>cd03275 ABC_SMC1_euk Eukaryotic SMC1 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (for

Probab=99.90 E-value=2e-22 Score=165.56 Aligned_cols=214 Identities=22% Similarity=0.317 Sum_probs=138.2 Q ss_pred EEEEEEECCCCH-HHEEEECCCCEEEEECCCCCCHHHHHHHHHHHCC--CCCCCCCCHHHHHHCCCCC-----EEEEEEE Q ss_conf 999999223254-5536732798799986899864448999999728--8666678736887489832-----0589888 Q gi|254780766|r 7 IKFLNISEFRNY-ASLRLVFDAQHTIFVGDNGVGKTNILEAISFLSP--GRGFRRASYADVTRIGSPS-----FFSTFAR 78 (375) Q Consensus 7 i~~l~i~nFR~~-~~~~i~f~~~~n~i~G~NG~GKT~iLEAI~~l~~--gksfR~~~~~~li~~~~~~-----~~~~~~~ 78 (375) T Consensus 1 lk~l~l~gFKSf~~~~~i~~~~~~t~IvGpNGsGKSNi~DAi~~vlGe~s~~lR~~~m~DlIf~g~~~~~~~~~A~V~l~ 80 (247) T cd03275 1 LKRLELENFKSYKGRHVIGPFDRFTCIIGPNGSGKSNLMDAISFVLGEKSSHLRSKNLKDLIYRARVGKPDSNSAYVTAV 80 (247) T ss_pred CCEEEECCCCCCCCCEEECCCCCCEEEECCCCCCHHHHHHHHHHHHCCCHHHHCCCCCCEEEECCCCCCCCCCEEEEEEE T ss_conf 94489807536789868548998379989987765888999999965662330645611278658878899854899999 Q ss_pred ECCCCCCEEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEECCHHHCCCCCCHHHHHHCCCCCCCCCHHHHHH Q ss_conf 62853200266753002466333211257743332101233345202100110012687234121010001358467788 Q gi|254780766|r 79 VEGMEGLADISIKLETRDDRSVRCLQINDVVIRVVDELNKHLRISWLVPSMDRIFSGLSMERRRFLDRMVFAIDPRHRRR 158 (375) Q Consensus 79 ~~~~~~~~~~~~~~~~~~~~~~k~~~~n~~~~~~~~~l~~~l~~v~~~p~~~~li~~~p~~RR~flD~~i~~~~~~y~~~ 158 (375) T Consensus 81 f~n~~~ev~i--~Rr~~r~G~-seY~INg~~vrl-kdi~elf~~~gIgv~a~n-----------f---lV~QG------- 135 (247) T cd03275 81 YEDDDGEEKT--FRRIITGGS-SSYRINGKVVSL-KEYNEELEKINILVKARN-----------F---LVFQG------- 135 (247) T ss_pred EECCCCEEEE--EEEEEECCC-EEEEECCCCCCH-HHHHHHHHHCCCCCCCCC-----------E---EEECC------- T ss_conf 9889985999--999997885-068788972678-999999876599977872-----------3---89644------- Q ss_pred HHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCCCCCCC Q ss_conf 87777666667988630565432100245653279999999999999999999999985316430112201566676558 Q gi|254780766|r 159 MIDFERLMRGRNRLLTEGYFDSSWCSSIEAQMAELGVKINIARVEMINALSSLIMEYVQKENFPHIKLSLTGFLDGKFDQ 238 (375) Q Consensus 159 l~~y~K~LkqRN~lLk~~~~d~~~l~~~~~qla~~~~~I~~~R~~~l~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~ 238 (375) T Consensus 136 --~Ve~Il~-------~~P------------------------------------------------------------- 145 (247) T cd03275 136 --DVESIAS-------KNP------------------------------------------------------------- 145 (247) T ss_pred --HHHHHHC-------CCC------------------------------------------------------------- T ss_conf --4888863-------793------------------------------------------------------------- Q ss_pred CHHHHHHHHHHHHHHCCCHHHCCEEECCCCCCEEEECCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCCCEEE Q ss_conf 96788887654553111000000000257320011001245510233122058999999999999999998708997899 Q gi|254780766|r 239 SFCALKEEYAKKLFDGRKMDSMSRRTLIGPHRSDLIVDYCDKAITIAHGSTGEQKVVLVGIFLAHARLISNTTGFAPILL 318 (375) Q Consensus 239 ~~~~~~e~~~~~L~~~~~~d~~~~~t~~Gphr~d~~~~~~~~~~~~~~~S~Gqqk~~~l~l~La~~~~~~~~~~~~pilL 318 (375) T Consensus 146 -----------------------------p~rR---f----~--~~~~LSGGEKtl~alallFai~-----~~~PsPF~v 182 (247) T cd03275 146 -----------------------------PGKR---F----R--DMDNLSGGEKTMAALALLFAIH-----SYQPAPFFV 182 (247) T ss_pred -----------------------------HHHC---C----C--CHHHCCCCHHHHHHHHHHHHHH-----CCCCCCEEE T ss_conf -----------------------------0310---0----2--1233382089999999999997-----128995588 Q ss_pred EECCHHCCCHHHHHHHHHHHHHC---CCCEEEEECCHHHHHHH Q ss_conf 80122015989999999997417---98099980696785432 Q gi|254780766|r 319 LDEISAHLDEDKRNALFRIVTDI---GSQIFMTGTDKSVFDSL 358 (375) Q Consensus 319 iDdi~s~LD~~~~~~ll~~l~~~---~~Qv~iTt~~~~~~~~~ 358 (375) T Consensus 183 LDEVDAaLD~~Nv~r~~~~i~~~~~~~~QfIvITh~~~~~~~A 225 (247) T cd03275 183 LDEVDAALDNTNVGKVASYIREQAGPNFQFIVISLKEEFFSKA 225 (247) T ss_pred EECCCCCCCHHHHHHHHHHHHHHHCCCCEEEEEECCHHHHHHC T ss_conf 7067634688999999999998725686799998888998630

HHsearch alignment for GI: 254780766 and conserved domain: cd03275