Query 008432
Match_columns 565
No_of_seqs 198 out of 327
Neff 3.8
Searched_HMMs 46136
Date Thu Mar 28 12:05:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008432.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008432hhsearch_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 4E-56 8.7E-61 485.6 26.3 518 1-565 1-609 (614)
2 PF04825 Rad21_Rec8_N: N termi 100.0 4.5E-32 9.7E-37 240.6 3.1 103 1-103 1-111 (111)
3 PF04824 Rad21_Rec8: Conserved 99.7 6.7E-19 1.5E-23 140.0 2.6 52 514-565 4-55 (55)
4 PF02616 ScpA_ScpB: ScpA/B pro 95.8 0.011 2.3E-07 58.6 4.7 56 506-561 186-241 (242)
5 PRK00104 scpA segregation and 95.1 0.05 1.1E-06 54.8 6.5 58 503-563 182-239 (242)
6 COG1354 scpA Rec8/ScpA/Scc1-li 89.7 0.71 1.5E-05 46.7 6.1 60 501-563 180-240 (248)
7 PRK00478 scpA segregation and 74.3 3.8 8.3E-05 46.0 4.5 48 515-562 362-413 (505)
8 PF01726 LexA_DNA_bind: LexA D 19.9 78 0.0017 26.2 2.0 59 493-553 5-63 (65)
9 cd00092 HTH_CRP helix_turn_hel 18.8 3.9E+02 0.0084 20.6 5.7 59 497-561 3-67 (67)
10 COG1965 CyaY Protein implicate 18.4 42 0.00091 31.0 0.2 22 4-25 47-68 (106)
No 1
>KOG1213 consensus Sister chromatid cohesion complex Cohesin, subunit RAD21/SCC1 [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=4e-56 Score=485.55 Aligned_cols=518 Identities=23% Similarity=0.249 Sum_probs=287.2
Q ss_pred CCcchhhhhcCCChhHHHHHhhcCccccchhhccccHHHHHHHHcCCCCcchhhhhhcccccEEEEEeehh-----hHHH
Q 008432 1 MFYSHQLLARKASLGQIWMAATMHAKMNRKKLNKLNLIKICEEILNPAVPMALRLSGILMGGVVIVYEKKI-----EINA 75 (565)
Q Consensus 1 MFYS~~LLskkgpLa~IWLAAt~~~KLsKk~il~~nI~~sce~Il~p~~PlALRLSg~LLlGVVRIYsrK~-----Dcne 75 (565)
|||||.||+||||||+|||||||++||+|+||+.|||+++|++|++|.+|||||+|||||+|||||||||| |||+
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 99999999999999999999999999999999999999999999999999999999999999999999999 9999
Q ss_pred Hh-hhhccCCC--cCCCCCCCCCCCcccccCCCCCCCcchhhhhccCCCcchhhhhhhhhhcccccC-CCCcccccCCCC
Q 008432 76 AW-KTKVARDP--TLLPKGKSQAKREAVTLPEIKETDVEDLEQFLNYPNATATMEFQQNAYFSMRLD-DVDDSFLQSNVG 151 (565)
Q Consensus 76 a~-Kik~a~~~--~dLp~~~~~A~~~aITLPd~~~~D~~d~e~~~~~p~~~~~~~~~~~~~~~~~~~-~lde~f~~~~~~ 151 (565)
|+ |||++|++ +|+|.....+...+||||+.++.|.+++.. .++..+....|+. .... +|++......+.
