# STOCKHOLM 1.0
#=GF ID   CHCH
#=GF AC   PF06747.16
#=GF DE   CHCH domain
#=GF AU   Westerman BA;0000-0002-9898-9616
#=GF AU   Poutsma A;
#=GF AU   Steegers E;0000-0001-6658-9274
#=GF AU   Oudejans CBM;0000-0003-0717-4946
#=GF AU   Bateman A;0000-0002-6982-4660
#=GF SE   Westerman BA, Poutsma A, Steegers E, Oudejans CBM
#=GF GA   27.20 27.20;
#=GF TC   27.20 27.20;
#=GF NC   27.10 27.10;
#=GF BM   hmmbuild HMM.ann SEED.ann
#=GF SM   hmmsearch -Z 61295632 -E 1000 --cpu 4 HMM pfamseq
#=GF TP   Domain
#=GF WK   NADH_dehydrogenase_(ubiquinone)
#=GF WK   Cytochrome_c_oxidase
#=GF CL   CL0351
#=GF RN   [1]
#=GF RM   12171940
#=GF RT   Characterization of COX19, a widely distributed gene required
#=GF RT   for expression of mitochondrial cytochrome oxidase. 
#=GF RA   Nobrega MP, Bandeira SC, Beers J, Tzagoloff A; 
#=GF RL   J Biol Chem 2002;277:40206-40211.
#=GF RN   [2]
#=GF RM   9065385
#=GF RT   Cloning and characterization of MRP10, a yeast gene coding for a
#=GF RT   mitochondrial ribosomal protein. 
#=GF RA   Jin C, Myers AM, Tzagoloff A; 
#=GF RL   Curr Genet 1997;31:228-234.
#=GF RN   [3]
#=GF RM   9860297
#=GF RT   The nuclear-encoded human NADH:ubiquinone oxidoreductase NDUFA8
#=GF RT   subunit: cDNA cloning, chromosomal localization, tissue
#=GF RT   distribution, and mutation detection in complex-I-deficient
#=GF RT   patients. 
#=GF RA   Triepels R, van den Heuvel L, Loeffen J, Smeets R, Trijbels F,
#=GF RA   Smeitink J; 
#=GF RL   Hum Genet 1998;103:557-563.
#=GF RN   [4]
#=GF RM   15177562
#=GF RT   C2360, a nuclear protein expressed in human proliferative
#=GF RT   cytotrophoblasts, is a representative member of a novel protein
#=GF RT   family with a conserved coiled coil-helix-coiled coil-helix
#=GF RT   domain. 
#=GF RA   Westerman BA, Poutsma A, Steegers EA, Oudejans CB; 
#=GF RL   Genomics 2004;83:1094-1104.
#=GF DR   INTERPRO; IPR010625;
#=GF DR   SO; 0000417; polypeptide_domain;
#=GF CC   we have identified a conserved motif in the LOC118487 protein
#=GF CC   that we have called the CHCH motif. Alignment of this protein
#=GF CC   with related members showed the presence of three subgroups of
#=GF CC   proteins, which are called the S (Small), N (N-terminal
#=GF CC   extended) and C (C-terminal extended) subgroups. All three
#=GF CC   sub-groups of proteins have in common that they contain a
#=GF CC   predicted conserved [coiled coil 1]-[helix 1]-[coiled coil
#=GF CC   2]-[helix 2] domain (CHCH domain). Within each helix of the CHCH
#=GF CC   domain, there are two cysteines present in a C-X9-C motif. The
#=GF CC   N-group contains an additional double helix domain, and each
#=GF CC   helix contains the C-X9-C motif. This family contains a number
#=GF CC   of characterised proteins: Cox19 protein - a nuclear gene of
#=GF CC   Saccharomyces cerevisiae, codes for an 11-kDa protein (Cox19p)
#=GF CC   required for expression of cytochrome oxidase. Because cox19
#=GF CC   mutants are able to synthesise the mitochondrial and nuclear
#=GF CC   gene products of cytochrome oxidase, Cox19p probably functions
#=GF CC   post-translationally during assembly of the enzyme. Cox19p is
#=GF CC   present in the cytoplasm and mitochondria, where it exists as a
#=GF CC   soluble intermembrane protein. This dual location is similar to
#=GF CC   what was previously reported for Cox17p, a low molecular weight
#=GF CC   copper protein thought to be required for maturation of the CuA
#=GF CC   centre of subunit 2 of cytochrome oxidase. Cox19p have four
#=GF CC   conserved potential metal ligands, these are three cysteines and
#=GF CC   one histidine. Mrp10 - belongs to the class of yeast
#=GF CC   mitochondrial ribosomal proteins that are essential for
#=GF CC   translation [2]. Eukaryotic NADH-ubiquinone oxidoreductase 19
#=GF CC   kDa (NDUFA8) subunit [3]. The CHCH domain was previously called
#=GF CC   DUF657 [4].
