Query 008213
Match_columns 573
No_of_seqs 150 out of 235
Neff 3.7
Searched_HMMs 46136
Date Thu Mar 28 20:56:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008213.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008213hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF07059 DUF1336: Protein of u 100.0 6.6E-74 1.4E-78 561.8 20.7 222 316-557 1-227 (227)
2 PLN00188 enhanced disease resi 100.0 1.5E-64 3.3E-69 553.7 18.0 225 297-562 483-710 (719)
3 KOG1909 Ran GTPase-activating 25.0 53 0.0011 36.2 2.5 73 496-568 29-109 (382)
4 COG1521 Pantothenate kinase ty 17.8 3.2E+02 0.0068 28.6 6.3 106 405-533 20-131 (251)
5 COG5238 RNA1 Ran GTPase-activa 14.9 92 0.002 33.9 1.6 67 497-563 30-104 (388)
6 TIGR03642 cas_csx13 CRISPR-ass 9.8 1.2E+02 0.0027 28.5 0.6 15 56-70 92-106 (124)
7 PF06348 DUF1059: Protein of u 9.6 56 0.0012 26.6 -1.5 27 526-552 8-34 (57)
8 PF04308 DUF458: Protein of un 7.5 2.9E+02 0.0062 26.9 2.1 31 500-535 96-126 (144)
9 KOG3748 Uncharacterized conser 6.8 4E+02 0.0087 29.1 2.9 50 482-538 90-142 (477)
10 KOG2964 Arginase family protei 6.2 4.6E+02 0.0099 28.9 2.9 40 454-507 250-289 (361)
No 1
>PF07059 DUF1336: Protein of unknown function (DUF1336); InterPro: IPR009769 This entry represents the C terminus (approximately 250 residues) of a number of hypothetical plant proteins of unknown function.
Probab=100.00 E-value=6.6e-74 Score=561.85 Aligned_cols=222 Identities=46% Similarity=0.774 Sum_probs=207.8
Q ss_pred cccCCCCCeEEcCCCCCCCCCcccCCCCCCcceeEeeeeecCCccchhhccccccccccCC-CCCcEEEEEEEcCCCccc
Q 008213 316 WAEIPPSTFKLRGETYFKDKRKSPAPEHSPFTPIGVDLFNCPRKINHIAQHLELPYLKADG-KVPPLLIVNIQLPAYPAA 394 (573)
Q Consensus 316 WSepd~s~FkVRG~~YlkDKkKvPA~~~aly~lvGVDlF~S~~KidhIA~~~~lp~~~~~~-~~PfvfIVNiQLPgyP~~ 394 (573)
||+|++++|+|||+|||+||+|+||+++ +|+++|||||+|++|++|||+|+.++..+... +.||+||||||||+||+.
T Consensus 1 Ws~p~~~~FkVRG~~Yl~DkkKvpa~~~-l~~lvgvDlf~s~~~~~hia~~~~~~~~~~~~~~~P~~fIVNlqvP~~p~~ 79 (227)
T PF07059_consen 1 WSEPDASTFKVRGPNYLKDKKKVPAGPP-LFELVGVDLFKSDKKIDHIARRPSSPVQKALEKGVPFTFIVNLQVPGYPPS 79 (227)
T ss_pred CCCCCCCEEEEeCCCcccCCCCCcCCCc-ceeeEEEEEEecCCcchhhhhCcCCccccccccCCCcEEEEEEEccCCccc
Confidence 9999999999999999999999999976 99999999999999999999999988766544 599999999999999999
