Query 000870
Match_columns 1246
No_of_seqs 272 out of 440
Neff 3.0
Searched_HMMs 46136
Date Tue Apr 2 00:28:59 2013
Command hhsearch -i /work/01045/syshi/lefta3m/000870.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/leftcdd/000870hhsearch_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 4.1E-58 9E-63 531.8 25.5 123 1-123 1-123 (614)
2 PF04825 Rad21_Rec8_N: N termi 100.0 1.2E-34 2.5E-39 275.2 4.7 111 1-111 1-111 (111)
3 PF04824 Rad21_Rec8: Conserved 99.6 6.1E-16 1.3E-20 132.8 0.6 52 1190-1241 4-55 (55)
4 PF02616 ScpA_ScpB: ScpA/B pro 95.8 0.0066 1.4E-07 64.6 3.2 48 1190-1237 194-241 (242)
5 PRK00104 scpA segregation and 95.5 0.016 3.5E-07 62.8 4.9 64 1167-1239 176-239 (242)
6 COG1354 scpA Rec8/ScpA/Scc1-li 90.6 0.36 7.7E-06 52.8 5.1 50 1191-1240 191-241 (248)
7 PRK00478 scpA segregation and 84.0 0.91 2E-05 54.7 3.7 65 1167-1238 345-413 (505)
8 PF06278 DUF1032: Protein of u 55.0 4.8 0.0001 49.4 0.7 39 1191-1229 494-532 (565)
9 KOG0447 Dynamin-like GTP bindi 34.5 16 0.00035 45.3 0.8 23 727-750 907-929 (980)
10 KOG1213 Sister chromatid cohes 31.8 31 0.00067 43.2 2.5 79 1160-1243 532-611 (614)
11 PF06278 DUF1032: Protein of u 21.7 1E+02 0.0023 38.4 4.4 30 57-86 7-36 (565)
No 1
>KOG1213 consensus Sister chromatid cohesion complex Cohesin, subunit RAD21/SCC1 [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=4.1e-58 Score=531.75 Aligned_cols=123 Identities=71% Similarity=1.097 Sum_probs=120.8
Q ss_pred CCcchhhhhccCCchhhHHHhhccCCCchhhhcccchHHHHHHhcCCCCcchhhhhhccccceEEEEecchhhHHHHHHH
Q 000870 1 MFYSQFILAKKGPLGTIWIAAHLERKLRKNQVADTDIGVSVDSILFPDVPIALRLSSHLLLGVVRIYSRKVNYLFDDCSE 80 (1246)
Q Consensus 1 MFYS~~LLSKKGPLatIWLAAtl~KKLsKkqIl~vDI~ksceeIl~PevPLALRLSG~LLlGVVRIYSrKv~YLLsDcn~ 80 (1246)
|||||+||+||||||+|||||||+|||+|+||++|||+++|+.|++|.+|||||||||||+||||||||||+|||+||++
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 000870 81 ALLKIKQAFRSTAVDLPPEESTAPYHSITLPETFDLDDFELPD 123 (1246)
Q Consensus 81 aL~KIk~aFR~~~VDLP~e~~~A~~eaITLPE~fdLDDfeLPd 123 (1246)
+|.|||++||+++||+|....+.++++||||++|++|++++|+
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=1.2e-34 Score=275.21 Aligned_cols=111 Identities=54% Similarity=0.917 Sum_probs=109.6
Q ss_pred CCcchhhhhccCCchhhHHHhhccCCCchhhhcccchHHHHHHhcCCCCcchhhhhhccccceEEEEecchhhHHHHHHH
Q 000870 1 MFYSQFILAKKGPLGTIWIAAHLERKLRKNQVADTDIGVSVDSILFPDVPIALRLSSHLLLGVVRIYSRKVNYLFDDCSE 80 (1246)
Q Consensus 1 MFYS~~LLSKKGPLatIWLAAtl~KKLsKkqIl~vDI~ksceeIl~PevPLALRLSG~LLlGVVRIYSrKv~YLLsDcn~ 80 (1246)
||||++||+|+|||++||+|||+++||+|++|+++||+++|++|++|+.|+|||+||+||+||||||+||++||++||+.
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 000870 81 ALLKIKQAFRSTAVDLPPEESTAPYHSITLP 111 (1246)
Q Consensus 81 aL~KIk~aFR~~~VDLP~e~~~A~~eaITLP 111 (1246)
++.+|+++|++..+|+|.++..+++++||||
T Consensus 81 ~~~~l~~~~~~~~~dl~~~~~~~~~~~it~p 111 (111)
T PF04825_consen 81 LLSKLKRAFRPKKIDLPKDKTKASRNAITLP 111 (111)
T ss_pred HHHHHHHHhcccccCCCccccCCChhhccCc
Confidence 9999999999888999999999999999998
No 3
>PF04824 Rad21_Rec8: Conserved region of Rad21 / Rec8 like protein; InterPro: IPR006909 This domain represents a conserved C-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: 0000228 nuclear chromosome; PDB: 1W1W_E.
