HHsearch alignment for GI: 254780945 and conserved domain: cd04474

>cd04474 RPA1_DBD_A RPA1_DBD_A: A subfamily of OB folds corresponding to the second OB fold, the ssDNA-binding domain (DBD)-A, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-A, RPA1 contains three other OB folds: DBD-B, DBD-C, and RPA1N. The major DNA binding activity of human RPA (hRPA) and Saccharomyces cerevisiae RPA (ScRPA) is associated with DBD-A and DBD-B of RPA1. RPA1 DBD-C is involved in trimerization. The ssDNA-binding mechanism is believed to be multistep and to involve conformational change. Although ScRPA and the hRPA have similar ssDNA-binding properties, they differ funct
Probab=96.07  E-value=0.045  Score=35.84  Aligned_cols=84  Identities=18%  Similarity=0.288  Sum_probs=57.0

Q ss_pred             CHHHCCCC-CEEEEEEEEEEEEEEC-CCC----CCEEEEEEECC-CCEEEEEEECCCHHHHHHHCCCCCEEEEEE-EEEE
Q ss_conf             47888998-7899999998975421-589----83389999818-936999995188789987328988899998-9973
Q gi|254780945|r   60 KISEISEE-RIVTITGYISQHSSFQ-LQK----RRPYKILLNDG-TGEITLLFFYRKTEMLKNVFFEGRKITVTG-KIKK  131 (700)
Q Consensus        60 ~I~~l~~g-~~vti~g~V~~~~~~~-~~~----r~~~~v~v~D~-tg~i~lvfFn~~~~yl~k~lk~G~~v~vsG-Kv~~  131 (700)
T Consensus         1 pI~~L~p~~~~w~Ik~RV~~Ks~ir~~~n~~g~gk~f~~~L~De~g~eI~at~f~~~~dkf~~~l~~G~vY~is~g~Vk~   80 (104)
T cd04474           1 PISSLNPYQNKWTIKARVTNKSDIRTWSNARGEGKLFSFDLLDEDGGEIRATFFNDAVDKFYDLLEVGKVYYISKGSVKV   80 (104)
T ss_pred             CCCCCCCCCCCEEEEEEEEECCCCCCEECCCCCCEEEEEEEEECCCCEEEEEEEHHHHHHHHHHCCCCCEEEEECCEEEE
T ss_conf             93014688674599999971577503506899735999999989989899999069999877334328799995659984


Q ss_pred             CCCEE-EEECCEEE
Q ss_conf             18779-99778689
Q gi|254780945|r  132 LKNRI-IMVHPHYI  144 (700)
Q Consensus       132 ~~~~~-qi~hPe~~  144 (700)
T Consensus        81 ank~y~~~~~~-ye   93 (104)
T cd04474          81 ANKKFNTLKND-YE   93 (104)
T ss_pred             CCCCCCCCCCC-EE
T ss_conf             34876689987-89