Query 028368
Match_columns 210
No_of_seqs 128 out of 179
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 10:25:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028368.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028368hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF09348 DUF1990: Domain of un 100.0 3.5E-61 7.6E-66 396.6 19.7 157 30-203 1-158 (158)
2 COG4762 Uncharacterized protei 100.0 7E-52 1.5E-56 336.5 15.2 159 26-204 8-167 (168)
3 PF10604 Polyketide_cyc2: Poly 87.6 9.6 0.00021 28.3 15.1 81 117-207 58-138 (139)
4 cd08865 SRPBCC_10 Ligand-bindi 83.0 16 0.00035 26.9 16.9 100 96-208 39-139 (140)
5 TIGR02266 gmx_TIGR02266 Myxoco 73.6 24 0.00051 25.4 7.3 62 61-128 5-68 (96)
6 cd07822 SRPBCC_4 Ligand-bindin 69.2 43 0.00094 24.7 15.8 99 99-207 40-140 (141)
7 cd07824 SRPBCC_6 Ligand-bindin 43.6 1.5E+02 0.0032 22.8 16.0 98 97-206 43-145 (146)
8 cd08862 SRPBCC_Smu440-like Lig 42.4 1.4E+02 0.003 22.0 16.1 130 62-208 5-137 (138)
9 cd07817 SRPBCC_8 Ligand-bindin 39.3 1.6E+02 0.0034 21.8 14.1 68 140-208 70-138 (139)
10 PF07238 PilZ: PilZ domain; I 35.6 1.3E+02 0.0027 20.9 5.4 40 89-128 35-75 (102)
11 PF06094 AIG2: AIG2-like famil 27.5 25 0.00054 25.6 0.5 7 140-146 2-8 (102)
12 cd07820 SRPBCC_3 Ligand-bindin 27.3 2.8E+02 0.006 21.0 12.9 83 96-187 41-123 (137)
13 cd08876 START_1 Uncharacterize 26.9 3.2E+02 0.007 22.0 7.1 50 155-207 145-194 (195)
14 PF11066 DUF2867: Protein of u 23.5 2.7E+02 0.0059 22.0 5.9 65 120-196 81-145 (149)
15 PRK11251 DNA-binding transcrip 21.8 1.7E+02 0.0038 22.8 4.3 28 136-167 64-91 (109)
16 TIGR02588 conserved hypothetic 21.2 4.4E+02 0.0095 21.2 8.5 59 115-176 63-122 (122)
17 COG4894 Uncharacterized conser 21.2 1.5E+02 0.0034 24.7 4.0 45 151-196 16-64 (159)
18 cd06661 GGCT_like GGCT-like do 21.0 44 0.00095 23.8 0.7 17 158-174 44-60 (99)
No 1
>PF09348 DUF1990: Domain of unknown function (DUF1990); InterPro: IPR018960 This entry represents proteins that are functionally uncharacterised.
Probab=100.00 E-value=3.5e-61 Score=396.57 Aligned_cols=157 Identities=36% Similarity=0.627 Sum_probs=150.3
Q ss_pred CCCCCCCCcccCCccccccCCCCCCCCceeeeeEEEecCchhHHHHHHHHHhcccccCceeeEe-cCCCCCCCCcEEEEE
Q 028368 30 NYDTKYKGATAKPVACLKEDQGLSKDGFLLNHARVLVGSGLETYEKGKTALKTWRHFGLNWAFV-DPKTPIQNGVKFCVC 108 (210)
Q Consensus 30 tY~~~~vGaT~~~~~~~~~~~~~~p~Gy~~~~~~~~lG~G~~~F~~A~~aL~~W~~~~~~g~~V-~~~~p~~~G~~v~~~ 108 (210)
|||+ ||||+. +.+|+||+|++.+++||+|+++|++|+++|++|+||+.+|++| .+++|+.+|++|+++
T Consensus 1 tY~e--vgat~~---------~~~p~Gy~~~~~~~~lG~G~~~f~~A~~al~~W~~~~~~g~~v~~~~~~~~~G~~v~l~ 69 (158)
T PF09348_consen 1 TYPE--VGATRQ---------GELPAGYRHVRRRVRLGSGEAVFERAAAALLSWRMHRRAGVRVRASDPPAAPGRTVVLR 69 (158)
T ss_pred Cccc--ccccCC---------CCCCCCceEEEEEEEccCCchHHHHHHHHHhccCCCCCcEEEEECCCCccCCCCEEEEE
Confidence 8999 999983 3479999999999999999999999999999999999999999 566778999999999
Q ss_pred eecccceeeeceEEEEEeecccccCCcceEEEEeecCCCCccceeEEEEEEEcCCCeEEEEEEEEecCCchhhhhhhhhH
Q 028368 109 VKEFLPWVTLPLQIVYVNESIRKKKTAASFGFGSGTLQGHLLAGEERFSIELDDNNQVWYEIVSFSKPADFLSFIGYPYV 188 (210)
Q Consensus 109 ~~~~~~~~~~PcRVV~v~de~~~~~~~~r~GFaYGTLpGHpe~GEE~F~Ve~~~dg~V~~~I~AFSRPa~~~~rlg~P~~ 188 (210)
.+.+++|+.+|||||||+|| ++++||+|||||||||+|||+|.||+|+||+|||+|+|||||++|++||++|++
T Consensus 70 ~~~~~~~~~~p~RVv~v~de------~~r~GF~ygTL~GHpe~GEE~F~V~~~~dg~V~~~I~afSRP~~~~~rl~~P~~ 143 (158)