T Consensus 81 al~kIk~afr~~~vd~p~~~~~~~~~siTLPE~~~d~d~~l~~--~~~~~~~~~~~~~-----~~~~~~lde~~~~~~~~ 153 (614)
T KOG1213|consen 81 ALLKIKMAFRSGQVDLPELAPRLPTHSITLPETFEDDDFDLPD--EITDIDLYDDFSI-----PQSRNNLDEITLLEDIE 153 (614)
T ss_pred HHHHHHHHhccccccCCCcccccccccccchhhhccccccccc--cccccccccccCc-----cccccchhhhhcccCCC
Confidence 98 99999754 789988778888889999999966555442 2222221111111 0001 222222222221
Q ss_pred CCccccccccCCCCCccccccccccccCccccCcccccCCccccccccccCCccccCCC-CCCCCCCCCCCC-C--c---
Q 008432 152 VDDSLQNLHQANVDDITLTERFDTYQANADTYDRFERFDIEEDTETQLNFTSREQTQIP-KLMPSPPHQDEP-Q--R--- 224 (565)
Q Consensus 152 ~~d~~~~~hqA~~e~ITL~e~~~~~~~~~d~~~r~erf~i~ed~e~~~~~t~~e~~~~p-~l~Ps~p~~~e~-~--~--- 224 (565)
. .....+|.+.+.++..+. .....+..+..+.+.++..++....+..+.+.+..| ++..+....+.. . .
T Consensus 154 ~--~~~~~~q~~~~~g~~~~~--~~~~~~~~~~E~~~~~~~~~s~~~~d~~~~~~~~tp~~~~e~~~s~~~~~~~~~~~~ 229 (614)
T KOG1213|consen 154 Q--LSIESLQLDDEFGEDFEG--APTPHNETYMESFRHDMENDSALTEDSIFIEGPTTPNLVLESERSRSREEPGSNEDD 229 (614)
T ss_pred C--Cccccccccccccccccc--ccccccccccchhccccccccccccccccccCCCCCcccccCccccccccccccccc
Confidence 1 012334444444444332 112222333444444442222222223332233334 222211111110 0 0
Q ss_pred --ccc------ccCC----------CCccccc---------------cCC----Cchh----hH---hhhcCCCCchhhh
Q 008432 225 --ADV------IHDQ----------HPEQQNQ---------------QSN----GSKE----EA---RQDQQRKGPLKRK 260 (565)
Q Consensus 225 --~~~------~~~~----------~P~~~~~---------------q~~----~~~e----~~---~~~p~~~~~~rrr 260 (565)
.+. .+.+ ..+++.. ..+ ...| .| ..-.+-... ++
T Consensus 230 ~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ge~~~~~~~~~~~~~~~~E~~~~ap~~~~~~~~~~~~--~~ 307 (614)
T KOG1213|consen 230 EDGDEEEDDRGTQGSESPTENNIHKVEDHDSSEENNLDDGETSAFEDPPTSPEEAEEERALPAPVGIESVSHDEPD--SI 307 (614)
T ss_pred cchhhhhhhhccccCCCcchhhccCCcccccccccccccccccccccCCcccccCcccccccCCCCccccccCCcc--hh
Confidence 000 0001 1111100 000 0000 01 111111122 22
Q ss_pred hccccceeccccccccchhHHHHHhccccchhhHhhhhcccchhhhhhhhhhhhc-cCCccchhhhhccCCCCcccCChh
Q 008432 261 TRKQAAFAMDYDQTMIPGEVYQSWLKDASDISSRRRRKRKASTDLLSTMKIASLM-EMPPVVLIEDLFTKGNREIHYPDP 339 (565)
Q Consensus 261 ~r~~~~~~~D~eqT~Ip~~~yQ~wLqd~sdiv~rr~~~~k~~~~~~~~~k~a~~~-e~P~v~l~~~~~~ks~~~~~~p~~ 339 (565)
+++..++.+|+ .|+|.++.++.+|.|.|+|.++. ++.+.. ..+| -+.-.-+. ++ ..+-.+.
T Consensus 308 ~~~~r~~~vd~-~~~l~~~~~~~ql~d~s~~~~~~--------~~~Pp~--~~l~~~~~~~~~~-~~------~~~~~~~ 369 (614)
T KOG1213|consen 308 LRRKRKLSVDG-VTLLSEEEFKEQLADFSDILTSL--------DLAPPT--RVLMMPKETGRVE-KL------FSSPEPD 369 (614)
T ss_pred ccccccccccc-ceecCchhHHhhhcChhhhcccc--------ccCChH--HHhhccccccchh-hh------ccCCCcc
Confidence 23333478898 99999999999999999999762 222222 1222 11111111 11 1112233
Q ss_pred HHHHHHHhcCCCCC---------CCCCCCCCCCCCCCCCCCCCCCCCccCCCccccc---------------cCCCc-c-
Q 008432 340 LLKLWMKSTQPPHD---------SPSARTSPPQPPEPSLSSPPGLGRYEEPAAGYFL---------------KVKPF-E- 393 (565)
Q Consensus 340 Ll~LW~~~tq~p~~---------~~s~~~~~~~~~e~~~~~~~~~~~~e~e~~~~~~---------------~~~~~-~- 393 (565)
+..-|+.|++.... .-..+...+. +.....+...+.+.....+ ..++. .