Probab=99.55 E-value=6.1e-16 Score=132.85 Aligned_cols=52 Identities=52% Similarity=0.815 Sum_probs=37.3
Q ss_pred cceeHHHHhccCCHHHHHHHHHHhhccCCCCceeccCCCCCcceeecCCCcc
Q 000870 1190 KVLALDHLLVGKTRKEASRMFFETLVLKTKDYIHVEQARPLDNINIKPGAKL 1241 (1246)
Q Consensus 1190 ksLSLsqLL~G~TRKqAAr~FFElLVLKTrd~IdLeQeEPYGDI~IsaGPkL 1241 (1246)
+.++|++|++|++|++||++||++|||+|++||+|+|.+|||||.|++||+|
T Consensus 4 ~~~~~~~l~~~~tr~~AA~~Fy~~LvL~t~~~I~v~Q~~pygdI~I~~~~~~ 55 (55)
T PF04824_consen 4 ESLSLSQLPEGMTRKEAARAFYELLVLATKGYIDVKQEEPYGDIEISPGPKF 55 (55)
T ss_dssp HHTT----------HHHHHHHHHHHHHHHHTSEEEEESSTT--EEEEE-GGG
T ss_pred cccHHHHhhCCCCHHHHHHHHHHHHHHhhCCeEEeecCCCCCCeEEeeCCCC
Confidence 4688999999999999999999999999999999999999999999999986
No 4
>PF02616 ScpA_ScpB: ScpA/B protein; InterPro: IPR003768 This family represents ScpA, which along with ScpB (IPR005234 from INTERPRO) interacts with SMC in vivo forming a complex that is required for chromosome condensation and segregation [, ]. The SMC-Scp complex appears to be similar to the MukB-MukE-Muk-F complex in Escherichia coli [], where MukB (IPR007406 from INTERPRO) is the homologue of SMC. ScpA and ScpB have little sequence similarity to MukE (IPR007385 from INTERPRO) or MukF (IPR005582 from INTERPRO), they are predicted to be structurally similar, being predominantly alpha-helical with coiled coil regions. In general scpA and scpB form an operon in most bacterial genomes. Flanking genes are highly variable suggesting that the operon has moved throughout evolution. Bacteria containing an smc gene also contain scpA or scpB but not necessarily both. An exception is found in Deinococcus radiodurans, which contains scpB but neither smc nor scpA. In the archaea the gene order SMC-ScpA is conserved in nearly all species, as is the very short distance between the two genes, indicating co-transcription of the both in different archaeal genera and arguing that interaction of the gene products is not confined to the homologues in Bacillus subtilis. It would seem probable that, in light of all the studies, SMC, ScpA and ScpB proteins or homologues act together in chromosome condensation and segregation in all prokaryotes [].
Probab=95.78 E-value=0.0066 Score=64.57 Aligned_cols=48 Identities=25% Similarity=0.380 Sum_probs=45.7
Q ss_pred cceeHHHHhccCCHHHHHHHHHHhhccCCCCceeccCCCCCcceeecC
Q 000870 1190 KVLALDHLLVGKTRKEASRMFFETLVLKTKDYIHVEQARPLDNINIKP 1237 (1246)
Q Consensus 1190 ksLSLsqLL~G~TRKqAAr~FFElLVLKTrd~IdLeQeEPYGDI~Isa 1237 (1246)
..++|++|+.+.+|.+....|--+|-|.+.|.|.+.|.+|||+|.|..
T Consensus 194 ~~~~f~~l~~~~~r~~~V~tFLAlLeL~k~~~i~i~Q~e~fgdI~I~~ 241 (242)
T PF02616_consen 194 GWVSFSELFEEPSRSEVVVTFLALLELVKQGKIEIEQEEPFGDIYIEL 241 (242)
T ss_pred CceeHHHHcCcCCcCeeHHHHHHHHHHhhcCcEEEEEcCCCCceEEEe
Confidence 479999999999999999999999999999999999999999999864
No 5
>PRK00104 scpA segregation and condensation protein A; Reviewed
Probab=95.53 E-value=0.016 Score=62.83 Aligned_cols=64 Identities=23% Similarity=0.298 Sum_probs=53.5
Q ss_pred cHHHHHHHHHHHHHhccCCCCCCcceeHHHHhccCCHHHHHHHHHHhhccCCCCceeccCCCCCcceeecCCC
Q 000870 1167 SSRTRAVSKYLQTLFVREPVQGRKVLALDHLLVGKTRKEASRMFFETLVLKTKDYIHVEQARPLDNINIKPGA 1239 (1246)
Q Consensus 1167 SKRT~qML~~LRt~F~~~d~~g~ksLSLsqLL~G~TRKqAAr~FFElLVLKTrd~IdLeQeEPYGDI~IsaGP 1239 (1246)
..+...+.+.|+.. ..++|.+|+.+.+|++....|--+|-|.+.+.|.+.|.++||+|.|..+.
