Query 008498
Match_columns 563
No_of_seqs 262 out of 696
Neff 4.2
Searched_HMMs 46136
Date Thu Mar 28 12:55:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008498.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008498hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF11204 DUF2985: Protein of u 100.0 7.4E-40 1.6E-44 277.0 7.2 81 116-196 1-81 (81)
2 TIGR01571 A_thal_Cys_rich unch 99.9 2.8E-27 6.1E-32 208.2 9.7 102 329-465 1-104 (104)
3 PF04749 PLAC8: PLAC8 family; 99.9 6.6E-25 1.4E-29 188.9 7.5 106 331-463 1-106 (106)
4 PRK10617 cytochrome c-type pro 29.7 72 0.0016 32.2 4.2 14 112-125 11-24 (200)
5 PF04749 PLAC8: PLAC8 family; 29.5 45 0.00098 28.6 2.5 28 441-468 11-38 (106)
6 PF13796 Sensor: Putative sens 28.5 1.2E+02 0.0027 28.9 5.5 83 93-180 74-157 (181)
7 PF07298 NnrU: NnrU protein; 23.9 1E+02 0.0022 30.7 4.1 36 115-150 96-141 (191)
8 PF15050 SCIMP: SCIMP protein 22.7 1.7E+02 0.0037 27.9 5.0 20 412-431 23-42 (133)
9 TIGR02161 napC_nirT periplasmi 22.4 1.1E+02 0.0023 30.4 3.9 12 112-123 2-13 (185)
10 PF13172 PepSY_TM_1: PepSY-ass 20.7 1.1E+02 0.0023 22.1 2.7 28 115-142 4-31 (34)
11 PHA00080 DksA-like zinc finger 20.7 1.2E+02 0.0026 25.8 3.4 42 426-467 24-68 (72)
12 PHA03231 glycoprotein BALF4; P 20.2 1.1E+02 0.0024 36.9 4.1 36 107-145 688-723 (829)
13 COG2941 CAT5 Ubiquinone biosyn 20.2 55 0.0012 33.2 1.4 37 229-272 86-122 (204)
No 1
>PF11204 DUF2985: Protein of unknown function (DUF2985); InterPro: IPR021369 This eukaryotic family of proteins has no known function.
Probab=100.00 E-value=7.4e-40 Score=277.00 Aligned_cols=81 Identities=46% Similarity=0.821 Sum_probs=79.9
Q ss_pred hhhhccchhHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCCcCcceEEehHHHHHHHHHhhcccccchhhhhhheeeee
Q 008498 116 KEWIRNPMNMALLAWVICVAVSGAILFLVLTGMLNKAIPRKSQRDVWFEVNNQILNALFTLMCLYQHPKRLYHLVLLFRW 195 (563)
Q Consensus 116 ~~~~~tP~g~~~~iy~l~VvawGamLfLlL~g~ln~~~p~~s~R~~WiEi~sQILNALFtv~g~gl~P~R~~dly~l~rw 195 (563)
|+|+|||+||++|+|++||++|||||||+|+||+|...|++|+|++|||||||||||||||||+||||||++|||+|+||
T Consensus 1 w~~~~tP~g~~i~iy~~~V~~~Ga~lfllL~g~~~~~~~~~s~r~~WiEi~sQILnALF~v~g~gl~P~R~~d~y~l~~~ 80 (81)
T PF11204_consen 1 WKWVKTPMGFAITIYGLNVVAWGAMLFLLLCGMLNAMCHNKSPRDIWIEIDSQILNALFTVMGFGLHPWRFRDLYHLLRW 80 (81)
T ss_pred CcchhchhhHHHHHHHHHHHHHHHHHHHHHHccchhccCCCccceEEEEehhHHHHHHHHHHhhccccHHHHHHHHHhee
Confidence 78999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred C
Q 008498 196 S 196 (563)
Q Consensus 196 r 196 (563)
|
T Consensus 81 r 81 (81)
T PF11204_consen 81 R 81 (81)
T ss_pred C
Confidence 7
No 2
>TIGR01571 A_thal_Cys_rich uncharacterized Cys-rich domain. This model describes an uncharacterized domain of about 100 residues. It is common in plants but found also in Homo sapiens, Dictyostelium, and Leishmania; at least 12 distinct members are found in Arabidopsis. Most members of this family contain more than 10 per cent Cys, but no Cys residue is invariant across the family.