Q ss_pred ccCCCCCCCCeEEEEEEeeCcchhcccCchhHHHHHHHHHHHHHHhhcccCCCchhhh-cccceeeeccCCCcccchhHH
Q 008213 395 MFLGDSDGEGMSLVLYFKVSENFEKVISPQYQESIKKLVEDEMEKVRGFAKDSIVPFR-ERLKIMAGLVNPEDLNMSSAE 473 (573)
Q Consensus 395 mF~Gd~DGeg~SlVlYF~l~e~~~keisp~f~~ll~Rfl~de~ekVkgF~~d~dd~FR-eRFKLIp~VVngpwL~Lss~~ 473 (573)
+| ++.||+|||+|+||++++++.++.++.+.++++||++++. .+|+|| +||||||+|+||+|+
T Consensus 80 ~f-~~~~~~~~s~V~Yf~~~~~~~~~~~~~~~~ll~rF~~gd~---------~~d~frn~RfKlIp~vv~gpwi------ 143 (227)
T PF07059_consen 80 MF-GEIDGPGYSLVLYFRMPEPIEDDDSPPFGRLLHRFLNGDE---------VEDAFRNERFKLIPRVVNGPWI------ 143 (227)
T ss_pred cc-cccccCCceEEEEEecCCccccccCchhHHHHHHHHhcCc---------cchhhhhccEEEEEEEcCCchh------
Confidence 99 9999999999999999999988888899999999998520 128899 799999999999985
Q ss_pred HHHHHhh-CCcceeec--CccceecCCCeEEEEEecccchHHHHHHHHHHHhhhcceEEEEEEEeecCCCCCccccccce
Q 008213 474 KKLVNAY-NEKPVLSR--PQHEFYKGPNYFEIDLDIHRFSYISRKGFEAFRERLANGILDVGLTIQAQKPEELPEQALCC 550 (573)
Q Consensus 474 r~l~qav-n~KPvLir--pq~~Y~rG~NYlEIDVDIhSFS~IARk~l~lv~g~lk~LVVDmGFvIEGqteEELPErLLG~ 550 (573)
+++++ |+||||++ ++|+||+|+||||||||||+ |+|||++++++++++++|||||||||||+++||||||||||
T Consensus 144 --vr~~v~~~kP~lig~~~~~~y~~g~~y~E~dvdi~s-s~~a~~~~~~~~~~~~~lvvd~gf~ieg~~~~ELPE~lLg~ 220 (227)
T PF07059_consen 144 --VRKAVYNGKPVLIGKKLQHRYFRGPNYLEIDVDIHS-SYIARKVLHLVRGYLKKLVVDMGFVIEGQTEEELPERLLGC 220 (227)
T ss_pred --hhhhhcCCCceeecCccceEEeeCCCeEEEEEEecc-HHHHHHHHHHHHhhhceEEEEEEEEecCCChhhCchheEeE
Confidence 55555 99999987 79999999999999999999 99999999999999999999999999999999999999999
Q ss_pred eeecccc
Q 008213 551 LRLNKID 557 (573)
Q Consensus 551 vRLnkID 557 (573)
+||++||
T Consensus 221 ~Rl~~id 227 (227)
T PF07059_consen 221 VRLNHID 227 (227)
T ss_pred EEeeecC
Confidence 9999998
No 2
>PLN00188 enhanced disease resistance protein (EDR2); Provisional
Probab=100.00 E-value=1.5e-64 Score=553.68 Aligned_cols=225 Identities=24% Similarity=0.417 Sum_probs=208.2
Q ss_pred ccCCCCcccCCCCCCCCCccccCCCCCeEEcCCCCCCCCCcccCCCCCCcceeEeeeeecCCccchhhccccccccccCC
Q 008213 297 PKAGFVIPCSTGEKLTPGCWAEIPPSTFKLRGETYFKDKRKSPAPEHSPFTPIGVDLFNCPRKINHIAQHLELPYLKADG 376 (573)
Q Consensus 297 p~aG~tlP~~~~e~~~~~~WSepd~s~FkVRG~~YlkDKkKvPA~~~aly~lvGVDlF~S~~KidhIA~~~~lp~~~~~~ 376 (573)
