Query 031311
Match_columns 161
No_of_seqs 116 out of 171
Neff 4.7
Searched_HMMs 46136
Date Fri Mar 29 12:19:03 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031311.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031311hhsearch_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 2.5E-52 5.5E-57 331.6 15.0 139 8-154 16-158 (158)
2 COG4762 Uncharacterized protei 100.0 5.6E-43 1.2E-47 277.5 11.8 125 22-155 42-167 (168)
3 PF10604 Polyketide_cyc2: Poly 96.0 0.34 7.4E-06 34.6 12.2 128 16-158 7-138 (139)
4 cd07822 SRPBCC_4 Ligand-bindin 91.0 4.2 9.1E-05 28.8 13.2 131 16-158 5-140 (141)
5 cd08865 SRPBCC_10 Ligand-bindi 89.9 5.3 0.00011 28.2 15.7 126 21-159 8-139 (140)
6 TIGR02266 gmx_TIGR02266 Myxoco 82.7 10 0.00022 26.2 7.3 44 38-81 25-70 (96)
7 cd07824 SRPBCC_6 Ligand-bindin 81.1 20 0.00043 26.6 12.3 98 48-157 43-145 (146)
8 cd07817 SRPBCC_8 Ligand-bindin 75.6 26 0.00056 24.9 10.0 67 91-158 70-137 (139)
9 cd05018 CoxG Carbon monoxide d 70.2 36 0.00079 24.2 13.0 58 100-158 86-143 (144)
10 TIGR02588 conserved hypothetic 61.0 78 0.0017 24.7 8.3 61 64-127 61-122 (122)
11 cd08861 OtcD1_ARO-CYC_like N-t 60.5 61 0.0013 23.3 7.3 72 87-159 70-141 (142)
12 cd07820 SRPBCC_3 Ligand-bindin 56.3 77 0.0017 23.2 12.2 84 47-139 41-124 (137)
13 PF07238 PilZ: PilZ domain; I 53.9 63 0.0014 21.4 6.0 41 39-79 34-75 (102)
14 cd08862 SRPBCC_Smu440-like Lig 49.5 91 0.002 22.0 13.6 126 17-159 7-137 (138)
15 PRK11251 DNA-binding transcrip 40.5 59 0.0013 24.6 4.4 28 87-118 64-91 (109)
16 COG0197 RplP Ribosomal protein 38.8 39 0.00083 27.1 3.3 64 17-81 43-113 (146)
17 cd08876 START_1 Uncharacterize 37.9 1.8E+02 0.0039 22.5 7.0 50 106-158 145-194 (195)
18 PF06094 AIG2: AIG2-like famil 35.5 16 0.00035 25.5 0.6 7 91-97 2-8 (102)
19 cd07821 PYR_PYL_RCAR_like Pyra 27.4 2.1E+02 0.0047 19.8 14.4 126 16-158 6-139 (140)
20 cd06661 GGCT_like GGCT-like do 26.9 29 0.00064 23.6 0.7 17 109-125 44-60 (99)
21 cd07825 SRPBCC_7 Ligand-bindin 26.3 2.5E+02 0.0054 20.1 11.2 103 16-127 5-115 (144)
22 PF11066 DUF2867: Protein of u 25.2 3E+02 0.0065 20.9 6.2 50 97-148 97-146 (149)
23 smart00546 CUE Domain that may 24.4 29 0.00063 21.2 0.3 29 5-33 9-41 (43)
24 PF04234 CopC: CopC domain; I 23.2 60 0.0013 23.2 1.8 15 96-110 83-97 (97)
25 COG4894 Uncharacterized conser 22.9 1.2E+02 0.0026 24.7 3.6 46 101-147 15-64 (159)
26 PF01852 START: START domain; 22.8 3.6E+02 0.0078 20.7 7.4 53 105-157 150-203 (206)
27 PF07357 DRAT: Dinitrogenase r 21.4 62 0.0013 28.3 1.8 77 28-110 160-252 (262)
28 COG2069 CdhD CO dehydrogenase/ 21.3 46 0.001 30.3 1.0 34 13-47 230-263 (403)
29 PF14398 ATPgrasp_YheCD: YheC/ 20.7 4.2E+02 0.009 22.3 6.7 34 102-137 209-244 (262)
30 PF01356 A_amylase_inhib: Alph 20.4 83 0.0018 22.3 1.9 27 67-101 37-63 (68)
31 KOG4408 Putative Mg2+ and Co2+ 20.2 92 0.002 28.6 2.7 55 5-60 206-263 (386)
32 smart00783 A_amylase_inhib Alp 20.2 80 0.0017 22.4 1.8 27 67-101 38-64 (69)
No 1
>PF09348 DUF1990: Domain of unknown function (DUF1990); InterPro: IPR018960 This entry represents proteins that are functionally uncharacterised.
