Query 006647
Match_columns 637
No_of_seqs 192 out of 364
Neff 3.6
Searched_HMMs 46136
Date Thu Mar 28 12:27:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006647.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006647hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1901 Uncharacterized high-g 100.0 3.5E-82 7.7E-87 677.0 33.5 291 250-552 176-468 (487)
2 PF04146 YTH: YT521-B-like dom 100.0 1.1E-48 2.4E-53 361.7 8.5 136 382-523 1-140 (140)
3 KOG1902 Putative signal transd 100.0 2.5E-41 5.5E-46 348.4 11.4 149 369-525 60-213 (441)
4 PRK00809 hypothetical protein; 94.1 0.2 4.4E-06 47.9 7.9 122 384-517 2-142 (144)
5 PF01878 EVE: EVE domain; Int 81.7 3.3 7.1E-05 38.5 5.7 128 384-519 1-143 (143)
6 PF03875 Statherin: Statherin; 46.1 20 0.00044 28.2 2.5 27 56-93 15-41 (42)
7 PRK02268 hypothetical protein; 43.5 1.2E+02 0.0026 29.7 7.9 122 384-521 3-137 (141)
8 KOG0260 RNA polymerase II, lar 34.6 1.2E+03 0.026 30.6 18.6 31 41-73 1415-1446(1605)
9 PF10539 Dev_Cell_Death: Devel 33.3 83 0.0018 30.5 5.1 116 391-520 8-130 (130)
10 PF10200 Ndufs5: NADH:ubiquino 14.9 1.6E+02 0.0035 27.2 2.9 35 529-563 59-93 (96)
No 1
>KOG1901 consensus Uncharacterized high-glucose-regulated protein [General function prediction only]
Probab=100.00 E-value=3.5e-82 Score=676.97 Aligned_cols=291 Identities=58% Similarity=0.910 Sum_probs=250.0
Q ss_pred CCCCCccCccCC-CcccccCCCccccCCCCCCCCCCCCCCCccccccCCccccCCCCCCccCCCCC-CccccccccCCCC
Q 006647 250 AQGFMNMNRMYP-NKLYGQYGNTFRSGVGFGSNGYDLRTNGRGWLSVDGKYKSRGRGNGYFGYGNE-NMDGLNELNRGPR 327 (637)
Q Consensus 250 ~~~~~~~~~~yp-~~~y~~~g~~~~~~~~~g~~~~~~~~~~r~w~~~~~k~~~~~~~~~~~~~~~~-~~~~~~e~nrgpr 327 (637)
..+|+ ++++. .+.|+.+..+...+..|+...+.....+|+|..+++..+..+ ........++ ..+.++|+|||||
T Consensus 176 ~~~~~--~~~~~~~~~~g~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~nrg~~ 252 (487)
T KOG1901|consen 176 AQGYY--DQFSSQPGLYGSYQPTGGSGPPYGQSLYANQPKGRSPYGVDNSRPTWG-INYPRLPSDEAGSDSLNEQNRGPR 252 (487)
T ss_pred ccccc--cccccCcccccCccccCCCCCccCcccccccccCCCCcccCCCccccc-ccCCCccccccccccccccccCcc
Confidence 35555 45555 235555555555578899999998899999999987554444 2222223332 3788999999999
Q ss_pred CCCCCCCCCCCCCcccccccccccCCCCcccCCcccCCCCCccCCCCCCCCCCCCceEEEEecCChhHHHHHhhcCeeec
Q 006647 328 AKGAKNQKGSAPNALPVKEQNVLTNGTAEDENDKISLSPDRDEYNKADFPEEYTDAKFFVIKSYSEDDVHKSIKYSVWAS 407 (637)
Q Consensus 328 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~qyN~~~f~~~y~~ARFFIIKS~nedNIhkSIKygVWaS 407 (637)
+...+++.........+...+. .+....++++++||+++|++.+.+||||||||++|||||+||||+|||+
T Consensus 253 s~~~~~~~~~~~~~~~~~~~s~---------~~~~~~~~~~~~yn~~~f~~~~~nAkfFVIKSySEDdVHkSIKY~vWsS 323 (487)
T KOG1901|consen 253 SSDSRGQDINSSGPTEAGSASA---------PESNESVKRRDRYNPPDFLTDYSNAKFFVIKSYSEDDVHKSIKYNVWSS 323 (487)
T ss_pred cccccCccccCCcchhcccccc---------ccccccccChhhcCccccccccccceEEEEeccChhhhhhhcccceeec
Confidence 9999988765543333322111 1112468899999999999999999999999999999999999999999
Q ss_pred CCchHHHHHHHHHHHHhhcCCCCEEEEEEeCCCCCeeEEEEecCCCCCCCCchhhccccCCCccceeEEEeecCCCcccc
Q 006647 408 TPNGNKKLDAAYQEAQQKSRSCPVFLLFSVNTSGQFVGLAEMAGPVDFNKNVEYWQQDKWTGCFPVKWHIVKDVPNSLLK 487 (637)