...+++||+.+.++ ..+||++|++++|+|||++||+||+|+||+++ +|+|+|||||++++|++|||+|+.++.....+
T Consensus 483 ~~~~g~l~~~~~~~-~~ncWs~Pd~~~F~VRG~~Yl~Dk~KvPAg~~-l~~lvgvDwfks~~ridhVa~r~~~~vq~a~~ 560 (719)
T PLN00188 483 SCFSGNLRRDDRDK-ARDCWRISDGNNFKVRSKNFCYDKSKIPAGKH-LMDLVAVDWFKDTKRMDHVARRKGCAAQVAAE 560 (719)
T ss_pred cccccccccCCCCC-CCCCccCCCCcceEEcCCCcccCCccccCCcc-ceeeEEEEEEcCCchhhHhhcCCCchhhhhcc
Confidence 34688899987776 57999999999999999999999999999986 89999999999999999999999988777778
Q ss_pred CCCcEEEEEEEcCCCcccccCCCCCCCCeEEEEEEeeCcchhcccCchhHHHHHHHHHHHHHHhhcccCCCchhhh-ccc
Q 008213 377 KVPPLLIVNIQLPAYPAAMFLGDSDGEGMSLVLYFKVSENFEKVISPQYQESIKKLVEDEMEKVRGFAKDSIVPFR-ERL 455 (573)
Q Consensus 377 ~~PfvfIVNiQLPgyP~~mF~Gd~DGeg~SlVlYF~l~e~~~keisp~f~~ll~Rfl~de~ekVkgF~~d~dd~FR-eRF 455 (573)
+.||+||||||||+.| +||+|+||++++ +.+ ..|+.||++ +||+|| +||
T Consensus 561 k~~F~fiVNlQvPg~~-----------~ys~V~Yf~~~~-----l~~--~sLl~rF~~------------GDD~fRnsRf 610 (719)
T PLN00188 561 KGLFSFVVNLQVPGST-----------HYSMVFYFVTKE-----LVP--GSLLQRFVD------------GDDEFRNSRL 610 (719)
T ss_pred cCCcEEEEEEEccCCC-----------ceEEEEEEeccC-----CCC--chHHHHhcc------------CchhHhhCce
Confidence 8899999999999955 699999999855 223 368999987 379999 799
Q ss_pred ceeeeccCCCcccchhHHHHHHHhhCCcceeec--CccceecCCCeEEEEEecccchHHHHHHHHHHHhhhcceEEEEEE
Q 008213 456 KIMAGLVNPEDLNMSSAEKKLVNAYNEKPVLSR--PQHEFYKGPNYFEIDLDIHRFSYISRKGFEAFRERLANGILDVGL 533 (573)
Q Consensus 456 KLIp~VVngpwL~Lss~~r~l~qavn~KPvLir--pq~~Y~rG~NYlEIDVDIhSFS~IARk~l~lv~g~lk~LVVDmGF 533 (573)
||||.|++|||| |+++||+||||+| ++|+||+|+|||||||||+| |.||++++++++||+++|||||||
T Consensus 611 KLIP~Iv~GpWi--------Vk~aVG~~p~llGk~l~~~Y~~g~nylEvdvDi~s-s~va~~v~~l~~g~~~~lvvD~af 681 (719)
T PLN00188 611 KLIPSVPKGSWI--------VRQSVGSTPCLLGKAVDCNYIRGPKYLEIDVDIGS-STVANGVLGLVIGVITTLVVDMAF 681 (719)
T ss_pred EEeccccCCceE--------EEeccCCcceEeeeecceeEecCCCeEEEEEeecc-HHHHHHHHHHHHhhhhheEEEEEE
Confidence 999999999996 9999999999998 69999999999999999999 889999999999999999999999
Q ss_pred EeecCCCCCccccccceeeeccccccCCC
Q 008213 534 TIQAQKPEELPEQALCCLRLNKIDFVDYG 562 (573)
Q Consensus 534 vIEGqteEELPErLLG~vRLnkIDl~~a~ 562 (573)
+||||++|||||+|||||||++||+..|.