#=GF SQ   48
#=GS COA4_MOUSE/34-67      AC Q8BT51.1
#=GS COA4_YEAST/39-72      AC Q05809.2
#=GS YJV1_SCHPO/27-60      AC O59799.1
#=GS CHCH5_MOUSE/58-92     AC Q9CQP3.1
#=GS MIX14_YEAST/17-51     AC Q04341.1
#=GS B4IH64_DROSE/80-115   AC B4IH64.1
#=GS Q9BL03_CAEEL/81-117   AC Q9BL03.2
#=GS NDUA8_BOVIN/78-113    AC P42029.2
#=GS NDUA8_BOVIN/78-113    DR PDB; 5LDW X; 77-112;
#=GS NDUA8_BOVIN/78-113    DR PDB; 5LDX X; 77-112;
#=GS NDUA8_BOVIN/78-113    DR PDB; 5LC5 X; 77-112;
#=GS NDUA8_NEUCR/91-125    AC P21976.2
#=GS Q4WSM3_ASPFU/73-106   AC Q4WSM3.1
#=GS Q9NED5_LEIMA/111-145  AC Q9NED5.1
#=GS Q4V6F6_DROME/139-173  AC Q4V6F6.1
#=GS CHCH2_HUMAN/114-147   AC Q9Y6H1.1
#=GS Q7TNL9_MOUSE/98-130   AC Q7TNL9.1
#=GS Q9VX77_DROME/133-166  AC Q9VX77.1
#=GS HAR1_CAEEL/119-152    AC Q09254.1
#=GS Q8IMH2_DROME/78-111   AC Q8IMH2.1
#=GS Q8VZ44_ARATH/21-55    AC Q8VZ44.1
#=GS COX23_YEAST/104-138   AC P38824.1
#=GS Q7XXS3_ORYSJ/100-134  AC Q7XXS3.1
#=GS Q9LXC2_ARATH/98-132   AC Q9LXC2.1
#=GS Q9FME9_ARATH/103-137  AC Q9FME9.1
#=GS Q8I573_PLAF7/117-150  AC Q8I573.1
#=GS MIX17_YEAST/118-152   AC Q03667.1
#=GS YD52_SCHPO/135-167    AC Q10307.1
#=GS NDA8B_ARATH/71-106    AC Q8LGE7.1
#=GS NDA8B_ARATH/71-106    DR PDB; 7A23 Y; 71-105;
#=GS COX19_MOUSE/30-64     AC Q8K0C8.1
#=GS Q8I627_PLAF7/24-58    AC Q8I627.1
#=GS COX19_SCHPO/31-65     AC O14056.2
#=GS Q9C9L6_ARATH/31-65    AC Q9C9L6.1
#=GS Q95ZT5_CAEEL/29-63    AC Q95ZT5.1
#=GS V6CJI3_CAEEL/73-109   AC V6CJI3.1
#=GS MIA40_ARATH/79-115    AC Q8GYJ4.1
#=GS Q9VAA6_DROME/61-97    AC Q9VAA6.3
#=GS MIA40_HUMAN/64-100    AC Q8N4Q1.1
#=GS MIA40_HUMAN/64-100    DR PDB; 2L0Y A; 19-55;
#=GS MIA40_HUMAN/64-100    DR PDB; 2K3J A; 68-104;
#=GS MIA40_SCHPO/210-246   AC P87059.1
#=GS MIA40_YEAST/307-343   AC P36046.2