T Consensus 370 ~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~-----~~~~~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~ 444 (614)
T KOG1213|consen 370 LFANRLLFTGRLFLSLESLKPEDSVNREEGSSN-----SDEFLREIERDVEPLSPANVSVASLDVSKQESPEQASDAVSR 444 (614)
T ss_pred cccccccccccchhhhhcccccccccccccccc-----cccchhhcCCchhcccCcccccccccCCcccChhhhcccccc
Confidence 33344444442211 1000111000 0111112222221111111 01111 1
Q ss_pred ccCCCCCccccCCCCCCCCCCcccc---cccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcccCCCCCCCCCC
Q 008432 394 DIHSGVGSQSIPSSASGHGILSHNS---EVNSSRSNQKRPRSSSRHSGSGLEPVAEENPSRFPDPNFRLSRLSERSSTPD 470 (565)
Q Consensus 394 di~~g~~v~s~p~~~Sg~g~~s~~~---~l~s~~~~~kr~~~ss~~S~~~L~pveE~~p~~~~~~~f~~~rL~~~~~tPd 470 (565)
++.++++.+.....+...++.+..+ ..++-.-+-++ ..++. +.+.....+...|+.....++.+...+....+.
T Consensus 445 ~~~~~~~~~~~~~~~~aq~~~~~~~~~~~~~~~~~~~~~-p~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 521 (614)
T KOG1213|consen 445 EFLSPLEPREEDSIPDAQSMPSQDNILIPKEVPTPNPEP-PLSSP--FRGPGFTVESNEWESTPYGDEFPMAAEKADLEG 521 (614)
T ss_pred cccCCcchhhcccCCCcccccccccccccccccCcccCC-CCCcc--ccCCccccccccccccccccccccccccccchh
Confidence 2234445555555555555555433 11111111111 11111 224555666677887777778888888888888
Q ss_pred cccccccCCCCCCCCCCCCCCcchhHHHHHHHHHhhhhcCCCCCcchhhhhc-cCCcHHHHHHHHHHHHHhhhcCeEEee
Q 008432 471 PELLVETAPTPTPVPVTNPPPVDKITDSIRMQMKSHFEMPGAPKVESLNNLA-AGLNRKAAAMLFYQTCVLATSDVLKVE 549 (565)
Q Consensus 471 ~ell~Et~pt~t~~~~~~~~p~~~~t~~v~~~l~~~f~~~g~p~~~sL~~l~-~g~tRk~AAr~FY~~lVL~t~~~i~Ve 549 (565)
.+.|. ++.|+++.. .-+.++++.+...++.+..++|. .++++|+ .|++||+|||+||++|||||+++|+|+
T Consensus 522 ~~~l~-~~~t~~~~~----~~~~k~~~~~~~~~~~~~~~~~~---~e~~~~l~~~~~Rk~Aa~~Ff~~LvLkt~~~i~v~ 593 (614)
T KOG1213|consen 522 EEGLS-PGGTETQEE----RELAKRTEQILTSIQLEPETNGQ---IELSELLPNGPNRKQAARKFFSLLVLKTRQAIEVK 593 (614)
T ss_pred hhccC-CCcccccch----HHHHHHHHHhhcccccccCCccc---hhHHHhccCCCCHHHHHHHHHHHHHHhhccccccc
Confidence 77776 666666663 35667777777766644455665 4455554 556999999999999999999999999
Q ss_pred ccCCCcceeeccCCCC
Q 008432 550 QNKPYGDILISRGKRM 565 (565)
Q Consensus 550 Q~~pYgdI~I~~gpk~ 565 (565)
|.+|||||+|.+||+|
