Query 039199
Match_columns 180
No_of_seqs 83 out of 85
Neff 2.8
Searched_HMMs 46136
Date Fri Mar 29 07:16:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039199.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039199hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG4371 Predicted membrane pro 99.9 1.4E-21 2.9E-26 172.2 11.3 87 71-174 42-130 (334)
2 PF07466 DUF1517: Protein of u 99.7 1.5E-17 3.2E-22 144.4 9.0 88 75-174 1-91 (289)
3 PF07466 DUF1517: Protein of u 95.6 0.075 1.6E-06 46.9 8.4 10 77-86 7-16 (289)
4 COG4371 Predicted membrane pro 86.2 7.6 0.00016 35.7 9.6 52 121-174 72-126 (334)
5 PLN00066 PsbP domain-containin 81.8 4.4 9.4E-05 36.1 6.1 32 50-84 49-83 (262)
6 COG3462 Predicted membrane pro 71.3 2.8 6E-05 33.8 1.8 29 135-170 50-78 (117)
7 KOG0921 Dosage compensation co 55.5 13 0.00028 39.4 3.6 9 75-83 1141-1149(1282)
8 PLN00042 photosystem II oxygen 45.5 42 0.00091 30.2 4.8 38 5-42 2-48 (260)
9 PF15240 Pro-rich: Proline-ric 42.0 13 0.00029 31.6 1.2 19 55-73 1-19 (179)
10 PF04956 TrbC: TrbC/VIRB2 fami 39.4 44 0.00096 23.9 3.4 32 48-80 4-35 (99)
11 PF07172 GRP: Glycine rich pro 37.5 28 0.00062 26.4 2.2 12 56-67 8-19 (95)
12 TIGR02112 cyd_oper_ybgE cyd op 34.2 47 0.001 25.6 3.0 35 44-80 7-41 (93)
13 PRK10588 hypothetical protein; 32.8 51 0.0011 25.6 3.0 34 44-79 11-44 (97)
14 PF14141 YqzM: YqzM-like prote 31.9 59 0.0013 22.3 2.8 18 148-165 22-39 (43)
15 PLN00019 photosystem I reactio 31.1 95 0.0021 27.6 4.7 16 23-38 19-34 (223)
16 COG5336 Uncharacterized protei 27.7 44 0.00094 27.1 1.9 9 140-148 55-63 (116)
17 PF07123 PsbW: Photosystem II 20.6 1.4E+02 0.003 24.8 3.6 35 144-179 96-133 (138)
18 PF12669 P12: Virus attachment 20.5 58 0.0013 22.6 1.2 8 167-174 17-24 (58)
No 1
>COG4371 Predicted membrane protein [Function unknown]
Probab=99.86 E-value=1.4e-21 Score=172.20 Aligned_cols=87 Identities=36% Similarity=0.639 Sum_probs=67.6
Q ss_pred chhHHhhhCCccCCCCCCCCCCCCCCCCCCCCcceeecCCCCCCCCCCCCCCCCCCCCCCcCCccccccCCceeec--cc
Q 039199 71 GDAVAAKSGGRVGGQAFRPSAPRSAPRSYGNSRTNIYINPPVAPPLVGGYGYGSYYGGWGWSPFSFFVPGPSVAIG--LG 148 (180)
Q Consensus 71 ~~A~AArSGGRIGGgSFRs~~prS~Prs~~~s~t~~y~~p~~app~~gGygyg~gYgG~G~spFpf~~Pgp~~g~G--~G 148 (180)
..|+||||||||||||||+++ +-+|+ |+. -.|.+|||+|| +|+|+|| +|||++| .+|+| +|
T Consensus 42 ~~a~aarSGGriGGgSfraps--~~sr~--------YS~---~gpsGGgY~gg-~Y~GGGf-gfPfiip--~~G~GGGfg 104 (334)
T COG4371 42 SVAAAARSGGRIGGGSFRAPS--GYSRG--------YSG---GGPSGGGYSGG-GYSGGGF-GFPFIIP--GGGGGGGFG 104 (334)
T ss_pred HHHHHHhhCCCccCCCCCCCC--CCCCC--------cCC---CCCCCCCCCCC-CCCCCCc-CcCeEec--cCCcCCccc
Confidence 348899999999999999953 12255 421 24556777765 5888998 8999999 66664 45
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhcCC
Q 039199 149 GGFDLLALFLFLGAAAAVVRKFFGSR 174 (180)
Q Consensus 149 G~f~llil~~v~g~vv~~vR~~~~~r 174 (180)
|+|+||+|++|+++||+.|||-+++-
T Consensus 105 GiFgilvf~aian~vv~~~Rr~~ssG 130 (334)
T COG4371 105 GIFGILVFGAIANGVVGMMRRNLSSG 130 (334)
T ss_pred cHHHHHHHHHHHHHHHHHHHhcCCCC
Confidence 89999999999999999999966543
No 2
>PF07466 DUF1517: Protein of unknown function (DUF1517); InterPro: IPR010903 This family consists of several hypothetical glycine rich plant and bacterial proteins of around 300 residues in length. The function of this family is unknown.
