Query 005184
Match_columns 710
No_of_seqs 200 out of 365
Neff 3.7
Searched_HMMs 46136
Date Thu Mar 28 19:26:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005184.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005184hhsearch_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 4.9E-83 1.1E-87 691.0 33.9 459 93-625 3-468 (487)
2 PF04146 YTH: YT521-B-like dom 100.0 3E-48 6.6E-53 363.3 9.0 136 455-596 1-140 (140)
3 KOG1902 Putative signal transd 100.0 6.5E-41 1.4E-45 348.7 11.7 149 442-598 60-213 (441)
4 PRK00809 hypothetical protein; 94.3 0.18 4E-06 48.8 8.0 122 457-590 2-142 (144)
5 PF01878 EVE: EVE domain; Int 82.3 3.2 6.9E-05 39.1 5.9 128 457-592 1-143 (143)
6 PF03875 Statherin: Statherin; 43.0 24 0.00051 28.2 2.5 28 128-166 14-41 (42)
7 PRK02268 hypothetical protein; 42.2 1.3E+02 0.0028 29.8 8.0 122 457-594 3-137 (141)
8 PF10539 Dev_Cell_Death: Devel 33.4 84 0.0018 30.8 5.2 116 464-593 8-130 (130)
9 KOG0260 RNA polymerase II, lar 24.6 1.8E+03 0.039 29.5 15.7 6 9-14 1376-1381(1605)
10 smart00767 DCD DCD is a plant 18.5 2.8E+02 0.006 27.5 5.7 84 506-594 43-131 (132)
No 1
>KOG1901 consensus Uncharacterized high-glucose-regulated protein [General function prediction only]
Probab=100.00 E-value=4.9e-83 Score=691.00 Aligned_cols=459 Identities=44% Similarity=0.660 Sum_probs=328.8
Q ss_pred CCCCCCcccccccCCCCccccccccCCCccee-ccCCCC--CCCCCCCCCCCCCCcCCCCCccccCCCCCCC-CCCCCCC
Q 005184 93 NVGEWDDYTRYVSQDGVDMTSVMYGDNGSLMY-HHGYGY--APYPPYSPATSPVPTMGTDGQLYGPQHYQYP-HYFQPIT 168 (710)
Q Consensus 93 ~~~~W~~y~~Yvn~dg~e~~~~vy~dn~Sl~y-~~Gygy--~pYg~Ysp~~sP~p~~g~DgQly~~q~y~yp-~yyq~~~ 168 (710)
.+.+ ++|+-|.|.|++. ++++.+.+.+++. ...+++ .||.|+++ .++++|.|++++.+|++++. ++|-
T Consensus 3 ~~~~-~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~---~~~~l~~~~~~~~~~~~~~~~~~~~--- 74 (487)
T KOG1901|consen 3 SGLY-TDYGVVSNSESVQ-PDGGQGQESANTSYPTSLGYHSFPYNPSSY---AASSLGSDGSLGEPQQNPLYSPSYG--- 74 (487)
T ss_pred CCCc-CCccccccCcccc-cCCccCCCcccccCCccccccCCCCCCCcc---cccCCCCCccccccccccccCCCcC---
Confidence 4456 8999999999943 4455555555544 333333 23444433 34588999999999999997 5554
Q ss_pred CCCCCCCCCCCCCCCCCCCCCccCCCCCCcccccCCCCCCcccCCCccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 005184 169 PTSSPYSPSPVAPTPGDIPTSVAADQKPLPVESTNGKSNGVANAGGVKGNNGSAPFKPTYQPFNSNNTYGRGSLPGRGPA 248 (710)
Q Consensus 169 ~~~~~y~~s~~~~~q~e~~~~~~~~~~~~~~~~~~~n~~~~~~~g~~~~~~~~~~~~p~~~~~~~~gsyg~g~~~~~~p~ 248 (710)
+...|+........++++....... ...+..+. +. +.+..|... ..+.++ ..-+.+.|.