T Consensus 594 Q~epygdI~i~~gp~~ 609 (614)
T KOG1213|consen 594 QDEPYGDIIITPGPNF 609 (614)
T ss_pred cCCcccceeeccCccc
Confidence 9999999999999986
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=99.97 E-value=4.5e-32 Score=240.61 Aligned_cols=103 Identities=46% Similarity=0.789 Sum_probs=98.8
Q ss_pred CCcchhhhhcCCChhHHHHHhhcCccccchhhccccHHHHHHHHcCCCCcchhhhhhcccccEEEEEeehh-----hHHH
Q 008432 1 MFYSHQLLARKASLGQIWMAATMHAKMNRKKLNKLNLIKICEEILNPAVPMALRLSGILMGGVVIVYEKKI-----EINA 75 (565)
Q Consensus 1 MFYS~~LLskkgpLa~IWLAAt~~~KLsKk~il~~nI~~sce~Il~p~~PlALRLSg~LLlGVVRIYsrK~-----Dcne 75 (565)
||||++||+|+|+|++||+|||+|+||+|++|+++||+++|++|++|..|+|||+|||||+||||||++|+ ||++
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 99999999999999999999999999999999999999999999999999999999999999999999999 9999
Q ss_pred Hh-hhhccC--CCcCCCCCCCCCCCcccccC
Q 008432 76 AW-KTKVAR--DPTLLPKGKSQAKREAVTLP 103 (565)
Q Consensus 76 a~-Kik~a~--~~~dLp~~~~~A~~~aITLP 103 (565)
++ +++.++ ..+|+|+++..|+.++||||
T Consensus 81 ~~~~l~~~~~~~~~dl~~~~~~~~~~~it~p 111 (111)
T PF04825_consen 81 LLSKLKRAFRPKKIDLPKDKTKASRNAITLP 111 (111)
T ss_pred HHHHHHHHhcccccCCCccccCCChhhccCc
Confidence 97 888765 46899998899999999998
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=99.74 E-value=6.7e-19 Score=139.98 Aligned_cols=52 Identities=46% Similarity=0.708 Sum_probs=37.3
Q ss_pred CcchhhhhccCCcHHHHHHHHHHHHHhhhcCeEEeeccCCCcceeeccCCCC
Q 008432 514 KVESLNNLAAGLNRKAAAMLFYQTCVLATSDVLKVEQNKPYGDILISRGKRM 565 (565)
Q Consensus 514 ~~~sL~~l~~g~tRk~AAr~FY~~lVL~t~~~i~VeQ~~pYgdI~I~~gpk~ 565 (565)
+.++++.|+.|++|++|||+||++|||+++|+|+|+|++|||||.|++||+|
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 4679999999999999999999999999999999999999999999999986
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=95.83 E-value=0.011 Score=58.55 Aligned_cols=56 Identities=21% Similarity=0.323 Sum_probs=48.6
Q ss_pred hhhcCCCCCcchhhhhccCCcHHHHHHHHHHHHHhhhcCeEEeeccCCCcceeecc
Q 008432 506 HFEMPGAPKVESLNNLAAGLNRKAAAMLFYQTCVLATSDVLKVEQNKPYGDILISR 561 (565)
Q Consensus 506 ~f~~~g~p~~~sL~~l~~g~tRk~AAr~FY~~lVL~t~~~i~VeQ~~pYgdI~I~~ 561 (565)
.|+.......+++..|+.+.+|.+..-.|--+|.|..+|.|.+.|.++||+|.|..