Probab=99.72 E-value=1.5e-17 Score=144.39 Aligned_cols=88 Identities=36% Similarity=0.580 Sum_probs=61.1
Q ss_pred HhhhCCccCCCCCCCCCCC-CCCCCCCCCcceeecCCCCCCCCCCCCCCCCCCCCCCcCCccccccCCceeeccc--hhH
Q 039199 75 AAKSGGRVGGQAFRPSAPR-SAPRSYGNSRTNIYINPPVAPPLVGGYGYGSYYGGWGWSPFSFFVPGPSVAIGLG--GGF 151 (180)
Q Consensus 75 AArSGGRIGGgSFRs~~pr-S~Prs~~~s~t~~y~~p~~app~~gGygyg~gYgG~G~spFpf~~Pgp~~g~G~G--G~f 151 (180)
||||||||||+|||+++++ |+||+++++....+ .+ + ++|+++|+|+|+ ++||+.| .||+|+| |+|
T Consensus 1 aA~SGGR~GG~SFssps~ssSspssss~s~~~~~-~~----s----~~~~~~y~Ggg~-g~p~l~p--~~G~Ggg~~gl~ 68 (289)
T PF07466_consen 1 AARSGGRMGGGSFSSPSRSSSSPSSSSPSSSGSS-SP----S----SGYGGGYSGGGF-GFPFLGP--FFGFGGGFGGLF 68 (289)
T ss_pred CCccCCCcCCCCCCCCCCCCCCCCCCCCCCCCCC-CC----C----CCCCCCCCCCCc-CcCcccc--ccccCcccchHH
Confidence 6789999999999976333 66777554333322 11 1 122223445555 5688877 6777664 889
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCC
Q 039199 152 DLLALFLFLGAAAAVVRKFFGSR 174 (180)
Q Consensus 152 ~llil~~v~g~vv~~vR~~~~~r 174 (180)
.+||+++|+++++..+|+..+..
T Consensus 69 ~iLIl~~Ia~~vv~~~r~~~~~~ 91 (289)
T PF07466_consen 69 DILILFGIAFFVVRFFRRRRSGS 91 (289)
T ss_pred HHHHHHHHHHHHHHHHHhhcccc
Confidence 99999999999999999987654
No 3
>PF07466 DUF1517: Protein of unknown function (DUF1517); InterPro: IPR010903 This family consists of several hypothetical glycine rich plant and bacterial proteins of around 300 residues in length. The function of this family is unknown.