Q Consensus 408 Tp~nnkKLn~AFrea~~k~~~~pVfLfFSVN~SG~FqG~AeM~SpVDf~ks~d~WqqdKw~G~F~VeWi~vkDVPf~~lr 487 (637)
|.++|||||+||++++.|.++||||||||||+||||||+|||++||||+++++||+||||.|.|+||||+||||||..||
T Consensus 324 T~~GNKkLdaAYreak~~~~~cPvfLfFSVNaSGqFCGvAEMvgPVdfn~~~~~WqQDKW~G~FpVKWhiVKDVPNs~lr 403 (487)
T KOG1901|consen 324 TLNGNKKLDAAYREAKKKSGKCPVFLFFSVNASGQFCGVAEMVGPVDFNKDMEYWQQDKWSGSFPVKWHIVKDVPNSQLR 403 (487)
T ss_pred ccCCchhhHHHHHHhhhccCCCCceEEEEEcCCccccceeeeccceecccccchhhhcccceecceeeEEEeeCCcccee
Confidence 99999999999999998999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccCCCCCCceeecCCCcccchHHHHHHHHHHhcCCCCcccccchhhhHHHHHHHHHHHHHhhh
Q 006647 488 HITLENNENKPVTNSRDTQEIKLEQGLKLIKIFKDHPSKTCILDDFGFYETRQKTIQEKKAKQQQ 552 (637)
Q Consensus 488 HI~N~nNeNKPVt~SRDgQEIe~e~G~qLLkIF~~~~~~tSIlDDF~~Ye~rek~~~~~r~~~~~ 552 (637)
||++++|||||||++||+|||.+++|++||+||+++.++|||||||.|||.||+.|+++|+|+..
T Consensus 404 HI~LeNNeNKPVTnSRDTQEV~leqGievlkIfk~y~~~TSiLDDf~~Ye~rq~~~~~~k~r~~~ 468 (487)
T KOG1901|consen 404 HIILENNENKPVTNSRDTQEVPLEQGIEVLKIFKSYAAKTSILDDFGFYEERQKIIQDKKARQPP 468 (487)
T ss_pred EEEeecCCCCCcccccccceecHHHHHHHHHHHHhhcceeeecccccchHHHHHHhhhcccccCc
Confidence 99999999999999999999999999999999999999999999999999999999999998764
No 2
>PF04146 YTH: YT521-B-like domain; InterPro: IPR007275 A protein of the YTH family has been shown to selectively remove transcripts of meiosis-specific genes expressed in mitotic cells []. It has been speculated that in higher eukaryotic YTH-family members may be involved in similar mechanaisms to suppress gene regulation during gametogenesis or general silencing. The rat protein YT521-B, Q9QY02 from SWISSPROT, is a tyrosine-phosphorylated nuclear protein, that interacts with the nuclear transcriptosomal component scaffold attachment factor B, and the 68kDa Src substrate associated during mitosis, Sam68. In vivo splicing assays demonstrated that YT521-B modulates alternative splice site selection in a concentration-dependent manner []. The domain is predicted to have four alpha helices and six beta strands []. In plant cells environmental stimuli, which light, pathogens, hormones, and abiotic stresses, elicit changes in the cytosolic Ca levels but little is known of the cytosolic-nuclear Ca-signaling pathway; where gene regulation occurs to respond appropriately to the stress. It has been demonstrated that two novel Arabidopsis thaliana (Mouse-ear cress) proteins, (ECT1 and ECT2), specifically associated with Calcineurin B-Like-Interacting Protein Kinase1 (CIPK1), a member of Ser/Thr protein kinases that interact with the calcineurin B-like Ca-binding proteins. These two proteins contain a very similar C-terminal region (180 amino acids in length, 81% similarity), which is required and sufficient for both interaction with CIPK1 and translocation to the nucleus. This domain, the YTH-domain, is conserved across all eukaryotes and suggests that the conserved C-terminal region plays a critical role in relaying the cytosolic Ca-signals to the nucleus, thereby regulating gene expression [].; PDB: 2YUD_A 2YU6_A.
