (172)
.+|++|+..|+++||+||+||++||++++.|+.+ +|||||++|+++||+++|++||++..+.|+|+|||+|+|++|+|
T Consensus 5 ilplfPe~~v~v~lfedVkNaaeir~ql~eg~id--~AfIda~lil~pfq~ysAinralh~~k~nkMktRtL~sE~ilsL 82 (177)
T KOG4066|consen 5 ILPLFPETQVHVFLFEDVKNAAEIREQLIEGNID--YAFIDAALILYPFQVYSAINRALHDRKDNKMKTRTLHSEVILSL 82 (177)
T ss_pred ecccCCCceEEEEehhhcccHHHHHHHHHccCcc--ceeechhheecHHHHHHHHHHHHHHHHhccceeccccceeEEEe
Confidence 5899999999999999999999999999999875 99999999999999999999999999999999999999999999
Q ss_pred cCCCChHHHHHhcCCCCCCCeEEEEEEcCC---hhhHHHHccccCCeeecchh--hHhhhcHHHHHhHhcCCcccccccc
Q 040655 83 SGSKHITESLKRCGIADSSNYVLAARFNAS---PDEMEAVGKLINGKEIDLDE--LESRANQAQIQKHYKISSLELGISS 157 (172)
Q Consensus 83 Sps~nI~ealk~fGi~~~~~~vvvv~~~~~---~~~~~~l~~~i~G~~~~~~~--l~~~~d~~~i~K~Yki~~~El~~~~ 157 (172)
||++||++||++|||+++++++++|+|+.. ++.++.+.++|+|.++++.| |+++.|.+.|||+||+++.|++.++
T Consensus 83 SP~~nISdAf~kFgI~~~st~Ii~vk~d~~~dke~~~e~l~k~VeG~~Vef~d~~Lpkf~d~~~iKKvykl~~~e~~~~t 162 (177)
T KOG4066|consen 83 SPKTNISDAFRKFGITKKSTNIIVVKIDSKLDKEEEFERLDKLVEGNRVEFSDEELPKFIDFKVIKKVYKLDPSELENPT 162 (177)
T ss_pred CCCcchHHHHHHhCcccCCccEEEEEecCCccHHHHHHHHHHHhcCCccccccchhHhhhhHHHHHHHHhcCcHhhcCCc
Confidence 999999999999999999999999999974 23478899999999999876 9999999999999999999999999
Q ss_pred hhHHHhhhhhhcccC
Q 040655 158 LADAITCRIAARDTL 172 (172)
Q Consensus 158 l~d~V~~riA~kd~l 172 (172)
+.|.+.|||-+||+|
T Consensus 163 asd~i~crm~tkdfl 177 (177)
T KOG4066|consen 163 ASDLISCRMRTKDFL 177 (177)
T ss_pred ccchheeeeeecccC
Confidence 999999999999986
No 2
>PF08617 CGI-121: Kinase binding protein CGI-121; InterPro: IPR013926 This entry represents the kinase binding protein CGI-121 and its homologues. CGI-121 has been shown to bind to the p53-related protein kinase (PRPK) []. PRPK is a novel protein kinase which binds to and induces phosphorylation of the tumour suppressor protein p53. CGI-121 is part of a conserved protein complex, KEOPS. The KEOPS complex is involved in telomere uncapping and telomere elongation []. Interestingly, this family also include archaeal homologues. A structure for these proteins has been solved by structural genomics.; PDB: 3ENP_A 3ENH_D 2K8Y_A 1ZD0_A.
