Query 000917
Match_columns 1225
No_of_seqs 190 out of 324
Neff 2.6
Searched_HMMs 46136
Date Tue Apr 2 00:46:56 2013
Command hhsearch -i /work/01045/syshi/lefta3m/000917.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/leftcdd/000917hhsearch_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 1.6E-44 3.5E-49 414.5 21.1 123 1-123 1-123 (614)
2 PF04825 Rad21_Rec8_N: N termi 100.0 4.9E-35 1.1E-39 274.8 4.8 111 1-111 1-111 (111)
3 KOG1213 Sister chromatid cohes 92.8 0.07 1.5E-06 64.5 2.9 78 713-791 306-385 (614)
4 PF06278 DUF1032: Protein of u 55.5 4.8 0.0001 48.9 0.8 56 715-770 326-384 (565)
5 TIGR03422 mito_frataxin fratax 19.5 32 0.00069 33.5 -0.4 19 4-22 46-64 (97)
6 COG1965 CyaY Protein implicate 19.2 40 0.00087 33.9 0.2 21 4-24 47-67 (106)
7 TIGR03421 FeS_CyaY iron donor 16.9 35 0.00075 33.4 -0.8 21 4-24 44-64 (102)
8 cd00503 Frataxin Frataxin is a 16.4 40 0.00087 33.1 -0.5 21 4-24 47-67 (105)
9 KOG2359 Uncharacterized conser 16.3 79 0.0017 39.1 1.7 36 50-85 57-92 (688)
10 PRK00446 cyaY frataxin-like pr 14.2 40 0.00088 33.2 -1.1 21 4-24 46-66 (105)
No 1
>KOG1213 consensus Sister chromatid cohesion complex Cohesin, subunit RAD21/SCC1 [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=1.6e-44 Score=414.47 Aligned_cols=123 Identities=71% Similarity=1.097 Sum_probs=120.8
Q ss_pred CCcchhhhhccCChhhhHHhhhccCCCchhhhcccchHHHHHHhcCCCCcchhhhhhccccceEEEEecchhhHHHHHHH
Q 000917 1 MFYSQFILAKKGPLGTIWIAAHLERKLRKNQVADTDIGVSVDSILFPDVPIALRLSSHLLLGVVRIYSRKVNYLFDDCSE 80 (1225)
Q Consensus 1 MFYS~~LLSKKGPLAtIWLAATl~KKLSKKqIL~tDI~kSCeeIl~PevPLALRLSGqLLlGVVRIYSRKvkYLL~DCne 80 (1225)
|||||+||+||||||+|||||||+|||+|+||++|||+++|++|++|.+|||||||||||+||||||||||+|||+||++
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 000917 81 ALLKIKQAFRSTAVDLPPEESTAPYHSITLPETFDLDDFELPD 123 (1225)
Q Consensus 81 aL~KIK~AFRs~~VDLP~e~~~A~~eaITLPE~fdLDD~eLPd 123 (1225)
+|.|||++||+++||+|....+.+..+|||||+|++|++++|+
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=4.9e-35 Score=274.79 Aligned_cols=111 Identities=54% Similarity=0.917 Sum_probs=109.6
Q ss_pred CCcchhhhhccCChhhhHHhhhccCCCchhhhcccchHHHHHHhcCCCCcchhhhhhccccceEEEEecchhhHHHHHHH
Q 000917 1 MFYSQFILAKKGPLGTIWIAAHLERKLRKNQVADTDIGVSVDSILFPDVPIALRLSSHLLLGVVRIYSRKVNYLFDDCSE 80 (1225)
Q Consensus 1 MFYS~~LLSKKGPLAtIWLAATl~KKLSKKqIL~tDI~kSCeeIl~PevPLALRLSGqLLlGVVRIYSRKvkYLL~DCne 80 (1225)
||||++||+|+|||++||+|||+++||+|++|+++||+++|++|++|+.|+|||+||+||+||||||+||++||++||+.
