HHSEARCH alignment of GI: 254780237 and SCOP domain: d1bdfa1

Alignment
>d1bdfa1 d.74.3.1 (A:2-52,A:179-232) RNA polymerase alpha {Escherichia coli [TaxId: 562]}
Probab=99.96  E-value=7.9e-30  Score=210.44  Aligned_cols=105  Identities=41%  Similarity=0.694  Sum_probs=96.7

Q ss_pred             CCHHHHCCCCCCCEEEECCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCCCCCHHHH
Q ss_conf             22057517974201586367888158999961697566788899999874169830688999887144314664624449
Q gi|254780237|r    3 QKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL   82 (340)
Q Consensus         3 ~~~~~~~~~P~~i~~~~~~~~~~~~g~f~~~Ple~G~g~TlGNaLRRvLLssi~G~ait~vkI~gv~HEfs~i~GV~EDV   82 (340)
                      |..+.+|++|+.+.+   +..++++++|.++|+|||||+|+||++||+|+|+++                          
T Consensus         1 ~~s~~eil~P~~v~i---~~~~~~~~k~~~eplErG~Gyt~gn~lr~~llSs~s--------------------------   51 (105)
T d1bdfa1           1 QGSVTEFLKPRLVDI---EQVSSTHAKVTLEPLERGFGHTLGNALRAILLSSMP--------------------------   51 (105)
T ss_dssp             CCCSSCSCCCCEEEE---EESSSSEEEEEEEEEETTHHHHHHHHHHHHHTTSCC--------------------------
T ss_pred             CCCHHHHCCCCEEEE---EECCCCEEEEEEEECCCCCCCCCCCCCCHHHHHCCC--------------------------
T ss_conf             964755019877899---965896589999874677620243232101120246--------------------------


Q ss_pred             HHHHHHHCCCEEEECCCCCEEEEEEEECCEEEEEEEEECCCCEEEECCCEEEEEECCCCEEEEEEEEECCCCCEECCCCC
Q ss_conf             99998401141777279827999999447169963351389859988880899977896499999974687632034444
Q gi|254780237|r   83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR  162 (340)
Q Consensus        83 ~eIiLNLK~I~~k~~~~~~~~~~l~~~Gp~~vtA~Di~~p~~veivNpd~~IaTl~~~~~l~iel~ie~G~GY~~~e~~~  162 (340)
                                                                                                      
T Consensus        52 --------------------------------------------------------------------------------   51 (105)
T d1bdfa1          52 --------------------------------------------------------------------------------   51 (105)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             --------------------------------------------------------------------------------
T ss_conf             --------------------------------------------------------------------------------


Q ss_pred             CCCCCCCEECCCCCHHEEEEEEEEEEEECCCCCCCCCEEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             6557543021243111144223577641168877621899999938961777999999999999888762
Q gi|254780237|r  163 TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI  232 (340)
Q Consensus       163 ~~~~~ig~i~iDa~FsPV~~Vny~Ve~~rvg~~t~~dkL~lEI~TnGsi~P~eAl~~Aa~iL~~~l~~f~  232 (340)
                                      ||++|+|.|+++|+|+++|||||+|||||||||+|+||+++||+||++||.+|+
T Consensus        52 ----------------PV~~V~y~Ve~~~~e~~td~d~L~lei~TnGsi~p~eA~~~Aa~il~~~~~~f~  105 (105)
T d1bdfa1          52 ----------------PVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFV  105 (105)
T ss_dssp             ----------------SEEEEEEECCBCCCSSCSSEEEEEEEEEECSSSCHHHHHHHHHHHHHHHGGGGC
T ss_pred             ----------------CEEEEEEEEEEEECCCCCCCEEEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHC
T ss_conf             ----------------605787761064047787515799999948978999999999999999988459


SCOP domain information

class: Alpha and beta proteins (a+b)
fold: DCoH-like
superfamily: RBP11-like subunits of RNA polymerase
family: RNA polymerase alpha subunit dimerisation domain
domain: RNA polymerase alpha
species: Escherichia coli [TaxId: 562]