Query 040288
Match_columns 413
No_of_seqs 167 out of 244
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 06:54:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040288.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040288hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05786 Cnd2: Condensin compl 100.0 1.8E-81 3.9E-86 675.9 23.6 284 11-305 10-312 (725)
2 KOG2328 Chromosome condensatio 100.0 2.3E-79 5E-84 638.4 18.0 376 6-413 8-415 (702)
3 COG5229 LOC7 Chromosome conden 100.0 2.6E-55 5.6E-60 445.4 7.6 171 73-247 3-173 (662)
4 KOG2359 Uncharacterized conser 84.3 0.81 1.8E-05 49.8 3.1 39 114-152 56-94 (688)
5 PF06278 DUF1032: Protein of u 76.8 1.4 3E-05 48.3 1.8 38 116-153 1-38 (565)
6 PF04825 Rad21_Rec8_N: N termi 34.3 20 0.00044 31.1 1.1 73 79-155 18-90 (111)
7 PF12395 DUF3658: Protein of u 21.2 1.3E+02 0.0028 26.0 3.7 57 64-124 8-67 (111)
8 PF10832 DUF2559: Protein of u 16.7 44 0.00094 26.2 -0.1 13 115-128 17-29 (54)
9 COG3487 IrpA Uncharacterized i 16.2 1.5E+02 0.0032 31.3 3.4 68 85-156 115-189 (446)
10 PF02268 TFIIA_gamma_N: Transc 12.7 1.5E+02 0.0032 22.8 1.7 30 270-299 11-41 (49)
No 1
>PF05786 Cnd2: Condensin complex subunit 2; InterPro: IPR022816 This entry represents eukaryotic condensin complex subunit 2 proteins. Included in this group are several Barren protein homologues from several eukaryotic organisms. In Drosophila Barren (barr) is required for sister-chromatid segregation in mitosis. barr encodes a novel protein that is present in proliferating cells and has homologues in yeast and human. Mitotic defects in barr embryos become apparent during cycle 16, resulting in a loss of PNS and CNS neurons. Centromeres move apart at the metaphase-anaphase transition and Cyclin B is degraded, but sister chromatids remain connected, resulting in chromatin bridging. Barren protein localises to chromatin throughout mitosis. Colocalisation and biochemical experiments indicate that Barren associates with Topoisomerase II throughout mitosis and alters the activity of Topoisomerase II. It has been suggested that this association is required for proper chromosomal segregation by facilitating the decatenation of chromatids at anaphase [].
Probab=100.00 E-value=1.8e-81 Score=675.93 Aligned_cols=284 Identities=44% Similarity=0.682 Sum_probs=221.5
Q ss_pred cccCcccCCCCccCccCCCCCchHHHHHHHHHHHHHH-HhhhhcccCCCC--------CCCCCCCCCHHHHHHHHHHHHH
Q 040288 11 GTMSNRLHSPTRQRQFFLGSNNDQLEREQARAARAAA-IRRRKATSTSSS--------PLPEDPCLSEEQIVELLQNCIK 81 (413)