Probab=100.00 E-value=1.1e-48 Score=361.72 Aligned_cols=136 Identities=50% Similarity=0.896 Sum_probs=114.3
Q ss_pred CceEEEEecCChhHHHHHhhcCeeecCCchHHHHHHHHHHHHhhcCCCCEEEEEEeCCCCCeeEEEEecCCCCCCCCchh
Q 006647 382 DAKFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVNTSGQFVGLAEMAGPVDFNKNVEY 461 (637)
Q Consensus 382 ~ARFFIIKS~nedNIhkSIKygVWaSTp~nnkKLn~AFrea~~k~~~~pVfLfFSVN~SG~FqG~AeM~SpVDf~ks~d~ 461 (637)
++|||||||++++|||+|+++|||+|+++++++|++||++++ +||||||||+||+|||||+|+|++|++....+
T Consensus 1 ~~rfFiiKS~~~~ni~~s~~~gvW~t~~~~~~~L~~Af~~~~------~V~L~FSvn~S~~F~G~A~M~s~~~~~~~~~~ 74 (140)
T PF04146_consen 1 NARFFIIKSFNEENIHLSIKYGVWATQPKNEKKLNEAFKESR------NVYLFFSVNGSGHFQGYARMTSPIDPDSPKPF 74 (140)
T ss_dssp --EEEEEEESSCHHHHHHHHCTEEE--CCCHHHHHHHHHHSS-------EEEEEEETTTSEEEEEEEEECECCSSS----
T ss_pred CcEEEEEEECCHHHHHHHHhCCEEcccccchHHHHHHHHhCC------CEEEEEeecCcceEEEEEEEccCCCCcccCcc
Confidence 579999999999999999999999999999999999999984 89999999999999999999999999999999
Q ss_pred hc----cccCCCccceeEEEeecCCCccccccccCCCCCCceeecCCCcccchHHHHHHHHHHhcC
Q 006647 462 WQ----QDKWTGCFPVKWHIVKDVPNSLLKHITLENNENKPVTNSRDTQEIKLEQGLKLIKIFKDH 523 (637)
Q Consensus 462 Wq----qdKw~G~F~VeWi~vkDVPf~~lrHI~N~nNeNKPVt~SRDgQEIe~e~G~qLLkIF~~~ 523 (637)
|. ..+|+|.|+|+||++++|||+.++||+|++||||||+++||||||++++|++||+||+++
T Consensus 75 w~~~~~~~~~~g~F~v~Wl~~~~lpf~~~~hl~n~~n~~~pV~~~rDgqEi~~~~G~~l~~~f~~~ 140 (140)
T PF04146_consen 75 WQQDSSSSKWGGPFRVEWLRVKDLPFSKLRHLRNPLNENKPVKISRDGQEIEPEIGEQLLKIFDNQ 140 (140)
T ss_dssp --SS-SGCGG-SEEEEEEEE-S-EEHHHHTT-EETTTTTEETTS--TTEEE-CCHHHHHHHHCGT-
T ss_pred ccccccccccCCceEEEEEECCcCChHHhcccccccCCCcEEEECCCCEEeCHHHHHHHHHHHhhC
Confidence 95 469999999999999999999999999999999999999999999999999999999863
No 3
>KOG1902 consensus Putative signal transduction protein involved in RNA splicing [Signal transduction mechanisms; RNA processing and modification]
Probab=100.00 E-value=2.5e-41 Score=348.37 Aligned_cols=149 Identities=36% Similarity=0.624 Sum_probs=138.4
Q ss_pred ccCCCCCCCCCCCCceEEEEecCChhHHHHHhhcCeeecCCchHHHHHHHHHHHHhhcCCCCEEEEEEeCCCCCeeEEEE
