Query 001198
Match_columns 1125
No_of_seqs 186 out of 323
Neff 2.7
Searched_HMMs 46136
Date Thu Mar 28 18:29:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001198.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001198hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1213 Sister chromatid cohes 100.0 1.4E-44 3.1E-49 413.1 21.2 123 1-123 1-123 (614)
2 PF04825 Rad21_Rec8_N: N termi 100.0 2.7E-35 5.8E-40 275.1 4.6 111 1-111 1-111 (111)
3 KOG1213 Sister chromatid cohes 92.9 0.066 1.4E-06 64.4 2.9 77 714-791 307-385 (614)
4 PF06278 DUF1032: Protein of u 57.4 4.1 8.8E-05 49.2 0.6 56 715-770 326-384 (565)
5 TIGR03422 mito_frataxin fratax 19.2 31 0.00067 33.4 -0.5 19 4-22 46-64 (97)
6 PF05786 Cnd2: Condensin compl 19.1 1.6E+02 0.0034 36.8 5.1 70 17-86 82-153 (725)
7 COG1965 CyaY Protein implicate 19.0 39 0.00085 33.7 0.1 21 4-24 47-67 (106)
8 TIGR03421 FeS_CyaY iron donor 16.5 34 0.00073 33.3 -0.9 21 4-24 44-64 (102)
9 cd00503 Frataxin Frataxin is a 16.0 39 0.00085 32.9 -0.6 21 4-24 47-67 (105)
10 KOG2359 Uncharacterized conser 15.3 80 0.0017 38.9 1.4 34 50-83 57-90 (688)
No 1
>KOG1213 consensus Sister chromatid cohesion complex Cohesin, subunit RAD21/SCC1 [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=1.4e-44 Score=413.11 Aligned_cols=123 Identities=71% Similarity=1.097 Sum_probs=120.9
Q ss_pred CCcchhhhhccCChhhHHHHhhccCCCcchhhcccchHHHHHHhcCCCCcchhhhhhccccceEEEEeccchhHHHhHHH
Q 001198 1 MFYSQFILAKKGPLGTIWIAAHLERKLRKNQVADTDIGVSVDSILFPDVPIALRLSSHLLLGVVRIYSRKVNYLFDDCSE 80 (1125)
Q Consensus 1 MFYS~~LLSKKGPLAtIWLAATL~KKLSKKqIl~tDI~kSCeeIl~PevPLALRLSGqLLlGVVRIYSRKvkYLL~DCne 80 (1125)
|||+|+||+||||||+|||||||+|||+|+||++|||+++|+.|++|.+|||||||||||+||||||||||+|||+||++
T Consensus 1 MFYs~~vLakKGPLa~IWlAAh~~kKL~K~qv~~tdI~~sve~Il~p~~~lALRtSghLLlGVVRIYSrK~~YLl~Dcne 80 (614)
T KOG1213|consen 1 MFYSHFVLAKKGPLAKIWLAAHWEKKLSKAQVFETDIPQSVEEILQPKVPLALRTSGHLLLGVVRIYSRKVKYLLDDCNE 80 (614)
T ss_pred CcchhhhHhhcCchhhhhHHhHHhhhcchhheeeccHHHHHHHHhCcccceehhhhcccceeeEEeehhhHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhhccccCCCCCCCCCCCCCccCCCCCCCCCCCCCC
Q 001198 81 ALLKIKQAFRSTAVDLPPEESTAPYHSITLPETFDLDDFELPD 123 (1125)
Q Consensus 81 aL~KIK~aFR~~qVDLP~e~~~A~~eaITLPEtfdLDDfeLPd 123 (1125)
+|.|||++||+++||+|....+.++.+|||||+|++|++.+|+
T Consensus 81 al~kIk~afr~~~vd~p~~~~~~~~~siTLPE~~~d~d~~l~~ 123 (614)
T KOG1213|consen 81 ALLKIKMAFRSGQVDLPELAPRLPTHSITLPETFEDDDFDLPD 123 (614)
T ss_pred HHHHHHHHhccccccCCCcccccccccccchhhhccccccccc
Confidence 9999999999999999999999999999999999999998885
No 2
>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=100.00 E-value=2.7e-35 Score=275.11 Aligned_cols=111 Identities=54% Similarity=0.917 Sum_probs=109.6
Q ss_pred CCcchhhhhccCChhhHHHHhhccCCCcchhhcccchHHHHHHhcCCCCcchhhhhhccccceEEEEeccchhHHHhHHH
Q 001198 1 MFYSQFILAKKGPLGTIWIAAHLERKLRKNQVADTDIGVSVDSILFPDVPIALRLSSHLLLGVVRIYSRKVNYLFDDCSE 80 (1125)
Q Consensus 1 MFYS~~LLSKKGPLAtIWLAATL~KKLSKKqIl~tDI~kSCeeIl~PevPLALRLSGqLLlGVVRIYSRKvkYLL~DCne 80 (1125)
||||++||+|+|||++||+|||+++||+|++|+++||+++|++|++|+.|+|||+||+||+||||||+||++||++||+.