Q Consensus 11 ~~~~~~~~sp~~~~~~~~~~NdDe~ER~~rR~sR~~~-~rr~~~~~~~~~--------~~~~~~~ls~~qi~e~y~~cIK 81 (413)
.++++++.||.. + ++.|||++||++||.+|... +++.....++.+ .+...+.++.+||.++|++|||
T Consensus 10 ~~~~~~~~~~~~--~--~~~ndd~~er~~~~~~rr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ik 85 (725)
T PF05786_consen 10 SSSKSRLNSPVS--P--LPSNDDEAERRQRRASRRSSVLDRQSSTSSSTPSASNQSSSGSASSPMLNKEQILENFEECIK 85 (725)
T ss_pred CCCCCCCCCCCC--C--CCCCccHHHHHhhccccchhhhhcccccCCCccccccccccccccCcccChHHHHHHHHHHHH
Confidence 446677778877 5 99999999999996554433 333221111111 2344688999999999999999
Q ss_pred HHhhcccccccccccchhhHHHHHHhhcccCCCccchhhhccccccceeeeeeehhhHHHHHHHHHhhhhhcCCCCccc-
Q 040288 82 LASENKINQNNTWELKLIDHLSEIIKVETVGDAETNFQKASCTLEAGVKIYSVRVDAVHAQAYKVLGGITRAGQEDDQE- 160 (413)
Q Consensus 82 LateNKIn~KNAW~l~LID~m~dll~~~d~~~~~tNFQkAS~TLDAsvKIYs~RVDSVhtetyKvL~gL~r~~~~~e~~- 160 (413)
|+++||||+||||+|+|||||++|+..+++ +.+|||+||||||||||||||||||||++|||||+||++..+....+
T Consensus 86 l~~~NKIn~~Naw~~~lID~~~~~~~~~~~--~~~nFq~As~tLd~~~KIy~~RVDsv~~~t~k~l~~l~~~~~~~~~~~ 163 (725)
T PF05786_consen 86 LATENKINAKNAWNLALIDYFHDLIDKKDG--DMINFQKASCTLDASVKIYSSRVDSVHTETYKLLSGLARSDQKEAAEE 163 (725)
T ss_pred HHhhCCcccccccchhHHHHHHHHHhcccc--ccchHHHhhhheeeeeeEEeeeehHHHHHHHHHHHhcccccccccccc
Confidence 999999999999999999999999888754 68999999999999999999999999999999999999643111110
Q ss_pred ----cc-cc--CCCCCCCccCCCCCcccccccCCCccccccccccccccccccccCCccchhhhcccccCChhhhhhccc
Q 040288 161 ----TI-TA--GENVDNRTDAIHPKRDFERKISPLSTLDSSFETFNVKKFDVAFAVDPLSHQTSAQFDEGGARGLLLNNL 233 (413)
Q Consensus 161 ----~~-~~--g~~~~~~~~~~~~KKkkkRk~~~~sTLekn~~~Invkk~D~~f~vDPLF~Ktsa~FDEggA~GLLLnnL 233 (413)
.+ +. +++....+....+|++||++++..+||++||++||+|+||++|.|||||+|++|.||||||+|||||||
T Consensus 164 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~TL~~~~~~i~~k~~d~e~~vDPLFkK~sa~FDEggAkgLLLN~L 243 (725)
T PF05786_consen 164 GDEGEDGEDDDGEGQDDEEDGSKKKKKKKRNRRSESTLEKNFENINVKKFDLEFSVDPLFKKTSADFDEGGAKGLLLNNL 243 (725)
T ss_pred ccccCCCCCccccccccccccccccccccccCCccchhhcCHHHhCCccccccccCCHHHhhhhcccCCcchHHHHHhhc
Confidence 00 00 111111111122222334457889999999999999999999999999999999999999999999999
Q ss_pred cCCCCcEEEecCCCCCCCc--ccccccCCCCCccchhHHHHHHHHHHhhhccCCCCCcCHHHHHhhccCCcccc
Q 040288 234 GVYGGCRVLFDSLEVPGRC--ESYSLQNNCSDMIDISFAKELIGKMVNDMHAKTEISPTLREIICQFDEDNQRS 305 (413)
Q Consensus 234 ~v~~~~~llFDS~~~p~~~--~~~~~~~~~~~~idls~lk~~i~~~~~~~~~~~~IcPSL~~f~~~lde~n~~~ 305 (413)
.|+++|+|||||++.+.+. .....+.+....||++.|+ ..++..+++...|||||++|. |++.+...