T Consensus 75 ~~s~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~------------~~--~~~~~p~~~---~~~~~~-~~~~~~~~~ 133 (487)
T KOG1901|consen 75 PVSLPTASTSGSSTFSNLTLRKAPG---FSSSGPKQ------------GG--SMPSDPRGS---AQRNSS-ISASPGYPP 133 (487)
T ss_pred cccCccccccCcccccchhhhcccc---cccccccc------------Cc--CCCCCCccc---cccccc-ccCCCCCCC
Confidence 2223333333333344443322221 01111111 10 122222221 111121 122223444
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCccCCCCCCCCCcccccccccCCcccCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCC
Q 005184 249 SGYQDPRCNLDGMRSPIPWLDGPVISDARPVASNTFNSSISNVNNVASSRNQNYRPNSHYMGLHHPRPMSGMG-AAQGFM 327 (710)
Q Consensus 249 ~gy~~~~~~~~g~~~~~~w~d~~~~s~~~~~~~~~~s~s~~~~~~~~~~~nq~~~~~~~~~~~~~~~~~~~~~-~~~~~~ 327 (710)
.+|.+|++.++..... +..++..+.+++.+....+.+.++ ...+|+
T Consensus 134 ~~~~~P~~~~~~~~~~---------------------------------~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~ 180 (487)
T KOG1901|consen 134 LPYSAPKFASDLIPGK---------------------------------PPPPISGNTGPPTPDSKGPVSSSGHNAQGYY 180 (487)
T ss_pred cccCCCccccccccCC---------------------------------CCCCccccCCCCCcccCCcccCCcccccccc
Confidence 5777777666541100 112222223333333344444433 345666
Q ss_pred ccCccCC-CccccCCCCccccCCCCCCCCCCCCCCCccccccCCccccCCCCCCccCCCC-CCccccccccCCCCCCCCC
Q 005184 328 NMNRMYP-NKLYGQYGNTFRSGVGFGSNGYDLRTNGRGWLSVDGKYKSRGRGNGYFGYGN-ENMDGLNELNRGPRAKGAK 405 (710)
Q Consensus 328 ~~~~~y~-~~~y~~~g~~~~~~~~~g~~~~~~~~~~r~w~~~~~k~~~~~~~~~~~~~~~-~~~d~~~e~nrgpr~~~~~ 405 (710)
+.++. .+.|+.+..+...+..|+...+.....+|+|..+++..+..+.. ......+ ...+.++|+|||||+...+
T Consensus 181 --~~~~~~~~~~g~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~nrg~~s~~~~ 257 (487)
T KOG1901|consen 181 --DQFSSQPGLYGSYQPTGGSGPPYGQSLYANQPKGRSPYGVDNSRPTWGIN-YPRLPSDEAGSDSLNEQNRGPRSSDSR 257 (487)
T ss_pred --cccccCcccccCccccCCCCCccCcccccccccCCCCcccCCCccccccc-CCCccccccccccccccccCccccccc
Confidence 55555 34566666555668889999999889999999999765544422 2222333 2378899999999999999
Q ss_pred CCCCCCCCcccccccccccCCCCcccCCcccCCCCcccCCCCCCCCCCCCceEEEEecCChhHHHHHhhcCeeecCCchh
Q 005184 406 NQKGSAPNALPVKEQNVLTNGTAEDENDKISLSPDRDEYNKADFPEEYTDAKFFVIKSYSEDDVHKSIKYSVWASTPNGN 485 (710)
Q Consensus 406 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~qyN~~df~~~y~~ARFFIIKS~nedNIhkSIKyGVWaTTp~nn 485 (710)
++.........+...+.+ +...+++++++||+++|...|.++|||||||++|||||+||||+|||+|+++|
T Consensus 258 ~~~~~~~~~~~~~~~s~~---------~~~~~~~~~~~yn~~~f~~~~~nAkfFVIKSySEDdVHkSIKY~vWsST~~GN 328 (487)
T KOG1901|consen 258 GQDINSSGPTEAGSASAP---------ESNESVKRRDRYNPPDFLTDYSNAKFFVIKSYSEDDVHKSIKYNVWSSTLNGN 328 (487)
T ss_pred CccccCCcchhccccccc---------cccccccChhhcCccccccccccceEEEEeccChhhhhhhcccceeecccCCc
Confidence 887555433333221111 11256889999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhhcCCCCEEEEEEeCCCCCeeEEEEecCCCCCCCCchhhccccCcCccceeEEEeecCCCccccccccC
Q 005184 486 KKLDAAYQEAQQKSRSCPVFLLFSVNTSGQFVGLAEMAGPVDFNKNVEYWQQDKWTGCFPVKWHIVKDVPNSLLKHITLE 565 (710)
Q Consensus 486 kKLd~AFrea~ek~~~~pVfLfFSVN~SG~FqG~AeM~SpVDf~ks~d~WqqdKw~G~F~VkWi~VkDVPf~~lrHI~N~ 565 (710)
||||+|||+++.+.++||||||||||+||||||+|||++||||+++++|||||||.|.|+||||+||||||..||||+++
T Consensus 329 KkLdaAYreak~~~~~cPvfLfFSVNaSGqFCGvAEMvgPVdfn~~~~~WqQDKW~G~FpVKWhiVKDVPNs~lrHI~Le 408 (487)
T KOG1901|consen 329 KKLDAAYREAKKKSGKCPVFLFFSVNASGQFCGVAEMVGPVDFNKDMEYWQQDKWSGSFPVKWHIVKDVPNSQLRHIILE 408 (487)
T ss_pred hhhHHHHHHhhhccCCCCceEEEEEcCCccccceeeeccceecccccchhhhcccceecceeeEEEeeCCccceeEEEee
Confidence 99999999999889999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCceeecCCCcccchHHHHHHHHHHhcCCCCcccccchhhhHHHHHHHHHHHHHhhh
Q 005184 566 NNENKPVTNSRDTQEIKLEQGLKLIKIFKDHPSKTCILDDFGFYETRQKTIQEKKAKQQQ 625 (710)
Q Consensus 566 ~NENKPVt~SRDgQEIe~e~G~qLLkIF~~~~~~tSILDDF~~Ye~rek~~~e~r~~~~~ 625 (710)
+|||||||++||+|||.+++|++||+||+++.++|||||||.|||.||+.|+++|+|++.