T Consensus 1 MFy~~~iL~k~~~l~~vWlaat~~~kl~k~~i~~vdI~~~c~~I~~~~~~~sLRlss~LL~Gvv~Iy~kKv~yLl~D~~~ 80 (111)
T PF04825_consen 1 MFYSHDILSKKGPLATVWLAATLGKKLSKKQILQVDIPKICEEIIEPENPLSLRLSSQLLYGVVRIYSKKVEYLLSDCNE 80 (111)
T ss_pred CCccHHHHhcCCcHHHHHHHHhccCCCCHHHHHhCCHHHHHHHHhCCCcCeeHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhhccccCCCCCCCCCCCCCccCC
Q 001198 81 ALLKIKQAFRSTAVDLPPEESTAPYHSITLP 111 (1125)
Q Consensus 81 aL~KIK~aFR~~qVDLP~e~~~A~~eaITLP 111 (1125)
++.+|+++|++..+|+|.++..+++++||||
T Consensus 81 ~~~~l~~~~~~~~~dl~~~~~~~~~~~it~p 111 (111)
T PF04825_consen 81 LLSKLKRAFRPKKIDLPKDKTKASRNAITLP 111 (111)
T ss_pred HHHHHHHHhcccccCCCccccCCChhhccCc
Confidence 9999999999888999999999999999998
No 3
>KOG1213 consensus Sister chromatid cohesion complex Cohesin, subunit RAD21/SCC1 [Cell cycle control, cell division, chromosome partitioning]
Probab=92.90 E-value=0.066 Score=64.37 Aligned_cols=77 Identities=21% Similarity=0.171 Sum_probs=70.7
Q ss_pred hhhhhhccccccceeechHHHHHhhcCchHHHHhhhcCCCCchhhhhhhhhccccccccccccccchhhhh--hhhhccc
Q 001198 714 TNALKRKVLMDDTMVLHGDVIRQQLTNTEDIRRIRKKAPCTGPEILMIQMQFLEDDIFNEPIFTGMSAELT--SVHCEIH 791 (1125)
Q Consensus 714 ~~~~KRKvl~Dd~mVL~nd~iRqQL~~tEdirrkRKKaPcT~~eIw~i~R~~led~if~EPl~tGms~dL~--~l~~rtf 791 (1125)
...+|||...|+.-.|.++.||.|+.+.+++.++++.+|.| --+|+-+.+.+...+|.+|...+++..+. ..|.+.|
T Consensus 307 ~~~~~r~~~vd~~~~l~~~~~~~ql~d~s~~~~~~~~~Pp~-~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 385 (614)
T KOG1213|consen 307 ILRRKRKLSVDGVTLLSEEEFKEQLADFSDILTSLDLAPPT-RVLMMPKETGRVEKLFSSPEPDLFANRLLFTGRLFLSL 385 (614)
T ss_pred hcccccccccccceecCchhHHhhhcChhhhccccccCChH-HHhhccccccchhhhccCCCcccccccccccccchhhh
Confidence 47889999999999999999999999999999999999999 88999999999999999999999999888 4444444
No 4
>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=57.44 E-value=4.1 Score=49.24 Aligned_cols=56 Identities=16% Similarity=0.172 Sum_probs=37.9