T Consensus 244 ~id~~~rlvFDs~~~~~~~~~~~~~~~~~~~~~id~~~l~---~~~~~~~~~~~~IcPsl~~f~--~~d~~~~~ 312 (725)
T PF05786_consen 244 SIDSGCRLVFDSSDVPEESEEETEEEEEEDEEEIDLSSLK---FFPLLSSLEDLEICPSLSGFR--LDDPNKSK 312 (725)
T ss_pred ccCCCceEEecCCccccccccccccccCCccccccHHHhh---hcccccccccCccCcchhCcc--ccCCCCCc
Confidence 9999999999999999863 3333345567899999998 344456778999999999999 88777776
No 2
>KOG2328 consensus Chromosome condensation complex Condensin, subunit H [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=2.3e-79 Score=638.45 Aligned_cols=376 Identities=36% Similarity=0.482 Sum_probs=264.3
Q ss_pred CCCcccccCcccCCCCccCccCCCCCchHHHHHHHHHHHHHHHhhhhcccCCCCCCCCCCCCCHHHHHHHHHHHHHHHhh
Q 040288 6 SPRQRGTMSNRLHSPTRQRQFFLGSNNDQLEREQARAARAAAIRRRKATSTSSSPLPEDPCLSEEQIVELLQNCIKLASE 85 (413)
Q Consensus 6 ~p~~~~~~~~~~~sp~~~~~~~~~~NdDe~ER~~rR~sR~~~~rr~~~~~~~~~~~~~~~~ls~~qi~e~y~~cIKLate 85 (413)
+|.| +....+++-|.. +++++.||||+||+||||+ -||..+. + .+.+...||+++|++|||||++
T Consensus 8 ~~~p-~sa~~~~~~~~~--~~~~~~Ndd~~er~q~r~a----~r~~~~~--~------~s~~~s~~i~e~f~~cIKLate 72 (702)
T KOG2328|consen 8 TPLP-RSAPGSIQEGVS--RMLTPFNDDEAERLQARRA----PRLQQHH--R------SSTLESIQINENFENCIKLATE 72 (702)
T ss_pred CCCC-ccccccCCCccc--ccccCcCchHHHHHHhhhc----hhhhhcc--C------CCcchhhhHHHHHHHHHHHhhc
Confidence 4444 333345666677 8999999999999999976 2222222 2 2444559999999999999999
Q ss_pred cccccccccccchhhHHHHHHhhcccCCCccchhhhccccccceeeeeeehhhHHHHHHHHHhhhhhcCCCCcccccccC
Q 040288 86 NKINQNNTWELKLIDHLSEIIKVETVGDAETNFQKASCTLEAGVKIYSVRVDAVHAQAYKVLGGITRAGQEDDQETITAG 165 (413)
Q Consensus 86 NKIn~KNAW~l~LID~m~dll~~~d~~~~~tNFQkAS~TLDAsvKIYs~RVDSVhtetyKvL~gL~r~~~~~e~~~~~~g 165 (413)
||||+||||+|+|||||++|++.+++ +.||||||||||||||||||+||||||+||||||+||++.+......++++|
T Consensus 73 NKIntkNtWnl~LID~f~~i~~~kd~--e~iNFqkAs~TLdacvKIYs~RVDSV~tea~rlL~GL~~~gd~~~~~ed~~G 150 (702)
T KOG2328|consen 73 NKINTKNTWNLALIDHFANILKLKDG--ENINFQKASCTLDACVKIYSSRVDSVHTEAMRLLGGLGANGDDIGAAEDDEG 150 (702)
T ss_pred CccccccchhHHHHHHHHHHHHhhcc--CCcchhhhccccccceeeeeeehhHHHHHHHHHhhccccccccccccccccc
Confidence 99999999999999999999999987 4699999999999999999999999999999999999986533222222223
Q ss_pred CCCC---CCccCCCCCcccccccCCCccccccccccccccccccccCCccchhhhcccccCChhhhhhccccCCCCcEEE
