HHsearch alignment for GI: 254780548 and conserved domain: pfam02239
>pfam02239 Cytochrom_D1 Cytochrome D1 heme domain. Cytochrome cd1 (nitrite reductase) catalyses the conversion of nitrite to nitric oxide in the nitrogen cycle. This family represents the d1 heme binding domain of cytochrome cd1, in which His/Tyr side chains ligate the d1 heme iron of the active site in the oxidized state.
Probab=98.39 E-value=0.00019 Score=46.79 Aligned_cols=194 Identities=13% Similarity=0.136 Sum_probs=98.1
Q ss_pred CCCCCEEEEEEECCCCCCCCCEEEECCCCCE--EEEECCCCCEEEEEECCCCCEEEEEECCCCCEEEEEEECCCCCCCCC
Q ss_conf 6899848998503467644303771179717--99743798524445515895567741378730389984047741100
Q gi|254780548|r 220 SPNQQKVAYATYDDEDILRVYLMDTRIDRAP--KRIGNFRSMILAPRFSSNGKRALISVQKDEAMDIYSVDLQSNATERL 297 (447)
Q Consensus 220 SpDG~~Iay~s~~~~~~~~i~~~~~~~g~~~--~~~~~~~~~~~~p~wSPDG~~la~~~s~~g~~~I~~~d~~~~~~~~l 297 (447)
T Consensus 136 s~~~~~fvv~l---kdtgeIw~Vdy~d~~~~~~~~i-~~~~~lhD~~~d~~~Ryfl~aa~~~n--ki~vvd~~~~k~v~l 209 (369)
T pfam02239 136 SPGRPEFVVNL---KDTGEIWLVDYSDGKNLKTTFI-GAAKFLHDGGFDPDGRYFLAAANASD--KIAVWDTKRGKLVAL 209 (369)
T ss_pred CCCCCEEEEEE---EECCEEEEEECCCCCCCCCEEE-CCCCCCCCCCCCCCCCEEEEECCCCC--CEEEEECCCCEEEEE
T ss_conf 58998699997---3289799997876887401586-65445646664798879987425887--065895588808997
Q ss_pred ------------CCCCCCCCCEEEECCCCEEEEEECCCCCCCEEEEEECC-CCCCEEEEECCCCEEEEEECCCCCEEEEE
Q ss_conf ------------25776432025521674789972377653315764025-67411122035300004687768889999
Q gi|254780548|r 298 ------------TNTLFINISASYSPDSSQIVFESDREGKEQLYVMQSNG-SDQKRISQDKEASYFDPVWSPQGDLIAFT 364 (447)
Q Consensus 298 ------------T~~~~~d~~p~~spDG~~I~f~Sdr~G~~qiy~~~~~g-~~~~rlT~~~~~~~~~p~wSPdG~~Iaf~ 364 (447)
T Consensus 210 ~d~gk~~~p~~~~n~pH~~~G~vW~~~~~g~~~ip~i-g~~~v~v~d~~~WkvVk~I~~~G~g-~-FvkthP~s~~lwvD 286 (369)
T pfam02239 210 LDTGKTPHPGPGANMPHLEGGPVWTTSHLGDFVTPLI-GTDPVLVHDLQNWKQVKEIDVAGGG-L-FVKTHPDSRYLWVD 286 (369)
T ss_pred ECCCCCCCCCCCCCCCCCCCCCEEEECCCCCEEEEEC-CCCCCCCCCCCCCEEEEEEECCCCC-E-EEECCCCCCCEEEE
T ss_conf 3368654888748996888763078568784444314-6797776775344697898158984-7-98769899638986
Q ss_pred E-CCCCCEEEEEEECCCCCE-EEEEC--CCCCCCCEECCCCCEEEEEEEECCCCCEEEEEEECCC
Q ss_conf 7-149915799998899967-99662--7875543788789989999950898733799998899
Q gi|254780548|r 365 K-FSGEKFAIGVMKKDGSQE-RLLVE--DSNLQAPTWSPSGRSLIFSRKKDGDTGSKLYSIDLNG 425 (447)
Q Consensus 365 ~-~~~~~~~i~~~~~~g~~~-~~lt~--~~~~e~P~wSPDG~~i~f~~~~~g~~~~~l~~~~~~G 425 (447)
T Consensus 287 ~~~~p~~~~v~viD~~tl~vv~~l~~~~gk~v~H~Ef~~~G~evwvSv-w~~~~--aivVyD~~T 348 (369)
T pfam02239 287 TFLNPDNDSVAVIDSETLEIILPLAPWPGLVVVHMEFNKRGDEVWLSV-WDGKG--ALVVYDDKT 348 (369)
T ss_pred CCCCCCCCEEEEEECCCCCEEECCCCCCCCCEECCEECCCCCEEEEEE-ECCCC--EEEEEECCC
T ss_conf 677999887999988875277703304898388541999999999998-67999--699998988