Q ss_pred hhhhhccccccceeechHHHHHhhcCchHHHHhh---hcCCCCchhhhhhhhhcccccc
Q 001198 715 NALKRKVLMDDTMVLHGDVIRQQLTNTEDIRRIR---KKAPCTGPEILMIQMQFLEDDI 770 (1125)
Q Consensus 715 ~~~KRKvl~Dd~mVL~nd~iRqQL~~tEdirrkR---KKaPcT~~eIw~i~R~~led~i 770 (1125)
+++|++..|-|.=||-.+.||+||.-...|+|++ +-+|...-+.|..+.-..+|.+
T Consensus 326 r~~~kgp~faDle~Ly~k~ik~rl~~~rkl~rr~~~~~~l~~~~e~~~~~E~e~~eD~l 384 (565)
T PF06278_consen 326 RSRRKGPTFADLEYLYWKEIKERLEAQRKLQRRNIAERLLPDAEEERWPLEDENDEDSL 384 (565)
T ss_pred cccccCCcccchHHHHHHHHHHHHHHHHHHHHHHhhhhcCCchhhccCccccccccccc
Confidence 4566677787777888888888887776666655 2466666666666655555533
No 5
>TIGR03422 mito_frataxin frataxin. Frataxin is a mitochondrial protein, mutation of which leads to the disease Friedreich's ataxia. Its orthologs are widely distributed in the bacteria, associated with the ISC system for iron-sulfur cluster assembly, and designated CyaY. This exception-type model allows those examples of frataxin per se that score above the trusted cutoff to the CyaY equivalog-type model (TIGR03421) to be named appropriately.
Probab=19.20 E-value=31 Score=33.36 Aligned_cols=19 Identities=21% Similarity=0.698 Sum_probs=16.7
Q ss_pred chhhhhccCChhhHHHHhh
Q 001198 4 SQFILAKKGPLGTIWIAAH 22 (1125)
Q Consensus 4 S~~LLSKKGPLAtIWLAAT 22 (1125)
++.|++|..|..+|||||-
T Consensus 46 ~~~VINkQ~p~~QIWlsSp 64 (97)
T TIGR03422 46 GTYVINKQPPNKQIWLSSP 64 (97)
T ss_pred CEEEEeCCChhhHHheecC
Confidence 4678899999999999995
No 6
>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=19.10 E-value=1.6e+02 Score=36.85 Aligned_cols=70 Identities=17% Similarity=0.152 Sum_probs=57.6
Q ss_pred HHHHhhccCCCcchhhcccchHHHHHHhcCC--CCcchhhhhhccccceEEEEeccchhHHHhHHHHHHHHH
Q 001198 17 IWIAAHLERKLRKNQVADTDIGVSVDSILFP--DVPIALRLSSHLLLGVVRIYSRKVNYLFDDCSEALLKIK 86 (1125)
Q Consensus 17 IWLAATL~KKLSKKqIl~tDI~kSCeeIl~P--evPLALRLSGqLLlGVVRIYSRKvkYLL~DCneaL~KIK 86 (1125)
=||-...+-||+.|--..+.+......|+.- ..-+-.--.|--|-|-|+||+-.|.-++.+.-++|..|.