Probab=99.94 E-value=2.8e-27 Score=208.16 Aligned_cols=102 Identities=36% Similarity=0.656 Sum_probs=84.0
Q ss_pred CCcccccccccCchhhhHHHhchhhhhhhHhHhHhCCC--cchhHHHHHHHhhhhhhHHHHhhhcccchhHHHHHHhhhh
Q 008498 329 PRWSGGILDIWNDISLAYLSLFCTFCVFGWNMERLGFG--NMYVHIATFILFCMAPFWIFTLAAVNIDNEAAREALSVTG 406 (563)
Q Consensus 329 ~eWs~GLfDCfdD~~~Clls~fCPC~vfGqn~eRLG~g--nc~~h~~~flLLC~aP~~if~laA~ni~~~~~~~~lg~~G 406 (563)
++|++|||||++|+++|++++||||+++|+|++|++.+ +|....+.++++
T Consensus 1 ~~W~~gL~dC~~d~~~C~~~~~CPc~~~g~~~~~~~~~~~~C~~~~~~~~~~---------------------------- 52 (104)
T TIGR01571 1 SNWSTGLFDCCEDIRLCLCGLFCPCCLFGQIAETLGTFAGECLCGGLTAIAM---------------------------- 52 (104)
T ss_pred CCCCCCCccccCChhHHHHHHHHHHHHHHHHHHHhCCCCCchhhHHHHHHHH----------------------------
Confidence 58999999999999999999999999999999999943 343322111100
Q ss_pred HHHHhhhhhhhhHHHHHHHHHcCCCCCCCcCCCCcchhhHHhhcchhhHHHHHHhhhhc
Q 008498 407 IILCLFGLLYGGFWRIQLRKRFNLPAYNFCCGHPAISDCTLWLCCCWCTLAQEARTGNA 465 (563)
Q Consensus 407 V~lc~~g~lY~~~~R~qIRkRYgIpGS~~Ccg~~~~~DC~~~~cC~cCALcQEaRElk~ 465 (563)
..+++++++|.+..|++||+||||+|+ .++||+.++||+||+||||+||+|+
T Consensus 53 ~~~~~~~~~~~~~~R~~~R~ry~i~gs-------~~~D~~~~~~C~~C~lcQ~~RElk~ 104 (104)
T TIGR01571 53 SALCGFCGCYTCFIRIKLREKYGIQGA-------PCDDCLTHLFCCFCALCQEHRELKM 104 (104)
T ss_pred HHHHhHHHHHHHHHHHHHHHHhCCCCC-------CcccchHHHHhhhHHHHHHHHHHhC
Confidence 012235677888999999999999999 8899999999999999999999984
No 3
>PF04749 PLAC8: PLAC8 family; InterPro: IPR006461 This group of sequences are described by a region of about 170 amino acids. These proteins have highly divergent N-terminal regions rich in low complexity sequence. PSI-BLAST reveals no clear similarity to any characterised protein. It is common in plants but found also in Homo sapiens (Human), Dictyostelium, and Leishmania; at least 12 distinct members are found in Arabidopsis. Most members of this family contain more than 10 per cent Cys, but no Cys residue is invariant across the family.