Probab=100.00 E-value=2.5e-52 Score=331.62 Aligned_cols=139 Identities=31% Similarity=0.501 Sum_probs=129.8
Q ss_pred chhhHHhhhcccCCC---chHHHHHHHhcCcccccceeEE-cCCCCCcCCcEEEEeeecccceeeeceEEEEEeeccccc
Q 031311 8 LLPSLLLASKKIKGS---QKMVSYSIMRVFWHFGLNWAFV-DPKTPIQNGVKFCVCVKEFLPWVTLPLQIVYVNESIRKK 83 (161)
Q Consensus 8 ~~~~~~~~~~~~~~~---~~~~A~~aL~~W~~~~~~w~~V-~~~~p~~~G~~V~v~~g~~~~~~~~pcRVv~V~de~~~~ 83 (161)
++-.++ .+.+| |. .|++|++||++|+||+.+|++| .+++|+++|++|+++.+.+++|+.+|||||||+||++
T Consensus 16 Gy~~~~-~~~~l-G~G~~~f~~A~~al~~W~~~~~~g~~v~~~~~~~~~G~~v~l~~~~~~~~~~~p~RVv~v~de~~-- 91 (158)
T PF09348_consen 16 GYRHVR-RRVRL-GSGEAVFERAAAALLSWRMHRRAGVRVRASDPPAAPGRTVVLRAGVGPLWIRAPCRVVYVVDEPD-- 91 (158)
T ss_pred CceEEE-EEEEc-cCCchHHHHHHHHHhccCCCCCcEEEEECCCCccCCCCEEEEEeeccceEEEeeEEEEEEEcCCc--
Confidence 444455 67778 44 7999999999999999999999 5667789999999999998999999999999999886
Q ss_pred CCcceeEEeeccCCCCccceeEEEEEEEeCCCeEEEEEEEeecCChhhHhhhhhhHHHHHHHHHHHHHHHH
Q 031311 84 KTAASFGFGSGTLQGHLLAGEERFSIELDDNNQVWYEIVSFSKPADFLSFIGYPYVQLRQKYFAHQSVNAV 154 (161)
Q Consensus 84 ~~~~r~GFaYGTLpGH~e~GEE~F~Ve~~~dg~V~~~I~AFSRPa~~l~rlg~P~~r~~Qr~f~rry~~am 154 (161)
++||+|||||||||+|||+|.|++|+||+|||+|.|||||++|++||++|+++.+|++|+++|++||
T Consensus 92 ----r~GF~ygTL~GHpe~GEE~F~V~~~~dg~V~~~I~afSRP~~~~~rl~~P~~r~~Q~~~~rry~~am 158 (158)
T PF09348_consen 92 ----RFGFAYGTLPGHPERGEERFSVERDDDGSVWFEIRAFSRPASWLARLGYPVARRAQRRFARRYLRAM 158 (158)
T ss_pred ----eEEEEEEeCCCChhhcEEEEEEEECCCCeEEEEEEEEecccchHHHhhhHHHHHHHHHHHHHHHhhC
Confidence 9999999999999999999999999999999999999999999999999999999999999999997
No 2
>COG4762 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=100.00 E-value=5.6e-43 Score=277.53 Aligned_cols=125 Identities=29% Similarity=0.390 Sum_probs=117.9
Q ss_pred CchHHHHHHHhcCcccccceeEEcCCCCCcCCcEEEEeeecccce-eeeceEEEEEeecccccCCcceeEEeeccCCCCc
Q 031311 22 SQKMVSYSIMRVFWHFGLNWAFVDPKTPIQNGVKFCVCVKEFLPW-VTLPLQIVYVNESIRKKKTAASFGFGSGTLQGHL 100 (161)
Q Consensus 22 ~~~~~A~~aL~~W~~~~~~w~~V~~~~p~~~G~~V~v~~g~~~~~-~~~pcRVv~V~de~~~~~~~~r~GFaYGTLpGH~ 100 (161)
+-|++|++||++|+||+.++++|+++.++.++..+++..| +| +.+||||+|++|||+ ++||+|||||||+
T Consensus 42 acfenA~~aL~sw~~hr~aglrvh~s~s~vv~~~~vllvg---~w~~r~~cRVL~l~d~~~------~~gf~yGTL~ghv 112 (168)
T COG4762 42 ACFENAADALMSWGMHRNAGLRVHASSSTVVLVSAVLLVG---IWFLRAPCRVLYLIDEPD------VRGFGYGTLPGHV 112 (168)
T ss_pred HHHHHHHHHHhcccccccccEEeeccCCceeeeeeeeeee---eeeeecccEEEEEecCCc------eeEEeecccCCcc
Confidence 3599999999999999999999999999888877777764 56 899999999999887 9999999999999
Q ss_pred cceeEEEEEEEeCCCeEEEEEEEeecCChhhHhhhhhhHHHHHHHHHHHHHHHHH
Q 031311 101 LAGEERFSIELDDNNQVWYEIVSFSKPADFLSFIGYPYVQLRQKYFAHQSVNAVK 155 (161)
Q Consensus 101 e~GEE~F~Ve~~~dg~V~~~I~AFSRPa~~l~rlg~P~~r~~Qr~f~rry~~am~ 155 (161)
++|||+|.||+|++|+|||+|.+|||||.|+++++.|+++.+||+++++|++.|+
T Consensus 113 ~rgeErflierda~d~V~~~i~sfsr~Al~~skla~plv~~vqrr~aq~Ylrgl~ 167 (168)
T COG4762 113 VRGEERFLIERDAMDSVVFEILSFSRPALWASKLAGPLVAVVQRRIAQRYLRGLK 167 (168)
T ss_pred ccchhheeEEecCCCcEEEEeeccccchhhhhhhhhhHHHHHHHHHHHHHHhhcC
Confidence 9999999999999999999999999999999999999999999999999999985
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=96.03 E-value=0.34 Score=34.58 Aligned_cols=128 Identities=13% Similarity=0.113 Sum_probs=75.7
Q ss_pred hcccCCCchHHHHHHHhcCccccccee-EEcCCCCCc-CCcE--EEEeeecccceeeeceEEEEEeecccccCCcceeEE
Q 031311 16 SKKIKGSQKMVSYSIMRVFWHFGLNWA-FVDPKTPIQ-NGVK--FCVCVKEFLPWVTLPLQIVYVNESIRKKKTAASFGF 91 (161)
Q Consensus 16 ~~~~~~~~~~~A~~aL~~W~~~~~~w~-~V~~~~p~~-~G~~--V~v~~g~~~~~~~~pcRVv~V~de~~~~~~~~r~GF 91 (161)
+..| +++-+++-+.|.+...... |. .+....... .|.. .++... +. ...-.+|+...+++. .+.|
T Consensus 7 ~~~v-~a~~e~V~~~l~d~~~~~~-w~~~~~~~~~~~~~~~~~~~~~~~~--g~-~~~~~~i~~~~~~~~------~~~~ 75 (139)
T PF10604_consen 7 SIEV-PAPPEAVWDLLSDPENWPR-WWPGVKSVELLSGGGPGTERTVRVA--GR-GTVREEITEYDPEPR------RITW 75 (139)