T Consensus 682 ~ie~~~~eELPE~llG~~Rl~~i~~~~A~ 710 (719)
T PLN00188 682 LVQANTYEELPERLIGAVRVSHVELSSAI 710 (719)
T ss_pred EEecCChhhCchhheeeEEecccchhhcc
Confidence 99999999999999999999999999985
No 3
>KOG1909 consensus Ran GTPase-activating protein [RNA processing and modification; Nuclear structure; Signal transduction mechanisms]
Probab=25.03 E-value=53 Score=36.23 Aligned_cols=73 Identities=18% Similarity=0.248 Sum_probs=62.8
Q ss_pred CCCeEEEEEecccchHHHHHHHHHHHhhhcce-EEEEEEEeecCCCCCccccc-------cceeeeccccccCCCCCCee
Q 008213 496 GPNYFEIDLDIHRFSYISRKGFEAFRERLANG-ILDVGLTIQAQKPEELPEQA-------LCCLRLNKIDFVDYGQIPTL 567 (573)
Q Consensus 496 G~NYlEIDVDIhSFS~IARk~l~lv~g~lk~L-VVDmGFvIEGqteEELPErL-------LG~vRLnkIDl~~a~~iP~~ 567 (573)
...|-+||++=.+|+.=|.+.+.-++...+.| .+|+.=..-|+-.+|+||.| +||=+|..+|+++..-=|..
T Consensus 29 ~~s~~~l~lsgnt~G~EAa~~i~~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSDNA~G~~g 108 (382)
T KOG1909|consen 29 MDSLTKLDLSGNTFGTEAARAIAKVLASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLGCPKLQKLDLSDNAFGPKG 108 (382)
T ss_pred cCceEEEeccCCchhHHHHHHHHHHHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcCCceeEeeccccccCccc
Confidence 35689999999999999999999999999888 78888889999999999975 58889999999997655554
Q ss_pred e
Q 008213 568 M 568 (573)
Q Consensus 568 ~ 568 (573)
+
T Consensus 109 ~ 109 (382)
T KOG1909|consen 109 I 109 (382)
T ss_pred h
Confidence 4
No 4
>COG1521 Pantothenate kinase type III (Bvg accessory factor family protein) [Transcription]
Probab=17.75 E-value=3.2e+02 Score=28.65 Aligned_cols=106 Identities=17% Similarity=0.164 Sum_probs=58.2
Q ss_pred eEEEEEEeeCcchhcccCchhHHHHHHHHHHHHHHhhcccCCCchhhhc-ccceeeeccCCCcccchhHHHHHHHhhCCc
Q 008213 405 MSLVLYFKVSENFEKVISPQYQESIKKLVEDEMEKVRGFAKDSIVPFRE-RLKIMAGLVNPEDLNMSSAEKKLVNAYNEK 483 (573)
Q Consensus 405 ~SlVlYF~l~e~~~keisp~f~~ll~Rfl~de~ekVkgF~~d~dd~FRe-RFKLIp~VVngpwL~Lss~~r~l~qavn~K 483 (573)
-.++.+|++..+-... .+++...++.+++. + .++. ...+|..|| |-+.. ..+..+.+....+
T Consensus 20 ~~~~~~~r~~t~~~~~-~del~~~~~~l~~~------------~-~~~~~~~~~issvv--p~~~~-~~~~~~~~~f~~~ 82 (251)
T COG1521 20 GKVVQTWRLATEDLLT-EDELGLQLHNLFDG------------N-SVRDIDGIVISSVV--PPLGI-FLEAVLKEYFKVK 82 (251)
T ss_pred CeEEEEEeeccccccc-HHHHHHHHHHHhcc------------c-cccccccceeeccC--ccHHH-HHHHHHHHHhccC
Confidence 4688899998643221 12222223323221 1 3343 678899998 33322 2344666777888
Q ss_pred c-eeecC---ccceecCCCeEEEEEecccchHHHHHHHHHHHhh-hcceEEEEEE
Q 008213 484 P-VLSRP---QHEFYKGPNYFEIDLDIHRFSYISRKGFEAFRER-LANGILDVGL 533 (573)
Q Consensus 484 P-vLirp---q~~Y~rG~NYlEIDVDIhSFS~IARk~l~lv~g~-lk~LVVDmGF 533 (573)
| ++..+ ..-+....||-|+.+|.-- ..+.....| -.-+|||+|=
T Consensus 83 ~~~~~~~~~~~g~~~~~~~p~elG~DR~~------n~vaA~~~~~~~~vVVD~GT 131 (251)
T COG1521 83 PLVVISPKQLLGIRVLYDNPEELGADRIA------NAVAAYHKYGKAVVVVDFGT 131 (251)
T ss_pred ceeeechhhccCCcccCCChhhhcHHHHH------HHHHHHHHcCCcEEEEEcCC
Confidence 9 55442 2234455899999999733 222222222 2258999984
No 5
>COG5238 RNA1 Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]
Probab=14.93 E-value=92 Score=33.92 Aligned_cols=67 Identities=19% Similarity=0.268 Sum_probs=55.8
