HHSEARCH alignment of GI: 254781076 and SCOP domain: d1io2a_

Alignment
>d1io2a_ c.55.3.1 (A:) Class II ribonuclease H (RNase HII) {Archaeon Thermococcus kodakaraensis [TaxId: 311400]}
Probab=100.00  E-value=0  Score=358.69  Aligned_cols=179  Identities=31%  Similarity=0.534  Sum_probs=157.9

Q ss_pred             EEEEEECCCCCCCCCCEEEEEEEECCCCC----CCCCCCCCCCCHHHHHHHHHHHCCCC-EEEEECCCHHHHH--HHCHH
Q ss_conf             89998427877752225599999870108----23311520289999987552110123-0788515679985--20479
Q gi|254781076|r   25 PVAGIDEVGRGALAGPVVVAAIILDPNNI----PFGINDSKKISHKKREELYEKITSSA-IISISSASHQYID--KHNIH   97 (209)
Q Consensus        25 ~IiGvDEaGRG~~~GPlvvaav~~~~~~~----~~~i~DSK~Ls~~~R~~l~~~i~~~~-~~~i~~~~~~eID--~~ni~   97 (209)
                      .|||||||||||+|||||+|||+++.+..    ..||+|||+||+++|++|++.|++++ .|.+...++++++  ..|++
T Consensus         2 ~i~GvDEaGRG~l~GPvvvaav~~~~~~~~~l~~~gv~DSK~Ls~~kR~~l~~~I~~~~~~~~i~~~~~~~~~~~~~~~~   81 (213)
T d1io2a_           2 KIAGIDEAGRGPVIGPMVIAAVVVDENSLPKLEELKVRDSKKLTPKRREKLFNEILGVLDDYVILELPPDVIGSREGTLN   81 (213)
T ss_dssp             EEEEEEEECSSCSBSCEEEEEEEEEGGGHHHHHHTTGGGCTTCCHHHHHHHHHHHHTTCSEEEEEEECHHHHHTCSSCHH
T ss_pred             CEEEECCCCCCCCCCCEEEEEEEECHHHCCHHHHCCCCHHHHCCHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
T ss_conf             38803376866631100789999820425233313761024476778899999999998775552016888751589999


Q ss_pred             HHHHHHHHHHCCCCCCCCCCCCCCCCCCCC-----------CCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             998865432100257532110126532246-----------621226871147865200236666547758999999988
Q gi|254781076|r   98 KATLDAIYHAVENLQVIPRSALIDGRSIPE-----------DLPCQAFAVIKGDSISLSIAAASIIAKVTRDRLMRIAHK  166 (209)
Q Consensus        98 ~A~~~a~~~ai~~l~~~~~~ilIDg~~~~~-----------~~~~~~~~i~KgD~~~~~VaaASIiAKv~RD~~m~~l~~  166 (209)
                      +++.++|.++++++...++.+++||..+..           ....+..+++|||++|++||||||||||+||++|.+|++
T Consensus        82 ~~~~~~~~~ai~~l~~~~~~v~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~KgD~~~~~VAAASIlAKv~RD~~m~~l~~  161 (213)
T d1io2a_          82 EFEVENFAKALNSLKVKPDVIYADAADVDEERFARELGERLNFEAEVVAKHKADDIFPVVSAASILAKVTRDRAVEKLKE  161 (213)
T ss_dssp             HHHHHHHHHHHHHCSSCCSEEEEECCSSCHHHHHHHHHHTCSSCCEEEEETTHHHHCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCCCCEEEECCCCCCCHHHHHHHCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99899999999826799999998863122013433202333554216986344212303348899999999999999998


Q ss_pred             HCCCCCCCCCCCCCCHHHHHHH-----HHC-CCCCCCCCCHHHHHHH
Q ss_conf             7779881028999998999999-----982-8583010784888640
Q gi|254781076|r  167 KYPDYGFDSHVGYPTAKHQQVI-----KEK-GPSCIHRLTFRPLRNL  207 (209)
Q Consensus       167 ~~p~Ygf~~nkGYgT~~H~~ai-----~~~-G~~~~HR~Sf~~vk~l  207 (209)
                      .||+||    +||||+.|.+++     +++ |++++||+||+|++++
T Consensus       162 ~y~~~g----~GY~s~~h~~a~l~~~~~~~~~~~~~hR~sf~~~k~~  204 (213)
T d1io2a_         162 EYGEIG----SGYPSDPRTRAFLENYYREHGEFPPIVRKGWKTLKKI  204 (213)
T ss_dssp             HHSCCC----SSCTTSHHHHHHHHHHHHHHSSCCTTBCTTCHHHHHH
T ss_pred             HCCCCC----CCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHH
T ss_conf             677579----9999789999999856630589995403995889999


SCOP domain information

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Ribonuclease H-like
family: Ribonuclease H
domain: Class II ribonuclease H (RNase HII)
species: Archaeon Thermococcus kodakaraensis [TaxId: 311400]