T ss_dssp EEEE-SS-HHHHHHHHTTTTGGGG-TSTTEEEEEEEEECSTEEEEEEEEC--SC-SEEEEEEEEEETTTT------EEEE
T ss_pred EEEE-CCCHHHHHHHHhChhhhhh-hhhceEEEEEccccccceeEEEEec--cc-cceeEEEEEecCCCc------EEEE
Confidence 4556 6888888888877654432 22 121111221 2332 333332 22 345666776665233 6777
Q ss_pred eeccCCCCccceeEEEEEEEeCCCeEEEEEEEeecCChhhHhhhhhhHHHHHHHHHHHHHHHHHHHh
Q 031311 92 GSGTLQGHLLAGEERFSIELDDNNQVWYEIVSFSKPADFLSFIGYPYVQLRQKYFAHQSVNAVKKHL 158 (161)
Q Consensus 92 aYGTLpGH~e~GEE~F~Ve~~~dg~V~~~I~AFSRPa~~l~rlg~P~~r~~Qr~f~rry~~am~~~v 158 (161)
.-. +.....+.-+|.++-.++| ..++....-+| .+...+..|+.+..-+...++.++.|++.+
T Consensus 76 ~~~--~~~~~~~~~~~~~~~~~~g-t~v~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~ 138 (139)
T PF10604_consen 76 RFV--PSGFTNGTGRWRFEPVGDG-TRVTWTVEFEP-GLPGWLAGPLLRPAVKRIVREALENLKRAA 138 (139)
T ss_dssp EEE--SSSSCEEEEEEEEEEETTT-EEEEEEEEEEE-SCTTSCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred EEE--ecceeEEEEEEEEEEcCCC-EEEEEEEEEEE-eccchhhHHHHHHHHHHHHHHHHHHHhccc
Confidence 664 4444567888999888877 55666555555 444555677777777788888888888765
No 4
>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=91.02 E-value=4.2 Score=28.81 Aligned_cols=131 Identities=16% Similarity=0.148 Sum_probs=72.0
Q ss_pred hcccCCCchHHHHHHHhcCcccccceeE-E-cCCCC-CcCCcEEEEeeeccc-ceeeeceEEEEEeecccccCCcceeEE
Q 031311 16 SKKIKGSQKMVSYSIMRVFWHFGLNWAF-V-DPKTP-IQNGVKFCVCVKEFL-PWVTLPLQIVYVNESIRKKKTAASFGF 91 (161)
Q Consensus 16 ~~~~~~~~~~~A~~aL~~W~~~~~~w~~-V-~~~~p-~~~G~~V~v~~g~~~-~~~~~pcRVv~V~de~~~~~~~~r~GF 91 (161)
|..| ++..++.=+++.+-.... .|.. + ..+.+ ..+|..+.......+ ......++|+.+.. +.++.|
T Consensus 5 ~~~i-~ap~~~Vw~~~~d~~~~~-~w~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~v~~~~p-------~~~~~~ 75 (141)
T cd07822 5 EIEI-NAPPEKVWEVLTDFPSYP-EWNPFVRSATGLSLALGARLRFVVKLPGGPPRSFKPRVTEVEP-------PRRLAW 75 (141)
T ss_pred EEEe-cCCHHHHHHHHhcccccc-ccChhheeEeccccCCCCEEEEEEeCCCCCcEEEEEEEEEEcC-------CCEeEE
Confidence 4566 677888888887765443 2221 1 12223 688998888775332 33455666655332 248888
Q ss_pred eeccCCCCccceeEEEEEEEeCCCeEEEEEE-EeecCChhhHhhhhhhHHHHHHHHHHHHHHHHHHHh
Q 031311 92 GSGTLQGHLLAGEERFSIELDDNNQVWYEIV-SFSKPADFLSFIGYPYVQLRQKYFAHQSVNAVKKHL 158 (161)
Q Consensus 92 aYGTLpGH~e~GEE~F~Ve~~~dg~V~~~I~-AFSRPa~~l~rlg~P~~r~~Qr~f~rry~~am~~~v 158 (161)
....-+.-...++-.|.++-.++|...++.. .|+-+ ..++..++.+..-+.-.++.++.|++.+
T Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~~~T~~~~~~~~~g~---~~~~~~~~~~~~~~~~~~~~~~~L~~~~ 140 (141)
T cd07822 76 RGGLPFPGLLDGEHSFELEPLGDGGTRFVHRETFSGL---LAPLVLLGLGRDLRAGFEAMNEALKARA 140 (141)
T ss_pred EecCCCCcEeeEEEEEEEEEcCCCcEEEEEeeEEEEE---EhHHhhhhhHHHHhHhHHHHHHHHHHhh
Confidence 8665543345677888888764455555443 44432 2233334343333333444566665543
No 5
>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=89.92 E-value=5.3 Score=28.17 Aligned_cols=126 Identities=13% Similarity=0.073 Sum_probs=65.0
Q ss_pred CCchHHHHHHHhcCcccc--ccee-EE--cCCCCCcCCcEEEEeeecccceeeeceEEEEEeecccccCCcceeEEeecc
Q 031311 21 GSQKMVSYSIMRVFWHFG--LNWA-FV--DPKTPIQNGVKFCVCVKEFLPWVTLPLQIVYVNESIRKKKTAASFGFGSGT 95 (161)
Q Consensus 21 ~~~~~~A~~aL~~W~~~~--~~w~-~V--~~~~p~~~G~~V~v~~g~~~~~~~~pcRVv~V~de~~~~~~~~r~GFaYGT 95 (161)
+++.+..-+.|.+..... ..++ .+ ..+.+..+|..+.+.....+.-+..-++|+... .+ +++. |.+
T Consensus 8 ~ap~~~Vw~~l~d~~~~~~w~~~~~~~~~~~~~~~~~g~~~~~~~~~~g~~~~~~~~v~~~~-p~------~~~~--~~~ 78 (140)
T cd08865 8 ERPVEEVFAYLADFENAPEWDPGVVEVEKITDGPVGVGTRYHQVRKFLGRRIELTYEITEYE-PG------RRVV--FRG 78 (140)
T ss_pred cCCHHHHHHHHHCccchhhhccCceEEEEcCCCCCcCccEEEEEEEecCceEEEEEEEEEec-CC------cEEE--EEe
Confidence 556666666665544221 1111 22 233456788888776653333344455555433 22 2444 344
Q ss_pred CCCCccceeEEEEEEEeCCCe-EEEEEEEeecCChhhHhhhhhhHHHHHHHHHHHHHHHHHHHhh
Q 031311 96 LQGHLLAGEERFSIELDDNNQ-VWYEIVSFSKPADFLSFIGYPYVQLRQKYFAHQSVNAVKKHLT 159 (161)
Q Consensus 96 LpGH~e~GEE~F~Ve~~~dg~-V~~~I~AFSRPa~~l~rlg~P~~r~~Qr~f~rry~~am~~~v~ 159 (161)
..| +..++-.|.++-.++|. |.+++. |. + ..+.++..+++...=+...++.+++|++.+.
