Query 002653
Match_columns 896
No_of_seqs 120 out of 236
Neff 2.7
Searched_HMMs 46136
Date Fri Mar 29 04:22:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002653.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002653hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1043 Ca2+-binding transmemb 100.0 1.9E-57 4E-62 495.7 4.9 495 105-686 2-498 (499)
2 KOG1043 Ca2+-binding transmemb 99.9 9.6E-25 2.1E-29 240.0 7.3 99 768-870 121-221 (499)
3 PF07766 LETM1: LETM1-like pro 99.9 1.8E-24 4E-29 221.7 1.0 108 767-878 2-111 (268)
4 KOG4263 Putative receptor CCR1 93.7 0.15 3.3E-06 54.8 6.7 82 771-856 55-140 (299)
5 KOG2077 JNK/SAPK-associated pr 78.9 3.5 7.6E-05 49.0 5.8 68 523-614 306-374 (832)
6 PF11004 Kdo_hydroxy: 3-deoxy- 42.8 31 0.00066 38.2 4.3 47 420-474 8-54 (281)
7 cd00922 Cyt_c_Oxidase_IV Cytoc 37.5 34 0.00075 33.8 3.4 35 844-880 90-125 (136)
8 PF08580 KAR9: Yeast cortical 37.4 61 0.0013 39.5 6.0 52 563-614 55-119 (683)
9 PF05205 COMPASS-Shg1: COMPASS 34.2 72 0.0016 30.1 4.8 94 103-219 11-104 (106)
10 cd09236 V_AnPalA_UmRIM20_like 27.9 5.2E+02 0.011 28.8 10.7 100 506-626 114-224 (353)
11 PF13949 ALIX_LYPXL_bnd: ALIX 27.2 93 0.002 32.5 4.7 97 508-624 68-171 (296)
12 KOG3436 60S ribosomal protein 25.2 1.5E+02 0.0032 29.7 5.3 87 711-817 20-110 (123)
13 PF09177 Syntaxin-6_N: Syntaxi 22.0 5.5E+02 0.012 23.5 8.0 60 563-622 3-64 (97)
14 PRK00420 hypothetical protein; 20.4 1.9E+02 0.0042 28.3 5.0 43 567-610 67-111 (112)
15 PF12968 DUF3856: Domain of Un 20.3 1.5E+02 0.0033 30.1 4.4 74 522-602 12-106 (144)
No 1
>KOG1043 consensus Ca2+-binding transmembrane protein LETM1/MRS7 [Function unknown]
Probab=100.00 E-value=1.9e-57 Score=495.68 Aligned_cols=495 Identities=30% Similarity=0.304 Sum_probs=462.7
Q ss_pred HHHHHHHhhccccCCCcccchHHHHHHHHHHHHHHHHhhcccCCccccccccccchhhhHHHHhhHHHHHHHHHHHHhhh
Q 002653 105 VEEMRVKLNQSLQGNDYNDGLVQSLHDAARVFELAIKEKGSVSKLSWLSTAWLGVDRNAWIKTLSYQASAYSLLQAACEI 184 (896)
Q Consensus 105 ~~e~r~kl~~slq~~~~~~~LVq~LHdaAr~felav~~~~~~s~~swl~~aWlg~D~naW~K~LsYQaaVysLLqaaiei 184 (896)
...||.++-+++|++..+..+- +++|.+++|..+....+..+ +|.++|+++.+||+++|+++|++..+
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~----~g~r~~~~~~~~~~t~~~~~--------~d~~~~~~~~s~~~s~~~~~~~~~~~ 69 (499)
T KOG1043|consen 2 SSVYRSKLLGSLQDENNEGILR----DGARFRELATKEKITSSRLP--------VDKLAWVKTESYKASLYSLLQAVNLI 69 (499)
T ss_pred hhHHHHHHhccccccccchhhh----hhHHHHHHHHHhhccccccc--------HHHHHHHhhhccchhhhhhhhhcccc
Confidence 5689999999999999888877 99999999999999999988 99999999999999999999999999
Q ss_pred hccCCCCCCcchHHHHHHhhhhhchhHHHHHhHhhccCCccchhhhcccchhhhhHhhhccccccccccccccccCCccc
Q 002653 185 SSCGDGRDRDVYVFVQRSLLRQSAPLESLIRDKLSAKLPEGYEWFWSEQVPAVVTSFINYFERDQRFTAATAVSGKGMSL 264 (896)
Q Consensus 185 ssrg~~rDRdvnvfVqrsL~~~~apLe~~Ir~~Ls~r~P~~~eWfws~Q~P~vv~sFvn~le~d~rf~~at~~~~~~~~~ 264 (896)
+++|+.+|.+.|++|+|++.+.-+|+...|+..||+.||+.++|+|.+++|..+..|+ ++++||..+|.++..+...