T Consensus 409 NNeNKPVTnSRDTQEV~leqGievlkIfk~y~~~TSiLDDf~~Ye~rq~~~~~~k~r~~~ 468 (487)
T KOG1901|consen 409 NNENKPVTNSRDTQEVPLEQGIEVLKIFKSYAAKTSILDDFGFYEERQKIIQDKKARQPP 468 (487)
T ss_pred cCCCCCcccccccceecHHHHHHHHHHHHhhcceeeecccccchHHHHHHhhhcccccCc
Confidence 999999999999999999999999999999999999999999999999999999998864
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=3e-48 Score=363.28 Aligned_cols=136 Identities=50% Similarity=0.887 Sum_probs=114.2
Q ss_pred CceEEEEecCChhHHHHHhhcCeeecCCchhHHHHHHHHHHHhhcCCCCEEEEEEeCCCCCeeEEEEecCCCCCCCCchh
Q 005184 455 DAKFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVNTSGQFVGLAEMAGPVDFNKNVEY 534 (710)
Q Consensus 455 ~ARFFIIKS~nedNIhkSIKyGVWaTTp~nnkKLd~AFrea~ek~~~~pVfLfFSVN~SG~FqG~AeM~SpVDf~ks~d~ 534 (710)
++|||||||+|++|||+|+++|||+|+++++++|++||+++ ++||||||||+||+|||||+|+|+++++....+
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 NARFFIIKSFNEENIHLSIKYGVWATQPKNEKKLNEAFKES------RNVYLFFSVNGSGHFQGYARMTSPIDPDSPKPF 74 (140)
T ss_dssp --EEEEEEESSCHHHHHHHHCTEEE--CCCHHHHHHHHHHS------S-EEEEEEETTTSEEEEEEEEECECCSSS----
T ss_pred CcEEEEEEECCHHHHHHHHhCCEEcccccchHHHHHHHHhC------CCEEEEEeecCcceEEEEEEEccCCCCcccCcc
Confidence 57999999999999999999999999999999999999998 389999999999999999999999999998999
Q ss_pred hc----cccCcCccceeEEEeecCCCccccccccCCCCCCceeecCCCcccchHHHHHHHHHHhcC
Q 005184 535 WQ----QDKWTGCFPVKWHIVKDVPNSLLKHITLENNENKPVTNSRDTQEIKLEQGLKLIKIFKDH 596 (710)
Q Consensus 535 Wq----qdKw~G~F~VkWi~VkDVPf~~lrHI~N~~NENKPVt~SRDgQEIe~e~G~qLLkIF~~~ 596 (710)
|. ..+|+|.|+|+||++++|||+.++||+|++||||||+++||||||++++|++||+||+++
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 369999999999999999999999999999999999999999999999999999999864
No 3
>KOG1902 consensus Putative signal transduction protein involved in RNA splicing [Signal transduction mechanisms; RNA processing and modification]
Probab=100.00 E-value=6.5e-41 Score=348.69 Aligned_cols=149 Identities=36% Similarity=0.615 Sum_probs=138.2
Q ss_pred ccCCCCCCCCCCCCceEEEEecCChhHHHHHhhcCeeecCCchhHHHHHHHHHHHhhcCCCCEEEEEEeCCCCCeeEEEE
Q 005184 442 DEYNKADFPEEYTDAKFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVNTSGQFVGLAE 521 (710)
Q Consensus 442 ~qyN~~df~~~y~~ARFFIIKS~nedNIhkSIKyGVWaTTp~nnkKLd~AFrea~ek~~~~pVfLfFSVN~SG~FqG~Ae 521 (710)
+++++...+. ..+|||||||.|.+||.+|++.|||+||+.|++||+.||+++ ..||||||||.||||||||+
T Consensus 60 ~~~~~ss~~~--~~~rYFIiKS~N~eN~elSvqkGiWaTq~sNE~kLn~AF~~s------~~ViLIFSVn~SghFQG~Ar 131 (441)