T Consensus 79 ~~~-~~~~~~~~~~~~~~~~t~v~~~~~-~~-~-~~~~~~~~~~~~~~~~~~~~~~l~~lk~~~e 139 (140)
T cd08865 79 SSG-PFPYEDTYTFEPVGGGTRVRYTAE-LE-P-GGFARLLDPLMAPAFRRRARAALENLKALLE 139 (140)
T ss_pred cCC-CcceEEEEEEEEcCCceEEEEEEE-Ec-c-chhHHHHHHHHHHHHhhhhHHHHHHHHHHhh
Confidence 333 67889999998765552 334443 32 2 2234455555444444445566667766543
No 6
>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=82.68 E-value=10 Score=26.23 Aligned_cols=44 Identities=14% Similarity=0.123 Sum_probs=34.0
Q ss_pred ccceeEEcCCCCCcCCcEEEEeeeccc--ceeeeceEEEEEeeccc
Q 031311 38 GLNWAFVDPKTPIQNGVKFCVCVKEFL--PWVTLPLQIVYVNESIR 81 (161)
Q Consensus 38 ~~~w~~V~~~~p~~~G~~V~v~~g~~~--~~~~~pcRVv~V~de~~ 81 (161)
..+|+++..+.+..+|+.|.+.+.... ..+...++|+|+.++.+
T Consensus 25 S~gG~~~~~~~~~~~g~~v~l~l~l~~~~~~i~~~g~Vv~~~~~~~ 70 (96)
T TIGR02266 25 SKGGLFIRTRKPLAVGTRVELKLTLPGGERPVELKGVVAWVRPAAD 70 (96)
T ss_pred CCceEEEecCCCcCCCCEEEEEEEcCCCCeEEEEEEEEEEeCCCCC
Confidence 357899988888999999988886433 23678999999987543
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=81.12 E-value=20 Score=26.61 Aligned_cols=98 Identities=12% Similarity=0.233 Sum_probs=55.5
Q ss_pred CCCcCCcEEEEeeecccce-eeeceEEEEEeecccccCCcceeEEeeccCCCCccceeEEEEEEEeCCCeEEEEEE-Eee
Q 031311 48 TPIQNGVKFCVCVKEFLPW-VTLPLQIVYVNESIRKKKTAASFGFGSGTLQGHLLAGEERFSIELDDNNQVWYEIV-SFS 125 (161)
Q Consensus 48 ~p~~~G~~V~v~~g~~~~~-~~~pcRVv~V~de~~~~~~~~r~GFaYGTLpGH~e~GEE~F~Ve~~~dg~V~~~I~-AFS 125 (161)
.+...|.++.+......++ ...-++|..+ + + +.++.|. ..|+ ..|+-+|.++-.++| ..++.. .|+
T Consensus 43 ~~~~~g~~~~~~~~~~~~~~~~~~~~v~~~-~-p-----~~~~~~~---~~g~-~~~~~~~~~~~~~~g-t~vt~~~~~~ 110 (146)
T cd07824 43 DEAGIGARRRYTWRGLLPYRLRFELRVTRI-E-P-----LSLLEVR---ASGD-LEGVGRWTLAPDGSG-TVVRYDWEVR 110 (146)
T ss_pred CCCCcceEEEEEEEecCCcEEEEEEEEEee-c-C-----CcEEEEE---EEEe-eeEEEEEEEEEcCCC-EEEEEEEEEE
Confidence 4456777665443212122 3333444322 2 2 2366554 2453 557888988876555 555554 566
Q ss_pred cCCh---hhHhhhhhhHHHHHHHHHHHHHHHHHHH
Q 031311 126 KPAD---FLSFIGYPYVQLRQKYFAHQSVNAVKKH 157 (161)
Q Consensus 126 RPa~---~l~rlg~P~~r~~Qr~f~rry~~am~~~ 157 (161)
-++. .++.+..|+++..=+++.+.-+++|++.
T Consensus 111 ~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~L~~~ 145 (146)
T cd07824 111 TTKPWMNLLAPLARPVFRWNHRRVMRAGEKGLARR 145 (146)
T ss_pred cCHHHHHhhhHhhhhHHHHhHHHHHHhHHHHHHhh
Confidence 6655 4666777777777777777777777654
No 8
>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=75.64 E-value=26 Score=24.89 Aligned_cols=67 Identities=4% Similarity=-0.050 Sum_probs=42.9
Q ss_pred EeeccCCCCccceeEEEEEEEeCCCeEEEEEEEeecC-ChhhHhhhhhhHHHHHHHHHHHHHHHHHHHh
Q 031311 91 FGSGTLQGHLLAGEERFSIELDDNNQVWYEIVSFSKP-ADFLSFIGYPYVQLRQKYFAHQSVNAVKKHL 158 (161)
Q Consensus 91 FaYGTLpGH~e~GEE~F~Ve~~~dg~V~~~I~AFSRP-a~~l~rlg~P~~r~~Qr~f~rry~~am~~~v 158 (161)
+.|....|.. .++-.+.++-.++|...++....-.| .....++..|+....=++..+.+++.+++.+
T Consensus 70 i~~~~~~~~~-~~~~~~~f~~~~~~~T~vt~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~lk~~a 137 (139)
T cd07817 70 IAWRSVEGAD-PNAGSVRFRPAPGRGTRVTLTIEYEPPGGAEGAAVAGLLGGEPERQLREDLRRFKQLV 137 (139)
T ss_pred EEEEECCCCC-CcceEEEEEECCCCCeEEEEEEEEECCcchhhhhHHHHhhhhHHHHHHHHHHHHHHHh
Confidence 4444455553 56677777665556777877644444 4445567677776666666777888888765
No 9
>cd05018 CoxG Carbon monoxide dehydrogenase subunit G (CoxG). CoxG has been shown, in Oligotropha carboxidovorans, to anchor the carbon monoxide (CO) dehydrogenase to the cytoplasmic membrane. The gene encoding CoxG is part of the Cox cluster (coxBCMSLDEFGHIK) located on a low-copy-number, circular, megaplasmid pHCG3. This cluster includes genes encoding subunits of CO dehydrogenase and several accessory components involved in the utilization of CO. This 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 and they bind diverse ligands.