T Consensus 70 ~~r~~~~~~~~~~~~~~el~~~~~~~~~~~~~~lss~~a~~~~~~~a~~k~s~~~~~~---~~lqhy~~gtkll~~e~ki 146 (499)
T KOG1043|consen 70 SARGNASDLDSSVKVLRELVQQAAPLALKIKELLSSKHAKKTEAFWAKEKPSLKTKFV---KGLQHYVDGTKLLGKEIKI 146 (499)
T ss_pred ccccchhhhhhhHHHhHHHhhhccchhhhchhhccccchhhccccccccCccHHHHHH---HhhHHHhhhhhhhhhhhhh
Confidence 9999999999999999999999999999999999999999999999999999999999 8999999999998887765
Q ss_pred CCCCCCchhHHHHHHHHHHHHhhcCCcccccccchhhhhHHHHHHHhhhccceehhhHHHHHhhhhhhHHHHhhcCCCcc
Q 002653 265 GSGSSSDTSLLMLALTCIAAITKLGPAKVSCSQFSSMISDITGRLMDTLVDLVPISQAYYSIKDIGLHREFLAHFGPRAS 344 (896)
Q Consensus 265 ~~~~~SdvslL~Lalsc~aAi~kLGsa~vSCp~F~S~i~d~~grLMdml~~fvpv~q~Y~~~k~iGl~rEFL~hFGpraa 344 (896)
++. .|++++..|..+..+.|+.+-+||.||.+||+.. .-+||..++|+-+.-.+|.++|.+|||+++.
T Consensus 147 sak-----lLlkll~g~~ltrrE~~qL~rt~~d~frLvPfs~-------flivPf~El~Lp~~lKlfp~~lpstfq~~kk 214 (499)
T KOG1043|consen 147 SAK-----LLLKLLKGYELTRRERGQLKRTCSDIFRLVPFSK-------FLIVPFMELLLPIFLKLFPNDLPSTFQESKK 214 (499)
T ss_pred hHH-----HHHHHHccCeeeHHHhhhHHhhccchheecccee-------eeeeehHHHHhHHHHhhccccchhhHHHHHH
Confidence 422 8999999999999999999999999999999988 7899999999999999999999999999999
Q ss_pred cccccCCCCccceehhHHHHHHHHHHHHhHhhhhhccccchhHHHHhhhhhHHHHHHHhccchhhhhhcCCCCCcchhHH
Q 002653 345 ACRVKNDRDSEEVIFWVDLVQKQLQRAIDREKIWSRLTTSESIEVLERDLAIFGFFIALGRSTQSFLSRNGFDVVDDPIK 424 (896)
Q Consensus 345 ~~~~~~d~~~eEv~FWI~L~qkqL~~AidRE~IwsrL~tsesiEvlE~dLAifGfFiaLGRsTr~fLs~~g~~~ldd~i~ 424 (896)
.|.++++ ..+|+.||.+++|++|+++++++++|+++.++++| +++++++.||| +++|.+|+.++.-+++-+.|-+++
T Consensus 215 ~~~k~~k-~~~~r~~~sk~Lq~tl~~~~~~~k~~~~~e~~qs~-~fd~f~~kvr~-~~~~~S~eeii~~aklf~de~~Ld 291 (499)
T KOG1043|consen 215 EEEKLSK-KYVERSEASKFLQKTLQQMIDRIKTWSNLETSQSI-EFDRFLGKVRF-IGLGVSTEEIIAFAKLFSDEITLD 291 (499)
T ss_pred HHHHhhh-hHHHHHHHHHHHHHHHHHHHhhhccchhhHHHHHH-HHHHHHHHhcc-cCCCccHHHHHHHHHHhccchhhh
Confidence 9999999 88999999999999999999999999999999999 99999999999 999999999999999999999999
Q ss_pred HHHHHHHcceEEEecccCccc--ceeeeeeeeeccccccccCCCCCCCCCCccCCCCCCCCCCCcccchhhhhhhhHhhh
Q 002653 425 SLIRYLIGGSVLYYPQLSSIS--SYQLYVEVVCEELDWLLFYPGSTGMPKQSHGHKSKREDPPNAEAIPQVLDVCSHWMQ 502 (896)
Q Consensus 425 ~~lrYL~gGsvl~YPQLSsIs--sYQLyvEVVcEEl~WLpFYp~~~~~~~~~~~h~~~~~~~~~~e~i~~vl~VCs~w~~ 502 (896)
++.|..++|...|||+.+-++ +|+.| +-
T Consensus 292 nLsR~qL~al~k~m~l~~~Gt~~~lr~~--------------------------------------------------lr 321 (499)
T KOG1043|consen 292 NLSRPQLVALCKYMDLNSFGTDKLLRYQ--------------------------------------------------LR 321 (499)
T ss_pred ccCHHHHHHHHHhhcccccCchHHHHHH--------------------------------------------------HH
Confidence 999999999999999988775 55544 34
Q ss_pred hhhhhcccccCCCchhHHHHHhhhhhhHHHHHHHhhhccccccccccccccccccccchhHHHHHHHHHHHHHHHHHHHH
Q 002653 503 SFIKHSKWLENPSNVKAAKFLSKGYDKLMDCMKEMGIARNGMIESAESVTYSRTEIDSDSFDKALESVEEALIRLEKLLQ 582 (896)
Q Consensus 503 sFikyS~w~e~Psnvkaa~FLskg~~~L~eC~ee~~~~~~~~~~~~~~~~~~~~~~e~~s~dkalesv~~Al~rlE~Llq 582 (896)
+||+|.+|-.+|.++++|.++++++.+...|.++.+.+..-.++...++ .+.-...++|+++.+|..+|.|.+.+++
T Consensus 322 ~kik~ik~dD~~I~~eg~v~~ls~~el~~aC~~rgmra~gv~~e~l~~q---l~~wldlsl~~~vps~lL~Lsr~~~~~~ 398 (499)
T KOG1043|consen 322 KKIKEIKKDDKHIATEGAVESLSLLELQIACRERGMRALGVSEERLREQ---LRVWLDLSLDKKVPSVLLLLSRTFSLGQ 398 (499)
T ss_pred HHHHHhcccccchhhhhhhhHhhHHHHHHHHHhhhcchhccchhhhhHH---HHHHHhhhccccCchHHHHHhhhhhhhh
Confidence 6899999999999999999999999999999999988775444422222 2334556899999999999999999999
Q ss_pred HhhcccCcchHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCccccccccccCCCcccccccccCC
Q 002653 583 ALHVSSSNSGKEQLKAACSDLEKIRKLKKEAEFLEASVRAKAASLQQGGDDSDSGSSIGEKQWYLKGSKSRIADVVQDRP 662 (896)
Q Consensus 583 el~~sss~sgke~l~aacsDLekIr~LkkeaEfleasfraka~~l~~g~~~~~~~~~~~~~~~~~~~k~~~~~~v~ld~~ 662 (896)
+.+.++|.+|+.+. ++|+|+++++++|++++++++++|+++..+++|+|+...+++-.++.+|..+|+.++.+..-++.