T PF09348_consen 70 AGVGPLWIRAPCRVVYVVDE------PDRFGFAYGTLPGHPERGEERFSVERDDDGSVWFEIRAFSRPASWLARLGYPVA 143 (158)
T ss_pred eeccceEEEeeEEEEEEEcC------CceEEEEEEeCCCChhhcEEEEEEEECCCCeEEEEEEEEecccchHHHhhhHHH
Confidence 99888999999999999995 699999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHH
Q 028368 189 QLRQKYFAHQSVNAV 203 (210)
Q Consensus 189 r~~Qr~~~rry~~al 203 (210)
+.+|++|+++|++||
T Consensus 144 r~~Q~~~~rry~~am 158 (158)
T PF09348_consen 144 RRAQRRFARRYLRAM 158 (158)
T ss_pred HHHHHHHHHHHHhhC
Confidence 999999999999997
No 2
>COG4762 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=100.00 E-value=7e-52 Score=336.49 Aligned_cols=159 Identities=30% Similarity=0.460 Sum_probs=148.7
Q ss_pred cCCCCCCCCCCCcccCCccccccCCCCCCCCceeeeeEEEecCchhHHHHHHHHHhcccccCceeeEecCCCCCCCCcEE
Q 028368 26 SGVFNYDTKYKGATAKPVACLKEDQGLSKDGFLLNHARVLVGSGLETYEKGKTALKTWRHFGLNWAFVDPKTPIQNGVKF 105 (210)
Q Consensus 26 ~~~~tY~~~~vGaT~~~~~~~~~~~~~~p~Gy~~~~~~~~lG~G~~~F~~A~~aL~~W~~~~~~g~~V~~~~p~~~G~~v 105 (210)
+.+++||| +|++. .+.+|+||+|.+++.+||.|++||++|++||++|+||+..|++|+.++++.+++.+
T Consensus 8 e~~~~~~e--~g~s~---------~gr~p~g~~~~~~~l~lG~GeacfenA~~aL~sw~~hr~aglrvh~s~s~vv~~~~ 76 (168)
T COG4762 8 ELPLTYPE--VGASA---------TGRLPAGYNHLDVSLQLGTGEACFENAADALMSWGMHRNAGLRVHASSSTVVLVSA 76 (168)
T ss_pred hcCCCccc--ccccc---------cCcCCccccceeEEEEecccHHHHHHHHHHHhcccccccccEEeeccCCceeeeee
Confidence 67899999 99997 46799999999999999999999999999999999999999999999988888655
Q ss_pred EEEeecccce-eeeceEEEEEeecccccCCcceEEEEeecCCCCccceeEEEEEEEcCCCeEEEEEEEEecCCchhhhhh
Q 028368 106 CVCVKEFLPW-VTLPLQIVYVNESIRKKKTAASFGFGSGTLQGHLLAGEERFSIELDDNNQVWYEIVSFSKPADFLSFIG 184 (210)
Q Consensus 106 ~~~~~~~~~~-~~~PcRVV~v~de~~~~~~~~r~GFaYGTLpGHpe~GEE~F~Ve~~~dg~V~~~I~AFSRPa~~~~rlg 184 (210)
++.. ++| +++||||+|++|| |+++||+|||||||+++|||+|.||+|++|+|||+|.+|||||.|+++++
T Consensus 77 vllv---g~w~~r~~cRVL~l~d~------~~~~gf~yGTL~ghv~rgeErflierda~d~V~~~i~sfsr~Al~~skla 147 (168)
T COG4762 77 VLLV---GIWFLRAPCRVLYLIDE------PDVRGFGYGTLPGHVVRGEERFLIERDAMDSVVFEILSFSRPALWASKLA 147 (168)
T ss_pred eeee---eeeeeecccEEEEEecC------CceeEEeecccCCccccchhheeEEecCCCcEEEEeeccccchhhhhhhh
Confidence 5544 466 8999999999995 79999999999999999999999999999999999999999999999999
Q ss_pred hhhHHHHHHHHHHHHHHHHH
Q 028368 185 YPYVQLRQKYFAHQSVNAVK 204 (210)
Q Consensus 185 ~P~~r~~Qr~~~rry~~al~ 204 (210)
.|+++.+||+++++|++.|.
T Consensus 148 ~plv~~vqrr~aq~Ylrgl~ 167 (168)
T COG4762 148 GPLVAVVQRRIAQRYLRGLK 167 (168)
T ss_pred hhHHHHHHHHHHHHHHhhcC
Confidence 99999999999999999885
No 3
>PF10604 Polyketide_cyc2: Polyketide cyclase / dehydrase and lipid transport; InterPro: IPR019587 This family contains polyketide cylcases/dehydrases which are enzymes involved in polyketide synthesis. It also includes other proteins of the START superfamily []. ; PDB: 3QRZ_C 3CNW_A 3P9V_A 3OQU_B 3NEF_B 3JRQ_B 3KAY_A 3JRS_A 3KDJ_A 3NMN_C ....
Probab=87.64 E-value=9.6 Score=28.31 Aligned_cols=81 Identities=11% Similarity=0.147 Sum_probs=55.5
Q ss_pred eeceEEEEEeecccccCCcceEEEEeecCCCCccceeEEEEEEEcCCCeEEEEEEEEecCCchhhhhhhhhHHHHHHHHH
Q 028368 117 TLPLQIVYVNESIRKKKTAASFGFGSGTLQGHLLAGEERFSIELDDNNQVWYEIVSFSKPADFLSFIGYPYVQLRQKYFA 196 (210)
Q Consensus 117 ~~PcRVV~v~de~~~~~~~~r~GFaYGTLpGHpe~GEE~F~Ve~~~dg~V~~~I~AFSRPa~~~~rlg~P~~r~~Qr~~~ 196 (210)
..-++|+...+ ++..+.|.-. +.....+.-+|.++-.++| ..++....-+| .+...+..|+.+..-+...