Q 006647 369 DEYNKADFPEEYTDAKFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVNTSGQFVGLAE 448 (637)
Q Consensus 369 ~qyN~~~f~~~y~~ARFFIIKS~nedNIhkSIKygVWaSTp~nnkKLn~AFrea~~k~~~~pVfLfFSVN~SG~FqG~Ae 448 (637)
+++++...+. ..+|||||||.|.+||.+|++.|||+||+.|++||+.||+++. .||||||||.||||||||+
T Consensus 60 ~~~~~ss~~~--~~~rYFIiKS~N~eN~elSvqkGiWaTq~sNE~kLn~AF~~s~------~ViLIFSVn~SghFQG~Ar 131 (441)
T KOG1902|consen 60 DQTSKLKYVL--QDARYFIIKSNNHENVELSVQKGVWSTQPSNEKKLNLAFRSSR------SVILIFSVNESGHFQGFAR 131 (441)
T ss_pred hhcccccccC--CceEEEEEecCCccceeeehhcceeccccccHHHHHHHHhhcC------cEEEEEEecccccchhhhh
Confidence 5666655544 6789999999999999999999999999999999999999984 8999999999999999999
Q ss_pred ecCCCCCCCCchhhcc-----ccCCCccceeEEEeecCCCccccccccCCCCCCceeecCCCcccchHHHHHHHHHHhcC
Q 006647 449 MAGPVDFNKNVEYWQQ-----DKWTGCFPVKWHIVKDVPNSLLKHITLENNENKPVTNSRDTQEIKLEQGLKLIKIFKDH 523 (637)
Q Consensus 449 M~SpVDf~ks~d~Wqq-----dKw~G~F~VeWi~vkDVPf~~lrHI~N~nNeNKPVt~SRDgQEIe~e~G~qLLkIF~~~ 523 (637)
|+|+|...++...|.+ ..|++.|+||||++++|||.++.||+|+|||||||++|||||||++++|+|||.|+...
T Consensus 132 MsS~IG~~~~q~~W~~~~G~~a~~G~~FkVkWiRl~eLpFqkt~hL~NP~NdnkpVKISRD~QELep~VGEqL~~Ll~~~ 211 (441)
T KOG1902|consen 132 MSSEIGHGGSQIHWVLPAGMSAMLGGVFKVKWIRLRELPFQKTAHLTNPWNENKPVKISRDGQELEPEVGEQLCLLLPPD 211 (441)
T ss_pred hcchhccCCCCccccccCCcccccCceeeEeEEeeccccchhhhhcCCcccccCceeecccccccChhHHHHHHHhcCCC
Confidence 9999998888877865 67999999999999999999999999999999999999999999999999999999876
Q ss_pred CC
Q 006647 524 PS 525 (637)
Q Consensus 524 ~~ 525 (637)
++
T Consensus 212 p~ 213 (441)
T KOG1902|consen 212 PS 213 (441)
T ss_pred cc
Confidence 64
No 4
>PRK00809 hypothetical protein; Provisional
Probab=94.14 E-value=0.2 Score=47.90 Aligned_cols=122 Identities=11% Similarity=0.156 Sum_probs=74.8
Q ss_pred eEEEEecCChhHHHHHhhcCeeecCCchHHHHHHHHHHHHhhcCCCCEEEEEEeC------CCCCeeEEEEecCCCCCCC
Q 006647 384 KFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVN------TSGQFVGLAEMAGPVDFNK 457 (637)
Q Consensus 384 RFFIIKS~nedNIhkSIKygVWaSTp~nnkKLn~AFrea~~k~~~~pVfLfFSVN------~SG~FqG~AeM~SpVDf~k 457 (637)
+|+|+=+ |+||+.+..+.|||-.....-.-|.+ . ..+..+||++-+ .-..|.|+|++++..-.+.