T KOG1902|consen 60 DQTSKLKYVL--QDARYFIIKSNNHENVELSVQKGVWSTQPSNEKKLNLAFRSS------RSVILIFSVNESGHFQGFAR 131 (441)
T ss_pred hhcccccccC--CceEEEEEecCCccceeeehhcceeccccccHHHHHHHHhhc------CcEEEEEEecccccchhhhh
Confidence 5666655554 688999999999999999999999999999999999999998 48999999999999999999
Q ss_pred ecCCCCCCCCchhhcc-----ccCcCccceeEEEeecCCCccccccccCCCCCCceeecCCCcccchHHHHHHHHHHhcC
Q 005184 522 MAGPVDFNKNVEYWQQ-----DKWTGCFPVKWHIVKDVPNSLLKHITLENNENKPVTNSRDTQEIKLEQGLKLIKIFKDH 596 (710)
Q Consensus 522 M~SpVDf~ks~d~Wqq-----dKw~G~F~VkWi~VkDVPf~~lrHI~N~~NENKPVt~SRDgQEIe~e~G~qLLkIF~~~ 596 (710)
|+|+|...+.-..|.+ ..|++.|+||||+++.|||.++.||+|+|||||||++|||||||++++|+|||.|+...
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 9999998888777865 57999999999999999999999999999999999999999999999999999999876
Q ss_pred CC
Q 005184 597 PS 598 (710)
Q Consensus 597 ~~ 598 (710)
++
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=94.31 E-value=0.18 Score=48.85 Aligned_cols=122 Identities=11% Similarity=0.158 Sum_probs=74.6
Q ss_pred eEEEEecCChhHHHHHhhcCeeecCCchhHHHHHHHHHHHhhcCCCCEEEEEEeC------CCCCeeEEEEecCCCCCCC
Q 005184 457 KFFVIKSYSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVN------TSGQFVGLAEMAGPVDFNK 530 (710)
Q Consensus 457 RFFIIKS~nedNIhkSIKyGVWaTTp~nnkKLd~AFrea~ek~~~~pVfLfFSVN------~SG~FqG~AeM~SpVDf~k 530 (710)
+|+|+=+ |+||+.+....|||-.....-.-|.+ . .....+||++-+ .-..|.|+|++++..-.+.
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 6777766 99999999999999996442222221 1 134788888887 5789999999998752222
Q ss_pred Cchhhc------cccCcCccceeEEEeec--CCCcccc-c---cccCCCCCCce-eecCCCcccchHHHHHHH
Q 005184 531 NVEYWQ------QDKWTGCFPVKWHIVKD--VPNSLLK-H---ITLENNENKPV-TNSRDTQEIKLEQGLKLI 590 (710)
Q Consensus 531 s~d~Wq------qdKw~G~F~VkWi~VkD--VPf~~lr-H---I~N~~NENKPV-t~SRDgQEIe~e~G~qLL 590 (710)
+ .+|. .+.+--..+|+++.+.+ ||.+.|. + |++.-.=...+ ..+| .||..+....|+
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 1 2332 12222467899998877 7766551 1 12211101222 4555 777766665554
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=82.28 E-value=3.2 Score=39.13 Aligned_cols=128 Identities=14% Similarity=0.209 Sum_probs=62.4
Q ss_pred eEEEEecC----ChhHHHHHhhcCeeecCCchhHHHHHHHHHHHhhcCCCCEEEEEEeC-CCCCeeEEEEecCCCCC---
Q 005184 457 KFFVIKSY----SEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVN-TSGQFVGLAEMAGPVDF--- 528 (710)
Q Consensus 457 RFFIIKS~----nedNIhkSIKyGVWaTTp~nnkKLd~AFrea~ek~~~~pVfLfFSVN-~SG~FqG~AeM~SpVDf--- 528 (710)
+|+|+|+. +-+++ .-.+..+|.-..+...+- .+++.+ .+.-+||+.-+ +.+.|.|+++.++..-.