T Consensus 58 ~~~~~i~~~~~------~~~~~~~~~~--~~~~~~~~~~~~~~~~~~g-t~v~~~~~~~~-~~~~~~~~~~~~~~~~~~~ 127 (139)
T PF10604_consen 58 TVREEITEYDP------EPRRITWRFV--PSGFTNGTGRWRFEPVGDG-TRVTWTVEFEP-GLPGWLAGPLLRPAVKRIV 127 (139)
T ss_dssp EEEEEEEEEET------TTTEEEEEEE--SSSSCEEEEEEEEEEETTT-EEEEEEEEEEE-SCTTSCHHHHHHHHHHHHH
T ss_pred ceeEEEEEecC------CCcEEEEEEE--ecceeEEEEEEEEEEcCCC-EEEEEEEEEEE-eccchhhHHHHHHHHHHHH
Confidence 34567776664 2467776654 4444467888999988888 45666555555 4456667788888888888
Q ss_pred HHHHHHHHHHh
Q 028368 197 HQSVNAVKKHL 207 (210)
Q Consensus 197 rry~~al~~~v 207 (210)
++.++.|++.+
T Consensus 128 ~~~l~~l~~~~ 138 (139)
T PF10604_consen 128 REALENLKRAA 138 (139)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHhccc
Confidence 88999988875
No 4
>cd08865 SRPBCC_10 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins. Uncharacterized group of the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily. SRPBCC domains have a deep hydrophobic ligand-binding pocket and they bind diverse ligands. SRPBCC domains include the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD1-STARD15, the C-terminal catalytic domains of the alpha oxygenase subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs_alpha_C), Class I and II phosphatidylinositol transfer proteins (PITPs), Bet v 1 (the major pollen allergen of white birch, Betula verrucosa), CoxG, CalC, and related proteins. Other members of the superfamily include PYR/PYL/RCAR plant proteins, the aromatase/cyclase (ARO/CYC) domains of proteins such as Streptomyces glaucescens tetracenomycin, and the SRPBCC domains of Streptococcus mutans Smu.440 and related proteins.
Probab=83.05 E-value=16 Score=26.90 Aligned_cols=100 Identities=13% Similarity=0.085 Sum_probs=55.7
Q ss_pred CCCCCCCcEEEEEeecccceeeeceEEEEEeecccccCCcceEEEEeecCCCCccceeEEEEEEEcCCC-eEEEEEEEEe
Q 028368 96 KTPIQNGVKFCVCVKEFLPWVTLPLQIVYVNESIRKKKTAASFGFGSGTLQGHLLAGEERFSIELDDNN-QVWYEIVSFS 174 (210)
Q Consensus 96 ~~p~~~G~~v~~~~~~~~~~~~~PcRVV~v~de~~~~~~~~r~GFaYGTLpGHpe~GEE~F~Ve~~~dg-~V~~~I~AFS 174 (210)
+.+..+|..+.+.....+..+..-++|+.... +.++- |.... .+..++..|.++-.++| .|.+++..-.
T Consensus 39 ~~~~~~g~~~~~~~~~~g~~~~~~~~v~~~~p-------~~~~~--~~~~~-~~~~~~~~~~~~~~~~~t~v~~~~~~~~ 108 (140)
T cd08865 39 DGPVGVGTRYHQVRKFLGRRIELTYEITEYEP-------GRRVV--FRGSS-GPFPYEDTYTFEPVGGGTRVRYTAELEP 108 (140)
T ss_pred CCCCcCccEEEEEEEecCceEEEEEEEEEecC-------CcEEE--EEecC-CCcceEEEEEEEEcCCceEEEEEEEEcc
Confidence 34557888887755433333445566654332 34444 44443 37789999999977665 3545554332
Q ss_pred cCCchhhhhhhhhHHHHHHHHHHHHHHHHHHHhh
Q 028368 175 KPADFLSFIGYPYVQLRQKYFAHQSVNAVKKHLT 208 (210)
Q Consensus 175 RPa~~~~rlg~P~~r~~Qr~~~rry~~al~~~v~ 208 (210)
..+.++..+++...=+...++.+++|++.+.
T Consensus 109 ---~~~~~~~~~~~~~~~~~~~~~~l~~lk~~~e 139 (140)
T cd08865 109 ---GGFARLLDPLMAPAFRRRARAALENLKALLE 139 (140)
T ss_pred ---chhHHHHHHHHHHHHhhhhHHHHHHHHHHhh
Confidence 2234454555444444444556667766553
No 5
>TIGR02266 gmx_TIGR02266 Myxococcus xanthus paralogous domain TIGR02266. This domain is related to Type IV pilus assembly protein PilZ (Pfam model pfam07238). It is found in at least 12 copies in Myxococcus xanthus DK 1622.
Probab=73.63 E-value=24 Score=25.40 Aligned_cols=62 Identities=13% Similarity=0.088 Sum_probs=41.7
Q ss_pred eeEEEecCchhHHHHHHHHHhcccccCceeeEecCCCCCCCCcEEEEEeeccc--ceeeeceEEEEEeec
Q 028368 61 HARVLVGSGLETYEKGKTALKTWRHFGLNWAFVDPKTPIQNGVKFCVCVKEFL--PWVTLPLQIVYVNES 128 (210)
Q Consensus 61 ~~~~~lG~G~~~F~~A~~aL~~W~~~~~~g~~V~~~~p~~~G~~v~~~~~~~~--~~~~~PcRVV~v~de 128 (210)
+..+.+.++...|+--. .+ --.+|+++..+.+..+|..|.+...... ..+...++|+|+.+.