T Consensus 2 ~yWi~~~-~~~~~~~~~~~gv~g~~~~~rn~lr~----M----k~GD~v~fYhs~~~~~~~~~~~ivgi~eV~~~~y~D~ 72 (144)
T PRK00809 2 TYWLCIT-NEDNWEVIKDKNVWGVPERYKNTIEK----V----KPGDKLIIYVSQEYGAERLPGKIVGIYEVVSEWYEDS 72 (144)
T ss_pred ceEEEec-CHHHHHHHHhCCEeecchhhhhHHhh----C----CCCCEEEEEECCccCCCCCCceEEEEEEEecCcccCC
Confidence 5777666 99999999999999996442222221 1 235788888887 4789999999998752222
Q ss_pred Cchhhc------cccCCCccceeEEEeec--CCCcccc----ccccCCCCCCce-eecCCCcccchHHHHHHH
Q 006647 458 NVEYWQ------QDKWTGCFPVKWHIVKD--VPNSLLK----HITLENNENKPV-TNSRDTQEIKLEQGLKLI 517 (637)
Q Consensus 458 s~d~Wq------qdKw~G~F~VeWi~vkD--VPf~~lr----HI~N~nNeNKPV-t~SRDgQEIe~e~G~qLL 517 (637)
+ .+|. .+.+--..+|+++.+.+ ||.+.|. -|++.-.=...+ ..++ .||..+....|+
T Consensus 73 t-~~~p~~~~~~~~~~p~rvdV~~~~~~~~~v~l~~L~~~L~fik~~~~w~~~l~R~~~--~~I~~~d~~~I~ 142 (144)
T PRK00809 73 T-PIFPAEPVRPKEIYPYRVKLKPVKIFEEPIDFKPLIPKLKFIENKKQWSGHLRNRAM--RPIPEEDYKLIE 142 (144)
T ss_pred c-cCCCccccCCCCCceEEEEEEEeeecCCcccHHHHHhhhhhhhcccccchhhhcCCC--ccCCHHHHHHHh
Confidence 2 2332 12222467899998877 7766551 112211101222 4555 777777665554
No 5
>PF01878 EVE: EVE domain; InterPro: IPR002740 The EVE domain is part of the wider PUA domain superfamily. The function of this domain is not known but, given the structural similarities to PUA, is likely to involve RNA binding []. ; PDB: 2G2X_B 2AR1_A 3EOP_A 2EVE_A 2HD9_A 2ZBN_A 1WMM_A 2P5D_A 2GBS_A 1ZCE_A.
Probab=81.69 E-value=3.3 Score=38.49 Aligned_cols=128 Identities=14% Similarity=0.209 Sum_probs=63.6
Q ss_pred eEEEEecC----ChhHHHHHhhcCeeecCCchHHHHHHHHHHHHhhcCCCCEEEEEEeC-CCCCeeEEEEecCCCCCC--
Q 006647 384 KFFVIKSY----SEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVN-TSGQFVGLAEMAGPVDFN-- 456 (637)
Q Consensus 384 RFFIIKS~----nedNIhkSIKygVWaSTp~nnkKLn~AFrea~~k~~~~pVfLfFSVN-~SG~FqG~AeM~SpVDf~-- 456 (637)
+|+|+|+. +-+++ .-.+..+|.-..+...+- .+++.+ .+.-+||+.-+ ..+.|.|+|+.++..-.+
T Consensus 1 ~YWl~~~~P~~~~~~~~-~~~~~~~~~gv~~~~~~~--~l~~mk----~GD~vifY~s~~~~~~ivai~~V~~~~~~d~~ 73 (143)
T PF01878_consen 1 RYWLLKANPENFSIDDL-EHWGVTVWDGVRNYQARK--NLKRMK----PGDKVIFYHSGCKERGIVAIGEVVSEPYPDPT 73 (143)
T ss_dssp -EEEEEEBTTTSHHHHH-HHHSEEECHTEEEHHHHH--HHHC------TT-EEEEEETSSSS-EEEEEEEEEEEEEE-GG
T ss_pred CEEEEEeCCcccCHHHh-cccceEEEcCEeehhhhh--hhhcCC----CCCEEEEEEcCCCCCEEEEEEEEeccccCCCc
Confidence 58999998 76666 445555565443322221 445442 34677777777 689999999999864221