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 68999998 76666 444455555433322222 444432 34677778777 68999999999986421
Q ss_pred --CCCchhhcccc--CcCccceeEEEeec--CCCccccccccCCCCCCceeec-CCCcccchHHHHHHHHH
Q 005184 529 --NKNVEYWQQDK--WTGCFPVKWHIVKD--VPNSLLKHITLENNENKPVTNS-RDTQEIKLEQGLKLIKI 592 (710)
Q Consensus 529 --~ks~d~WqqdK--w~G~F~VkWi~VkD--VPf~~lrHI~N~~NENKPVt~S-RDgQEIe~e~G~qLLkI 592 (710)
+....++.... .....+|+++..-+ |+...||.. ..+.+-.-|++. .--.+|..+.-..|+++
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 11112122111 22356788886544 444555432 011111111111 23345666666665543
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=42.98 E-value=24 Score=28.21 Aligned_cols=28 Identities=46% Similarity=0.928 Sum_probs=14.8
Q ss_pred CCCCCCCCCCCCCCCCCcCCCCCccccCCCCCCCCCCCC
Q 005184 128 YGYAPYPPYSPATSPVPTMGTDGQLYGPQHYQYPHYFQP 166 (710)
Q Consensus 128 ygy~pYg~Ysp~~sP~p~~g~DgQly~~q~y~yp~yyq~ 166 (710)
|+|.-|||| -|+|-- -|| +|.|| |+|||
T Consensus 14 ~~~grygpy----qp~peq----~ly-pqpyq--p~yqq 41 (42)
T PF03875_consen 14 FFYGRYGPY----QPFPEQ----PLY-PQPYQ--PPYQQ 41 (42)
T ss_pred hcccccCCc----CCCCCC----cCC-CCCCC--Ccccc
Confidence 344446777 555542 266 66555 44553
No 7
>PRK02268 hypothetical protein; Provisional
Probab=42.18 E-value=1.3e+02 Score=29.82 Aligned_cols=122 Identities=10% Similarity=0.129 Sum_probs=69.3
Q ss_pred eEEEEecCChhHHHHHhhcCeeecCCchhH-HHHHHHHHHHhhcCCCCEEEEEEeC-------CCCCeeEEEEecCCCCC
Q 005184 457 KFFVIKSYSEDDVHKSIKYSVWASTPNGNK-KLDAAYQEAQQKSRSCPVFLLFSVN-------TSGQFVGLAEMAGPVDF 528 (710)
Q Consensus 457 RFFIIKS~nedNIhkSIKyGVWaTTp~nnk-KLd~AFrea~ek~~~~pVfLfFSVN-------~SG~FqG~AeM~SpVDf 528 (710)
+|.| =.-|+||+.+.++.|+|-.. |+.+ -|.+ - ....-+|++|=. .=..|.+++++++.--+
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 4553 35679999999999999774 4332 2222 1 124677777722 34689999999986322
Q ss_pred CCCchhhccccCc-CccceeEEEeecCCCccc----cccccCCCCCCceeecCCCcccchHHHHHHHHHHh
Q 005184 529 NKNVEYWQQDKWT-GCFPVKWHIVKDVPNSLL----KHITLENNENKPVTNSRDTQEIKLEQGLKLIKIFK 594 (710)
Q Consensus 529 ~ks~d~WqqdKw~-G~F~VkWi~VkDVPf~~l----rHI~N~~NENKPVt~SRDgQEIe~e~G~qLLkIF~ 594 (710)
...+. ..|. =.++|+|+.+.++|++-| ++|++.-+=.... -.---||..+-.+.|.+.+.
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 136799999999998754 3444322212122 11225666666555555443
No 8
>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=33.43 E-value=84 Score=30.81 Aligned_cols=116 Identities=15% Similarity=0.265 Sum_probs=78.1
Q ss_pred CChhHHHHHhhcCeeecCCchhHHHHHHHHHHHhhcCCCCEEEEEEeCCCCCeeEEEEecCCCCCCCCchhhcccc----
Q 005184 464 YSEDDVHKSIKYSVWASTPNGNKKLDAAYQEAQQKSRSCPVFLLFSVNTSGQFVGLAEMAGPVDFNKNVEYWQQDK---- 539 (710)
Q Consensus 464 ~nedNIhkSIKyGVWaTTp~nnkKLd~AFrea~ek~~~~pVfLfFSVN~SG~FqG~AeM~SpVDf~ks~d~WqqdK---- 539 (710)
+|.+-+..+.++.+.-....... |-+. ...+-++|||= -..++..|+=|-+|.-..+....-|..+.