T Consensus 5 ~~~~~~~~~~~~~~~~~---~d---iS~gG~~~~~~~~~~~g~~v~l~l~l~~~~~~i~~~g~Vv~~~~~ 68 (96)
T TIGR02266 5 RLKVDFRTDSEFLRDYS---IN---LSKGGLFIRTRKPLAVGTRVELKLTLPGGERPVELKGVVAWVRPA 68 (96)
T ss_pred EEEEEECChhhHHHHHh---hh---cCCceEEEecCCCcCCCCEEEEEEEcCCCCeEEEEEEEEEEeCCC
Confidence 45667777655443211 11 2236788888888899999988875333 247788999999974
No 6
>cd07822 SRPBCC_4 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins. Uncharacterized group of the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily. SRPBCC domains have a deep hydrophobic ligand-binding pocket and they bind diverse ligands. SRPBCC domains include the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD1-STARD15, the C-terminal catalytic domains of the alpha oxygenase subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs_alpha_C), Class I and II phosphatidylinositol transfer proteins (PITPs), Bet v 1 (the major pollen allergen of white birch, Betula verrucosa), CoxG, CalC, and related proteins. Other members of the superfamily include PYR/PYL/RCAR plant proteins, the aromatase/cyclase (ARO/CYC) domains of proteins such as Streptomyces glaucescens tetracenomycin, and the SRPBCC domains of Streptococcus mutans Smu.440 and related proteins.
Probab=69.19 E-value=43 Score=24.67 Aligned_cols=99 Identities=17% Similarity=0.116 Sum_probs=54.8
Q ss_pred CCCCcEEEEEeeccc-ceeeeceEEEEEeecccccCCcceEEEEeecCCCCccceeEEEEEEEcCCCeEEEEE-EEEecC
Q 028368 99 IQNGVKFCVCVKEFL-PWVTLPLQIVYVNESIRKKKTAASFGFGSGTLQGHLLAGEERFSIELDDNNQVWYEI-VSFSKP 176 (210)
Q Consensus 99 ~~~G~~v~~~~~~~~-~~~~~PcRVV~v~de~~~~~~~~r~GFaYGTLpGHpe~GEE~F~Ve~~~dg~V~~~I-~AFSRP 176 (210)
..+|..+.......+ ......++|+.++. +.++.|....-+.-...++-.|.++-.++|...++. ..|+-+
T Consensus 40 ~~~G~~~~~~~~~~~~~~~~~~~~v~~~~p-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~T~~~~~~~~~g~ 112 (141)
T cd07822 40 LALGARLRFVVKLPGGPPRSFKPRVTEVEP-------PRRLAWRGGLPFPGLLDGEHSFELEPLGDGGTRFVHRETFSGL 112 (141)
T ss_pred cCCCCEEEEEEeCCCCCcEEEEEEEEEEcC-------CCEeEEEecCCCCcEeeEEEEEEEEEcCCCcEEEEEeeEEEEE
Confidence 578999888665332 33556667765443 578888865554334567888888876444444443 244322
Q ss_pred CchhhhhhhhhHHHHHHHHHHHHHHHHHHHh
Q 028368 177 ADFLSFIGYPYVQLRQKYFAHQSVNAVKKHL 207 (210)
Q Consensus 177 a~~~~rlg~P~~r~~Qr~~~rry~~al~~~v 207 (210)
..++..++.+..-+.-.++.++.|++.+
T Consensus 113 ---~~~~~~~~~~~~~~~~~~~~~~~L~~~~ 140 (141)
T cd07822 113 ---LAPLVLLGLGRDLRAGFEAMNEALKARA 140 (141)
T ss_pred ---EhHHhhhhhHHHHhHhHHHHHHHHHHhh
Confidence 2233333333333333444556665543
No 7
>cd07824 SRPBCC_6 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins. Uncharacterized group of the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily. SRPBCC domains have a deep hydrophobic ligand-binding pocket and they bind diverse ligands. SRPBCC domains include the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD1-STARD15, the C-terminal catalytic domains of the alpha oxygenase subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs_alpha_C), Class I and II phosphatidylinositol transfer proteins (PITPs), Bet v 1 (the major pollen allergen of white birch, Betula verrucosa), CoxG, CalC, and related proteins. Other members of the superfamily include PYR/PYL/RCAR plant proteins, the aromatase/cyclase (ARO/CYC) domains of proteins such as Streptomyces glaucescens tetracenomycin, and the SRPBCC domains of Streptococcus mutans Smu.440 and related proteins.
Probab=43.64 E-value=1.5e+02 Score=22.82 Aligned_cols=98 Identities=11% Similarity=0.230 Sum_probs=54.9
Q ss_pred CCCCCCcEEEEEeecccce-eeeceEEEEEeecccccCCcceEEEEeecCCCCccceeEEEEEEEcCCCeEEEEEE-EEe
Q 028368 97 TPIQNGVKFCVCVKEFLPW-VTLPLQIVYVNESIRKKKTAASFGFGSGTLQGHLLAGEERFSIELDDNNQVWYEIV-SFS 174 (210)
Q Consensus 97 ~p~~~G~~v~~~~~~~~~~-~~~PcRVV~v~de~~~~~~~~r~GFaYGTLpGHpe~GEE~F~Ve~~~dg~V~~~I~-AFS 174 (210)
.+...|..+.+......++ +..-++|..+ + .+.++.|. ..|+ ..|+-.|.++-.++| ..++.. .|+
T Consensus 43 ~~~~~g~~~~~~~~~~~~~~~~~~~~v~~~--~-----p~~~~~~~---~~g~-~~~~~~~~~~~~~~g-t~vt~~~~~~ 110 (146)
T cd07824 43 DEAGIGARRRYTWRGLLPYRLRFELRVTRI--E-----PLSLLEVR---ASGD-LEGVGRWTLAPDGSG-TVVRYDWEVR 110 (146)
T ss_pred CCCCcceEEEEEEEecCCcEEEEEEEEEee--c-----CCcEEEEE---EEEe-eeEEEEEEEEEcCCC-EEEEEEEEEE
Confidence 3446677665432212222 3333444332 1 24566653 2353 667888999876665 445554 566
Q ss_pred cCCc---hhhhhhhhhHHHHHHHHHHHHHHHHHHH
Q 028368 175 KPAD---FLSFIGYPYVQLRQKYFAHQSVNAVKKH 206 (210)
Q Consensus 175 RPa~---~~~rlg~P~~r~~Qr~~~rry~~al~~~ 206 (210)
-+.. .++.+..|+.+..=+++.+.-+++|++.