Probab=99.91 E-value=6.6e-25 Score=188.92 Aligned_cols=106 Identities=38% Similarity=0.603 Sum_probs=81.2
Q ss_pred cccccccccCchhhhHHHhchhhhhhhHhHhHhCCCcchhHHHHHHHhhhhhhHHHHhhhcccchhHHHHHHhhhhHHHH
Q 008498 331 WSGGILDIWNDISLAYLSLFCTFCVFGWNMERLGFGNMYVHIATFILFCMAPFWIFTLAAVNIDNEAAREALSVTGIILC 410 (563)
Q Consensus 331 Ws~GLfDCfdD~~~Clls~fCPC~vfGqn~eRLG~gnc~~h~~~flLLC~aP~~if~laA~ni~~~~~~~~lg~~GV~lc 410 (563)
|++|||||++|+++|++++||||+++|+|++|++.+....+.. ...|...++++... + .+
T Consensus 1 W~~gl~~C~~d~~~c~~~~~cPc~~~~~~~~~l~~~~~~~~~~--~~~C~~~~~~~~~~----------------~-~~- 60 (106)
T PF04749_consen 1 WSTGLCDCFSDPGSCCLACFCPCCSFGQNAERLGDGPRSRGPA--FGSCCLCFCCFGCA----------------A-CL- 60 (106)
T ss_pred CCCCCCCcCCChHHHHHHHHHHHHHHHHHHHHhccCCccCCCC--CccHHHHHHHHHHH----------------H-HH-
Confidence 9999999999999999999999999999999999765332211 01122222221111 0 11
Q ss_pred hhhhhhhhHHHHHHHHHcCCCCCCCcCCCCcchhhHHhhcchhhHHHHHHhhh
Q 008498 411 LFGLLYGGFWRIQLRKRFNLPAYNFCCGHPAISDCTLWLCCCWCTLAQEARTG 463 (563)
Q Consensus 411 ~~g~lY~~~~R~qIRkRYgIpGS~~Ccg~~~~~DC~~~~cC~cCALcQEaREl 463 (563)
.+.++|.+..|++||+||||+|+ .++||+.++||+||||+||+||+
T Consensus 61 ~l~~~~~~~~R~~iR~ry~I~g~-------~~~D~~~~~~C~~Cal~Q~~rEl 106 (106)
T PF04749_consen 61 GLGWCYGCSLRQQIRERYGIQGS-------CCEDCCCSCCCPPCALCQEAREL 106 (106)
T ss_pred HHhHhhhhhHHHHHHHHhCCCCC-------ChhhhHHHHHHHHHHHHHHHhhC
Confidence 12344778899999999999999 99999999999999999999996
No 4
>PRK10617 cytochrome c-type protein NapC; Provisional
Probab=29.67 E-value=72 Score=32.16 Aligned_cols=14 Identities=29% Similarity=0.537 Sum_probs=11.3
Q ss_pred HHHhhhhhccchhH
Q 008498 112 KKMCKEWIRNPMNM 125 (563)
Q Consensus 112 ~~~~~~~~~tP~g~ 125 (563)
++..|+|+++|..+
T Consensus 11 ~~~~~~~~~k~~~~ 24 (200)
T PRK10617 11 IKRLWKWWRTPSRL 24 (200)
T ss_pred HHHHHHHHHhhHHH
Confidence 56788899999855
No 5
>PF04749 PLAC8: PLAC8 family; InterPro: IPR006461 This group of sequences are described by a region of about 170 amino acids. These proteins have highly divergent N-terminal regions rich in low complexity sequence. PSI-BLAST reveals no clear similarity to any characterised protein. It is common in plants but found also in Homo sapiens (Human), Dictyostelium, and Leishmania; at least 12 distinct members are found in Arabidopsis. Most members of this family contain more than 10 per cent Cys, but no Cys residue is invariant across the family.
Probab=29.49 E-value=45 Score=28.62 Aligned_cols=28 Identities=21% Similarity=0.299 Sum_probs=23.2
Q ss_pred cchhhHHhhcchhhHHHHHHhhhhcccc
Q 008498 441 AISDCTLWLCCCWCTLAQEARTGNAYEI 468 (563)
Q Consensus 441 ~~~DC~~~~cC~cCALcQEaRElk~y~v 468 (563)
..+-|+..+||++|+++|.++.++....
T Consensus 11 d~~~c~~~~~cPc~~~~~~~~~l~~~~~ 38 (106)
T PF04749_consen 11 DPGSCCLACFCPCCSFGQNAERLGDGPR 38 (106)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHhccCCc
Confidence 6667888899999999999998877553
No 6
>PF13796 Sensor: Putative sensor
Probab=28.49 E-value=1.2e+02 Score=28.88 Aligned_cols=83 Identities=18% Similarity=0.217 Sum_probs=42.6
Q ss_pred CccccccccccccccHHHHHHHhhhhhccchhHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCCcCcc-eEEehHHHHH
Q 008498 93 GFRDRLNGVFTRKVDWVSIKKMCKEWIRNPMNMALLAWVICVAVSGAILFLVLTGMLNKAIPRKSQRDV-WFEVNNQILN 171 (563)
Q Consensus 93 ~~~~~~~~~~~~k~~w~~~~~~~~~~~~tP~g~~~~iy~l~VvawGamLfLlL~g~ln~~~p~~s~R~~-WiEi~sQILN 171 (563)
+..++++..+.....|+++ .+..++-|.|++..+- .+++|+..+.++..-......|....... .+.+|+.---
T Consensus 74 ~~~~~~~~~l~d~~tWR~l---~~~~l~~~lg~v~~~~--~~~~~~~~l~~l~~Pl~~~~~~~~~~~~~~~~~~~s~~~a 148 (181)
T PF13796_consen 74 GWLARLRARLTDPATWRDL---AYLLLHFPLGLVLFVV--AVALWVVGLALLTAPLWWWVLPPGNPGLGGFWPVDSWPGA 148 (181)
T ss_pred CHHHHHHHHhcCcchHHHH---HHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHhcCccccccccccccCCHHHH
Confidence 3445555666777777544 4667788888775553 33444444444443322222222222222 2566666555
Q ss_pred HHHHhhccc
Q 008498 172 ALFTLMCLY 180 (563)
Q Consensus 172 ALFtv~g~g 180 (563)
.++++.|+.