Probab=70.19 E-value=36 Score=24.20 Aligned_cols=58 Identities=12% Similarity=0.194 Sum_probs=41.0
Q ss_pred ccceeEEEEEEEeCCCeEEEEEEEeecCChhhHhhhhhhHHHHHHHHHHHHHHHHHHHh
Q 031311 100 LLAGEERFSIELDDNNQVWYEIVSFSKPADFLSFIGYPYVQLRQKYFAHQSVNAVKKHL 158 (161)
Q Consensus 100 ~e~GEE~F~Ve~~~dg~V~~~I~AFSRPa~~l~rlg~P~~r~~Qr~f~rry~~am~~~v 158 (161)
...++..|.++-. +|...++..+--.+...+..+..+++...=++...+.++.|++.+
T Consensus 86 ~~~~~~~~~l~~~-~~gT~v~~~~~~~~~g~l~~l~~~~~~~~~~~~~~~~~~~l~~~~ 143 (144)
T cd05018 86 FVKGTARVTLEPD-GGGTRLTYTADAQVGGKLAQLGSRLIDGAARKLINQFFENLASKI 143 (144)
T ss_pred eEEEEEEEEEEec-CCcEEEEEEEEEEEccChhhhCHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3467888888866 444555554444455567888888888777777788888888765
No 10
>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=61.03 E-value=78 Score=24.72 Aligned_cols=61 Identities=11% Similarity=0.050 Sum_probs=43.6
Q ss_pred cceeeeceEEEEEeecccccCCcceeEEeeccCCCCccceeEEEEEEEe-CCCeEEEEEEEeecC
Q 031311 64 LPWVTLPLQIVYVNESIRKKKTAASFGFGSGTLQGHLLAGEERFSIELD-DNNQVWYEIVSFSKP 127 (161)
Q Consensus 64 ~~~~~~pcRVv~V~de~~~~~~~~r~GFaYGTLpGH~e~GEE~F~Ve~~-~dg~V~~~I~AFSRP 127 (161)
+.-..+-++|+-....++...+....=|.| ||||-++ +=.|.-+.| .+|++..++.+||-|
T Consensus 61 gg~TAasV~V~geL~~~~~v~E~~e~tiDf--l~g~e~~-~G~~IF~~dP~~g~L~irv~gY~~P 122 (122)
T TIGR02588 61 GGTTAAAVNIRGELRQAGAVVENAEVTIDY--LASGSKE-NGTLIFRSDPRNGQLRLRVAGYKEP 122 (122)
T ss_pred CCcEEEEEEEEEEEccCCceeEEeeEEEEE--cCCCCeE-eEEEEEccCcccCeEEEEEEeccCC
Confidence 334567788887776554322333444444 8999776 778999999 579999999999987
No 11
>cd08861 OtcD1_ARO-CYC_like N-terminal and C-terminal aromatase/cyclase domains of Streptomyces rimosus OtcD1 and related domains. This family includes the N- and C- terminal aromatase/cyclase (ARO/CYC) domains of Streptomyces rimosus OtcD1 and related domains. It 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. ARO/CYC domains participate in the diversification of aromatic polyketides by promoting polyketide cyclization. They occur in two architectural forms, didomain and monodomain. Didomain aromatase/cyclases (ARO/CYCs), contain two ARO/CYC domains, and are associated with C7-C12 first ring cyclized polyketides. Streptomyces rimosus OtcD1 is a didomain ARO/CYC. The polyketide Oxytetracycline (OTC) is a broad spectrum antibiotic made by Streptomyces rimosus. The gene encoding OtcD1 is part of oxytetracycline (OTC) gene cluster. Disruption of this
Probab=60.50 E-value=61 Score=23.31 Aligned_cols=72 Identities=6% Similarity=-0.056 Sum_probs=43.6
Q ss_pred ceeEEeeccCCCCccceeEEEEEEEeCCCeEEEEEEEeecCChhhHhhhhhhHHHHHHHHHHHHHHHHHHHhh
Q 031311 87 ASFGFGSGTLQGHLLAGEERFSIELDDNNQVWYEIVSFSKPADFLSFIGYPYVQLRQKYFAHQSVNAVKKHLT 159 (161)
Q Consensus 87 ~r~GFaYGTLpGH~e~GEE~F~Ve~~~dg~V~~~I~AFSRPa~~l~rlg~P~~r~~Qr~f~rry~~am~~~v~ 159 (161)
.+..|...+.+|-.-.-+-.+.++-.++|....+...--.|...+. +..++++.+.++-...-+++|++.+.
T Consensus 70 ~~i~~~~~~~~~~~~~~~g~w~~~~~~~~~t~Vt~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~lk~~~E 141 (142)
T cd08861 70 RRIVFRQEEPPPPVASMSGEWRFEPLGGGGTRVTLRHDFTLGIDSP-EAVPWIRRALDRNSRAELAALRAAAE 141 (142)
T ss_pred CEEEEEEeeCCCChhhheeEEEEEECCCCcEEEEEEEEEEECCCCc-hhHHHHHHHHccccHHHHHHHHHHhh
Confidence 3677776666665444455778876654544444433333433222 56677777777777777888877653
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=56.28 E-value=77 Score=23.15 Aligned_cols=84 Identities=15% Similarity=0.122 Sum_probs=46.2
Q ss_pred CCCCcCCcEEEEeeecccceeeeceEEEEEeecccccCCcceeEEeeccCCCCccceeEEEEEEEeCCCeEEEEEEEeec
Q 031311 47 KTPIQNGVKFCVCVKEFLPWVTLPLQIVYVNESIRKKKTAASFGFGSGTLQGHLLAGEERFSIELDDNNQVWYEIVSFSK 126 (161)
Q Consensus 47 ~~p~~~G~~V~v~~g~~~~~~~~pcRVv~V~de~~~~~~~~r~GFaYGTLpGH~e~GEE~F~Ve~~~dg~V~~~I~AFSR 126 (161)
+.++.+|+.+....+.++..+.-=++|+... + +.++.+. ...|=...-+=.+.++-.++|...=....|+=
T Consensus 41 ~~~~~~G~~~~~~~~~~~~~~~w~~~it~~~--p-----~~~f~~~--~~~G~~~~w~h~~~f~~~~~gT~vt~~v~~~~ 111 (137)
T cd07820 41 PGLIYGGARVTYRLRHFGIPQRWTTEITEVE--P-----PRRFVDE--QVSGPFRSWRHTHRFEAIGGGTLMTDRVEYRL 111 (137)
T ss_pred CCcccCCcEEEEEEEecCCceEEEEEEEEEc--C-----CCeEEEE--eccCCchhCEEEEEEEECCCceEEEEEEEEeC
Confidence 4456889988888875543333445554322 2 1254444 44453334455555554455543334456777
Q ss_pred CChhhHhhhhhhH
Q 031311 127 PADFLSFIGYPYV 139 (161)
Q Consensus 127 Pa~~l~rlg~P~~ 139 (161)
|...+.++..|+.