T Consensus 111 ~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~L~~~ 145 (146)
T cd07824 111 TTKPWMNLLAPLARPVFRWNHRRVMRAGEKGLARR 145 (146)
T ss_pred cCHHHHHhhhHhhhhHHHHhHHHHHHhHHHHHHhh
Confidence 6665 4666666666666666666677776654
No 8
>cd08862 SRPBCC_Smu440-like Ligand-binding SRPBCC domain of Streptococcus mutans Smu.440 and related proteins. This family includes the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain of Streptococcus mutans Smu.440 and related proteins. This domain belongs to the SRPBCC domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. Streptococcus mutans is a dental pathogen, and the leading cause of dental caries. In this pathogen, the gene encoding Smu.440 is in the same operon as the gene encoding SMU.441, a member of the MarR protein family of transcriptional regulators involved in multiple antibiotic resistance. It has been suggested that SMU.440 is involved in polyketide-like antibiotic resistance.
Probab=42.38 E-value=1.4e+02 Score=22.05 Aligned_cols=130 Identities=14% Similarity=0.180 Sum_probs=67.2
Q ss_pred eEEEecCch-hHHHHHHHHHhcccccCceeeEecCCCCC-CCCcEEEEEeecccceeeeceEEEEEeecccccCCcceEE
Q 028368 62 ARVLVGSGL-ETYEKGKTALKTWRHFGLNWAFVDPKTPI-QNGVKFCVCVKEFLPWVTLPLQIVYVNESIRKKKTAASFG 139 (210)
Q Consensus 62 ~~~~lG~G~-~~F~~A~~aL~~W~~~~~~g~~V~~~~p~-~~G~~v~~~~~~~~~~~~~PcRVV~v~de~~~~~~~~r~G 139 (210)
.++.|-.-. .+|+...+ +.+|.-.-..-..+....+. ..|..+.+..+. .. ..-.+|+... .+.++-
T Consensus 5 ~~~~i~Ap~~~Vw~~~~d-~~~~~~w~~~~~~~~~~~~~~~~G~~~~~~~~~-~~--~~~~~i~~~~-------p~~~~~ 73 (138)
T cd08862 5 ATIVIDAPPERVWAVLTD-VENWPAWTPSVETVRLEGPPPAVGSSFKMKPPG-LV--RSTFTVTELR-------PGHSFT 73 (138)
T ss_pred EEEEEcCCHHHHHHHHHh-hhhcccccCcceEEEEecCCCCCCcEEEEecCC-CC--ceEEEEEEec-------CCCEEE
Confidence 344444432 45655555 55553211121223322332 778888765431 11 2223333222 245655
Q ss_pred EEeecCCCCccceeEEEEEEEcCCCeEEEEE-EEEecCCchhhhhhhhhHHHHHHHHHHHHHHHHHHHhh
Q 028368 140 FGSGTLQGHLLAGEERFSIELDDNNQVWYEI-VSFSKPADFLSFIGYPYVQLRQKYFAHQSVNAVKKHLT 208 (210)
Q Consensus 140 FaYGTLpGHpe~GEE~F~Ve~~~dg~V~~~I-~AFSRPa~~~~rlg~P~~r~~Qr~~~rry~~al~~~v~ 208 (210)
|.. .-+ ...++-.|.++-.++|.+.+++ ..|+.|. ..+..++....-+...++.++.|++.+.
T Consensus 74 ~~~-~~~--~~~~~~~~~~~~~~~~~t~l~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~l~~lk~~~E 137 (138)
T cd08862 74 WTG-PAP--GISAVHRHEFEAKPDGGVRVTTSESLSGPL---AFLFGLFVGKKLRALLPEWLEGLKAAAE 137 (138)
T ss_pred EEe-cCC--CEEEEEEEEEEEcCCCcEEEEEEEEeecch---HHHHHHHHHHHHHhhHHHHHHHHHHHhc
Confidence 542 222 2455667777765545555544 3455553 3345677777777777888888888775
No 9
>cd07817 SRPBCC_8 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins. Uncharacterized group of the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily. SRPBCC domains have a deep hydrophobic ligand-binding pocket and they bind diverse ligands. SRPBCC domains include the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD1-STARD15, the C-terminal catalytic domains of the alpha oxygenase subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs_alpha_C), Class I and II phosphatidylinositol transfer proteins (PITPs), Bet v 1 (the major pollen allergen of white birch, Betula verrucosa), CoxG, CalC, and related proteins. Other members of the superfamily include PYR/PYL/RCAR plant proteins, the aromatase/cyclase (ARO/CYC) domains of proteins such as Streptomyces glaucescens tetracenomycin, and the SRPBCC domains of Streptococcus mutans Smu.440 and related proteins.
Probab=39.31 E-value=1.6e+02 Score=21.78 Aligned_cols=68 Identities=4% Similarity=-0.050 Sum_probs=42.9
Q ss_pred EEeecCCCCccceeEEEEEEEcCCCeEEEEEEEEecCC-chhhhhhhhhHHHHHHHHHHHHHHHHHHHhh
Q 028368 140 FGSGTLQGHLLAGEERFSIELDDNNQVWYEIVSFSKPA-DFLSFIGYPYVQLRQKYFAHQSVNAVKKHLT 208 (210)
Q Consensus 140 FaYGTLpGHpe~GEE~F~Ve~~~dg~V~~~I~AFSRPa-~~~~rlg~P~~r~~Qr~~~rry~~al~~~v~ 208 (210)
+.|....|.. .++-.+.++-.+++...++....-.|. ....++..|+...+=++..+.+++.|++.+.