T Consensus 399 ~~~~~~s~~~~l~~-~~~~~~~~~~~~~~~~~~~~~~~~~~kl~~l~~~e~~~~~e~eee~~~~~~~k~~~~~~~~~~~~ 477 (499)
T KOG1043|consen 399 NSKAPSSSSGKLQI-AAPDDLEKLEKLKKEESELGAVDRKKKLELLREGEEIISEEEEEEEKQYGRAKDALKEKESAEKA 477 (499)
T ss_pred cccCCchhhhHhhh-hccccHHHhcccccccccccccchHHHHHhhhccccccchhhhccccccccccccccCCCccccc
Confidence 99999999999999 99999999999999999999999999999999999999999999999999999999999887666
Q ss_pred ccccccccCcccccccCCCCCCCC
Q 002653 663 NEVVCKSRGLFGFFTRPSIRKPKP 686 (896)
Q Consensus 663 ~~~~~~~~~~w~~f~r~~~~k~~~ 686 (896)
. ....++|++|.+...+++.|
T Consensus 478 ~---~~~~s~~~~~~~~~~~~~~~ 498 (499)
T KOG1043|consen 478 A---SQAKSPWGFFVRQERKKALP 498 (499)
T ss_pred c---cccccccccccchhhhcccC
Confidence 6 67899999999999998876
No 2
>KOG1043 consensus Ca2+-binding transmembrane protein LETM1/MRS7 [Function unknown]
Probab=99.90 E-value=9.6e-25 Score=240.04 Aligned_cols=99 Identities=26% Similarity=0.449 Sum_probs=94.6
Q ss_pred HHHHHHHhhcceeeehhhhhHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhhcccccceeeeeccchhhhhHHHHHH
Q 002653 768 KSIDKLKETSMDVWQGTQLLAVDVGAAMELLRRALVGDELTQKEKQALQRTLTDLASVVPIGVLMLLPVTAVGHAAMLAA 847 (896)
Q Consensus 768 k~~~KiKee~~hYw~G~KLL~~DIkiS~~Ll~R~l~G~~LTrRErkqLkRT~~DLfRLVPFsVfiIVPf~E~GHalLLPv 847 (896)
.++++++++++|||+||||||+|+++|.+++|+.+.|++|||||++||+||+.|+||||||++|+||||+|+ +||+
T Consensus 121 s~~~~~~~~lqhy~~gtkll~~e~kisaklLlkll~g~~ltrrE~~qL~rt~~d~frLvPfs~flivPf~El----~Lp~ 196 (499)
T KOG1043|consen 121 SLKTKFVKGLQHYVDGTKLLGKEIKISAKLLLKLLKGYELTRRERGQLKRTCSDIFRLVPFSKFLIVPFMEL----LLPI 196 (499)
T ss_pred cHHHHHHHhhHHHhhhhhhhhhhhhhhHHHHHHHHccCeeeHHHhhhHHhhccchheeccceeeeeeehHHH----HhHH
Confidence 678999999999999999999999999999999999999999999999999999999999999999999999 9999
Q ss_pred HHHHcCCCCCCCCchh--HHHHHHH
Q 002653 848 IQRYVPGLIPSTYGPE--RLDLLRQ 870 (896)
Q Consensus 848 ilKyFPnMLPSTFese--R~eklrq 870 (896)
++|+||||+||||++. ++++..+
T Consensus 197 ~lKlfp~~lpstfq~~kk~~~k~~k 221 (499)
T KOG1043|consen 197 FLKLFPNDLPSTFQESKKEEEKLSK 221 (499)
T ss_pred HHhhccccchhhHHHHHHHHHHhhh
Confidence 9999999999999984 6666666
No 3
>PF07766 LETM1: LETM1-like protein; InterPro: IPR011685 This is a group of mainly hypothetical eukaryotic proteins. Putative features found in LETM1, such as a transmembrane domain and a CK2 and PKC phosphorylation site [], are relatively conserved throughout the family. Deletion of LETM1 is thought to be involved in the development of Wolf-Hirschhorn syndrome in humans []. A member of this family, P91927 from SWISSPROT, is known to be expressed in the mitochondria of Drosophila melanogaster [], suggesting that this may be a group of mitochondrial proteins.; PDB: 3SKQ_A.