#=GS MIA40_YEAST/307-343   DR PDB; 2ZXT A; 407-443;
#=GS MIA40_YEAST/307-343   DR PDB; 3A3C A; 407-443;
#=GS MIA40_CANAL/163-199   AC O94030.2
#=GS Q19342_CAEEL/72-109   AC Q19342.1
#=GS YLZ2_CAEEL/66-103     AC P34415.1
#=GS O44133_CAEEL/51-85    AC O44133.1
#=GS Q9W114_DROME/47-81    AC Q9W114.2
#=GS A6NJX6_HUMAN/45-79    AC A6NJX6.1
#=GS Q2HJE8_BOVIN/45-79    AC Q2HJE8.1
#=GS Q2HJE8_BOVIN/45-79    DR PDB; 6NEQ m; 45-79;
#=GS Q2HJE8_BOVIN/45-79    DR PDB; 6NF8 m; 45-79;
#=GS Q2HJE8_BOVIN/45-79    DR PDB; 3JD5 m; 45-79;
#=GS MRP10_SCHPO/30-66     AC O13973.1
#=GS MIC25_MOUSE/235-269   AC Q91VN4.2
#=GS MIC19_MOUSE/183-216   AC Q9CRB9.1
#=GS MRP10_YEAST/30-64     AC O75012.1
COA4_MOUSE/34-67                 CAASHFAVQECMAQHQD......WRQCQPQVQAFRD.CMSA
COA4_YEAST/39-72                 CYVENLALQLCHAETGD......WRQCFNEMALFRK.CWEK
YJV1_SCHPO/27-60                 CVEEHLRLNDCYWDTHD......WRKCTEQMEEFRK.CWEK
CHCH5_MOUSE/58-92                CAEPFEAFEKCLRLNEA...A..VGNCAEHMRRFLQ.CAEQ
MIX14_YEAST/17-51                CPQEFLQYHKCIRDNEE...N..PGKCKDGRMILST.CIRE
B4IH64_DROSE/80-115              CHEEFTQYATCLDKSSG...TMAFSHCRKTQGVFDK.CIK.
Q9BL03_CAEEL/81-117              CLPQTQKLAECVDQSSA...KLYMSKCHDDQKELDA.CVEA
NDUA8_BOVIN/78-113               CAEPFTEYWTCIDYSGL...Q.LFRRCRKQQAQFDE.CVLD
#=GR NDUA8_BOVIN/78-113    SS    S-HHHHHHHHHHHHSSS...-.TTTTTHHHHTTTTT.TGGG
NDUA8_NEUCR/91-125               CLEEFRKHWTCLEDNNQ...Q..LWQCRPAEWKLNK.CVFE
Q4WSM3_ASPFU/73-106              CLKQFNAHWECLENNNQ...N..LWECRKPEMELNS.CVF.
Q9NED5_LEIMA/111-145             CTPQLVGYSKCLEANPE...S..ADSCKWAWDYFTQ.CQRE
Q4V6F6_DROME/139-173             CAFELRQFLKCTEDNSS...D..LSVCKEFNEAMQQ.CRRR
CHCH2_HUMAN/114-147              CLYEIKQFLECAQNQGD......IKLCEGFNEVLKQ.CRLA
Q7TNL9_MOUSE/98-130              CSYEIKQFLDCSTTQSD......LTLCEGFSEALKQ.CKY.