Q ss_pred CCeEEEEEecccchHHHHHHHHHHHhhhcce-EEEEEEEeecCCCCCcccc-------ccceeeeccccccCCCC
Q 008213 497 PNYFEIDLDIHRFSYISRKGFEAFRERLANG-ILDVGLTIQAQKPEELPEQ-------ALCCLRLNKIDFVDYGQ 563 (573)
Q Consensus 497 ~NYlEIDVDIhSFS~IARk~l~lv~g~lk~L-VVDmGFvIEGqteEELPEr-------LLG~vRLnkIDl~~a~~ 563 (573)
+...|||+-=..|++=|...+.-++...++| ++.++=..-|+.-+|||+. ||+|=|++.+|+++..-
T Consensus 30 d~~~evdLSGNtigtEA~e~l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNAf 104 (388)
T COG5238 30 DELVEVDLSGNTIGTEAMEELCNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNAF 104 (388)
T ss_pred cceeEEeccCCcccHHHHHHHHHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcceeeecccccc
Confidence 4567888887778888888888888888877 7788888889999999986 57999999999998653
No 6
>TIGR03642 cas_csx13 CRISPR-associated protein, Csx13 family. This model describes a protein N-terminal protein sequence domain strictly associated with CRISPR and CRISPR-associated protein systems. This model and TIGR02584 identify two separate clades from a larger homology domain family, both CRISPR-associated, while other homologs are found that may not be. Members are found in bacteria that include Pelotomaculum thermopropionicum SI, Thermoanaerobacter tengcongensis MB4, and Roseiflexus sp. RS-1, and in archaea that include Thermoplasma volcanium, Picrophilus torridus, and Methanospirillum hungatei. The molecular function is unknown.
Probab=9.78 E-value=1.2e+02 Score=28.52 Aligned_cols=15 Identities=7% Similarity=0.118 Sum_probs=13.4
Q ss_pred eEeeeccCCcccccc
Q 008213 56 YVHLDFEKGATTTCR 70 (573)
Q Consensus 56 ~vh~~~~~~~~~~~~ 70 (573)
.+|+..+||+|+|+-
T Consensus 92 ~lh~~iaGGRK~Ms~ 106 (124)
T TIGR03642 92 RIIVNISGGRKIMTI 106 (124)
T ss_pred eEEEEecCCHHHHHH
Confidence 699999999999874
No 7
>PF06348 DUF1059: Protein of unknown function (DUF1059); InterPro: IPR009409 This entry consists of short hypothetical archaeal and bacterial proteins of unknown function.
Probab=9.62 E-value=56 Score=26.56 Aligned_cols=27 Identities=30% Similarity=0.336 Sum_probs=21.7
Q ss_pred ceEEEEEEEeecCCCCCccccccceee
Q 008213 526 NGILDVGLTIQAQKPEELPEQALCCLR 552 (573)
Q Consensus 526 ~LVVDmGFvIEGqteEELPErLLG~vR 552 (573)
.++.|-+|+|.|.+++||-+++.--.|
T Consensus 8 d~g~~C~~~~~a~tedEll~~~~~Ha~ 34 (57)
T PF06348_consen 8 DVGPDCGFVIRAETEDELLEAVVEHAR 34 (57)
T ss_pred ccCCCCCeEEeeCCHHHHHHHHHHHHH
Confidence 456788999999999999988764443
No 8
>PF04308 DUF458: Protein of unknown function (DUF458) ; InterPro: IPR007405 This entry is represented by Bacteriophage KVP40, Orf299. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a family of uncharacterised, mainly bacterial, proteins. While the functions of these proteins are unknown, an analysis has suggested that they may form a novel family within the RNASE H-like superfamily []. These proteins appear to contain all the core secondary structural elements of the RNase H-like fold and share several conserved, possible active site, residues. It was suggested, therefore, that they function as nucleases. From the taxonomic distibution of these proteins it was further inferred that they may play a role in DNA repair under stressful conditions.