Probab=99.89 E-value=1.8e-24 Score=221.68 Aligned_cols=108 Identities=29% Similarity=0.529 Sum_probs=4.5
Q ss_pred HHHHHHHHhhcceeeehhhhhHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhhcccccceeeeeccchhhhhHHHHH
Q 002653 767 GKSIDKLKETSMDVWQGTQLLAVDVGAAMELLRRALVGDELTQKEKQALQRTLTDLASVVPIGVLMLLPVTAVGHAAMLA 846 (896)
Q Consensus 767 kk~~~KiKee~~hYw~G~KLL~~DIkiS~~Ll~R~l~G~~LTrRErkqLkRT~~DLfRLVPFsVfiIVPf~E~GHalLLP 846 (896)
++.|.+++++.+|||+|+|+||.|++.+.+|..|+..|+.||+||+++++||..|++|+|||++|++|||+++ +||
T Consensus 2 ~~~~~~~~~~~~~~~~G~kll~~d~k~~~~l~~~~~~g~~LtrrE~~~l~~~~~D~~kliP~~i~~~iPf~~~----llp 77 (268)
T PF07766_consen 2 EKLWPKAKKEYKHFWDGFKLLWADIKISRRLKKRVKQGHQLTRRERKQLRRTRRDLLKLIPFLIFLIIPFAEY----LLP 77 (268)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHH----HHH
Confidence 4789999999999999999999999999999999999999999999999999999999999999999999999 899
Q ss_pred HHHHHcCCCCCCCCchh--HHHHHHHHHHHHhhh
Q 002653 847 AIQRYVPGLIPSTYGPE--RLDLLRQLEKVKEME 878 (896)
Q Consensus 847 vilKyFPnMLPSTFese--R~eklrql~kvKkme 878 (896)
++++|||+||||||.+. |.+..++..+.|...
T Consensus 78 ~~~~~fP~lLPstF~~~~q~~~~~~~~~~~r~~~ 111 (268)
T PF07766_consen 78 LLVKYFPNLLPSTFWSPSQREEFLKKRLKARKEL 111 (268)
T ss_dssp --------------------------HHHHHHHH
T ss_pred HHHHHhhhcChHHHcccchHHHHHHHHHHHhHhh
Confidence 99999999999999984 666666666666443
No 4
>KOG4263 consensus Putative receptor CCR1 [Signal transduction mechanisms]
Probab=93.69 E-value=0.15 Score=54.84 Aligned_cols=82 Identities=16% Similarity=0.282 Sum_probs=67.4
Q ss_pred HHHHhhcceeeehhhhhHHHHHHHHHHHHHHhcC----CCCCHHHHHHHHHHHhhhcccccceeeeeccchhhhhHHHHH
Q 002653 771 DKLKETSMDVWQGTQLLAVDVGAAMELLRRALVG----DELTQKEKQALQRTLTDLASVVPIGVLMLLPVTAVGHAAMLA 846 (896)
Q Consensus 771 ~KiKee~~hYw~G~KLL~~DIkiS~~Ll~R~l~G----~~LTrRErkqLkRT~~DLfRLVPFsVfiIVPf~E~GHalLLP 846 (896)
-|+-..-.-+..|.|-+|.|+|.+.++-.-+..| +.|+++|-..++.--.|.-+..|.+||.++|++.. ++-
T Consensus 55 Pk~~~Lyr~f~~G~~~~faD~K~~~kikr~~~~~~~k~~~L~~~ElE~l~Qmp~d~~K~a~~~i~~~~P~~~Y----~ff 130 (299)
T KOG4263|consen 55 PKVLALYRTFLEGSRWCFADVKMYFKIKRAVATGQKKLTDLSVEELETLVQMPVDGPKMAIVTIFLPVPLSVY----VFF 130 (299)
T ss_pred hHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhcCccchhhCCHHHHHHHHhccccccceeeeeeccCcchHHH----HHH
Confidence 3333333446689999999999999998777666 46999999999999999999999999999999987 566
Q ss_pred HHHHHcCCCC
Q 002653 847 AIQRYVPGLI 856 (896)
Q Consensus 847 vilKyFPnML 856 (896)
+++-|||..+
T Consensus 131 ~li~~fPR~~ 140 (299)
T KOG4263|consen 131 FLIIFFPRLV 140 (299)
T ss_pred HHHHHHHHHH
Confidence 6667888754
No 5
>KOG2077 consensus JNK/SAPK-associated protein-1 [Signal transduction mechanisms]
Probab=78.92 E-value=3.5 Score=48.99 Aligned_cols=68 Identities=29% Similarity=0.478 Sum_probs=48.7
Q ss_pred HhhhhhhHHHHHHHhhhcccccc-ccccccccccccccchhHHHHHHHHHHHHHHHHHHHHHhhcccCcchHHHHHHhhh
Q 002653 523 LSKGYDKLMDCMKEMGIARNGMI-ESAESVTYSRTEIDSDSFDKALESVEEALIRLEKLLQALHVSSSNSGKEQLKAACS 601 (896)
Q Consensus 523 Lskg~~~L~eC~ee~~~~~~~~~-~~~~~~~~~~~~~e~~s~dkalesv~~Al~rlE~Llqel~~sss~sgke~l~aacs 601 (896)
|++-.+.|.+-..-|+|.+|+.. ++.+-. .|-+...-.+|+++.|-+|||+-..||.