T Consensus 112 p~g~lg~~~~~~~ 124 (137)
T cd07820 112 PLGPLGRLAAPLV 124 (137)
T ss_pred CchhHHHHHHHHH
Confidence 8777777766643
No 13
>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=53.86 E-value=63 Score=21.45 Aligned_cols=41 Identities=7% Similarity=-0.003 Sum_probs=28.3
Q ss_pred cceeEEcCCCCCcCCcEEEEeeecccce-eeeceEEEEEeec
Q 031311 39 LNWAFVDPKTPIQNGVKFCVCVKEFLPW-VTLPLQIVYVNES 79 (161)
Q Consensus 39 ~~w~~V~~~~p~~~G~~V~v~~g~~~~~-~~~pcRVv~V~de 79 (161)
.+|+.+..+.++.+|+.+.+.+.....- ....++|+++...
T Consensus 34 ~~G~~~~~~~~~~~~~~v~l~~~~~~~~~~~~~~~V~~~~~~ 75 (102)
T PF07238_consen 34 EGGCAFRSPKPLEPGDRVRLSFSLPGGGFPIVTGRVVRIQKD 75 (102)
T ss_dssp TSEEEEEECTG--TTSEEEEEEECTTTSCEEEEEEEEEEEEE
T ss_pred ccceEEEECCCCCCCCEEEEEEEeCCCCeeEEEEEEEEEECC
Confidence 4688887777889999888877543222 2289999999986
No 14
>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=49.46 E-value=91 Score=21.98 Aligned_cols=126 Identities=13% Similarity=0.124 Sum_probs=68.2
Q ss_pred cccCCCchHHHHHHHhcCcccc---cceeEEcCCCCC-cCCcEEEEeeecccceeeeceEEEEEeecccccCCcceeEEe
Q 031311 17 KKIKGSQKMVSYSIMRVFWHFG---LNWAFVDPKTPI-QNGVKFCVCVKEFLPWVTLPLQIVYVNESIRKKKTAASFGFG 92 (161)
Q Consensus 17 ~~~~~~~~~~A~~aL~~W~~~~---~~w~~V~~~~p~-~~G~~V~v~~g~~~~~~~~pcRVv~V~de~~~~~~~~r~GFa 92 (161)
..| +++-+..-+.+.+.+... .+-..+....+. .+|..+.+..+. .. ..-.+|+... . +.++-|.
T Consensus 7 ~~i-~Ap~~~Vw~~~~d~~~~~~w~~~~~~~~~~~~~~~~G~~~~~~~~~-~~--~~~~~i~~~~-p------~~~~~~~ 75 (138)
T cd08862 7 IVI-DAPPERVWAVLTDVENWPAWTPSVETVRLEGPPPAVGSSFKMKPPG-LV--RSTFTVTELR-P------GHSFTWT 75 (138)
T ss_pred EEE-cCCHHHHHHHHHhhhhcccccCcceEEEEecCCCCCCcEEEEecCC-CC--ceEEEEEEec-C------CCEEEEE
Confidence 345 677777777776643221 111123333333 788888776541 11 2223333222 2 2365554
Q ss_pred eccCCCCccceeEEEEEEEeCCCeEEEEE-EEeecCChhhHhhhhhhHHHHHHHHHHHHHHHHHHHhh
Q 031311 93 SGTLQGHLLAGEERFSIELDDNNQVWYEI-VSFSKPADFLSFIGYPYVQLRQKYFAHQSVNAVKKHLT 159 (161)
Q Consensus 93 YGTLpGH~e~GEE~F~Ve~~~dg~V~~~I-~AFSRPa~~l~rlg~P~~r~~Qr~f~rry~~am~~~v~ 159 (161)
.. -+ ...++-.|.++-.++|.+.+++ ..|+.|. ..+..|++...-+...++.+++|+..+.
T Consensus 76 ~~-~~--~~~~~~~~~~~~~~~~~t~l~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~l~~lk~~~E 137 (138)
T cd08862 76 GP-AP--GISAVHRHEFEAKPDGGVRVTTSESLSGPL---AFLFGLFVGKKLRALLPEWLEGLKAAAE 137 (138)
T ss_pred ec-CC--CEEEEEEEEEEEcCCCcEEEEEEEEeecch---HHHHHHHHHHHHHhhHHHHHHHHHHHhc
Confidence 22 22 2455667777765546666554 3455553 3345677777777777888889888764
No 15
>PRK11251 DNA-binding transcriptional activator OsmE; Provisional
Probab=40.52 E-value=59 Score=24.64 Aligned_cols=28 Identities=18% Similarity=0.327 Sum_probs=24.6
Q ss_pred ceeEEeeccCCCCccceeEEEEEEEeCCCeEE
Q 031311 87 ASFGFGSGTLQGHLLAGEERFSIELDDNNQVW 118 (161)
Q Consensus 87 ~r~GFaYGTLpGH~e~GEE~F~Ve~~~dg~V~ 118 (161)
.+|-|-|+.=||| +..|.|..|+||.|.
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 3788999999998 689999999999885
No 16
>COG0197 RplP Ribosomal protein L16/L10E [Translation, ribosomal structure and biogenesis]
Probab=38.75 E-value=39 Score=27.14 Aligned_cols=64 Identities=16% Similarity=0.198 Sum_probs=42.8
Q ss_pred cccCCCchHHHHHHHhcCccc-ccceeEEcCCCCC--cCCcEEEEeeec--ccce--eeeceEEEEEeeccc
Q 031311 17 KKIKGSQKMVSYSIMRVFWHF-GLNWAFVDPKTPI--QNGVKFCVCVKE--FLPW--VTLPLQIVYVNESIR 81 (161)
Q Consensus 17 ~~~~~~~~~~A~~aL~~W~~~-~~~w~~V~~~~p~--~~G~~V~v~~g~--~~~~--~~~pcRVv~V~de~~ 81 (161)
.-|+.-+.|+|+.|+.+.=-. ..-|++|.|+.|+ .+|+ +-+.-|- .-.| ...|=+|++.++...