Q 040288 166 ENVD---NRTDAIHPKRDFERKISPLSTLDSSFETFNVKKFDVAFAVDPLSHQTSAQFDEGGARGLLLNNLGVYGGCRVL 242 (413)
Q Consensus 166 ~~~~---~~~~~~~~KKkkkRk~~~~sTLekn~~~Invkk~D~~f~vDPLF~Ktsa~FDEggA~GLLLnnL~v~~~~~ll 242 (413)
...+ .+.++..+|+.++|+.+..+|++++|++|++|++|++|.+||||+|+++.||||||+|||||||.++.+++|+
T Consensus 151 ~~~d~a~~E~~~~~~k~~k~kkq~~~~T~~~~f~~l~~kk~D~~~~iDPlf~K~~adfdE~gAkglLln~L~vd~~~~~l 230 (702)
T KOG2328|consen 151 PDGDQATGENDATNKKAEKPKKQRKLKTTVTKFNELNVKKLDTALLIDPLFKKTCADFDEGGAKGLLLNNLCVDDSERLL 230 (702)
T ss_pred cccccccccchhhhhcccchhhhcccchhhhhhhhhhhhhhhhhhccChhhhhhcCCccccchhhhhhhcccccCceeEE
Confidence 2222 2222122233245666789999999999999999999999999999999999999999999999999999999
Q ss_pred ecCCCC-CCCcccccccCCCCCccchhHHHHHHHHHHhhhccCCCCCcCHHHHH-------hhccCCcccc-cccccCCc
Q 040288 243 FDSLEV-PGRCESYSLQNNCSDMIDISFAKELIGKMVNDMHAKTEISPTLREII-------CQFDEDNQRS-QIFSLGEN 313 (413)
Q Consensus 243 FDS~~~-p~~~~~~~~~~~~~~~idls~lk~~i~~~~~~~~~~~~IcPSL~~f~-------~~lde~n~~~-~~~~~~~~ 313 (413)
|||+.. ..+-.....+....-.+..+.+......|+..+ ..|||||.... .+++++|+.+ .....+..
T Consensus 231 fdS~~i~~sen~~e~~~vh~l~~~e~s~~~~~~~~~~~d~---~~~~Ps~e~~~~~l~~~~~~~da~n~~s~~~~~~~~~ 307 (702)
T KOG2328|consen 231 FDSSNIKDSENKTEETQVHTLLNAEMSLGIAKSLMCVNDM---VKICPSLESNLLPLHTIKIQTDAENPISGTSKVDDVV 307 (702)
T ss_pred eccccccccccCccccccccccchhhhcccccchhhhHHH---HhhchhhhhcCCcccceeeeecccCCCccchhhhhhh
Confidence 999942 111100000000111222333344444555333 37899988533 6999999999 77777777
Q ss_pred ccccccCCCCCCCcCCCCcccccCCCCCCCCCcCCCCCCCCCCCCCCccc---------C-------CCCCCCCCCCCcc
Q 040288 314 IDLRLDGLGGCANACHTKEETFVGNEDGLDDSSFGNHKAWGYDQEGGTSV---------E-------NGPSGADELGIND 377 (413)
Q Consensus 314 ~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~-------~~~~~~~~~~~~~ 377 (413)
-.+++|-+-+.+.+.-- ++..|.....=.||-++...+ + .+......+.|++
T Consensus 308 ~~~d~d~~~~~~~s~~e------------~~~~~d~~~e~~~d~d~~~dd~~~~d~~E~e~~~~~~~~evn~~~~~~~~~ 375 (702)
T KOG2328|consen 308 QKEDFDAGLLNEDSMNE------------DDEFFDIEEEPAPDEDNPPDDVEVFDMNELEELTSPDQMEVNNARRLSMDD 375 (702)
T ss_pred hhccccccccccccccc------------cchhhhhhccccccCCCCcccccccCchhhccCCCcccccccccccccccc
Confidence 77888733333222211 112233333323333222222 0 0111223334555
Q ss_pred c----cchhHHHHhhccccccccccccCCCccccccCCCC
Q 040288 378 R----FEDVTMFLFQGLGFTSKRNAWAGPDHWKYQKSKGR 413 (413)