Probab=7.55 E-value=2.9e+02 Score=26.87 Aligned_cols=31 Identities=19% Similarity=0.291 Sum_probs=24.8
Q ss_pred EEEEEecccchHHHHHHHHHHHhhhcceEEEEEEEe
Q 008213 500 FEIDLDIHRFSYISRKGFEAFRERLANGILDVGLTI 535 (573)
Q Consensus 500 lEIDVDIhSFS~IARk~l~lv~g~lk~LVVDmGFvI 535 (573)
+||.+||+. ..-.|..+.-+.|++.. |||.-
T Consensus 96 ~EiHiDIg~-~g~T~~~i~E~vG~v~~----~G~~~ 126 (144)
T PF04308_consen 96 LEIHIDIGT-NGKTRELIKEVVGYVEG----MGFEA 126 (144)
T ss_pred EEEEEEcCC-CCchHHHHHHHHHHHHH----CCceE
Confidence 899999998 77888888888887665 55543
No 9
>KOG3748 consensus Uncharacterized conserved protein [Function unknown]
Probab=6.83 E-value=4e+02 Score=29.07 Aligned_cols=50 Identities=26% Similarity=0.525 Sum_probs=42.0
Q ss_pred CcceeecC---ccceecCCCeEEEEEecccchHHHHHHHHHHHhhhcceEEEEEEEeecC
Q 008213 482 EKPVLSRP---QHEFYKGPNYFEIDLDIHRFSYISRKGFEAFRERLANGILDVGLTIQAQ 538 (573)
Q Consensus 482 ~KPvLirp---q~~Y~rG~NYlEIDVDIhSFS~IARk~l~lv~g~lk~LVVDmGFvIEGq 538 (573)
.+|+|-+| ....++|||=.|-.||-..| +..+++.+...++-+|++-|.+
T Consensus 90 ts~~Lq~PV~i~Anv~~~P~~~et~vD~s~F-------veka~d~FPDaT~SLGWTk~sn 142 (477)
T KOG3748|consen 90 TSPVLQYPVILHANVFRSPRSVETEVDPSTF-------VEKAKDLFPDATLSLGWTKQSN 142 (477)
T ss_pred cccccccceEEecccccCCCCCccccCchhH-------HHHHHHhCCCcEEeeccccCCC
Confidence 78888874 55889999999999998665 5677888999999999998854
No 10
>KOG2964 consensus Arginase family protein [Amino acid transport and metabolism]
Probab=6.18 E-value=4.6e+02 Score=28.87 Aligned_cols=40 Identities=18% Similarity=0.405 Sum_probs=27.9
Q ss_pred ccceeeeccCCCcccchhHHHHHHHhhCCcceeecCccceecCCCeEEEEEecc
Q 008213 454 RLKIMAGLVNPEDLNMSSAEKKLVNAYNEKPVLSRPQHEFYKGPNYFEIDLDIH 507 (573)
Q Consensus 454 RFKLIp~VVngpwL~Lss~~r~l~qavn~KPvLirpq~~Y~rG~NYlEIDVDIh 507 (573)
=|++|- .-+-..+++-..+..+++.+|.|+| |+-||||+-
T Consensus 250 Gf~~ie-are~~~~gi~~i~e~ir~~~G~k~v-------------YiSiDID~L 289 (361)
T KOG2964|consen 250 GFEIIE-AREIDKIGIDPIVERIRQRVGDKLV-------------YISIDIDVL 289 (361)
T ss_pred CeEEEE-eeehhhhhhHHHHHHHHHhcCCceE-------------EEEEeeccc
Confidence 455552 1223344556667889999999999 889999985
Done!