T Consensus 43 ~~It~~qiEAARia~~R~lkr~g~~wIRvfP~~~~~~kp~e-~Rmg~GkG~pegwaArVkpG~vlfei~g~~ 113 (146)
T COG0197 43 GQITARQIEAARIAANRYLKRGGGLWIRVFPDKPLTEKPGE-DRMGKGKGKPEGWAARVKPGRVLFEIAGVP 113 (146)
T ss_pred ceecHHHHHHHHHHHHHHhhhcCCEEEEEcCCceeeeCCCc-ccccCCCCCccEEEEEecCCcEEEEEecCc
Confidence 346677889999999888533 3459999999997 4543 3444332 2234 457788888776554
No 17
>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=37.93 E-value=1.8e+02 Score=22.45 Aligned_cols=50 Identities=10% Similarity=0.131 Sum_probs=37.9
Q ss_pred EEEEEEeCCCeEEEEEEEeecCChhhHhhhhhhHHHHHHHHHHHHHHHHHHHh
Q 031311 106 RFSIELDDNNQVWYEIVSFSKPADFLSFIGYPYVQLRQKYFAHQSVNAVKKHL 158 (161)
Q Consensus 106 ~F~Ve~~~dg~V~~~I~AFSRPa~~l~rlg~P~~r~~Qr~f~rry~~am~~~v 158 (161)
.|.++-.+++...++..+++-|..|+. ..++..+.+......+++|++.+
T Consensus 145 ~~~i~~~~~~~t~vt~~~~~dp~g~iP---~~lv~~~~~~~~~~~l~~l~~~~ 194 (195)
T cd08876 145 QWTFTPLGNGKTRVTYQAYADPGGSIP---GWLANAFAKDAPYNTLENLRKQL 194 (195)
T ss_pred eEEEEECCCCeEEEEEEEEeCCCCCCC---HHHHHHHHHHHHHHHHHHHHHhh
Confidence 577777778888999999999987643 24666667777778888888764
No 18
>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=35.54 E-value=16 Score=25.46 Aligned_cols=7 Identities=57% Similarity=0.662 Sum_probs=5.8
Q ss_pred EeeccCC
Q 031311 91 FGSGTLQ 97 (161)
Q Consensus 91 FaYGTLp 97 (161)
|.||||-
T Consensus 2 FvYGTL~ 8 (102)
T PF06094_consen 2 FVYGTLM 8 (102)
T ss_dssp EESSTTS
T ss_pred EEECCCC
Confidence 8899984
No 19
>cd07821 PYR_PYL_RCAR_like Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins. The PYR/PYL/RCAR-like 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. PYR/PYL/RCAR plant proteins are receptors involved in signal transduction. They bind abscisic acid (ABA) and mediate its signaling. ABA is a vital plant hormone, which regulates plant growth, development, and response to environmental stresses. Upon binding ABA, these plant proteins interact with a type 2C protein phosphatase (PP2C), such as ABI1 and ABI2, and inhibit their activity. When ABA is bound, a loop (designated the gate/CL2 loop) closes over the ligand binding pocket, resulting in the weakening of the inactive PYL dimer and facilitating type 2C protein phosphatase binding. In the ABA:PYL1:ABI1 complex, the gate
Probab=27.43 E-value=2.1e+02 Score=19.78 Aligned_cols=126 Identities=10% Similarity=0.093 Sum_probs=59.9
Q ss_pred hcccCCCchHHHHHHHhcCcccccceeE------EcCCCCCcCCcEEEEeeecccceeeeceEEEEEeecccccCCccee
Q 031311 16 SKKIKGSQKMVSYSIMRVFWHFGLNWAF------VDPKTPIQNGVKFCVCVKEFLPWVTLPLQIVYVNESIRKKKTAASF 89 (161)
Q Consensus 16 ~~~~~~~~~~~A~~aL~~W~~~~~~w~~------V~~~~p~~~G~~V~v~~g~~~~~~~~pcRVv~V~de~~~~~~~~r~ 89 (161)
+..| +++-+..-+++.+..... .|.. +....+ .+|....+... .+.+ .-.+|+.+ ++++ .++
T Consensus 6 ~~~i-~a~~~~V~~~l~d~~~~~-~w~~~~~~~~~~~~~~-~~g~~~~~~~~-~g~~--~~~~i~~~-~~~~-----~~i 73 (140)
T cd07821 6 SVTI-DAPADKVWALLSDFGGLH-KWHPAVASCELEGGGP-GVGAVRTVTLK-DGGT--VRERLLAL-DDAE-----RRY 73 (140)
T ss_pred EEEE-CCCHHHHHHHHhCcCchh-hhccCcceEEeecCCC-CCCeEEEEEeC-CCCE--EEEEehhc-CccC-----CEE
Confidence 4455 667777777777665443 3332 212122 45666555554 2211 12333322 2220 244
Q ss_pred EEeeccCCC-Cc-cceeEEEEEEEeCCCeEEEEEEEeecCChhhHhhhhhhHHHHHHHHHHHHHHHHHHHh
Q 031311 90 GFGSGTLQG-HL-LAGEERFSIELDDNNQVWYEIVSFSKPADFLSFIGYPYVQLRQKYFAHQSVNAVKKHL 158 (161)
Q Consensus 90 GFaYGTLpG-H~-e~GEE~F~Ve~~~dg~V~~~I~AFSRPa~~l~rlg~P~~r~~Qr~f~rry~~am~~~v 158 (161)
.|. ...| ++ ...+-.|.++-.++|...++...--.|... +..|+++..=+......++.|++.+
T Consensus 74 ~~~--~~~~~~~~~~~~~~~~~~~~~~~~t~v~~~~~~~~~~~---~~~~~~~~~~~~~~~~~l~~L~~~~ 139 (140)
T cd07821 74 SYR--IVEGPLPVKNYVATIRVTPEGDGGTRVTWTAEFDPPEG---LTDELARAFLTGVYRAGLAALKAAL 139 (140)
T ss_pred EEE--ecCCCCCcccceEEEEEEECCCCccEEEEEEEEecCCC---cchHHHHHHHHHHHHHHHHHHHHhh