Q Consensus 378 ~----~~~~~~~~~~~~g~~~k~n~wagp~hwk~r~~~~~ 413 (413)
. +..|+.++..+++-.++.+.||||+|||||+.||+
T Consensus 376 n~i~~l~~v~~~~~ysyf~~s~~~~WAGPdHWK~r~~kk~ 415 (702)
T KOG2328|consen 376 NDISTLRPVDGNLEYSYFSMSQIKNWAGPDHWKFRATKKR 415 (702)
T ss_pred cchhhcccccccceeeccCHHHhhccCCccceeeecccCC
Confidence 4 48899999999999999999999999999999985
No 3
>COG5229 LOC7 Chromosome condensation complex Condensin, subunit H [Chromatin structure and dynamics / Cell division and chromosome partitioning]
Probab=100.00 E-value=2.6e-55 Score=445.44 Aligned_cols=171 Identities=35% Similarity=0.528 Sum_probs=142.6
Q ss_pred HHHHHHHHHHHhhcccccccccccchhhHHHHHHhhcccCCCccchhhhccccccceeeeeeehhhHHHHHHHHHhhhhh
Q 040288 73 VELLQNCIKLASENKINQNNTWELKLIDHLSEIIKVETVGDAETNFQKASCTLEAGVKIYSVRVDAVHAQAYKVLGGITR 152 (413)
Q Consensus 73 ~e~y~~cIKLateNKIn~KNAW~l~LID~m~dll~~~d~~~~~tNFQkAS~TLDAsvKIYs~RVDSVhtetyKvL~gL~r 152 (413)
+.+|++|||||++||||++|+|+|+|||||++|-..+++ +.|||||||||||||+|||++|||||.++|+|||+||+-
T Consensus 3 ~~nfeeWiK~AtdNKIns~NtWnfaLIDyF~d~d~lrdg--e~INFQKAScTLDGC~KIYssRvDsVstetgkLLsGlaN 80 (662)
T COG5229 3 NDNFEEWIKAATDNKINSKNTWNFALIDYFTDIDELRDG--EGINFQKASCTLDGCAKIYSSRVDSVSTETGKLLSGLAN 80 (662)
T ss_pred cccHHHHHHHHhhCccccccchhhHHHHHhhhHHHhccc--CCccceeccccccchhhhhhccchHhhhhHHHHhhcccc
Confidence 468999999999999999999999999999999888876 459999999999999999999999999999999999984
Q ss_pred cCCCCcccccccCCCCCCCccCCCCCcccccccCCCccccccccccccccccccccCCccchhhhcccccCChhhhhhcc
Q 040288 153 AGQEDDQETITAGENVDNRTDAIHPKRDFERKISPLSTLDSSFETFNVKKFDVAFAVDPLSHQTSAQFDEGGARGLLLNN 232 (413)
Q Consensus 153 ~~~~~e~~~~~~g~~~~~~~~~~~~KKkkkRk~~~~sTLekn~~~Invkk~D~~f~vDPLF~Ktsa~FDEggA~GLLLnn 232 (413)
......++. .|++++..+.....++.++|+.|..+|+.+.|+.|.+|+++.++.+||||+|+++.||||||+|||||+
T Consensus 81 DSn~~n~~~--~G~D~E~DD~D~nnt~err~~qR~~kT~l~~fe~I~~kk~~~el~idplfkk~cvDfDE~GAK~LLlN~ 158 (662)
T COG5229 81 DSNGGNGEG--LGGDIEIDDPDRNNTEERRKKQRVGKTTLVKFEKITIKKNICELNIDPLFKKRCVDFDEGGAKSLLLNT 158 (662)
T ss_pred ccccccccc--cCcccccCchhhhhHHHHHHHHhhhhhhhhhhheeehhhhhhccccchhhHhhccCcccccchhhhhcc
Confidence 333222211 122222111111122224455677899999999999999999999999999999999999999999999
Q ss_pred ccCCCCcEEEecCCC
Q 040288 233 LGVYGGCRVLFDSLE 247 (413)
Q Consensus 233 L~v~~~~~llFDS~~ 247 (413)
|.|+...+|+|||+.