Q ss_pred ---CCchhhcccc--CCCccceeEEEeec--CCCccccccccCCCCCCceeec-CCCcccchHHHHHHHHH
Q 006647 457 ---KNVEYWQQDK--WTGCFPVKWHIVKD--VPNSLLKHITLENNENKPVTNS-RDTQEIKLEQGLKLIKI 519 (637)
Q Consensus 457 ---ks~d~WqqdK--w~G~F~VeWi~vkD--VPf~~lrHI~N~nNeNKPVt~S-RDgQEIe~e~G~qLLkI 519 (637)
....++.... .....+|+++..-+ |+...|+.. ..+.+-.-++.. .--.+|..+.-..|+++
T Consensus 74 ~~~~~~~~~~~~~~~~~~~v~v~~~~~~~~pi~l~~Lk~~-~~l~~l~~i~~~r~s~~~it~~~~~~I~~~ 143 (143)
T PF01878_consen 74 AFDPDSPYYDPKSNPKPYRVDVEYVKIFEKPIPLKELKAE-PELENLSFIRNKRLSVFPITEEDFEAIMEM 143 (143)
T ss_dssp GTSTTSTTBTTTSCSSSEEEEEEEEEEEEEEEEHHHHHC--GGGTTSHHHHTTT-SEEEE-HHHHHHHHHH
T ss_pred cccccccCcCCccCCCeeEEEEEEEEecCCCcCHHHHhcC-CccccChhhhcCCcCeEEECHHHHHHHHhC
Confidence 1112222111 22356788886544 444555432 111111112222 23456666666666653
No 6
>PF03875 Statherin: Statherin; InterPro: IPR005575 Statherin functions biologically to inhibit the nucleation and growth of calcium phosphate minerals. The N terminus of statherin is highly charged, the glutamic acids of which have been shown to be important in the recognition hydroxyapatite [].
Probab=46.09 E-value=20 Score=28.24 Aligned_cols=27 Identities=48% Similarity=0.899 Sum_probs=14.4
Q ss_pred CCCCCCCCCCCCCCCCcCCCCCccccCCCCCCCCCCCC
Q 006647 56 GYAPYPPYSPATSPVPTMGTDGQLYGPQHYQYPHYFQP 93 (637)
Q Consensus 56 gy~pYg~Ysp~~sP~p~~g~DgQlyg~q~y~yp~yyq~ 93 (637)
+|.-|||| -|+|-- -|| +|.|| |+||+
T Consensus 15 ~~grygpy----qp~peq----~ly-pqpyq--p~yqq 41 (42)
T PF03875_consen 15 FYGRYGPY----QPFPEQ----PLY-PQPYQ--PPYQQ 41 (42)
T ss_pred cccccCCc----CCCCCC----cCC-CCCCC--Ccccc
Confidence 34446777 555542 266 67655 34543
No 7
>PRK02268 hypothetical protein; Provisional
Probab=43.49 E-value=1.2e+02 Score=29.66 Aligned_cols=122 Identities=10% Similarity=0.129 Sum_probs=70.4
Q ss_pred eEEEEecCChhHHHHHhhcCeeecCCchHH-HHHHHHHHHHhhcCCCCEEEEEEeC-------CCCCeeEEEEecCCCCC
Q 006647 384 KFFVIKSYSEDDVHKSIKYSVWASTPNGNK-KLDAAYQEAQQKSRSCPVFLLFSVN-------TSGQFVGLAEMAGPVDF 455 (637)
Q Consensus 384 RFFIIKS~nedNIhkSIKygVWaSTp~nnk-KLn~AFrea~~k~~~~pVfLfFSVN-------~SG~FqG~AeM~SpVDf 455 (637)
+|.| =.-|+|++.+.++.|+|-.- |+.+ -|.+ - ..+.-+|++|=. .=..|.+++++++.--+
T Consensus 3 ~yWI-~v~s~~hv~~g~~~gf~qv~-hgK~apl~R----m----kpGD~ivyYsp~~~~~~~~~~qaftAig~V~~~~~Y 72 (141)
T PRK02268 3 RYWI-GVVSAEHVRRGVEGGFMQVC-HGKAAPLRR----M----KPGDWIIYYSPKTTFGGKDKLQAFTAIGKVKDDEPY 72 (141)
T ss_pred ceEE-EEccHHHHHHHHhCCEEEeC-CCccchhhc----C----CCCCEEEEEeceEecCCCcccceEEEEEEEcCCceE