T Consensus 82 ~~ikl~~~NKIn~~Naw~~~lID~~~~~~~~~~~~~~nFq~As~tLd~~~KIy~~RVDsv~~~t~k~l~~l~ 153 (725)
T PF05786_consen 82 ECIKLATENKINAKNAWNLALIDYFHDLIDKKDGDMINFQKASCTLDASVKIYSSRVDSVHTETYKLLSGLA 153 (725)
T ss_pred HHHHHHhhCCcccccccchhHHHHHHHHHhccccccchHHHhhhheeeeeeEEeeeehHHHHHHHHHHHhcc
Confidence 3666666789999999999998877777543 233556667889999999999999999999999999884
No 7
>COG1965 CyaY Protein implicated in iron transport, frataxin homolog [Inorganic ion transport and metabolism]
Probab=19.01 E-value=39 Score=33.68 Aligned_cols=21 Identities=43% Similarity=0.841 Sum_probs=18.3
Q ss_pred chhhhhccCChhhHHHHhhcc
Q 001198 4 SQFILAKKGPLGTIWIAAHLE 24 (1125)
Q Consensus 4 S~~LLSKKGPLAtIWLAATL~ 24 (1125)
++.|+.|..|+-+||||+-.+
T Consensus 47 s~iiINkQ~P~~qiWlAs~~g 67 (106)
T COG1965 47 SQIIINKQEPLQQIWLASKVG 67 (106)
T ss_pred cEEEEeCCChHHHHHhhccCC
Confidence 456888999999999999876
No 8
>TIGR03421 FeS_CyaY iron donor protein CyaY. Members of this protein family are the iron-sulfur cluster (FeS) metabolism protein CyaY, a homolog of eukaryotic frataxin. ISC is one of several bacterial systems for FeS assembly; we find by Partial Phylogenetic Profiling vs. the ISC system that CyaY most like work with the ISC system for FeS cluster biosynthesis. A study of of cyaY mutants in Salmonella enterica bears this out. Although the trusted cutoff is set low enough to include eukaryotic frataxin sequences, a narrower, exception-type model (TIGR03421) identifies identifies members of that specific set.
Probab=16.55 E-value=34 Score=33.27 Aligned_cols=21 Identities=48% Similarity=0.793 Sum_probs=17.9
Q ss_pred chhhhhccCChhhHHHHhhcc
Q 001198 4 SQFILAKKGPLGTIWIAAHLE 24 (1125)
Q Consensus 4 S~~LLSKKGPLAtIWLAATL~ 24 (1125)
++.|++|..|+.+|||||-.+
T Consensus 44 ~~~VINkQ~p~~QIWlaspsG 64 (102)
T TIGR03421 44 SQIIINKQEPLHQIWLAAKSG 64 (102)
T ss_pred CEEEEeCCchhhhheeecCCC
Confidence 467888999999999998754
No 9
>cd00503 Frataxin Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in the mitochondrial matrix suggesting that frataxin is involved in mitochondrial iron homeostasis and possibly in iron transport; the domain has an alpha-beta fold consisting of two helices flanking an antiparallel beta sheet.
Probab=16.02 E-value=39 Score=32.88 Aligned_cols=21 Identities=29% Similarity=0.776 Sum_probs=18.1
Q ss_pred chhhhhccCChhhHHHHhhcc
Q 001198 4 SQFILAKKGPLGTIWIAAHLE 24 (1125)
Q Consensus 4 S~~LLSKKGPLAtIWLAATL~ 24 (1125)
++.|++|..|..+|||||-.+
T Consensus 47 ~~~VINkQ~p~~QIWlaSp~G 67 (105)
T cd00503 47 STIVINRQEPLRQIWLASKVG 67 (105)
T ss_pred CEEEEeCCchhhhhheecCCC
Confidence 456888999999999999875
No 10
>KOG2359 consensus Uncharacterized conserved protein [Function unknown]
Probab=15.28 E-value=80 Score=38.87 Aligned_cols=34 Identities=15% Similarity=0.346 Sum_probs=26.7
Q ss_pred cchhhhhhccccceEEEEeccchhHHHhHHHHHH
Q 001198 50 PIALRLSSHLLLGVVRIYSRKVNYLFDDCSEALL 83 (1125)
Q Consensus 50 PLALRLSGqLLlGVVRIYSRKvkYLL~DCneaL~ 83 (1125)
|+-.--.+-||.|-|-||+|||+|||.=+-.++.
T Consensus 57 ~~~f~~a~~~~qgs~~vy~~kv~~~y~l~~~~~~ 90 (688)
T KOG2359|consen 57 TYDFQRACRIIQGSCAVYGRKVDHVYELTISVVD 90 (688)
T ss_pred cccHHHHHHHHhcchhhhhhhhHHHHHHHHHHHH
Confidence 4445556778999999999999999987655554
Done!