T Consensus 70 i~~~~~~~~~-~~~~~~~f~~~~~~~T~vt~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~lk~~aE 138 (139)
T cd07817 70 IAWRSVEGAD-PNAGSVRFRPAPGRGTRVTLTIEYEPPGGAEGAAVAGLLGGEPERQLREDLRRFKQLVE 138 (139)
T ss_pred EEEEECCCCC-CcceEEEEEECCCCCeEEEEEEEEECCcchhhhhHHHHhhhhHHHHHHHHHHHHHHHhh
Confidence 4454455553 666677777655556777776444444 4455676776666666666778888887653
No 10
>PF07238 PilZ: PilZ domain; InterPro: IPR009875 The ubiquitous bacterial second messenger cyclic-di-GMP (c-di-GMP) is associated with the regulation of biofilm formation, the control of exopolysaccharide synthesis, flagellar- and pili-based motility, gene expression, interactions of bacteria with eukaryotic hosts and multicellular behaviour in diverse bacteria. With the exception of bacterial cellulose synthases, the identities of c-di-GMP receptors and end targets of the proteins having one or more PilZ domains are mostly uncharacterised. However it was suggested that the PilZ domains present in the BcsA subunits of bacterial cellulose synthases function in c-di-GMP binding []. More recently YcgR (see IPR023787 from INTERPRO) was found to bind c-di-GMP tightly and specifically; also isolated PilZ domains from YcgR and BcsA bound c-di-GMP indicating that the PilZ domain was sufficient for binding of c-di-GMP and significantly that site-directed mutagenesis performed on YcgR implicated the most conserved residues in the PilZ domain directly in c-di-GMP binding []. It was suggested that c-di-GMP binding to PilZ brings about conformational changes in the protein that stabilise the bound ligand and probability initiates the downstream signal transduction cascade. In the case of YcgR, c-di-GMP binding regulates flagellum-based motility in a c-di-GMP-dependent manner (see IPR023787 from INTERPRO) []. The association of the PilZ domain with a variety of other domains, including likely components of bacterial multidrug secretion system, could provide clues to multiple functions of the c-di-GMP in bacterial pathogenesis and cell development. Binding and mutagenesis studies of several PilZ domain proteins have confirmed this observation and demonstrated that c-di-GMP binding depends on residues in RxxxR and D/NxSxxG sequence motifs. The crystal structure, at 1.7 A, of a PilZ domain::c-di-GMP complex from Vibrio cholerae shows c-di-GMP contacting seven of nine strongly conserved residues. Binding of c-di-GMP causes a conformational switch whereby the C- and N-terminal domains are brought into close opposition forming a new allosteric interaction surface that spans these domains and the c-di-GMP at their interface []. ; GO: 0035438 cyclic-di-GMP binding; PDB: 2RDE_B 1YLN_A 3KYG_A 3DSG_B 2GJG_A 3KYF_A 1YWU_A 2L74_A 2L1T_A 3CNR_A ....
Probab=35.57 E-value=1.3e+02 Score=20.90 Aligned_cols=40 Identities=8% Similarity=0.020 Sum_probs=26.8
Q ss_pred eeeEecCCCCCCCCcEEEEEeecccce-eeeceEEEEEeec
Q 028368 89 NWAFVDPKTPIQNGVKFCVCVKEFLPW-VTLPLQIVYVNES 128 (210)
Q Consensus 89 ~g~~V~~~~p~~~G~~v~~~~~~~~~~-~~~PcRVV~v~de 128 (210)
+|+.+..+.+..+|..|.+.......- ....++|+++...
T Consensus 35 ~G~~~~~~~~~~~~~~v~l~~~~~~~~~~~~~~~V~~~~~~ 75 (102)
T PF07238_consen 35 GGCAFRSPKPLEPGDRVRLSFSLPGGGFPIVTGRVVRIQKD 75 (102)
T ss_dssp SEEEEEECTG--TTSEEEEEEECTTTSCEEEEEEEEEEEEE
T ss_pred cceEEEECCCCCCCCEEEEEEEeCCCCeeEEEEEEEEEECC
Confidence 567776666889999888776533222 2388999999984
No 11
>PF06094 AIG2: AIG2-like family; InterPro: IPR009288 AIG2 is an Arabidopsis protein that exhibit RPS2- and avrRpt2-dependent induction early after infection with Pseudomonas syringae pv maculicola strain ES4326 carrying avrRpt2 []. Its structure consists of a five-stranded beta-barrel surrounded by two alpha-helices and a small beta-sheet. A long flexible alpha-helix protrudes from the structure at the C-terminal end. Conserved residues in a hydrophilic cavity, which are able to bind small ligands, may act as an active site in AIG2-like proteins [].; PDB: 1XHS_A 2KL2_A 1VKB_A 3JUD_A 3JUB_A 3JUC_A 2JQV_A 2QIK_A 2G0Q_A 1V30_A.
Probab=27.55 E-value=25 Score=25.58 Aligned_cols=7 Identities=57% Similarity=0.662 Sum_probs=5.6
Q ss_pred EEeecCC
Q 028368 140 FGSGTLQ 146 (210)
Q Consensus 140 FaYGTLp 146 (210)
|.||||-
T Consensus 2 FvYGTL~ 8 (102)
T PF06094_consen 2 FVYGTLM 8 (102)
T ss_dssp EESSTTS
T ss_pred EEECCCC
Confidence 8899884
No 12
>cd07820 SRPBCC_3 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins. Uncharacterized group of the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily. SRPBCC domains have a deep hydrophobic ligand-binding pocket and they bind diverse ligands. SRPBCC domains include the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD1-STARD15, the C-terminal catalytic domains of the alpha oxygenase subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs_alpha_C), Class I and II phosphatidylinositol transfer proteins (PITPs), Bet v 1 (the major pollen allergen of white birch, Betula verrucosa), CoxG, CalC, and related proteins. Other members of the superfamily include PYR/PYL/RCAR plant proteins, the aromatase/cyclase (ARO/CYC) domains of proteins such as Streptomyces glaucescens tetracenomycin, and the SRPBCC domains of Streptococcus mutans Smu.440 and related proteins.