Probab=95.59 E-value=0.075 Score=46.94 Aligned_cols=10 Identities=20% Similarity=0.275 Sum_probs=5.4
Q ss_pred hhCCccCCCC
Q 039199 77 KSGGRVGGQA 86 (180)
Q Consensus 77 rSGGRIGGgS 86 (180)
|.||+-...+
T Consensus 7 R~GG~SFssp 16 (289)
T PF07466_consen 7 RMGGGSFSSP 16 (289)
T ss_pred CcCCCCCCCC
Confidence 4566655543
No 4
>COG4371 Predicted membrane protein [Function unknown]
Probab=86.16 E-value=7.6 Score=35.67 Aligned_cols=52 Identities=35% Similarity=0.430 Sum_probs=34.8
Q ss_pred CC-CCCCCCCCcCCccccccCCce-eeccch-hHHHHHHHHHHHHHHHHHHHHhcCC
Q 039199 121 GY-GSYYGGWGWSPFSFFVPGPSV-AIGLGG-GFDLLALFLFLGAAAAVVRKFFGSR 174 (180)
Q Consensus 121 gy-g~gYgG~G~spFpf~~Pgp~~-g~G~GG-~f~llil~~v~g~vv~~vR~~~~~r 174 (180)
|| |++|+|+++++..|-.| ++ .++++| +|.=++=++|++++++.|-+.++++
T Consensus 72 gpsGGgY~gg~Y~GGGfgfP--fiip~~G~GGGfgGiFgilvf~aian~vv~~~Rr~ 126 (334)
T COG4371 72 GPSGGGYSGGGYSGGGFGFP--FIIPGGGGGGGFGGIFGILVFGAIANGVVGMMRRN 126 (334)
T ss_pred CCCCCCCCCCCCCCCCcCcC--eEeccCCcCCccccHHHHHHHHHHHHHHHHHHHhc
Confidence 45 45688888877787765 54 444445 3655555567888888888887764
No 5
>PLN00066 PsbP domain-containing protein 4; Provisional
Probab=81.76 E-value=4.4 Score=36.14 Aligned_cols=32 Identities=31% Similarity=0.452 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHhhhCCCchhHHhhh---CCccCC
Q 039199 50 NQLAKLAVVTLAAGVLTMGSVGDAVAAKS---GGRVGG 84 (180)
Q Consensus 50 ~~l~kl~~~~ll~g~L~l~~~~~A~AArS---GGRIGG 84 (180)
..|..++++ ...+ ++..|..++|++- -|||=|
T Consensus 49 ~~~~s~~~~-~~~~--~~~~~~~~~a~~~g~~ag~~~~ 83 (262)
T PLN00066 49 SALASGAAA-ASSA--VLAFPGEGLAVKQGLLAGRVPG 83 (262)
T ss_pred HHHHHHHHH-Hhhh--hhcCCcchhhhhhcccccCCCC
Confidence 455544443 2233 3445777887743 367655
No 6
>COG3462 Predicted membrane protein [Function unknown]
Probab=71.34 E-value=2.8 Score=33.78 Aligned_cols=29 Identities=21% Similarity=0.212 Sum_probs=17.2
Q ss_pred cccccCCceeeccchhHHHHHHHHHHHHHHHHHHHH
Q 039199 135 SFFVPGPSVAIGLGGGFDLLALFLFLGAAAAVVRKF 170 (180)
Q Consensus 135 pf~~Pgp~~g~G~GG~f~llil~~v~g~vv~~vR~~ 170 (180)
-+++| +++ .+.++++++.++..+..+|+-
T Consensus 50 ~lImp--I~~-----~vvli~lvvfm~~~~g~~r~~ 78 (117)
T COG3462 50 WLIMP--IFW-----AVVLIFLVVFMFYILGAVRRG 78 (117)
T ss_pred HHHHH--HHH-----HHHHHHHHHHHHHHHHHhccc
Confidence 45666 443 356666666666667766654
No 7
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=55.52 E-value=13 Score=39.37 Aligned_cols=9 Identities=33% Similarity=0.280 Sum_probs=5.0
Q ss_pred HhhhCCccC
Q 039199 75 AAKSGGRVG 83 (180)
Q Consensus 75 AArSGGRIG 83 (180)
||--+.=||
T Consensus 1141 Aa~inLmig 1149 (1282)
T KOG0921|consen 1141 AADINLMIG 1149 (1282)
T ss_pred cccccceec
Confidence 443466666
No 8
>PLN00042 photosystem II oxygen-evolving enhancer protein 2; Provisional
Probab=45.53 E-value=42 Score=30.17 Aligned_cols=38 Identities=18% Similarity=0.332 Sum_probs=20.5
Q ss_pred hhhhhhhhccccc---cC------CCCcCcccccceEEEeccCCCCC
Q 039199 5 ASQQSFLTNALVT---TH------RPRTKIVTCVKVISCTNRHDDQK 42 (180)
Q Consensus 5 ~~~~~f~~~~~~~---~~------~~~~~~~~~~~~~~~~~~~~~~~ 42 (180)
++.+|||....+. .. .+.....+....+.|+++..+..
T Consensus 2 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 48 (260)
T PLN00042 2 ASTACFLHQSALKSAAALASSSSASARAVSASRPSQVVCRAQEEDNS 48 (260)
T ss_pred cchhhhhhcccccchhhhcccccccccccCCCCCcceeeeccccccc
Confidence 3568888764332 11 11112234445789999765543
No 9
>PF15240 Pro-rich: Proline-rich
Probab=41.99 E-value=13 Score=31.63 Aligned_cols=19 Identities=21% Similarity=0.408 Sum_probs=13.5
Q ss_pred HHHHHHHHHHhhhCCCchh
Q 039199 55 LAVVTLAAGVLTMGSVGDA 73 (180)
Q Consensus 55 l~~~~ll~g~L~l~~~~~A 73 (180)
+|||+|.|.||+|+++++.