Probab=100.00 E-value=2.1e-48 Score=304.28 Aligned_cols=153 Identities=41% Similarity=0.642 Sum_probs=136.9
Q ss_pred eeCCCChHHHHHHHhcCCCCCcEEEEeCCccCCHHHHHHHHHHHHHHhhcCCCCCCChhhhhhhhccCCCChHHHHHhcC
Q 040655 17 FTEVTNSKELLDSMQAGTLEPEAAFLNASLIPDVFPVLAAAHKTLIAKSRESLTTRTPHSELVYNYSGSKHITESLKRCG 96 (172)
Q Consensus 17 f~~V~Na~~l~~~l~~~~~~~~~a~ida~~I~s~~hl~~A~~~Al~~~~~g~~~Tk~l~sEIl~~LSps~nI~ealk~fG 96 (172)
|+||+|+++|++++++++.+++||||||++|+|++|+++|++||++++++|+|+|||+|+||+|||||+|||++||++||
T Consensus 1 f~~V~N~~~l~~~l~~~~~~~~~~~ida~~I~s~~hl~~A~~~A~~~~~~~~~~tr~~~~EIl~~lS~srnI~~Al~~fG 80 (161)
T PF08617_consen 1 FKDVKNAKELRDQLISGNPEVDIAFIDARLIASRFHLLSAINRALRAFKRGKMITRSLHSEILYYLSPSRNISEALKRFG 80 (161)
T ss_dssp EES-TTHHHHHCCCCCTTTTSSSEEEEGGG-S-HHHHHHHHHHHHHHHCCT--SSSSHHHHHHHHHHTSSSHHHHHHHHB
T ss_pred CCCCcCHHHHHHHHHcCCccccEEEEcCcccCCHHHHHHHHHHHHHHHHcCCCCcCccHHHHHHHhCCCCchHHHHHHhC
Confidence 89999999999999999988889999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCeEEEEEEc---CChhhHHHHccccCCeeecchhh--HhhhcHHHHHhHhcCCccc---ccccchhHHHhhhhhh
Q 040655 97 IADSSNYVLAARFN---ASPDEMEAVGKLINGKEIDLDEL--ESRANQAQIQKHYKISSLE---LGISSLADAITCRIAA 168 (172)
Q Consensus 97 i~~~~~~vvvv~~~---~~~~~~~~l~~~i~G~~~~~~~l--~~~~d~~~i~K~Yki~~~E---l~~~~l~d~V~~riA~ 168 (172)
+++++++++||.++ ++++.++++.++|+|++++++++ ..++|+++|+|+|||++.| ...++|+|+|++|||+
T Consensus 81 i~~~~~~~vvv~~~~~~~~~~~~~~l~~~i~g~~~~l~~~~~~~~~d~~~i~K~ykI~~~e~~~~~~~~l~~~V~~riAl 160 (161)
T PF08617_consen 81 ISDGTNSLVVVKIDDSEDSEEELESLLSLIKGEEVPLDDLELSSSTDEKKIKKLYKITEEELEALSVESLEDAVIERIAL 160 (161)
T ss_dssp --SCEEEEEEECCC--TTCHHHHHHHHHHSTSEEEECGGHGTHHCTHHHHHHHHCC--SSS-----HHHHHCHHHHHHHC
T ss_pred CCCCCceEEEEEECCCccchHHHHHHHHHhCCcccccchhhcccccCHHHHHHHcCCCchhccccccccHHHHHHHHHhc
Confidence 99999999999999 56778999999999999999886 8999999999999999999 6678999999999998
Q ss_pred c
Q 040655 169 R 169 (172)
Q Consensus 169 k 169 (172)
|
T Consensus 161 k 161 (161)
T PF08617_consen 161 K 161 (161)
T ss_dssp S
T ss_pred C
Confidence 7
No 3
>PRK14886 KEOPS complex Cgi121-like subunit; Provisional
Probab=100.00 E-value=5.1e-39 Score=253.01 Aligned_cols=151 Identities=21% Similarity=0.240 Sum_probs=133.6