Probab=27.35 E-value=2.8e+02 Score=21.02 Aligned_cols=83 Identities=14% Similarity=0.118 Sum_probs=45.1
Q ss_pred CCCCCCCcEEEEEeecccceeeeceEEEEEeecccccCCcceEEEEeecCCCCccceeEEEEEEEcCCCeEEEEEEEEec
Q 028368 96 KTPIQNGVKFCVCVKEFLPWVTLPLQIVYVNESIRKKKTAASFGFGSGTLQGHLLAGEERFSIELDDNNQVWYEIVSFSK 175 (210)
Q Consensus 96 ~~p~~~G~~v~~~~~~~~~~~~~PcRVV~v~de~~~~~~~~r~GFaYGTLpGHpe~GEE~F~Ve~~~dg~V~~~I~AFSR 175 (210)
+.++.+|+.+....+.++..+.-=++|+.... +.++.+. ...|=...-+-.+.++-.++|...=....|+=
T Consensus 41 ~~~~~~G~~~~~~~~~~~~~~~w~~~it~~~p-------~~~f~~~--~~~G~~~~w~h~~~f~~~~~gT~vt~~v~~~~ 111 (137)
T cd07820 41 PGLIYGGARVTYRLRHFGIPQRWTTEITEVEP-------PRRFVDE--QVSGPFRSWRHTHRFEAIGGGTLMTDRVEYRL 111 (137)
T ss_pred CCcccCCcEEEEEEEecCCceEEEEEEEEEcC-------CCeEEEE--eccCCchhCEEEEEEEECCCceEEEEEEEEeC
Confidence 34457789888877655533344455543332 3455544 44453344566666665556633223345666
Q ss_pred CCchhhhhhhhh
Q 028368 176 PADFLSFIGYPY 187 (210)
Q Consensus 176 Pa~~~~rlg~P~ 187 (210)
|...+.++..|+
T Consensus 112 p~g~lg~~~~~~ 123 (137)
T cd07820 112 PLGPLGRLAAPL 123 (137)
T ss_pred CchhHHHHHHHH
Confidence 776666665553
No 13
>cd08876 START_1 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family. Functionally uncharacterized subgroup of the START domain family. The START domain family belongs to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. For some mammalian members of the START family (STARDs), it is known which lipids bind in this pocket; these include cholesterol (STARD1, -3, -4, and -5), 25-hydroxycholesterol (STARD5), phosphatidylcholine (STARD2, -7, and -10), phosphatidylethanolamine (STARD10) and ceramides (STARD11). Mammalian STARDs participate in the control of various cellular processes, including lipid trafficking between intracellular compartments, lipid metabolism, and modulation of signaling events. Mutation or altered expression of STARDs is linked to diseases such as cancer, genetic disorders, a
Probab=26.86 E-value=3.2e+02 Score=21.96 Aligned_cols=50 Identities=10% Similarity=0.117 Sum_probs=38.0
Q ss_pred EEEEEEcCCCeEEEEEEEEecCCchhhhhhhhhHHHHHHHHHHHHHHHHHHHh
Q 028368 155 RFSIELDDNNQVWYEIVSFSKPADFLSFIGYPYVQLRQKYFAHQSVNAVKKHL 207 (210)
Q Consensus 155 ~F~Ve~~~dg~V~~~I~AFSRPa~~~~rlg~P~~r~~Qr~~~rry~~al~~~v 207 (210)
.|.++..+++...++..++.-|..|+ -..++..+.+.....-+++|++.+
T Consensus 145 ~~~i~~~~~~~t~vt~~~~~dp~g~i---P~~lv~~~~~~~~~~~l~~l~~~~ 194 (195)
T cd08876 145 QWTFTPLGNGKTRVTYQAYADPGGSI---PGWLANAFAKDAPYNTLENLRKQL 194 (195)
T ss_pred eEEEEECCCCeEEEEEEEEeCCCCCC---CHHHHHHHHHHHHHHHHHHHHHhh
Confidence 57788777888899999999998753 344566667777778888888764
No 14
>PF11066 DUF2867: Protein of unknown function (DUF2867); InterPro: IPR021295 This bacterial family of proteins have no known function.
Probab=23.45 E-value=2.7e+02 Score=22.02 Aligned_cols=65 Identities=11% Similarity=0.254 Sum_probs=43.2
Q ss_pred eEEEEEeecccccCCcceEEEEeecCCCCccceeEEEEEEEcCCCeEEEEEEEEecCCchhhhhhhhhHHHHHHHHH
Q 028368 120 LQIVYVNESIRKKKTAASFGFGSGTLQGHLLAGEERFSIELDDNNQVWYEIVSFSKPADFLSFIGYPYVQLRQKYFA 196 (210)
Q Consensus 120 cRVV~v~de~~~~~~~~r~GFaYGTLpGHpe~GEE~F~Ve~~~dg~V~~~I~AFSRPa~~~~rlg~P~~r~~Qr~~~ 196 (210)
-+|+.+.++ .-..| .=.-| +.|+-.+.++.+++|.- +.++++=+|.+|+.|+=.=+++-+-+.+.