T Consensus 306 LilENsqLLetKNALNiVKNDLIakVDeL~------~E~~vLrgElea~kqak~Klee~i~elE---------------- 363 (832)
T KOG2077|consen 306 LILENSQLLETKNALNIVKNDLIAKVDELT------CEKDVLRGELEAVKQAKLKLEEKIRELE---------------- 363 (832)
T ss_pred HHHhhHHHHhhhhHHHHHHHHHHHHHHhhc------cHHHHHhhHHHHHHHHHHHHHHHHHHHH----------------
Confidence 45556778888889999998844 333322 2445677889999999999988777764
Q ss_pred hHHHHHHHHHHHH
Q 002653 602 DLEKIRKLKKEAE 614 (896)
Q Consensus 602 DLekIr~LkkeaE 614 (896)
|.||++|.||+
T Consensus 364 --EElk~~k~ea~ 374 (832)
T KOG2077|consen 364 --EELKKAKAEAE 374 (832)
T ss_pred --HHHHHHHHHHH
Confidence 56777887777
No 6
>PF11004 Kdo_hydroxy: 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; InterPro: IPR021266 This bacterial family of proteins has no known function.
Probab=42.82 E-value=31 Score=38.19 Aligned_cols=47 Identities=30% Similarity=0.347 Sum_probs=34.5
Q ss_pred chhHHHHHHHHHcceEEEecccCcccceeeeeeeeeccccccccCCCCCCCCCCc
Q 002653 420 DDPIKSLIRYLIGGSVLYYPQLSSISSYQLYVEVVCEELDWLLFYPGSTGMPKQS 474 (896)
Q Consensus 420 dd~i~~~lrYL~gGsvl~YPQLSsIssYQLyvEVVcEEl~WLpFYp~~~~~~~~~ 474 (896)
.++=++.++-||+|.|||+|+|. .+.-|+|-.-|.=.-.+....|.+
T Consensus 8 ~~~~~~~~~~LE~G~VL~fP~l~--------F~l~~~E~~fL~p~~~d~k~KNIs 54 (281)
T PF11004_consen 8 EEPQRDAIEALEQGKVLYFPQLR--------FPLSPEERAFLDPAIVDPKRKNIS 54 (281)
T ss_pred cchHHHHHHHhhCCCEEEeCCCC--------CCCChhHHhhcChhhhCCCCCcee
Confidence 56678899999999999999875 566788887765444444445554
No 7
>cd00922 Cyt_c_Oxidase_IV Cytochrome c oxidase subunit IV. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit IV is the largest of the nuclear-encoded subunits. It binds ATP at the matrix side, leading to an allosteric inhibition of enzyme activity at high intramitochondrial ATP/ADP ratios. In mammals, subunit IV has a lung-specific isoform and a ubiquitously expressed isoform.
Probab=37.53 E-value=34 Score=33.79 Aligned_cols=35 Identities=29% Similarity=0.454 Sum_probs=26.5
Q ss_pred HHHHHHHHcC-CCCCCCCchhHHHHHHHHHHHHhhhhc
Q 002653 844 MLAAIQRYVP-GLIPSTYGPERLDLLRQLEKVKEMESS 880 (896)
Q Consensus 844 LLPvilKyFP-nMLPSTFeseR~eklrql~kvKkme~~ 880 (896)
++=+++|.|= ...|-||+.+.++ +++++++.|.++
T Consensus 90 ~~~~~~r~~~~~~~P~T~t~Ewqe--a~~er~~~~~~N 125 (136)
T cd00922 90 VIFGLQRAFVYGPKPHTFTEEWQE--AQLERMLDMKVN 125 (136)
T ss_pred HHHHHHHHhccCCCCCCcCHHHHH--HHHHHHHHhCCC
Confidence 5667778777 9999999998766 456677777655
No 8
>PF08580 KAR9: Yeast cortical protein KAR9; InterPro: IPR013889 The KAR9 protein in Saccharomyces cerevisiae (Baker's yeast) is a cytoskeletal protein required for karyogamy, correct positioning of the mitotic spindle and for orientation of cytoplasmic microtubules []. KAR9 localises at the shmoo tip in mating cells and at the tip of the growing bud in anaphase [].