T Consensus 159 L~iDn~~ri~fdss~ 173 (662)
T COG5229 159 LNIDNTKRLYFDSSP 173 (662)
T ss_pred ccccccceEEEecCc
Confidence 999999999999984
No 4
>KOG2359 consensus Uncharacterized conserved protein [Function unknown]
Probab=84.35 E-value=0.81 Score=49.82 Aligned_cols=39 Identities=21% Similarity=0.352 Sum_probs=36.2
Q ss_pred CccchhhhccccccceeeeeeehhhHHHHHHHHHhhhhh
Q 040288 114 AETNFQKASCTLEAGVKIYSVRVDAVHAQAYKVLGGITR 152 (413)
Q Consensus 114 ~~tNFQkAS~TLDAsvKIYs~RVDSVhtetyKvL~gL~r 152 (413)
...|||+|.-.|.||+-|||-.||-||.-|.++|.=|..
T Consensus 56 ~~~~f~~a~~~~qgs~~vy~~kv~~~y~l~~~~~~~~~~ 94 (688)
T KOG2359|consen 56 TTYDFQRACRIIQGSCAVYGRKVDHVYELTISVVDLVEN 94 (688)
T ss_pred ccccHHHHHHHHhcchhhhhhhhHHHHHHHHHHHHHHHh
Confidence 367999999999999999999999999999999998854
No 5
>PF06278 DUF1032: Protein of unknown function (DUF1032); InterPro: IPR009378 This entry includes a regulatory subunit of Non-SMC condensin II complex called H2. Non-SMC condensin II complex seems to provide chromosomes with an additional level of organisation and rigidity and in establishing mitotic chromosome architecture. May play a role in lineage-specific role in T-cell development.
Probab=76.75 E-value=1.4 Score=48.35 Aligned_cols=38 Identities=21% Similarity=0.378 Sum_probs=35.5
Q ss_pred cchhhhccccccceeeeeeehhhHHHHHHHHHhhhhhc
Q 040288 116 TNFQKASCTLEAGVKIYSVRVDAVHAQAYKVLGGITRA 153 (413)
Q Consensus 116 tNFQkAS~TLDAsvKIYs~RVDSVhtetyKvL~gL~r~ 153 (413)
.||..|+-.|.||+=|||-.|+=+|.-+|+.|.-|...
T Consensus 1 ~nFaEAalliQgsa~vYskKVeyly~lv~~~l~~l~~~ 38 (565)
T PF06278_consen 1 MNFAEAALLIQGSACVYSKKVEYLYSLVYQALDFLSGK 38 (565)
T ss_pred CCHHHHHHHHhcchhhHHHHHHHHHHHHHHHHHHHhcc
Confidence 49999999999999999999999999999999998644
No 6
>PF04825 Rad21_Rec8_N: N terminus of Rad21 / Rec8 like protein; InterPro: IPR006910 This domain represents a conserved N-terminal region found in eukaryotic cohesins of the Rad21, Rec8 and Scc1 families. Rad21/Rec8 like proteins mediate sister chromatid cohesion during mitosis and meiosis, as part of the cohesin complex []. Cohesion is necessary for homologous recombination (including double-strand break repair) and correct chromatid segregation. These proteins may also be involved in chromosome condensation. Dissociation at the metaphase to anaphase transition causes loss of cohesion and chromatid segregation [].; GO: 0005515 protein binding
Probab=34.25 E-value=20 Score=31.09 Aligned_cols=73 Identities=21% Similarity=0.276 Sum_probs=59.0
Q ss_pred HHHHHhhcccccccccccchhhHHHHHHhhcccCCCccchhhhccccccceeeeeeehhhHHHHHHHHHhhhhhcCC
Q 040288 79 CIKLASENKINQNNTWELKLIDHLSEIIKVETVGDAETNFQKASCTLEAGVKIYSVRVDAVHAQAYKVLGGITRAGQ 155 (413)
Q Consensus 79 cIKLateNKIn~KNAW~l~LID~m~dll~~~d~~~~~tNFQkAS~TLDAsvKIYs~RVDSVhtetyKvL~gL~r~~~ 155 (413)
|+-...+.||+.+--..+.+-.-..+|++.. ....+--.|--|=|-++||+-.|+-+..|+-.++..|.+.-.