T Consensus 81 f~V~~~~~~------e~ll~----~~d~h-L~~~l~l~~~~~~~~~~-~~~tT~V~~~n~~Gr~Y~~~i~PfH~~Iv 145 (149)
T PF11066_consen 81 FRVLSISDN------EILLG----ADDKH-LDFRLSLEIEDGGEGRQ-LSVTTVVRPHNLLGRLYWAAIRPFHRLIV 145 (149)
T ss_pred eEEEEeccC------HHhhh----ccCCc-ceEEEEEEEEecCCCcE-EEEEEEEEECCccHHHHHHHHHHHHHHHH
Confidence 366666663 12333 33455 67788889988888776 99999999999987774444444444433
No 15
>PRK11251 DNA-binding transcriptional activator OsmE; Provisional
Probab=21.83 E-value=1.7e+02 Score=22.81 Aligned_cols=28 Identities=18% Similarity=0.327 Sum_probs=24.3
Q ss_pred ceEEEEeecCCCCccceeEEEEEEEcCCCeEE
Q 028368 136 ASFGFGSGTLQGHLLAGEERFSIELDDNNQVW 167 (210)
Q Consensus 136 ~r~GFaYGTLpGHpe~GEE~F~Ve~~~dg~V~ 167 (210)
.++=|-|+.=||| +..|.|..|+||.|.
T Consensus 64 t~w~Yv~~~~~g~----~~~~tV~Fd~~G~V~ 91 (109)
T PRK11251 64 TCQTYILGNRDGK----AQTYFVSFDDTGHVD 91 (109)
T ss_pred cceeEEEecCCCc----eEEEEEEECCCCCEE
Confidence 5677888888998 689999999999885
No 16
>TIGR02588 conserved hypothetical protein TIGR02588. The function of this protein is unknown. It is always found as part of a two-gene operon with TIGR02587, a protein that appears to span the membrane seven times. It is found in Nostoc sp. PCC 7120, Agrobacterium tumefaciens, Sinorhizobium meliloti, and Gloeobacter violaceus, so far, all of which are bacterial.
Probab=21.22 E-value=4.4e+02 Score=21.18 Aligned_cols=59 Identities=12% Similarity=0.085 Sum_probs=40.7
Q ss_pred eeeeceEEEEEeecccccCCcceEEEEeecCCCCccceeEEEEEEEc-CCCeEEEEEEEEecC
Q 028368 115 WVTLPLQIVYVNESIRKKKTAASFGFGSGTLQGHLLAGEERFSIELD-DNNQVWYEIVSFSKP 176 (210)
Q Consensus 115 ~~~~PcRVV~v~de~~~~~~~~r~GFaYGTLpGHpe~GEE~F~Ve~~-~dg~V~~~I~AFSRP 176 (210)
--.+-++|+-......+.-|....=|.| ||||-+. +=.|.-..| .+|++..+|.+||-|
T Consensus 63 ~TAasV~V~geL~~~~~v~E~~e~tiDf--l~g~e~~-~G~~IF~~dP~~g~L~irv~gY~~P 122 (122)
T TIGR02588 63 TTAAAVNIRGELRQAGAVVENAEVTIDY--LASGSKE-NGTLIFRSDPRNGQLRLRVAGYKEP 122 (122)
T ss_pred cEEEEEEEEEEEccCCceeEEeeEEEEE--cCCCCeE-eEEEEEccCcccCeEEEEEEeccCC
Confidence 3456778877665321111223334555 8999776 778999999 578999999999987
No 17
>COG4894 Uncharacterized conserved protein [Function unknown]
Probab=21.18 E-value=1.5e+02 Score=24.74 Aligned_cols=45 Identities=20% Similarity=0.274 Sum_probs=33.8
Q ss_pred ceeEEEEEEEcCCCeEEEEE--EEEecCCch--hhhhhhhhHHHHHHHHH
Q 028368 151 AGEERFSIELDDNNQVWYEI--VSFSKPADF--LSFIGYPYVQLRQKYFA 196 (210)
Q Consensus 151 ~GEE~F~Ve~~~dg~V~~~I--~AFSRPa~~--~~rlg~P~~r~~Qr~~~ 196 (210)
++-++|.|. |+||++.|.| ..||.|.+. .--.|-|+..+-|+...
T Consensus 16 ~~gd~f~I~-d~dgE~af~VeGs~f~i~dtlti~Da~G~~l~~i~~kll~ 64 (159)
T COG4894 16 SFGDAFHIY-DRDGEEAFKVEGSFFSIGDTLTITDASGKTLVSIEQKLLS 64 (159)
T ss_pred hcccceEEE-CCCCcEEEEEeeeEEeeCceEEEEecCCCChHHHHHHHhh
Confidence 456788885 6788888877 789999884 34567778888887653
No 18
>cd06661 GGCT_like GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is encoded by the gene C7orf24, and the enzyme participates in the gamma-glutamyl cycle. Hereditary defects in the gamma-glutamyl cycle have been described for some of the genes involved, but not for C7orf24. The synthesis and metabolism of glutathione (L-gamma-glutamyl-L-cysteinylglycine) ties the gamma-glutamyl cycle to numerous cellular processes; glutathione acts as a ubiquitous reducing agent in reductive mechanisms involved in protein and DNA synthesis, transport processes, enzyme activity, and metabolism. AIG2 (avrRpt2-induced gene) is an Arabidopsis protein that exhibits RPS2- and avrRpt2-dependent induction early after infection with Pseudomonas syringae pv maculicola strain ES4326 carrying avrRpt2. avrRpt2 is an avir
Probab=21.02 E-value=44 Score=23.81 Aligned_cols=17 Identities=18% Similarity=0.380 Sum_probs=10.7
Q ss_pred EEEcCCCeEEEEEEEEe
Q 028368 158 IELDDNNQVWYEIVSFS 174 (210)
Q Consensus 158 Ve~~~dg~V~~~I~AFS 174 (210)
+..++++.|+-+|...+
T Consensus 44 ~~~~~~~~v~G~v~~i~ 60 (99)
T cd06661 44 LVPGPGARVWGELYEVD 60 (99)
T ss_pred EEeCCCCEEEEEEEEEC
Confidence 44455667777776665
Done!