T Consensus 176 ~~~~~~i~~~l~~~---------~~~~f~~l~~~~~~~~~v~tFLAlLEL~k~~~i~l~Q~~~f~~I~i~~~~ 239 (242)
T PRK00104 176 EDRMLYILELLESK---------KRLSFSELFKEPSKNEFVVTFLALLELIKLQEIIVEQEENFGEIYLEKGE 239 (242)
T ss_pred HHHHHHHHHHHhhC---------CcEeHHHHhCCCCchhhHHHHHHHHHHHhcCeeEEEEcCCCCeEEEEeCC
Confidence 34555566555522 36999999988999999999999999999999999999999999997653
No 6
>COG1354 scpA Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]
Probab=90.58 E-value=0.36 Score=52.77 Aligned_cols=50 Identities=24% Similarity=0.398 Sum_probs=40.9
Q ss_pred ceeHHHHhc-cCCHHHHHHHHHHhhccCCCCceeccCCCCCcceeecCCCc
Q 000870 1191 VLALDHLLV-GKTRKEASRMFFETLVLKTKDYIHVEQARPLDNINIKPGAK 1240 (1246)
Q Consensus 1191 sLSLsqLL~-G~TRKqAAr~FFElLVLKTrd~IdLeQeEPYGDI~IsaGPk 1240 (1246)
.+.|..+.. ...+-++...|--+|.|.+.|.|++.|++|||+|.|..+..
T Consensus 191 ~~~~~~~~~~~~~~~~vv~~FlAlLeL~k~~~v~l~Qee~fgdI~i~~~~~ 241 (248)
T COG1354 191 VLRFSDLFSPEERKDEVVSTFLALLELVKEGKVELEQEEPFGDIYIRLLGE 241 (248)
T ss_pred cccHHHhcccccchhHHHHHHHHHHHHHhcCceEEEecccccceEEEecCC
Confidence 567777776 34455556689899999999999999999999999998754
No 7
>PRK00478 scpA segregation and condensation protein A/unknown domain fusion protein; Provisional
Probab=84.04 E-value=0.91 Score=54.70 Aligned_cols=65 Identities=15% Similarity=0.129 Sum_probs=52.4
Q ss_pred cHHHHHHHHHHHHHhccCCCCCCcceeHHHHhcc----CCHHHHHHHHHHhhccCCCCceeccCCCCCcceeecCC
Q 000870 1167 SSRTRAVSKYLQTLFVREPVQGRKVLALDHLLVG----KTRKEASRMFFETLVLKTKDYIHVEQARPLDNINIKPG 1238 (1246)
Q Consensus 1167 SKRT~qML~~LRt~F~~~d~~g~ksLSLsqLL~G----~TRKqAAr~FFElLVLKTrd~IdLeQeEPYGDI~IsaG 1238 (1246)
..+...+++.|+.. +...++|.+|+.+ .+|.+....|--+|.|.+.+.|.+.|.++||+|.|...