T Consensus 18 Wlaat~~~kl~k~~i~~vdI~~~c~~I~~~~----~~~sLRlss~LL~Gvv~Iy~kKv~yLl~D~~~~~~~l~~~~~ 90 (111)
T PF04825_consen 18 WLAATLGKKLSKKQILQVDIPKICEEIIEPE----NPLSLRLSSQLLYGVVRIYSKKVEYLLSDCNELLSKLKRAFR 90 (111)
T ss_pred HHHHhccCCCCHHHHHhCCHHHHHHHHhCCC----cCeeHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3333356678888888888877777777632 458889999999999999999999999999999999988755
No 7
>PF12395 DUF3658: Protein of unknown function ; InterPro: IPR022123 This domain family is found in bacteria, and is approximately 110 amino acids in length. The family is found in association with PF08874 from PFAM. There are two completely conserved residues (D and R) that may be functionally important.
Probab=21.19 E-value=1.3e+02 Score=26.00 Aligned_cols=57 Identities=26% Similarity=0.218 Sum_probs=43.1
Q ss_pred CCCCCHHHHHHHHHHHHHHHhhc---ccccccccccchhhHHHHHHhhcccCCCccchhhhccc
Q 040288 64 DPCLSEEQIVELLQNCIKLASEN---KINQNNTWELKLIDHLSEIIKVETVGDAETNFQKASCT 124 (413)
Q Consensus 64 ~~~ls~~qi~e~y~~cIKLateN---KIn~KNAW~l~LID~m~dll~~~d~~~~~tNFQkAS~T 124 (413)
...||..+....-.+|-.|..+| .|-..+..--.=.||+..+|.... ...|++|+-.
T Consensus 8 ~~~ls~~~~~~l~~eW~~L~~~n~~LR~w~~g~i~sv~ed~yD~~Il~~~----~~~~~~~arv 67 (111)
T PF12395_consen 8 ARPLSAEERQRLANEWEELKEENAPLRIWENGKIVSVPEDYYDDFILEQA----PDEFQKAARV 67 (111)
T ss_pred CCCCCHHHHHHHHHHHHHHHhCCCceEEEECCeEEecChHHhhHHHHhcC----CccccHHHHH
Confidence 36789999999999999999999 455555444444599999887743 4678887643
No 8
>PF10832 DUF2559: Protein of unknown function (DUF2559); InterPro: IPR022541 This family of proteins appear to be restricted to Proteobacteria. The sequences are annotated as YhfG however currently no function is known.
Probab=16.68 E-value=44 Score=26.24 Aligned_cols=13 Identities=54% Similarity=0.565 Sum_probs=10.8
Q ss_pred ccchhhhccccccc
Q 040288 115 ETNFQKASCTLEAG 128 (413)
Q Consensus 115 ~tNFQkAS~TLDAs 128 (413)
..||| |||-|||-
T Consensus 17 n~nfQ-aS~rLeG~ 29 (54)
T PF10832_consen 17 NANFQ-ASRRLEGV 29 (54)
T ss_pred HhhHH-HHHhhcCC
Confidence 67998 89999984
No 9
>COG3487 IrpA Uncharacterized iron-regulated protein [Inorganic ion transport and metabolism]
Probab=16.24 E-value=1.5e+02 Score=31.27 Aligned_cols=68 Identities=28% Similarity=0.368 Sum_probs=44.8
Q ss_pred hccc-----ccccccccc--hhhHHHHHHhhcccCCCccchhhhccccccceeeeeeehhhHHHHHHHHHhhhhhcCCC
Q 040288 85 ENKI-----NQNNTWELK--LIDHLSEIIKVETVGDAETNFQKASCTLEAGVKIYSVRVDAVHAQAYKVLGGITRAGQE 156 (413)
Q Consensus 85 eNKI-----n~KNAW~l~--LID~m~dll~~~d~~~~~tNFQkAS~TLDAsvKIYs~RVDSVhtetyKvL~gL~r~~~~ 156 (413)
.|+| -+-|+|-|. ||||...-....-++++. -.|-..----.||-+..||+-. -|-.+|++|+..+..