T Consensus 186 l~~~L~~~~~~~f~~l~~~~~r~~~V~tFLAlLeL~k~~~i~i~Q~e~fgdI~I~~ 241 (242)
T PF02616_consen 186 LLDKLSKKGWVSFSELFEEPSRSEVVVTFLALLELVKQGKIEIEQEEPFGDIYIEL 241 (242)
T ss_pred HHHhhccCCceeHHHHcCcCCcCeeHHHHHHHHHHhhcCcEEEEEcCCCCceEEEe
Confidence 34443333469999999999999999999999999999999999999999999974
No 5
>PRK00104 scpA segregation and condensation protein A; Reviewed
Probab=95.07 E-value=0.05 Score=54.82 Aligned_cols=58 Identities=19% Similarity=0.291 Sum_probs=49.3
Q ss_pred HHhhhhcCCCCCcchhhhhccCCcHHHHHHHHHHHHHhhhcCeEEeeccCCCcceeeccCC
Q 008432 503 MKSHFEMPGAPKVESLNNLAAGLNRKAAAMLFYQTCVLATSDVLKVEQNKPYGDILISRGK 563 (565)
Q Consensus 503 l~~~f~~~g~p~~~sL~~l~~g~tRk~AAr~FY~~lVL~t~~~i~VeQ~~pYgdI~I~~gp 563 (565)
+...+...|. +++..|+.+.+|.+.+--|--+|.|..+|.|.|+|+++||+|.|.++.
T Consensus 182 i~~~l~~~~~---~~f~~l~~~~~~~~~v~tFLAlLEL~k~~~i~l~Q~~~f~~I~i~~~~ 239 (242)
T PRK00104 182 ILELLESKKR---LSFSELFKEPSKNEFVVTFLALLELIKLQEIIVEQEENFGEIYLEKGE 239 (242)
T ss_pred HHHHHhhCCc---EeHHHHhCCCCchhhHHHHHHHHHHHhcCeeEEEEcCCCCeEEEEeCC
Confidence 3344434454 899999888999999999999999999999999999999999998764
No 6
>COG1354 scpA Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]
Probab=89.71 E-value=0.71 Score=46.74 Aligned_cols=60 Identities=25% Similarity=0.377 Sum_probs=42.3
Q ss_pred HHHHhhhhcCCCCCcchhhhhccCCcHHHHHH-HHHHHHHhhhcCeEEeeccCCCcceeeccCC
Q 008432 501 MQMKSHFEMPGAPKVESLNNLAAGLNRKAAAM-LFYQTCVLATSDVLKVEQNKPYGDILISRGK 563 (565)
Q Consensus 501 ~~l~~~f~~~g~p~~~sL~~l~~g~tRk~AAr-~FY~~lVL~t~~~i~VeQ~~pYgdI~I~~gp 563 (565)
..+-..+...| ...+..+..-.+++...- -|--+|.|...|-|.+.|++|||+|.|+.+.
T Consensus 180 ~~il~~l~~~~---~~~~~~~~~~~~~~~~vv~~FlAlLeL~k~~~v~l~Qee~fgdI~i~~~~ 240 (248)
T COG1354 180 EELLARLEARG---VLRFSDLFSPEERKDEVVSTFLALLELVKEGKVELEQEEPFGDIYIRLLG 240 (248)
T ss_pred HHHHHHHhhcC---cccHHHhcccccchhHHHHHHHHHHHHHhcCceEEEecccccceEEEecC
Confidence 33334444444 456666555444455555 6667889999999999999999999998763
No 7
>PRK00478 scpA segregation and condensation protein A/unknown domain fusion protein; Provisional
Probab=74.25 E-value=3.8 Score=46.03 Aligned_cols=48 Identities=17% Similarity=0.133 Sum_probs=41.7
Q ss_pred cchhhhhccC----CcHHHHHHHHHHHHHhhhcCeEEeeccCCCcceeeccC
Q 008432 515 VESLNNLAAG----LNRKAAAMLFYQTCVLATSDVLKVEQNKPYGDILISRG 562 (565)
Q Consensus 515 ~~sL~~l~~g----~tRk~AAr~FY~~lVL~t~~~i~VeQ~~pYgdI~I~~g 562 (565)
..++..|+.+ .+|.+..--|--+|.|..++.|.|.|.++||+|.|...
T Consensus 362 ~~~F~~L~~~~~~~~sr~evVvtFLAlLEL~K~~~I~i~Q~~~f~~I~i~~~ 413 (505)
T PRK00478 362 QVSLKRVLLKINHKISLMYFVTAFVALLVLVNNQKIDLEQKNDDEELYICLL 413 (505)
T ss_pred eEEhHHHhhhcccCCCcceEehHHHHHHHHhccCeEEEEEcCCCCeEEEEEc
Confidence 3788888873 47778888999999999999999999999999999753
No 8
>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria. The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A.