Q ss_pred CCCChHHHHHHHhcC--CCCCcEEEEeCCccCCHHHHHHHHHHHHHHhhcCCCCCCChhhhhhhhccCCCChHHHHHhcC
Q 040655 19 EVTNSKELLDSMQAG--TLEPEAAFLNASLIPDVFPVLAAAHKTLIAKSRESLTTRTPHSELVYNYSGSKHITESLKRCG 96 (172)
Q Consensus 19 ~V~Na~~l~~~l~~~--~~~~~~a~ida~~I~s~~hl~~A~~~Al~~~~~g~~~Tk~l~sEIl~~LSps~nI~ealk~fG 96 (172)
.|.+...+.+.+.+- ....++|++||++|+|++|+.+|+++|++++++|+|+||++|+||||||||+|||++||++||
T Consensus 11 ~i~d~~~fl~~l~~~~~~~~~~~q~ina~~I~~~~hl~~A~~kA~~a~~~g~~~ar~l~~EILl~lSg~rqI~~Alk~~G 90 (167)
T PRK14886 11 TIEDVDGFLEEIDAIADEHGVTVQAFNADCIAGREHVEHAIILALRAFERGRNIAKDLGVEILLRAAGRRQISRAIKIIG 90 (167)
T ss_pred EeccHHHHHHHHHHHHHhcCCeEEEEChhHhCCHHHHHHHHHHHHHHHHcCCcccCchhhHHhhhhcchhhHHHHHHHhC
Confidence 566777755555431 112359999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCeEEEEEEcCChhhHHHHccccCCee-ecchhhHhhhcHHHHHhHhcCCccccc--ccchhHHHhhhhhhcccC
Q 040655 97 IADSSNYVLAARFNASPDEMEAVGKLINGKE-IDLDELESRANQAQIQKHYKISSLELG--ISSLADAITCRIAARDTL 172 (172)
Q Consensus 97 i~~~~~~vvvv~~~~~~~~~~~l~~~i~G~~-~~~~~l~~~~d~~~i~K~Yki~~~El~--~~~l~d~V~~riA~kd~l 172 (172)
+++++++++++++ +++.++++.+.++|.+ .+++++ ...|.++|+|+|||+++|++ .++|+|+|+||||++|++
T Consensus 91 i~~g~~~vvvv~~--~~~~~~~v~~~l~g~~~~~~~~l-~~~d~~~i~k~y~It~~El~~~~~~l~d~V~eRiAlldv~ 166 (167)
T PRK14886 91 AKEGENNIVVVVD--EEEAADAVIDLLGGLVDDSVLEL-DEAKEEKIRSLFDITEAELAACDGELVELVLERVALLEVL 166 (167)
T ss_pred CCCCCceEEEEEe--ChhhHHHHHHHhcCCcCCchhhc-cccCHHHHHHHhCCCHHHhhcccccHHHHHHHHHHHHHhh
Confidence 9999999999999 4567888999999987 566777 47999999999999999999 789999999999999985
No 4
>COG1617 Uncharacterized conserved protein [Function unknown]
Probab=99.78 E-value=4.7e-19 Score=136.29 Aligned_cols=121 Identities=20% Similarity=0.297 Sum_probs=98.3
Q ss_pred cEEEEeCCccCCHHHHHHHHHHHHHHhhcCCCCCCChhhhhhhhccCCCChHHHHHhcCCCCCCCeEEEEEEcCChhhHH
Q 040655 38 EAAFLNASLIPDVFPVLAAAHKTLIAKSRESLTTRTPHSELVYNYSGSKHITESLKRCGIADSSNYVLAARFNASPDEME 117 (172)
Q Consensus 38 ~~a~ida~~I~s~~hl~~A~~~Al~~~~~g~~~Tk~l~sEIl~~LSps~nI~ealk~fGi~~~~~~vvvv~~~~~~~~~~ 117 (172)
.+|++||+.+++..|+.+|+.+|++++++|++++||+..||+++++|+|||.+||+..|+++|.+.+++|.++++. +.