Probab=37.36 E-value=61 Score=39.48 Aligned_cols=52 Identities=21% Similarity=0.341 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh-----hcccC---cchHHHHHHhhhhHHH-----HHHHHHHHH
Q 002653 563 FDKALESVEEALIRLEKLLQAL-----HVSSS---NSGKEQLKAACSDLEK-----IRKLKKEAE 614 (896)
Q Consensus 563 ~dkalesv~~Al~rlE~Llqel-----~~sss---~sgke~l~aacsDLek-----Ir~LkkeaE 614 (896)
+.+-++.||.|+.|||.|+... ++..- +.+.++|..+|+|++- |+.+|+-.|
T Consensus 55 L~~~l~~ID~ai~~~l~lIe~~v~~ie~~q~r~di~~~~~dl~e~vsqm~~~vK~~L~~vK~qve 119 (683)
T PF08580_consen 55 LREGLEEIDSAISRFLDLIEVYVSAIEDLQLREDIANSLFDLIEEVSQMELDVKKTLISVKKQVE 119 (683)
T ss_pred HHHhHHHHHHHHHHHHHHHHhhccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4677899999999999999774 22211 1178899999999998 777777654
No 9
>PF05205 COMPASS-Shg1: COMPASS (Complex proteins associated with Set1p) component shg1
Probab=34.19 E-value=72 Score=30.13 Aligned_cols=94 Identities=18% Similarity=0.281 Sum_probs=66.4
Q ss_pred chHHHHHHHhhccccCCCcccchHHHHHHHHHHHHHHHHhhcccCCccccccccccchhhhHHHHhhHHHHHHHHHHHHh
Q 002653 103 SDVEEMRVKLNQSLQGNDYNDGLVQSLHDAARVFELAIKEKGSVSKLSWLSTAWLGVDRNAWIKTLSYQASAYSLLQAAC 182 (896)
Q Consensus 103 s~~~e~r~kl~~slq~~~~~~~LVq~LHdaAr~felav~~~~~~s~~swl~~aWlg~D~naW~K~LsYQaaVysLLqaai 182 (896)
+-++.+|-.+-.-....+...-|.+.+.+.+..+ ..+.+|+++. -+..+.+||+.++
T Consensus 11 G~FD~lRk~~l~~~~~~~~~~~l~~~v~~~v~~~---------l~~~~~l~~~--------------nk~k~~alI~~~i 67 (106)
T PF05205_consen 11 GHFDKLRKECLADFDTSPAYQNLRQRVEEIVESE---------LERDPWLLSK--------------NKGKARALIEGAI 67 (106)
T ss_pred CChHHHHHHHHHhccccHHHHHHHHHHHHHHHHH---------HhcCcccCCc--------------chHHHHHHHHHHH
Confidence 4467778776555544555556666666665544 2244555432 2356778999999
Q ss_pred hhhccCCCCCCcchHHHHHHhhhhhchhHHHHHhHhh
Q 002653 183 EISSCGDGRDRDVYVFVQRSLLRQSAPLESLIRDKLS 219 (896)
Q Consensus 183 eissrg~~rDRdvnvfVqrsL~~~~apLe~~Ir~~Ls 219 (896)
+=+.--.+.|+.|..+|...+..+...+|+.|++.|.
T Consensus 68 ~rs~~~~~~e~~i~~~vd~~l~~~~~~ie~~~~~~l~ 104 (106)
T PF05205_consen 68 DRSGVYKGVERIIDQVVDPKLNEIRPSIEEIIREELG 104 (106)
T ss_pred HHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 9887777789999999999999888889999998875
No 10
>cd09236 V_AnPalA_UmRIM20_like Protein-interacting V-domains of Aspergillus nidulans PalA/RIM20, Ustilago maydis RIM20, and related proteins. This family belongs to the V_Alix_like superfamily which includes the V-shaped (V) domains of Bro1 and Rim20 from Saccharomyces cerevisiae, mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), and related domains. Aspergillus nidulas PalA/RIM20 and Ustilago maydis RIM20, like Saccharomyces cerevisiae Rim20, participate in the response to the external pH via the Pal/Rim101 pathway; however, Saccharomyces cerevisiae Rim20 does not belong to this family. This pathway is a signaling cascade resulting in the activation of the transcription factor PacC/Rim101. The mammalian Alix V-domain (belonging to a different family) contains a binding site, partially conserved in the superfamily, for the retroviral late assembly (L) domain YPXnL motif. Aspergillus nidulas Pa
Probab=27.89 E-value=5.2e+02 Score=28.79 Aligned_cols=100 Identities=19% Similarity=0.227 Sum_probs=58.4
Q ss_pred hhc--ccccCCCchhHHHHHhhhhhhHHHHHHHhhhccccccccccccccccccccchhHHHHHHHHHHHHHHH----HH
Q 002653 506 KHS--KWLENPSNVKAAKFLSKGYDKLMDCMKEMGIARNGMIESAESVTYSRTEIDSDSFDKALESVEEALIRL----EK 579 (896)
Q Consensus 506 kyS--~w~e~Psnvkaa~FLskg~~~L~eC~ee~~~~~~~~~~~~~~~~~~~~~~e~~s~dkalesv~~Al~rl----E~ 579 (896)
||- +|.+.||..-++.+-.+ +.+..+-|.-+. ..+ ....+.++..+..+.-| +.
T Consensus 114 k~g~~~Wtr~~S~~~~~~l~~~----~~~~~~~L~~A~-------~sD---------~~v~~k~~~~~~~l~lL~~~~~~ 173 (353)
T cd09236 114 KFGTDRWTRPDSHEANPKLYTQ----AAEYEGYLKQAG-------ASD---------ELVRRKLDEWEDLIQILTGDERD 173 (353)
T ss_pred HcCCCCCCCCCcHHHHHHHHHH----HHHHHHHHHHHH-------hhH---------HHHHHHHHHHHHHHHHHcCCHHH
Confidence 786 79999999888776543 333444333322 111 01223333333332222 11
Q ss_pred HHHHhhcccCc-----chHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHhh
Q 002653 580 LLQALHVSSSN-----SGKEQLKAACSDLEKIRKLKKEAEFLEASVRAKAAS 626 (896)
Q Consensus 580 Llqel~~sss~-----sgke~l~aacsDLekIr~LkkeaEfleasfraka~~ 626 (896)
|-+.+. +++. +.+.++.....-|+++..||+|-+-++..+|.|+..