Q9VX77_DROME/133-166             CAWELKQFIQCAQGQAD......LTLCEGFNEALRQ.CKQS
HAR1_CAEEL/119-152               CEFEWRQFVDCAQNQSD......VSLCNGFNDIFKQ.CKAR
Q8IMH2_DROME/78-111              CAKEMKEFLKCTEDNDD......LSVCKEFNDAVRR.CHRQ
Q8VZ44_ARATH/21-55               CYLQYSASLKCLEEFGS...D..KSKCQDHFDVYKE.CKKK
COX23_YEAST/104-138              CEESSKLSFQCLERNDY...D..RSKCQEYFDAYRE.CKKQ
Q7XXS3_ORYSJ/100-134             CSIHSKAFQDCINNYGS...D..ISKCQFYLDMLNE.CRRG
Q9LXC2_ARATH/98-132              CDIHSKAFQDCVNHFGS...D..ISKCQFYMDMLSE.CKKN
Q9FME9_ARATH/103-137             CDIHAKAFQDCIGSYGS...E..ISKCQFYMDMLSE.CRKN
Q8I573_PLAF7/117-150             CKPFADELNQCLTRHSD......ISLCQNYADSLKS.CQQS
MIX17_YEAST/118-152              CEIDARNFTRCLDENNG...N..FQICDYYLQQLKA.CQEA
YD52_SCHPO/135-167               CKGDAKMFADCINEHE.......FSQCSYYLEQLKA.CQAM
NDA8B_ARATH/71-106               CQKEMDDYVGCMYYYTN...E..FDLCRKEQEAFEKVCPLK
#=GR NDA8B_ARATH/71-106    SS    TTTHHHHHHHHHHHTTT...-..SGGGHHHHHHHHHHS--X
COX19_MOUSE/30-64                CKSFKEKFMRCLRDKNY...E..NALCRNESKEYLM.CRMQ
Q8I627_PLAF7/24-58               CTSIKQKYLKCLKENNN...D..HICCRDHSKEYFI.CRMD
COX19_SCHPO/31-65                CTHVMKQYLECIKVKRE...N..QEECRLLAKKYLQ.CRMD
Q9C9L6_ARATH/31-65               CDAEKKEYLGCLKSSAH...K..SEQCRHLSKKYLQ.CRMA
Q95ZT5_CAEEL/29-63               CKLEMLNYMVCLHEKKQ...Q..NSECRSTAKDYFE.CRMN
V6CJI3_CAEEL/73-109              CGNFFRELYICMKSDDT...RDPSEKCPNQFVNWAA.CMQN
MIA40_ARATH/79-115               CGSQFSEAFLCFLKSTA...EEKGSDCVNPFVALQS.CINA
Q9VAA6_DROME/61-97               CGVDFREAFSCFQNSTA...DPKGSDCYDAFTKMRD.CFQK
MIA40_HUMAN/64-100               CGEQFKSAFSCFHYSTE...EIKGSDCVDQFRAMQE.CMQK
#=GR MIA40_HUMAN/64-100    SS    THHHHHHHHHHHHHH-S...SSTTTTTHHHHHHHHH.HHCC
MIA40_SCHPO/210-246              CGEEFKAAFSCFVYSKS...EPKGMECLDKFQAMQA.CFQK
MIA40_YEAST/307-343              CGEEFKSAFSCFVYSEA...EPKGIDCVEKFQHMQD.CFRK
#=GR MIA40_YEAST/307-343   SS    THHHHHHHHHHHHC--S...SSTTCCGHHHHHHHHH.HHTT
MIA40_CANAL/163-199              CGEEFKEAFSCFVFSET...EPKGIDCIKKFENMRS.CFKR
Q19342_CAEEL/72-109              CGYEFREAISCQKTSSDEEME..NGACGEQLMAFME.CAMR
YLZ2_CAEEL/66-103                CGFEFREAITCQKTNSDGEIE..QGACGKELMSFME.CVTR
O44133_CAEEL/51-85               CTQELQALFGCLKKWEF...D..DVPCSKQHTLYMD.CVHK
Q9W114_DROME/47-81               CLQEMGVLFACLKDNEF...V..EKYCHKEISQFQN.CYKC
A6NJX6_HUMAN/45-79               CITEMSVMMACWKQNEF...R..DDACRKEIQGFLD.CAAR
Q2HJE8_BOVIN/45-79               CITEMSIMMACWKQNEF...R..DEACKKEIRDFFD.CASR
#=GR Q2HJE8_BOVIN/45-79    SS    SHHHHHHHCCSCTTTTS...-..TTS-SHHHHHHHH.HHHH
MRP10_SCHPO/30-66                CGQEMAALLGCWQNHGG...QTDTAQCANLVAALEN.CMKT
MIC25_MOUSE/235-269              CSGLQAQILRCYRDHLH...E..VLLCSDLVKAYQH.CVST
MIC19_MOUSE/183-216              CADLQTKILQCYRQNTQ...Q..TLSCSALASQYMH.CVN.
MRP10_YEAST/30-64                CLVLMSNLLQCWSSYGH...M..SPKCAGLVTELKS.CTSE
#=GC SS_cons                     THHHHHHHHHHHHHTTS...SSTTTTCHHHHHHHHHHHHCC
#=GC seq_cons                    CstchpphhpChppsss...p..hspCpphhpthpp.Chpp
//