T Consensus 115 GN~ivDdWEGqvNaWPLDEGLIDYVa~sY~~e~~~N~~---~tANiiAN~~i~i~g~kvDa~~-itpEll~sL~eaGg~ 189 (446)
T COG3487 115 GNAIVDDWEGQVNAWPLDEGLIDYVAKSYGHESDENEL---ATANIIANTEIKIGGTKVDAKE-ITPELLASLNEAGGS 189 (446)
T ss_pred cCchhhhhccccccCcccchHHHHHHhhhccccCCCcc---ceeeeeecceeeeCCeeccHhh-cCHHHHHHHHhccCc
Confidence 5776 356999994 999988655443222222 2233444456789999999654 677888999877543
No 10
>PF02268 TFIIA_gamma_N: Transcription initiation factor IIA, gamma subunit, helical domain; InterPro: IPR015872 Transcription factor IIA (TFIIA) is one of several factors that form part of a transcription pre-initiation complex along with RNA polymerase II, the TATA-box-binding protein (TBP) and TBP-associated factors, on the TATA-box sequence upstream of the initiation start site. After initiation, some components of the pre-initiation complex (including TFIIA) remain attached and re-initiate a subsequent round of transcription. TFIIA binds to TBP to stabilise TBP binding to the TATA element. TFIIA also inhibits the cytokine HMGB1 (high mobility group 1 protein) binding to TBP [], and can dissociate HMGB1 already bound to TBP/TATA-box. Human and Drosophila TFIIA have three subunits: two large subunits, LN/alpha and LC/beta, derived from the same gene, and a small subunit, S/gamma. Yeast TFIIA has two subunits: a large TOA1 subunit that shows sequence similarity to the N-terminal of LN/alpha and the C-terminal of LC/beta, and a small subunit, TOA2 that is highly homologous with S/gamma. The conserved regions of the large and small subunits of TFIIA combine to form two domains: a four-helix bundle (helical domain) composed of two helices from each of the N-terminal regions of TOA1 and TOA2 in yeast; and a beta-barrel (beta-barrel domain) composed of beta-sheets from the C-terminal regions of TOA1 and TOA2 []. This entry represents the alpha-helical domain found at the N-terminal of the gamma subunit of transcription factor TFIIA.; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005672 transcription factor TFIIA complex; PDB: 1NVP_D 1RM1_B 1YTF_D 1NH2_D.
Probab=12.67 E-value=1.5e+02 Score=22.85 Aligned_cols=30 Identities=20% Similarity=0.343 Sum_probs=19.5
Q ss_pred HHHHHHHHHhhhccCCCCCcCHHHHH-hhcc
Q 040288 270 AKELIGKMVNDMHAKTEISPTLREII-CQFD 299 (413)
Q Consensus 270 lk~~i~~~~~~~~~~~~IcPSL~~f~-~~ld 299 (413)
+-..|...+-.+.....|+|.|+..+ .+||
T Consensus 11 lG~aL~dtLDeli~~~~I~p~La~kVL~~FD 41 (49)
T PF02268_consen 11 LGIALTDTLDELIQEGKITPQLAMKVLEQFD 41 (49)
T ss_dssp HHHHHHHHHHHHHHTTSS-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence 33344445555667899999999877 6665
Done!