T Consensus 1 MLlVLLSvALLALSSAQ~~ 19 (179)
T PF15240_consen 1 MLLVLLSVALLALSSAQST 19 (179)
T ss_pred ChhHHHHHHHHHhhhcccc
Confidence 3677777888888776544
No 10
>PF04956 TrbC: TrbC/VIRB2 family; InterPro: IPR007039 Conjugal transfer protein, TrbC has been identified as a subunit of the pilus precursor in bacteria. The protein undergoes three processing steps before gaining its mature cyclic structure[]. This family also contains several VirB2 type IV secretion proteins. The virB2 gene encodes a putative type IV secretion system and is known to be a pathogenicity factor in Bartonella species [].
Probab=39.41 E-value=44 Score=23.89 Aligned_cols=32 Identities=22% Similarity=0.213 Sum_probs=17.6
Q ss_pred hHHHHHHHHHHHHHHHHhhhCCCchhHHhhhCC
Q 039199 48 NDNQLAKLAVVTLAAGVLTMGSVGDAVAAKSGG 80 (180)
Q Consensus 48 ~~~~l~kl~~~~ll~g~L~l~~~~~A~AArSGG 80 (180)
..++..+..+..+++.++++ .+++|.|+-.++
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~-~~~~A~A~~~~~ 35 (99)
T PF04956_consen 4 VQSKKRRKFLLLLLALALLL-LASPAFAQGGGG 35 (99)
T ss_pred HHHHHHHHHHHHHHHHHHHH-hCchhhhcCCCC
Confidence 33444444555555555544 377788875444
No 11
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=37.55 E-value=28 Score=26.38 Aligned_cols=12 Identities=25% Similarity=0.243 Sum_probs=5.5
Q ss_pred HHHHHHHHHhhh
Q 039199 56 AVVTLAAGVLTM 67 (180)
Q Consensus 56 ~~~~ll~g~L~l 67 (180)
++.++|+.+|++
T Consensus 8 lL~l~LA~lLli 19 (95)
T PF07172_consen 8 LLGLLLAALLLI 19 (95)
T ss_pred HHHHHHHHHHHH
Confidence 333444455554
No 12
>TIGR02112 cyd_oper_ybgE cyd operon protein YbgE. This model describes a small protein of unknown function, about 100 amino acids in length, essentially always found in an operon with CydAB, subunits of the cytochrome d terminal oxidase. It appears to be an integral membrane protein. It is found so far only in the Proteobacteria.
Probab=34.18 E-value=47 Score=25.59 Aligned_cols=35 Identities=23% Similarity=0.171 Sum_probs=21.5
Q ss_pred chhhhHHHHHHHHHHHHHHHHhhhCCCchhHHhhhCC
Q 039199 44 SSRKNDNQLAKLAVVTLAAGVLTMGSVGDAVAAKSGG 80 (180)
Q Consensus 44 ~~~k~~~~l~kl~~~~ll~g~L~l~~~~~A~AArSGG 80 (180)
...|...+...++++..+++.+.. +|+ ..|++.||
T Consensus 7 ~~dK~~lraLSlilAl~la~~v~w-~P~-~fa~~~g~ 41 (93)
T TIGR02112 7 LMDKGLLRALSFILAFLLAGCVFW-DPN-RFAAAIGG 41 (93)
T ss_pred HHhcchHHHHHHHHHHHHHHHHHc-CHH-HHHHHcCC
Confidence 445555566666666666666555 566 66776443
No 13
>PRK10588 hypothetical protein; Provisional
Probab=32.80 E-value=51 Score=25.62 Aligned_cols=34 Identities=24% Similarity=0.205 Sum_probs=20.8
Q ss_pred chhhhHHHHHHHHHHHHHHHHhhhCCCchhHHhhhC
Q 039199 44 SSRKNDNQLAKLAVVTLAAGVLTMGSVGDAVAAKSG 79 (180)
Q Consensus 44 ~~~k~~~~l~kl~~~~ll~g~L~l~~~~~A~AArSG 79 (180)
...|...+...++++..+++.+.. +|+ ..|++.|
T Consensus 11 l~dK~plRaLSliLAl~la~~v~w-~P~-~fa~~~~ 44 (97)
T PRK10588 11 VMDKRPLRALSLVMALLLAGCMFW-DPS-RFAAKTS 44 (97)