T Consensus 149 l~~~~~Gl~ 157 (181)
T PF13796_consen 149 LLAAVVGLV 157 (181)
T ss_pred HHHHHHHHH
Confidence 555555543
No 7
>PF07298 NnrU: NnrU protein; InterPro: IPR009915 This family consists of several plant and bacterial NnrU proteins. NnrU is thought to be involved in the reduction of nitric oxide. The exact function of NnrU is unclear. It is thought however that NnrU and perhaps NnrT are required for expression of both nirK and nor [].
Probab=23.95 E-value=1e+02 Score=30.69 Aligned_cols=36 Identities=25% Similarity=0.517 Sum_probs=31.6
Q ss_pred hhhhhccchhHHHHHHHH----------HHHHHHHHHHHHHhhccc
Q 008498 115 CKEWIRNPMNMALLAWVI----------CVAVSGAILFLVLTGMLN 150 (563)
Q Consensus 115 ~~~~~~tP~g~~~~iy~l----------~VvawGamLfLlL~g~ln 150 (563)
..+++|+|+=..+.+|++ -++.+|++++.-+.|+..
T Consensus 96 i~r~~RHP~l~g~~lWA~aHLl~nGd~~~~lLFg~~~~~al~~~~~ 141 (191)
T PF07298_consen 96 IYRITRHPMLLGVLLWALAHLLANGDLASLLLFGGFLAWALIGIIL 141 (191)
T ss_pred HHHHhcCchHHHHHHHHHHHhhhcCcHHHHHHHHHHHHHHHHHHHH
Confidence 677999999999999987 589999999999998654
No 8
>PF15050 SCIMP: SCIMP protein
Probab=22.67 E-value=1.7e+02 Score=27.87 Aligned_cols=20 Identities=30% Similarity=0.328 Sum_probs=11.7
Q ss_pred hhhhhhhHHHHHHHHHcCCC
Q 008498 412 FGLLYGGFWRIQLRKRFNLP 431 (563)
Q Consensus 412 ~g~lY~~~~R~qIRkRYgIp 431 (563)
+|++..|..|.++|+--+-+
T Consensus 23 lglIlyCvcR~~lRqGkkwe 42 (133)
T PF15050_consen 23 LGLILYCVCRWQLRQGKKWE 42 (133)
T ss_pred HHHHHHHHHHHHHHccccce
Confidence 34444556788888644433
No 9
>TIGR02161 napC_nirT periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family. Nearly every member of this subfamily is NapC, a predicted membrane-anchored four-heme c-type cytochrome that forms one component of the periplasmic nitrate reductase along with NapA, NapB, NapD, NapE, and NapF subunits. A single known exception at this time is NirT, which is instead a component of a nitrite reductase. This family excludes TorC subunits of trimethylamine N-oxide (TMAO) reductases.
Probab=22.38 E-value=1.1e+02 Score=30.44 Aligned_cols=12 Identities=33% Similarity=0.681 Sum_probs=9.2
Q ss_pred HHHhhhhhccch
Q 008498 112 KKMCKEWIRNPM 123 (563)
Q Consensus 112 ~~~~~~~~~tP~ 123 (563)
++..|+|+++|.
