HHSEARCH alignment of GI: 254780237 and SCOP domain: d1smya2

Alignment
>d1smya2 d.181.1.1 (A:50-172) RNA polymerase alpha subunit {Thermus thermophilus [TaxId: 274]}
Probab=100.00  E-value=2.3e-43  Score=298.06  Aligned_cols=121  Identities=40%  Similarity=0.672  Sum_probs=115.0

Q ss_pred             CEEEEEEEECCCCCCCCCCCCCHHHHHHHHHHHCCCEEEECCC--CCEEEEEEEECCEEEEEEEEECCCCEEEECCCEEE
Q ss_conf             3068899988714431466462444999998401141777279--82799999944716996335138985998888089
Q gi|254780237|r   57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI  134 (340)
Q Consensus        57 G~ait~vkI~gv~HEfs~i~GV~EDV~eIiLNLK~I~~k~~~~--~~~~~~l~~~Gp~~vtA~Di~~p~~veivNpd~~I  134 (340)
                      |+|||+|||+||.||||+||||+|||+||+||||+|+|++.++  ++..++++++||++|||+||++|+++||+||||||
T Consensus         1 G~AIt~vkI~Gv~HEfsti~GV~EDV~eIiLNLK~i~~~~~~~~~~~~~~~l~~~Gp~~VtA~Di~~~~~veIvNpd~~I   80 (123)
T d1smya2           1 GTAVTSVYIEDVLHEFSTIPGVKEDVVEIILNLKELVVRFLNPSLQTVTLLLKAEGPKEVKARDFLPVADVEIMNPDLHI   80 (123)
T ss_dssp             EEEEEEEEESSCCSTTCCCTTBSSCHHHHHHHHHHCCEEESSTTCSEEEEEEEECSSBCCBGGGSCCCTTEEESCTTCBC
T ss_pred             CCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHHHHHEEECCCCCCCEEEEEEECCCCEEEEEEECCCCCEEEECCCEEE
T ss_conf             96879999899643123578814669999986330003421366641799999359876783333078868997786799


Q ss_pred             EEECCCCEEEEEEEEECCCCCEECCCCCCCCCCCCEECCCCCHH
Q ss_conf             99778964999999746876320344446557543021243111
Q gi|254780237|r  135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYS  178 (340)
Q Consensus       135 aTl~~~~~l~iel~ie~G~GY~~~e~~~~~~~~ig~i~iDa~Fs  178 (340)
                      |||+++..|+||++|++||||+|+++++... ++|+||+||+||
T Consensus        81 aTl~~~~~l~mel~v~~GrGYv~ae~~~~~~-~ig~i~iDa~FS  123 (123)
T d1smya2          81 ATLEEGGRLNMEVRVDRGVGYVPAEKHGIKD-RINAIPVDAVFS  123 (123)
T ss_dssp             CCBCTTCCEEEEEEEEEEESEECHHHHCCCS-STTCEECCEECC
T ss_pred             EEECCCCEEEEEEEECCCCCCEECCCCCCCC-CCCCEECCCCCC
T ss_conf             9976996799999973652655744488867-677085277789


SCOP domain information

class: Alpha and beta proteins (a+b)
fold: Insert subdomain of RNA polymerase alpha subunit
superfamily: Insert subdomain of RNA polymerase alpha subunit
family: Insert subdomain of RNA polymerase alpha subunit
domain: RNA polymerase alpha subunit
species: Thermus thermophilus [TaxId: 274]