T Consensus 174 l~~~~P-s~~~~~~~~~~~~~i~~Lr~~l~~l~~l~~eR~~~~~~Lk~k~~~ 224 (353)
T cd09236 174 LENFVP-SSRRPSIPPELERHVRALRVSLEELDRLESRRRRKVERARTKARA 224 (353)
T ss_pred HHHhCC-CCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 111122 2222 346778888888889999999999999999988773
No 11
>PF13949 ALIX_LYPXL_bnd: ALIX V-shaped domain binding to HIV ; PDB: 2XS1_A 2XS8_A 2R03_A 2R02_A 2OEX_B 2OEV_A 2OJQ_A 2R05_A.
Probab=27.19 E-value=93 Score=32.53 Aligned_cols=97 Identities=30% Similarity=0.330 Sum_probs=52.1
Q ss_pred cccccCCCchhHHHHHhhhhhhHHHHHHHhhhccccccccccccccccccccchhHHHHHHHHHHHHH-------HHHHH
Q 002653 508 SKWLENPSNVKAAKFLSKGYDKLMDCMKEMGIARNGMIESAESVTYSRTEIDSDSFDKALESVEEALI-------RLEKL 580 (896)
Q Consensus 508 S~w~e~Psnvkaa~FLskg~~~L~eC~ee~~~~~~~~~~~~~~~~~~~~~~e~~s~dkalesv~~Al~-------rlE~L 580 (896)
.+|.+.||..-++.|-. .|..+.+-+.-+. .++. ...+.++..+..+. -|+..
T Consensus 68 ~~W~r~~S~~~~~~l~~----~l~~~~~~L~~A~-------~sD~---------~~~~~~~~~~~~l~~L~~~~~~L~~~ 127 (296)
T PF13949_consen 68 ERWTRPPSSELNASLRK----ELQKYREYLEQAS-------ESDS---------QLRSKLESIEENLELLSGPIEELEAS 127 (296)
T ss_dssp TTCGSS-HHHHCHHHHH----HHHHHHHHHHHHH-------HHHH---------HHHHHHHHHHHHHHHHTSSHHHHHHH
T ss_pred CCCcCCCcHhhHHHHHH----HHHHHHHHHHHHH-------hhHH---------HHHHHHHHHHHHHHHHcCChhhHHhh
Confidence 48999999887776643 4444555444433 1110 11222333333332 23444
Q ss_pred HHHhhcccCcchHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHH
Q 002653 581 LQALHVSSSNSGKEQLKAACSDLEKIRKLKKEAEFLEASVRAKA 624 (896)
Q Consensus 581 lqel~~sss~sgke~l~aacsDLekIr~LkkeaEfleasfraka 624 (896)
+-......+....+.++....=|+++..|+++-+-+..-+|.|+
T Consensus 128 lp~~~~~~~~~~~~~i~~L~~ll~~l~~l~~eR~~~~~~lk~~~ 171 (296)
T PF13949_consen 128 LPSSSPSDSPQVSEVIRQLRELLNKLEELKKEREELLEQLKEKL 171 (296)
T ss_dssp S--B---SSGSS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH--
T ss_pred CCCCCcccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444334445577777777788888888999998999888644
No 12
>KOG3436 consensus 60S ribosomal protein L35 [Translation, ribosomal structure and biogenesis]
Probab=25.24 E-value=1.5e+02 Score=29.67 Aligned_cols=87 Identities=23% Similarity=0.363 Sum_probs=57.2
Q ss_pred hHHHHHHHHHHHHHHHhhccccccc-ccchhhhhhccccCccccccchhccc--chhhhHHHHHHHHhhcceeeehhhhh
Q 002653 711 RFELLRNELMELEKRVQRSADQSEN-GEDIKVMDERANFSESRGTQLVQVQK--TENIIGKSIDKLKETSMDVWQGTQLL 787 (896)
Q Consensus 711 rfe~Lr~El~ElEkrvq~sadqSe~-eE~~~~~~~~~~~~~~~~~~~~~v~k--k~n~ikk~~~KiKee~~hYw~G~KLL 787 (896)
....|+-||..| |||+++--++. --++++ .+ -+.+.+-..++.++++...|.|.+.+
T Consensus 20 ql~dLK~ELa~L--Rv~K~tgg~~~klskik~------------------vrKsiArvLTVine~~k~~lr~~yk~~k~~ 79 (123)
T KOG3436|consen 20 QLDDLKVELAQL--RVAKVTGGAASKLSKIKV------------------VRKSIARVLTVINEKQKEELREAYKGKKYL 79 (123)
T ss_pred HHHHHHHHHHHH--HHHHhhccchhhhHHHHH------------------HHHHHHHHHHHhhhhhHHHHHHHhhccccc
Confidence 456677788777 88887543210 111211 11 12234455678889999999999999
Q ss_pred HHHHHHH-HHHHHHHhcCCCCCHHHHHHHHH
Q 002653 788 AVDVGAA-MELLRRALVGDELTQKEKQALQR 817 (896)
Q Consensus 788 ~~DIkiS-~~Ll~R~l~G~~LTrRErkqLkR 817 (896)
-.|.+-= .+-+.|.++-++++.+-.+|-.+
T Consensus 80 p~dLr~KktRa~rr~ltk~~~slkt~kq~~k 110 (123)
T KOG3436|consen 80 PKDLRPKKTRAIRRRLTKHQLSLKTEKQQAK 110 (123)
T ss_pred chhhhHHHHHHHHHhccccchhHhHHHHHHH
Confidence 9999865 55567778889998876665443
No 13
>PF09177 Syntaxin-6_N: Syntaxin 6, N-terminal; InterPro: IPR015260 Members of this entry, which are found in the amino terminus of various SNARE proteins, adopt a structure consisting of an antiparallel three-helix bundle. Their exact function has not been determined, though it is known that they regulate the SNARE motif, as well as mediate various protein-protein interactions involved in membrane-transport []. ; GO: 0048193 Golgi vesicle transport, 0016020 membrane; PDB: 1LVF_B 2C5I_T 2C5J_A 2C5K_T 4DND_A.