Confidence 4443 35679999999999999774 4333 2221 1 234677777722 34689999999986322
Q ss_pred CCCchhhccccCC-CccceeEEEeecCCCccc----cccccCCCCCCceeecCCCcccchHHHHHHHHHHh
Q 006647 456 NKNVEYWQQDKWT-GCFPVKWHIVKDVPNSLL----KHITLENNENKPVTNSRDTQEIKLEQGLKLIKIFK 521 (637)
Q Consensus 456 ~ks~d~WqqdKw~-G~F~VeWi~vkDVPf~~l----rHI~N~nNeNKPVt~SRDgQEIe~e~G~qLLkIF~ 521 (637)
...+. ..|. =.++|+|+.+.++|++-| ++|++.-+=.... -.---||+.+..+.+.+.+.
T Consensus 73 q~~m~----~~f~P~Rr~v~~~~~~e~pi~pLi~~L~Fi~~k~~Wg~~f--r~g~~eI~e~Df~~I~~am~ 137 (141)
T PRK02268 73 QVEMA----PGFIPWRRDVDYYPCAETPIRPLLDHLDFTEDRKNWGYQF--RFGHFEISKHDFETIASAMT 137 (141)
T ss_pred ecccC----CCceeEEEEeeEeecCccchHHhhcccceeeCcchhhHhh--cCCcEecCHHHHHHHHHHhc
Confidence 21110 1111 136799999999998744 4444432222222 11236777666666655543
No 8
>KOG0260 consensus RNA polymerase II, large subunit [Transcription]
Probab=34.58 E-value=1.2e+03 Score=30.62 Aligned_cols=31 Identities=19% Similarity=0.154 Sum_probs=15.4
Q ss_pred eeecCCCccee-ccCCCCCCCCCCCCCCCCCCcC
Q 006647 41 GVYGDNGSLMY-HHGYGYAPYPPYSPATSPVPTM 73 (637)
Q Consensus 41 gvy~dn~Sl~y-~~Gygy~pYg~Ysp~~sP~p~~ 73 (637)
-|+.|-..+++ +... +||.-.+-++||.+..
T Consensus 1415 d~~ld~e~l~~~~~~~--~p~~~~~~~~sp~~s~ 1446 (1605)
T KOG0260|consen 1415 DLMLDAEKLKKGIEIP--MPWSNMSSPASPGSSY 1446 (1605)
T ss_pred eeeccHHhhhccCccC--CcccccCCCCCCCCCC
Confidence 35556555554 2222 3555455555666553
No 9
>PF10539 Dev_Cell_Death: Development and cell death domain; InterPro: IPR013989 The DCD (Development and Cell Death) domain is found in plant proteins involved in development and cell death. The DCD domain is an ~130 amino acid long stretch that contains several mostly invariable motifs. These include a FGLP and a LFL motif at the N terminus and a PAQV and a PLxE motif towards the C terminus of the domain. The DCD domain is present in proteins with different architectures. Some of these proteins contain additional recognizable motifs, like the KELCH repeats or the ParB domain []. Biological studies indicate a role of these proteins in phytohormone response, embryo development and programmed cell death by pathogens or ozone. The predicted secondary structure of the DCD domain is mostly composed of beta strands and confined by an alpha-helix at the N- and at the C terminus []. Proteins known to contain a DCD domain are listed below: Carrot B2 protein. Pea Gda-1 protein. Soybean N-rich protein (NRP).