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 44555677778888777754322 1111 12345666642 25789999999999877777777787633
Q ss_pred -C--cCccceeEEEeecCCCccccccccCCCCCCceeecCCCcccchHHHHHHHHHH
Q 005184 540 -W--TGCFPVKWHIVKDVPNSLLKHITLENNENKPVTNSRDTQEIKLEQGLKLIKIF 593 (710)
Q Consensus 540 -w--~G~F~VkWi~VkDVPf~~lrHI~N~~NENKPVt~SRDgQEIe~e~G~qLLkIF 593 (710)
+ .=.|.|.| .+..||-+.++|++-+|=.+ ..+=-.||...+-+.||.||
T Consensus 79 ~fPAQVrf~i~~-~C~PL~E~~fk~aI~~Ny~~----~~kF~~eLs~~Qv~~L~~LF 130 (130)
T PF10539_consen 79 PFPAQVRFRIRW-DCPPLPESQFKPAIKDNYYD----KNKFRFELSHQQVRKLLSLF 130 (130)
T ss_pred ccceEEEEEEee-eeecCCHHHHHHHHHHhCCC----CCcccCcCCHHHHHHHHHhC
Confidence 2 22477877 56789999999998543211 12446899999999999987
No 9
>KOG0260 consensus RNA polymerase II, large subunit [Transcription]
Probab=24.59 E-value=1.8e+03 Score=29.51 Aligned_cols=6 Identities=50% Similarity=0.595 Sum_probs=2.3
Q ss_pred chhHHH
Q 005184 9 VETSDL 14 (710)
Q Consensus 9 d~~~dl 14 (710)
+++.|.
T Consensus 1376 Eetv~i 1381 (1605)
T KOG0260|consen 1376 EETVDI 1381 (1605)
T ss_pred HHHHHH
Confidence 333333
No 10
>smart00767 DCD DCD is a plant specific domain in proteins involved in development and programmed cell death. The domain is shared by several proteins in the Arabidopsis and the rice genomes, which otherwise show a different protein architecture. Biological studies indicate a role of these proteins in phytohormone response, embryo development and programmed cell death by pathogens or ozone.
Probab=18.47 E-value=2.8e+02 Score=27.48 Aligned_cols=84 Identities=21% Similarity=0.314 Sum_probs=0.0
Q ss_pred EEEEeCCCCCeeEEEEecCCCCCCCCchhhcccc---CcC--ccceeEEEeecCCCccccccccCCCCCCceeecCCCcc
Q 005184 506 LLFSVNTSGQFVGLAEMAGPVDFNKNVEYWQQDK---WTG--CFPVKWHIVKDVPNSLLKHITLENNENKPVTNSRDTQE 580 (710)
Q Consensus 506 LfFSVN~SG~FqG~AeM~SpVDf~ks~d~WqqdK---w~G--~F~VkWi~VkDVPf~~lrHI~N~~NENKPVt~SRDgQE 580 (710)
||.=--...++.|+=+-+|.--.+....-|...+ +-- .|+|.| .+..|+-+.|++.+.+|=.++ .+=-.|
T Consensus 43 LFLfn~~~r~L~GifeA~S~G~~ni~p~Af~~~~~s~fPaQVrf~i~~-~C~PL~E~~f~~aI~~nY~~~----~kF~~e 117 (132)
T smart00767 43 LFLYNYDTRKLHGIFEATSFGGLNIDPNAFEGKKESRFPAQVRFRIRK-DCKPLPESEFRSAILENYDGP----SKFRFE 117 (132)
T ss_pred EEEEecCCceeeeEEEeccCCcCCcChhHhcCCCCCccCcEEEEEEee-eecCCCHHHHHHHHHHhCcCC----cccccc
Q ss_pred cchHHHHHHHHHHh
Q 005184 581 IKLEQGLKLIKIFK 594 (710)
Q Consensus 581 Ie~e~G~qLLkIF~ 594 (710)
|...+-+.|+.||.
T Consensus 118 Ls~~Qv~~L~~LF~ 131 (132)
T smart00767 118 LSHAQVLRLLDLFA 131 (132)
T ss_pred CCHHHHHHHHHHhc
Done!