T Consensus 33 t~q~~na~~va~~~hv~faa~~Alkaf~sgrniAks~~iEIllr~AG~RQI~~Aikl~gak~Gen~iv~v~~d~~~--~~ 110 (158)
T COG1617 33 TVQIINADVVAGKEHVIFAAIKALKAFESGRNIAKSLGIEILLRLAGTRQIKDAIKLGGAKKGENFIVAVLVDTPK--ME 110 (158)
T ss_pred eeeeechhhhhhhHHHHHHHHHHHHHHHcCCCcccccChhhhhhhhhhhHHHHHHHhcccCCCceEEEEEEcCCch--hh
Confidence 4899999999999999999999999999999999999999999999999999999999999999999999988763 22
Q ss_pred HHccccCCeeecchhhHhhhcHHHHHhHhcCCcccccc---cchhHHHhhhhhhccc
Q 040655 118 AVGKLINGKEIDLDELESRANQAQIQKHYKISSLELGI---SSLADAITCRIAARDT 171 (172)
Q Consensus 118 ~l~~~i~G~~~~~~~l~~~~d~~~i~K~Yki~~~El~~---~~l~d~V~~riA~kd~ 171 (172)
.+. .++ +.+.-.-.++. |.++++|++. +..+..|++|+|.-|+
T Consensus 111 ~~~---~~e---lr~~v~e~~~~-----lri~~eele~~~~~~~~e~vlEr~Al~ea 156 (158)
T COG1617 111 GFK---CSE---LRDFVLEEAEV-----LRITDEELEEAGEEDVPELVLERIALVEA 156 (158)
T ss_pred hhh---HHH---HhHHHhccchh-----hhhhHHHhccCcccchHHHHHHHHHHHHh
Confidence 211 111 11111111122 9999999875 4678899999998775
No 5
>cd01445 TST_Repeats Thiosulfate sulfurtransferases (TST) contain 2 copies of the Rhodanese Homology Domain. Only the second repeat contains the catalytically active Cys residue. The role of the 1st repeat is uncertain, but believed to be involved in protein interaction. This CD aligns the 1st and 2nd repeats.
Probab=26.45 E-value=54 Score=24.47 Aligned_cols=16 Identities=13% Similarity=0.179 Sum_probs=13.9
Q ss_pred ChHHHHHhcCCCCCCC
Q 040655 87 HITESLKRCGIADSSN 102 (172)
Q Consensus 87 nI~ealk~fGi~~~~~ 102 (172)
.+.+.|..+||+.++.
T Consensus 82 ~~~~~~~~~GI~~~~~ 97 (138)
T cd01445 82 EFAAMFEAKGIDLDKH 97 (138)
T ss_pred HHHHHHHHcCCCCCCe
Confidence 6789999999998876
No 6
>PRK13669 hypothetical protein; Provisional
Probab=25.26 E-value=93 Score=21.59 Aligned_cols=26 Identities=12% Similarity=0.062 Sum_probs=23.2
Q ss_pred cEEEEeCCccC--CHHHHHHHHHHHHHH
Q 040655 38 EAAFLNASLIP--DVFPVLAAAHKTLIA 63 (172)
Q Consensus 38 ~~a~ida~~I~--s~~hl~~A~~~Al~~ 63 (172)
.||++|.+.|. ++++++.-+++++..
T Consensus 47 ~FAlVng~~V~a~t~eeL~~kI~~~i~e 74 (78)
T PRK13669 47 LFALVNGEVVEGETPEELVENIYAHLEE 74 (78)
T ss_pred ceEEECCeEeecCCHHHHHHHHHHHHhh
Confidence 58999999998 899999999998865
No 7
>PF09702 Cas_Csa5: CRISPR-associated protein (Cas_Csa5); InterPro: IPR010157 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a minor family of Cas protein found in various species of Sulfolobus and Pyrococcus (all archaeal). It is found with two different CRISPR loci in Sulfolobus solfataricus.