T Consensus 2 ~~~~~~~~~k~~ 13 (185)
T TIGR02161 2 LKRFWKWLRRPS 13 (185)
T ss_pred hHHHHHHHHhhH
Confidence 456788888888
No 10
>PF13172 PepSY_TM_1: PepSY-associated TM helix
Probab=20.72 E-value=1.1e+02 Score=22.09 Aligned_cols=28 Identities=18% Similarity=0.257 Sum_probs=21.7
Q ss_pred hhhhhccchhHHHHHHHHHHHHHHHHHH
Q 008498 115 CKEWIRNPMNMALLAWVICVAVSGAILF 142 (563)
Q Consensus 115 ~~~~~~tP~g~~~~iy~l~VvawGamLf 142 (563)
.+..+-.=.|++..+..+.+++.|+++.
T Consensus 4 ~~~~~H~~~g~~~~~~ll~~~lTG~~l~ 31 (34)
T PF13172_consen 4 FWRKIHRWLGLIAAIFLLLLALTGALLN 31 (34)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3445566688999999999999998864
No 11
>PHA00080 DksA-like zinc finger domain containing protein
Probab=20.70 E-value=1.2e+02 Score=25.77 Aligned_cols=42 Identities=24% Similarity=0.500 Sum_probs=26.2
Q ss_pred HHcCCCCCCCc--CCCCcchhhHH-hhcchhhHHHHHHhhhhccc
Q 008498 426 KRFNLPAYNFC--CGHPAISDCTL-WLCCCWCTLAQEARTGNAYE 467 (563)
Q Consensus 426 kRYgIpGS~~C--cg~~~~~DC~~-~~cC~cCALcQEaRElk~y~ 467 (563)
.+..-.+..+| ||.+.-..=+. .-.+..|.-||+..|.++|.
T Consensus 24 ~~~~~~~~~~C~~Cg~~Ip~~Rl~a~P~~~~Cv~Cq~~~E~~~~~ 68 (72)
T PHA00080 24 NKYQAPSATHCEECGDPIPEARREAVPGCRTCVSCQEILELKSYQ 68 (72)
T ss_pred hcccCCCCCEecCCCCcCcHHHHHhCCCccCcHHHHHHHHHHhhc
Confidence 33333444445 55555444443 45889999999999986553
No 12
>PHA03231 glycoprotein BALF4; Provisional
Probab=20.22 E-value=1.1e+02 Score=36.92 Aligned_cols=36 Identities=11% Similarity=0.165 Sum_probs=24.9
Q ss_pred cHHHHHHHhhhhhccchhHHHHHHHHHHHHHHHHHHHHH
Q 008498 107 DWVSIKKMCKEWIRNPMNMALLAWVICVAVSGAILFLVL 145 (563)
Q Consensus 107 ~w~~~~~~~~~~~~tP~g~~~~iy~l~VvawGamLfLlL 145 (563)
-+.++..++..|+++|.|-++++ ++++.|.++++++
T Consensus 688 a~~SiVsG~~sFl~NPFGg~~ii---llvia~vv~v~l~ 723 (829)
T PHA03231 688 AVGSIVSGVISFLKNPFGGLAIG---LLVIAVLVAVFLA 723 (829)
T ss_pred HHHHHHHHHHHHhcCchHHHHHH---HHHHHHhhhhhHH
Confidence 35667778899999999988776 4444444444444
No 13
>COG2941 CAT5 Ubiquinone biosynthesis protein COQ7 [Coenzyme metabolism]
Probab=20.20 E-value=55 Score=33.16 Aligned_cols=37 Identities=27% Similarity=0.269 Sum_probs=33.5
Q ss_pred hhHHHHHHHHHhhhcccCCCCCCCchhhhHHHhccccccceeee
Q 008498 229 NLNCFAQYALCGLNVGYRRSDRPAIGVGICISVAIGAPAFAGVY 272 (563)
Q Consensus 229 ~~N~~~Q~~Lcg~mWgynr~~RP~~~tg~~i~~~~~~~~~AG~~ 272 (563)
|+|.|-|..+ .+..||+....+.-+.|++.|+.+|++
T Consensus 86 HL~~f~~~l~-------e~~vRPsll~P~W~~~~FalGA~a~Ll 122 (204)
T COG2941 86 HLAWFEQRLL-------ELGVRPSLLNPLWYAAAFALGAGAGLL 122 (204)
T ss_pred HHHHHHHHHH-------HccCCccHHHHHHHHHHHHHHHHHhhc
Confidence 6899999987 689999999999999999999999884
Done!