T ss_pred HHhcchHHHHHHHHHHHHHHHHHc-CHH-HHHHHcC
Confidence 345555555666666677776665 566 5666544
No 14
>PF14141 YqzM: YqzM-like protein
Probab=31.85 E-value=59 Score=22.30 Aligned_cols=18 Identities=11% Similarity=0.200 Sum_probs=8.3
Q ss_pred chhHHHHHHHHHHHHHHH
Q 039199 148 GGGFDLLALFLFLGAAAA 165 (180)
Q Consensus 148 GG~f~llil~~v~g~vv~ 165 (180)
+..|+++.++++++.++-
T Consensus 22 ~vsFgFF~~iFiIa~ii~ 39 (43)
T PF14141_consen 22 IVSFGFFATIFIIATIIK 39 (43)
T ss_pred hhhHHHHHHHHHHHHHHH
Confidence 333555544444444443
No 15
>PLN00019 photosystem I reaction center subunit III; Provisional
Probab=31.15 E-value=95 Score=27.57 Aligned_cols=16 Identities=6% Similarity=0.135 Sum_probs=11.0
Q ss_pred cCcccccceEEEeccC
Q 039199 23 TKIVTCVKVISCTNRH 38 (180)
Q Consensus 23 ~~~~~~~~~~~~~~~~ 38 (180)
.+...+..+++|.+++
T Consensus 19 ~~~~~~~~~~~csa~~ 34 (223)
T PLN00019 19 VAAPRRSARVVCSASK 34 (223)
T ss_pred cccCcceEEEEeeccc
Confidence 4455666688998863
No 16
>COG5336 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.67 E-value=44 Score=27.06 Aligned_cols=9 Identities=44% Similarity=0.778 Sum_probs=4.5
Q ss_pred CCceeeccc
Q 039199 140 GPSVAIGLG 148 (180)
Q Consensus 140 gp~~g~G~G 148 (180)
|..||.+.|
T Consensus 55 GilVGa~iG 63 (116)
T COG5336 55 GILVGAGIG 63 (116)
T ss_pred HHHHHHHHH
Confidence 445555544
No 17
>PF07123 PsbW: Photosystem II reaction centre W protein (PsbW); InterPro: IPR009806 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbW found in PSII, where it is a subunit of the oxygen-evolving complex. PsbW appears to have several roles, including guiding PSII biogenesis and assembly, stabilising dimeric PSII [], and facilitating PSII repair after photo-inhibition []. There appears to be two classes of PsbW, class 1 being found predominantly in algae and cyanobacteria, and class 2 being found predominantly in plants. This entry represents class 2 PsbW.; GO: 0015979 photosynthesis, 0009507 chloroplast, 0009523 photosystem II
Probab=20.62 E-value=1.4e+02 Score=24.77 Aligned_cols=35 Identities=17% Similarity=0.279 Sum_probs=0.0
Q ss_pred eeccc---hhHHHHHHHHHHHHHHHHHHHHhcCCCcccC
Q 039199 144 AIGLG---GGFDLLALFLFLGAAAAVVRKFFGSREDEED 179 (180)
Q Consensus 144 g~G~G---G~f~llil~~v~g~vv~~vR~~~~~r~d~dd 179 (180)
|.++| .+++++++. |.+.+....--+.++-+||||
T Consensus 96 GL~lGlsn~~LgwIL~g-Vf~lIWslY~~~~~~l~eded 133 (138)
T PF07123_consen 96 GLPLGLSNNLLGWILLG-VFGLIWSLYFVYTSTLDEDED 133 (138)
T ss_pred cccccccCchhHHHHHH-HHHHHHHHHHhhccccCCCcc
No 18
>PF12669 P12: Virus attachment protein p12 family
Probab=20.51 E-value=58 Score=22.63 Aligned_cols=8 Identities=38% Similarity=0.879 Sum_probs=4.3
Q ss_pred HHHHhcCC
Q 039199 167 VRKFFGSR 174 (180)
Q Consensus 167 vR~~~~~r 174 (180)
+|++..++
T Consensus 17 ~r~~~k~~ 24 (58)
T PF12669_consen 17 IRKFIKDK 24 (58)
T ss_pred HHHHHHHh
Confidence 46666443
Done!