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 000917 81 ALLKIKQAFRSTAVDLPPEESTAPYHSITLP 111 (1225)
Q Consensus 81 aL~KIK~AFRs~~VDLP~e~~~A~~eaITLP 111 (1225)
++.+|+++|++..+|+|.++..+++++||||
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=92.81 E-value=0.07 Score=64.49 Aligned_cols=78 Identities=21% Similarity=0.169 Sum_probs=70.9
Q ss_pred hhhhhhhccccccceeechHHHHHhhcCchHHHHhhhcCCCCchhhhhhhhcccccccccccccccchhhhh--hhhhcc
Q 000917 713 QTNALKRKVLMDDTMVLHGDVIRQQLTNTEDIRRIRKKAPCTGPEILMIQMQFLEDDIFNEPIFTGMSAELT--SVHCEI 790 (1225)
Q Consensus 713 ~~~~~KRKvlmDd~mVL~nd~iRqQL~~tEdirrkRKKaPcT~~eIw~iqR~~led~iF~EPl~tGMsadL~--~l~~rt 790 (1225)
....+|||...|++-.|.++.||.|+.+.+++.++++.+|.| --+|+-+++.+....|.+|...+++..+. ..|.+.
T Consensus 306 ~~~~~~r~~~vd~~~~l~~~~~~~ql~d~s~~~~~~~~~Pp~-~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 384 (614)
T KOG1213|consen 306 SILRRKRKLSVDGVTLLSEEEFKEQLADFSDILTSLDLAPPT-RVLMMPKETGRVEKLFSSPEPDLFANRLLFTGRLFLS 384 (614)
T ss_pred hhcccccccccccceecCchhHHhhhcChhhhccccccCChH-HHhhccccccchhhhccCCCcccccccccccccchhh
Confidence 347889999999999999999999999999999999999999 88999999999999999999999999888 444444
Q ss_pred c
Q 000917 791 H 791 (1225)
Q Consensus 791 f 791 (1225)
|
T Consensus 385 ~ 385 (614)
T KOG1213|consen 385 L 385 (614)
T ss_pred h
Confidence 3
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=55.46 E-value=4.8 Score=48.91 Aligned_cols=56 Identities=16% Similarity=0.144 Sum_probs=38.1
Q ss_pred hhhhhccccccceeechHHHHHhhcCchHHHHhhh---cCCCCchhhhhhhhccccccc
Q 000917 715 NALKRKVLMDDTMVLHGDVIRQQLTNTEDIRRIRK---KAPCTGPEILMIQMQFLEDDI 770 (1225)
Q Consensus 715 ~~~KRKvlmDd~mVL~nd~iRqQL~~tEdirrkRK---KaPcT~~eIw~iqR~~led~i 770 (1225)
+++||+..|-|.=||-.+.||+||.-...|+|++. -+|...-+.|..+.-..+|.+
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 45666777877778888889988877766666552 466666666666655555533
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=19.51 E-value=32 Score=33.53 Aligned_cols=19 Identities=21% Similarity=0.698 Sum_probs=16.9
Q ss_pred chhhhhccCChhhhHHhhh
Q 000917 4 SQFILAKKGPLGTIWIAAH 22 (1225)
Q Consensus 4 S~~LLSKKGPLAtIWLAAT 22 (1225)
++.|++|..|..+|||||-
T Consensus 46 ~~~VINkQ~p~~QIWlsSp 64 (97)
T TIGR03422 46 GTYVINKQPPNKQIWLSSP 64 (97)
T ss_pred CEEEEeCCChhhHHheecC
Confidence 5678899999999999995
No 6
>COG1965 CyaY Protein implicated in iron transport, frataxin homolog [Inorganic ion transport and metabolism]