Probab=33.33 E-value=83 Score=30.45 Aligned_cols=116 Identities=16% Similarity=0.272 Sum_probs=77.3
Q ss_pred CChhHHHHHhhcCeeecCCchHHHHHHHHHHHHhhcCCCCEEEEEEeCCCCCeeEEEEecCCCCCCCCchhhcccc----
Q 006647 391 YSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVNTSGQFVGLAEMAGPVDFNKNVEYWQQDK---- 466 (637)
Q Consensus 391 ~nedNIhkSIKygVWaSTp~nnkKLn~AFrea~~k~~~~pVfLfFSVN~SG~FqG~AeM~SpVDf~ks~d~WqqdK---- 466 (637)
+|.+-+....++.+.-....... |-+. ...+-++|||= -..++..|+=|-+|.-..+....-|..+.
T Consensus 8 Cn~~T~~ECf~~~lFGLP~~~~~-----~V~~--I~pG~~LFLfn--~~~r~L~GifeA~S~G~~ni~p~Af~~~~~~~~ 78 (130)
T PF10539_consen 8 CNNKTKPECFRRQLFGLPAGHKD-----FVKK--IKPGMPLFLFN--YSDRKLYGIFEATSDGGMNIEPYAFSGSGSGES 78 (130)
T ss_pred ECCCCHHHHHhcccccCChhhhh-----HHhe--eCCCCEEEEEE--cCCCEEEEEEEecCCCccCcChhhhCCCCCCCc
Confidence 34445666777777777654222 1111 12345677642 36789999999999877777777787633
Q ss_pred -C--CCccceeEEEeecCCCccccccccCCCCCCceeecCCCcccchHHHHHHHHHH
Q 006647 467 -W--TGCFPVKWHIVKDVPNSLLKHITLENNENKPVTNSRDTQEIKLEQGLKLIKIF 520 (637)
Q Consensus 467 -w--~G~F~VeWi~vkDVPf~~lrHI~N~nNeNKPVt~SRDgQEIe~e~G~qLLkIF 520 (637)
+ .=.|.|.| .+..||-+.++|++-+|-.++ .+=-.||...+...||.||
T Consensus 79 ~fPAQVrf~i~~-~C~PL~E~~fk~aI~~Ny~~~----~kF~~eLs~~Qv~~L~~LF 130 (130)
T PF10539_consen 79 PFPAQVRFRIRW-DCPPLPESQFKPAIKDNYYDK----NKFRFELSHQQVRKLLSLF 130 (130)
T ss_pred ccceEEEEEEee-eeecCCHHHHHHHHHHhCCCC----CcccCcCCHHHHHHHHHhC
Confidence 2 22577777 566899999999985542221 2446899999999999987
No 10
>PF10200 Ndufs5: NADH:ubiquinone oxidoreductase, NDUFS5-15kDa; InterPro: IPR019342 Proteins in this entry form part of the NADH:ubiquinone oxidoreductase complex I. Complex I is the first multisubunit inner membrane protein complex of the mitochondrial electron transport chain and it transfers two electrons from NADH to ubiquinone. The mammalian complex I is composed of 45 different subunits. The proteins in this entry represent a component of the iron-sulphur (IP) fragment of the enzyme, that is not involved in catalysis. These proteins carry four highly conserved cysteine residues, but these do not appear to be in a configuration which would favour metal binding, so the exact function of the protein is uncertain [].
Probab=14.92 E-value=1.6e+02 Score=27.24 Aligned_cols=35 Identities=29% Similarity=0.304 Sum_probs=0.0
Q ss_pred cccchhhhHHHHHHHHHHHHHhhhhhHHhhcCCCh
Q 006647 529 ILDDFGFYETRQKTIQEKKAKQQQFQKQVWEGKPA 563 (637)
Q Consensus 529 IlDDF~~Ye~rek~~~~~r~~~~~~~~~~~~~~~~ 563 (637)
++|||.-==-+.|+++..++-+++..|++.+|+-+
T Consensus 59 e~EDy~EClh~~Ke~~R~~aI~kqR~K~~keGk~t 93 (96)
T PF10200_consen 59 ELEDYYECLHHTKEMKRMRAIRKQRDKQIKEGKYT 93 (96)
T ss_pred HHhHHHHHHhhHHHHHHHHHHHHHHHHHHHccCCC
Done!