Probab=22.03 E-value=5.5e+02 Score=23.54 Aligned_cols=60 Identities=30% Similarity=0.350 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhc-ccCcchHHHHHHhhhhHH-HHHHHHHHHHHHHHHHHH
Q 002653 563 FDKALESVEEALIRLEKLLQALHV-SSSNSGKEQLKAACSDLE-KIRKLKKEAEFLEASVRA 622 (896)
Q Consensus 563 ~dkalesv~~Al~rlE~Llqel~~-sss~sgke~l~aacsDLe-kIr~LkkeaEfleasfra 622 (896)
|.-+-+-|...+.++|.+++...- .+.++..+.++.+..||. .|+.|+...+-|+.+.+.
T Consensus 3 F~~v~~ev~~sl~~l~~~~~~~~~~~~~~~~~~e~~~~~~eL~~~l~~ie~~L~DL~~aV~i 64 (97)
T PF09177_consen 3 FFVVKDEVQSSLDRLESLYRRWQRLRSDTSSSEELKWLKRELRNALQSIEWDLEDLEEAVRI 64 (97)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHTTHCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHhcccCCCcHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 667778899999999999887543 333335566677777775 467788889999998884
No 14
>PRK00420 hypothetical protein; Validated
Probab=20.40 E-value=1.9e+02 Score=28.28 Aligned_cols=43 Identities=33% Similarity=0.441 Sum_probs=28.6
Q ss_pred HHHHHHHHH-HHHHHHHHhhcccCcch-HHHHHHhhhhHHHHHHHH
Q 002653 567 LESVEEALI-RLEKLLQALHVSSSNSG-KEQLKAACSDLEKIRKLK 610 (896)
Q Consensus 567 lesv~~Al~-rlE~Llqel~~sss~sg-ke~l~aacsDLekIr~Lk 610 (896)
++.|++.|. +++.|...|.=. ...+ -.+|-.+-.=|+|||+++
T Consensus 67 ~~~~~~il~~ki~~L~~kL~~e-~~~~ri~Ei~~~l~~l~ki~~~~ 111 (112)
T PRK00420 67 LKEVEEVLIEKINYLAKKLKED-EDIERITEIIRYLEVLERIRKIK 111 (112)
T ss_pred HHHHHHHHHHHHHHHHHhCccc-cchhHHHHHHHHHHHHHHHHHHh
Confidence 556666665 899999888765 3333 345555666788888775
No 15
>PF12968 DUF3856: Domain of Unknown Function (DUF3856); InterPro: IPR024552 This domain of unknown function is found in a small group of tetratricopeptide-like proteins, which includes the uncharacterised protein Q8KAL8 from SWISSPROT. The structure of Q8KAL8 is known and belongs to the SCOP all alpha class, TPR-like superfamily, CT2138-like family.; PDB: 2HR2_D.
Probab=20.34 E-value=1.5e+02 Score=30.14 Aligned_cols=74 Identities=28% Similarity=0.303 Sum_probs=47.2
Q ss_pred HHhhhhhhHHH---------HHHHhhhccccccc--ccccc-------ccccccccchhHHHHHHHHHHHHH---HHHHH
Q 002653 522 FLSKGYDKLMD---------CMKEMGIARNGMIE--SAESV-------TYSRTEIDSDSFDKALESVEEALI---RLEKL 580 (896)
Q Consensus 522 FLskg~~~L~e---------C~ee~~~~~~~~~~--~~~~~-------~~~~~~~e~~s~dkalesv~~Al~---rlE~L 580 (896)
-||.+++.|.+ |+.-+++++...++ |.-.+ .-+..-..+..||.+|+|.+.||. |.=.|
T Consensus 12 aLs~ae~ql~~g~~~eAa~s~r~AM~~srtiP~eEaFDh~GFDA~chA~Ls~A~~~Lgry~e~L~sA~~aL~YFNRRGEL 91 (144)
T PF12968_consen 12 ALSDAERQLQDGAYEEAAASCRKAMEVSRTIPAEEAFDHDGFDAFCHAGLSGALAGLGRYDECLQSADRALRYFNRRGEL 91 (144)
T ss_dssp HHHHHHHHHHHT-HHHHHHHHHHHHHHHTTS-TTS---HHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHH--T
T ss_pred HHHHHHHHHHhhhHHHHHHHHHHHHHHhccCChHhhcccccHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHhhcccc
Confidence 47888888865 99999999865553 11111 011222356789999999999986 43333
Q ss_pred HHHhhcccCcchHHHHHHhhhh
Q 002653 581 LQALHVSSSNSGKEQLKAACSD 602 (896)
Q Consensus 581 lqel~~sss~sgke~l~aacsD 602 (896)
. ...||--|.|-||-
T Consensus 92 ~-------qdeGklWIaaVfsr 106 (144)
T PF12968_consen 92 H-------QDEGKLWIAAVFSR 106 (144)
T ss_dssp T-------STHHHHHHHHHHHH
T ss_pred c-------cccchhHHHHHHHH
Confidence 3 34888888888875
Done!