Probab=19.21 E-value=40 Score=33.86 Aligned_cols=21 Identities=43% Similarity=0.841 Sum_probs=18.5
Q ss_pred chhhhhccCChhhhHHhhhcc
Q 000917 4 SQFILAKKGPLGTIWIAAHLE 24 (1225)
Q Consensus 4 S~~LLSKKGPLAtIWLAATl~ 24 (1225)
|+.|+.|..|+-+||||+-.+
T Consensus 47 s~iiINkQ~P~~qiWlAs~~g 67 (106)
T COG1965 47 SQIIINKQEPLQQIWLASKVG 67 (106)
T ss_pred cEEEEeCCChHHHHHhhccCC
Confidence 567888999999999999886
No 7
>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=16.87 E-value=35 Score=33.43 Aligned_cols=21 Identities=48% Similarity=0.793 Sum_probs=18.1
Q ss_pred chhhhhccCChhhhHHhhhcc
Q 000917 4 SQFILAKKGPLGTIWIAAHLE 24 (1225)
Q Consensus 4 S~~LLSKKGPLAtIWLAATl~ 24 (1225)
++.|++|..|..+|||||-.|
T Consensus 44 ~~~VINkQ~p~~QIWlaspsG 64 (102)
T TIGR03421 44 SQIIINKQEPLHQIWLAAKSG 64 (102)
T ss_pred CEEEEeCCchhhhheeecCCC
Confidence 567889999999999998865
No 8
>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=16.39 E-value=40 Score=33.06 Aligned_cols=21 Identities=29% Similarity=0.776 Sum_probs=18.2
Q ss_pred chhhhhccCChhhhHHhhhcc
Q 000917 4 SQFILAKKGPLGTIWIAAHLE 24 (1225)
Q Consensus 4 S~~LLSKKGPLAtIWLAATl~ 24 (1225)
++.|++|..|..+|||||-.|
T Consensus 47 ~~~VINkQ~p~~QIWlaSp~G 67 (105)
T cd00503 47 STIVINRQEPLRQIWLASKVG 67 (105)
T ss_pred CEEEEeCCchhhhhheecCCC
Confidence 457888999999999999875
No 9
>KOG2359 consensus Uncharacterized conserved protein [Function unknown]
Probab=16.32 E-value=79 Score=39.14 Aligned_cols=36 Identities=14% Similarity=0.337 Sum_probs=27.8
Q ss_pred cchhhhhhccccceEEEEecchhhHHHHHHHHHHHH
Q 000917 50 PIALRLSSHLLLGVVRIYSRKVNYLFDDCSEALLKI 85 (1225)
Q Consensus 50 PLALRLSGqLLlGVVRIYSRKvkYLL~DCneaL~KI 85 (1225)
|.-.--.+-||.|-|-||+|||.|||.=+-.++.-+
T Consensus 57 ~~~f~~a~~~~qgs~~vy~~kv~~~y~l~~~~~~~~ 92 (688)
T KOG2359|consen 57 TYDFQRACRIIQGSCAVYGRKVDHVYELTISVVDLV 92 (688)
T ss_pred cccHHHHHHHHhcchhhhhhhhHHHHHHHHHHHHHH
Confidence 454555677899999999999999998766655433
No 10
>PRK00446 cyaY frataxin-like protein; Provisional
Probab=14.19 E-value=40 Score=33.19 Aligned_cols=21 Identities=33% Similarity=0.746 Sum_probs=17.9
Q ss_pred chhhhhccCChhhhHHhhhcc
Q 000917 4 SQFILAKKGPLGTIWIAAHLE 24 (1225)
Q Consensus 4 S~~LLSKKGPLAtIWLAATl~ 24 (1225)
++.|+.|..|.-+|||||-.|
T Consensus 46 ~~~VINkQ~p~~QIWlas~sG 66 (105)
T PRK00446 46 SKIIINRQEPLHELWLAAKSG 66 (105)
T ss_pred CEEEEeCCCchhheeEecCCC
Confidence 457889999999999999755
Done!