T Consensus 345 ee~m~~I~~~L~~~-------~~~~~~F~~L~~~~~~~~sr~evVvtFLAlLEL~K~~~I~i~Q~~~f~~I~i~~~ 413 (505)
T PRK00478 345 EQVQNEILSIIKQF-------LYNQVSLKRVLLKINHKISLMYFVTAFVALLVLVNNQKIDLEQKNDDEELYICLL 413 (505)
T ss_pred HHHHHHHHHHHHhc-------CCCeEEhHHHhhhcccCCCcceEehHHHHHHHHhccCeEEEEEcCCCCeEEEEEc
Confidence 34566666666532 1135999999973 58889999999999999999999999999999998764
No 8
>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=54.98 E-value=4.8 Score=49.42 Aligned_cols=39 Identities=21% Similarity=0.341 Sum_probs=36.5
Q ss_pred ceeHHHHhccCCHHHHHHHHHHhhccCCCCceeccCCCC
Q 000870 1191 VLALDHLLVGKTRKEASRMFFETLVLKTKDYIHVEQARP 1229 (1246)
Q Consensus 1191 sLSLsqLL~G~TRKqAAr~FFElLVLKTrd~IdLeQeEP 1229 (1246)
..+|.+|+.|..+-+++|.|+.+|.|+..+=|+|.|..+
T Consensus 494 ~~~f~~vv~~~~~~ev~R~fla~LqLaN~~nv~i~~~~~ 532 (565)
T PF06278_consen 494 KATFADVVEGKPPYEVCRYFLASLQLANDGNVEISQDPG 532 (565)
T ss_pred eeeHHHHhCCCChhHHHHHHHHHHHHhcCCCeeeccCCc
Confidence 578999999999999999999999999999999998765
No 9
>KOG0447 consensus Dynamin-like GTP binding protein [General function prediction only]
Probab=34.48 E-value=16 Score=45.26 Aligned_cols=23 Identities=48% Similarity=0.827 Sum_probs=18.9
Q ss_pred eeehhhhhhhhhcChHHHHHhhhc
Q 000870 727 MVLHGDVIRQQLTNTEDIRRIRKK 750 (1246)
Q Consensus 727 MVlhgD~IRQQLtnTEDIRRiRKK 750 (1246)
.-|-|.++|||+|||| .||+-|.
T Consensus 907 ~~iT~NaLRQQ~tNtE-~RRLeKe 929 (980)
T KOG0447|consen 907 LAITANTLRQQLTNTE-VRRLEKN 929 (980)
T ss_pred HHHhHHHHHHHHhhHH-HHHHHHH
Confidence 3467999999999998 5888773
No 10
>KOG1213 consensus Sister chromatid cohesion complex Cohesin, subunit RAD21/SCC1 [Cell cycle control, cell division, chromosome partitioning]
Probab=31.75 E-value=31 Score=43.22 Aligned_cols=79 Identities=34% Similarity=0.492 Sum_probs=68.2
Q ss_pred ccccccccHHHHHHHHHHHHHhccCCCCCCcceeHHHHhccC-CHHHHHHHHHHhhccCCCCceeccCCCCCcceeecCC
Q 000870 1160 VLENSGWSSRTRAVSKYLQTLFVREPVQGRKVLALDHLLVGK-TRKEASRMFFETLVLKTKDYIHVEQARPLDNINIKPG 1238 (1246)
Q Consensus 1160 ~~Ee~gWSKRT~qML~~LRt~F~~~d~~g~ksLSLsqLL~G~-TRKqAAr~FFElLVLKTrd~IdLeQeEPYGDI~IsaG 1238 (1246)
-.+.+.|+|||.+++..++ +... +...++|.+|+.+. +||+||++||.+|||||++||+|.|.+|||||.|++|
T Consensus 532 ~~~~~~~~k~~~~~~~~~~--~~~~---~~~~~e~~~~l~~~~~Rk~Aa~~Ff~~LvLkt~~~i~v~Q~epygdI~i~~g 606 (614)
T KOG1213|consen 532 TQEERELAKRTEQILTSIQ--LEPE---TNGQIELSELLPNGPNRKQAARKFFSLLVLKTRQAIEVKQDEPYGDIIITPG 606 (614)
T ss_pred ccchHHHHHHHHHhhcccc--cccC---CccchhHHHhccCCCCHHHHHHHHHHHHHHhhccccccccCCcccceeeccC
Confidence 3448999999999999998 3322 22457899999655 9999999999999999999999999999999999999
Q ss_pred Ccccc
Q 000870 1239 AKLMK 1243 (1246)
Q Consensus 1239 PkL~k 1243 (1246)
|+|+-
T Consensus 607 p~~~~ 611 (614)
T KOG1213|consen 607 PNFHI 611 (614)
T ss_pred ccccc
Confidence 99864
No 11
>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=21.71 E-value=1e+02 Score=38.41 Aligned_cols=30 Identities=33% Similarity=0.516 Sum_probs=26.5
Q ss_pred hccccceEEEEecchhhHHHHHHHHHHHHH
Q 000870 57 SHLLLGVVRIYSRKVNYLFDDCSEALLKIK 86 (1246)
Q Consensus 57 G~LLlGVVRIYSrKv~YLLsDcn~aL~KIk 86 (1246)
+-|+.|.+-||||||+|||+=+-.+|.-|.
T Consensus 7 alliQgsa~vYskKVeyly~lv~~~l~~l~ 36 (565)
T PF06278_consen 7 ALLIQGSACVYSKKVEYLYSLVYQALDFLS 36 (565)
T ss_pred HHHHhcchhhHHHHHHHHHHHHHHHHHHHh
Confidence 457899999999999999999999887665
Done!