Probab=19.88 E-value=78 Score=26.23 Aligned_cols=59 Identities=14% Similarity=0.213 Sum_probs=45.0
Q ss_pred chhHHHHHHHHHhhhhcCCCCCcchhhhhccCCcHHHHHHHHHHHHHhhhcCeEEeeccCC
Q 008432 493 DKITDSIRMQMKSHFEMPGAPKVESLNNLAAGLNRKAAAMLFYQTCVLATSDVLKVEQNKP 553 (565)
Q Consensus 493 ~~~t~~v~~~l~~~f~~~g~p~~~sL~~l~~g~tRk~AAr~FY~~lVL~t~~~i~VeQ~~p 553 (565)
-.+-..|..+++.+.+.+|.+. |+..|+.+..-+.-+-++..+-.|...|||.-+.+.|
T Consensus 5 T~rQ~~vL~~I~~~~~~~G~~P--t~rEIa~~~g~~S~~tv~~~L~~Le~kG~I~r~~~~~ 63 (65)
T PF01726_consen 5 TERQKEVLEFIREYIEENGYPP--TVREIAEALGLKSTSTVQRHLKALERKGYIRRDPGKA 63 (65)
T ss_dssp -HHHHHHHHHHHHHHHHHSS-----HHHHHHHHTSSSHHHHHHHHHHHHHTTSEEEGCCSC
T ss_pred CHHHHHHHHHHHHHHHHcCCCC--CHHHHHHHhCCCChHHHHHHHHHHHHCcCccCCCCCC
Confidence 4567789999999999999864 6677777666666677788888999999999877765
No 9
>cd00092 HTH_CRP helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family.
Probab=18.77 E-value=3.9e+02 Score=20.56 Aligned_cols=59 Identities=10% Similarity=0.091 Sum_probs=36.7
Q ss_pred HHHHHHHHhhhhcCC----CCCcchhhhh--ccCCcHHHHHHHHHHHHHhhhcCeEEeeccCCCcceeecc
Q 008432 497 DSIRMQMKSHFEMPG----APKVESLNNL--AAGLNRKAAAMLFYQTCVLATSDVLKVEQNKPYGDILISR 561 (565)
Q Consensus 497 ~~v~~~l~~~f~~~g----~p~~~sL~~l--~~g~tRk~AAr~FY~~lVL~t~~~i~VeQ~~pYgdI~I~~ 561 (565)
..|+++|..+++..| .....+...| .-|.++.-+.|.+= .|...|+|.... +|.+.|.|
T Consensus 3 ~ria~~l~~l~~~~~~~~~~~~~~s~~ela~~~g~s~~tv~r~l~---~L~~~g~i~~~~---~~~~~l~~ 67 (67)
T cd00092 3 ERLASFLLNLSLRYGAGDLVQLPLTRQEIADYLGLTRETVSRTLK---ELEEEGLISRRG---RGKYRVNP 67 (67)
T ss_pred hHHHHHHHHHHHHcCCCccccCCcCHHHHHHHHCCCHHHHHHHHH---HHHHCCCEEecC---CCeEEeCC
Confidence 457777777776665 2223455555 45677766666543 567889998764 66666543
No 10
>COG1965 CyaY Protein implicated in iron transport, frataxin homolog [Inorganic ion transport and metabolism]
Probab=18.42 E-value=42 Score=31.00 Aligned_cols=22 Identities=27% Similarity=0.643 Sum_probs=18.6
Q ss_pred chhhhhcCCChhHHHHHhhcCc
Q 008432 4 SHQLLARKASLGQIWMAATMHA 25 (565)
Q Consensus 4 S~~LLskkgpLa~IWLAAt~~~ 25 (565)
|+.|+.|+.|+-.||||+-.+-
T Consensus 47 s~iiINkQ~P~~qiWlAs~~gG 68 (106)
T COG1965 47 SQIIINKQEPLQQIWLASKVGG 68 (106)
T ss_pred cEEEEeCCChHHHHHhhccCCC
Confidence 4567889999999999998864
Done!