Probab=23.84 E-value=1e+02 Score=22.64 Aligned_cols=66 Identities=12% Similarity=-0.003 Sum_probs=37.5
Q ss_pred CCHHHHHHHHHHHHHHhhcCCCCCCChhhhhhhhccCCCChHHHHHhcC---CCCCCCeEEEEEEcCChhhHHHHccccC
Q 040655 48 PDVFPVLAAAHKTLIAKSRESLTTRTPHSELVYNYSGSKHITESLKRCG---IADSSNYVLAARFNASPDEMEAVGKLIN 124 (172)
Q Consensus 48 ~s~~hl~~A~~~Al~~~~~g~~~Tk~l~sEIl~~LSps~nI~ealk~fG---i~~~~~~vvvv~~~~~~~~~~~l~~~i~ 124 (172)
++++++..|++-|++....+....+ ...+..+-=+++. .++.+.+..++---+++++++.+.+.|+
T Consensus 18 Ls~E~v~~aL~dAlR~~~s~~~s~e-----------i~~~~~~~~~~y~~v~~~ekeg~~i~~g~lPt~~eVe~Fl~~v~ 86 (105)
T PF09702_consen 18 LSPEAVEVALYDALRIFRSIIDSAE-----------IDKSQVEEGRRYIAVIVKEKEGNYIIVGYLPTDEEVEDFLDDVE 86 (105)
T ss_pred cCHHHHHHHHHHHHHHHHHHhcccc-----------ccccccccCccccceeeccCCCCEEecCCCCChHHHHHHHHHHH
Confidence 5899999999999998877543331 1111111012233 4455555555444456666676655543
No 8
>PRK01827 thyA thymidylate synthase; Reviewed
Probab=23.71 E-value=52 Score=27.86 Aligned_cols=31 Identities=16% Similarity=0.294 Sum_probs=24.5
Q ss_pred CCCCCCChhhhhhhhccCCCChHHHHHhcCCC
Q 040655 67 ESLTTRTPHSELVYNYSGSKHITESLKRCGIA 98 (172)
Q Consensus 67 g~~~Tk~l~sEIl~~LSps~nI~ealk~fGi~ 98 (172)
.++-.|++-.|+++.|||++|+..- +..|++
T Consensus 48 kk~~~k~~i~EllW~l~G~tn~~~l-~~~~~~ 78 (264)
T PRK01827 48 KKVHFKSIIHELLWFLRGDTNIAYL-QENGVH 78 (264)
T ss_pred ccccHHHHHHHHHHHHcCCCcHHHH-HHhCCC
Confidence 3456788899999999999996654 556775
No 9
>PF04017 DUF366: Domain of unknown function (DUF366); InterPro: IPR007162 This is an archaeal family of unknown function.; PDB: 2DDZ_E.
Probab=20.33 E-value=48 Score=26.66 Aligned_cols=12 Identities=25% Similarity=0.341 Sum_probs=7.5
Q ss_pred HHHHhcCCCCCC
Q 040655 90 ESLKRCGIADSS 101 (172)
Q Consensus 90 ealk~fGi~~~~ 101 (172)
=|++.||+..++
T Consensus 21 WAy~~fgi~gdS 32 (183)
T PF04017_consen 21 WAYRNFGIQGDS 32 (183)
T ss_dssp HHHHHH---SSE
T ss_pred HHHHhcCCCCCe
Confidence 489999999976
No 10
>KOG2099 consensus Glycogen phosphorylase [Carbohydrate transport and metabolism]
Probab=19.61 E-value=2.2e+02 Score=27.42 Aligned_cols=55 Identities=13% Similarity=0.100 Sum_probs=45.4
Q ss_pred CCCcEEEEEEeeCCCChHHHHHHHhcCCCCCcEEEEeCCccCCHHHHHHHHHHHHHHh
Q 040655 7 SNGNTLSLSLFTEVTNSKELLDSMQAGTLEPEAAFLNASLIPDVFPVLAAAHKTLIAK 64 (172)
Q Consensus 7 ~~~~~v~i~lf~~V~Na~~l~~~l~~~~~~~~~a~ida~~I~s~~hl~~A~~~Al~~~ 64 (172)
.+...+++-.-..|.|+.++++.+. ..+. +.++....++++.+-+.|+.+.++..
T Consensus 9 ~~r~qis~r~~~~~~~~~e~~~~f~-~H~~--ftl~k~~~~~~~~~~yfA~a~tvRD~ 63 (843)
T KOG2099|consen 9 EKRKQISVRGIAGVEDVAEVKKSFN-RHLH--FTLVKDRNVATPRDYYFALAHTVRDH 63 (843)
T ss_pred chhhhcchhcccCCccHHHHHHHHH-hhee--eeeecCcccCCcHHHHHHHHHHHHHH
Confidence 3456778878889999999999885 3333 88999999999999999999999864
Done!