Confidence 333 3332 22 244566777755554555554433333322 4445555555555566777776654
No 20
>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=26.88 E-value=29 Score=23.65 Aligned_cols=17 Identities=18% Similarity=0.380 Sum_probs=10.7
Q ss_pred EEEeCCCeEEEEEEEee
Q 031311 109 IELDDNNQVWYEIVSFS 125 (161)
Q Consensus 109 Ve~~~dg~V~~~I~AFS 125 (161)
+..++++.|+-++...+
T Consensus 44 ~~~~~~~~v~G~v~~i~ 60 (99)
T cd06661 44 LVPGPGARVWGELYEVD 60 (99)
T ss_pred EEeCCCCEEEEEEEEEC
Confidence 34455567777777665
No 21
>cd07825 SRPBCC_7 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=26.27 E-value=2.5e+02 Score=20.09 Aligned_cols=103 Identities=10% Similarity=0.022 Sum_probs=54.5
Q ss_pred hcccCCCchHHHHHHHhcCcccc----cceeEEc--CCCCCcCCcEEEEeeecccceeeeceEEEEEeecccccCCccee
Q 031311 16 SKKIKGSQKMVSYSIMRVFWHFG----LNWAFVD--PKTPIQNGVKFCVCVKEFLPWVTLPLQIVYVNESIRKKKTAASF 89 (161)
Q Consensus 16 ~~~~~~~~~~~A~~aL~~W~~~~----~~w~~V~--~~~p~~~G~~V~v~~g~~~~~~~~pcRVv~V~de~~~~~~~~r~ 89 (161)
+..| ++.-+..-+++.+-.... ..+.... .+.+.++|..+.+..+..+......++|+.+.. + .++
T Consensus 5 ~~~i-~ap~e~Vw~~l~d~~~~~~W~~~~~~~~~~~~~~~~~~G~~~~~~~~~~g~~~~~~~~v~~~~p-~------~~l 76 (144)
T cd07825 5 SRTV-DAPAEAVFAVLADPRRHPEIDGSGTVREAIDGPRILAVGDVFRMAMRLDGGPYRITNHVVAFEE-N------RLI 76 (144)
T ss_pred EEEE-eCCHHHHHHHHhCccccceeCCCCccccccCCCccCCCCCEEEEEEEcCCCceEEEEEEEEECC-C------CEE
Confidence 4455 666677777765554332 1222211 223469999888877643333344555554332 2 377
Q ss_pred EEeeccCCCCcc-ceeEEEEEEEeCCCeEEEEEE-EeecC
Q 031311 90 GFGSGTLQGHLL-AGEERFSIELDDNNQVWYEIV-SFSKP 127 (161)
Q Consensus 90 GFaYGTLpGH~e-~GEE~F~Ve~~~dg~V~~~I~-AFSRP 127 (161)
.|.+. .++-+. ..+-+|.++-.++|...+++. .|+-+
T Consensus 77 ~~~~~-~~~~~~~~~~~~~~l~~~~~g~T~vt~~~~~~g~ 115 (144)
T cd07825 77 AWRPG-PAGQEPGGHRWRWELEPIGPGRTRVTETYDWSAV 115 (144)
T ss_pred EEEcc-CCCCCCCceeEEEEEEECCCCcEEEEEEEeccCC
Confidence 77643 233322 334567776555576777664 45544
No 22
>PF11066 DUF2867: Protein of unknown function (DUF2867); InterPro: IPR021295 This bacterial family of proteins have no known function.
Probab=25.21 E-value=3e+02 Score=20.90 Aligned_cols=50 Identities=12% Similarity=0.214 Sum_probs=36.8
Q ss_pred CCCccceeEEEEEEEeCCCeEEEEEEEeecCChhhHhhhhhhHHHHHHHHHH
Q 031311 97 QGHLLAGEERFSIELDDNNQVWYEIVSFSKPADFLSFIGYPYVQLRQKYFAH 148 (161)
Q Consensus 97 pGH~e~GEE~F~Ve~~~dg~V~~~I~AFSRPa~~l~rlg~P~~r~~Qr~f~r 148 (161)
.-| +.|+-.+.++.+.+|.- +.++++=+|.+++.|+=+=+++-+-+.+.+
T Consensus 97 d~h-L~~~l~l~~~~~~~~~~-~~~tT~V~~~n~~Gr~Y~~~i~PfH~~Iv~ 146 (149)
T PF11066_consen 97 DKH-LDFRLSLEIEDGGEGRQ-LSVTTVVRPHNLLGRLYWAAIRPFHRLIVP 146 (149)
T ss_pred CCc-ceEEEEEEEEecCCCcE-EEEEEEEEECCccHHHHHHHHHHHHHHHHH
Confidence 445 66788888888877777 999999999999877765555555444443
No 23
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=24.38 E-value=29 Score=21.23 Aligned_cols=29 Identities=10% Similarity=0.102 Sum_probs=18.0
Q ss_pred cccchhhHHhh----hcccCCCchHHHHHHHhc
Q 031311 5 TKELLPSLLLA----SKKIKGSQKMVSYSIMRV 33 (161)
Q Consensus 5 ~~~~~~~~~~~----~~~~~~~~~~~A~~aL~~ 33 (161)
-++.||++..- .=...++|.+.|.++|+.
T Consensus 9 L~~mFP~l~~~~I~~~L~~~~g~ve~~i~~LL~ 41 (43)
T smart00546 9 LKDMFPNLDEEVIKAVLEANNGNVEATINNLLE 41 (43)
T ss_pred HHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHc
Confidence 46778876410 011157888888888864
No 24
>PF04234 CopC: CopC domain; InterPro: IPR007348 CopC is a bacterial blue copper protein that binds 1 atom of copper per protein molecule. Along with CopA, CopC mediates copper resistance by sequestration of copper in the periplasm [].; GO: 0005507 copper ion binding, 0046688 response to copper ion, 0042597 periplasmic space; PDB: 1IX2_B 1LYQ_A 2C9P_C 2C9R_A 2C9Q_A 1M42_A 1OT4_A 1NM4_A.
Probab=23.16 E-value=60 Score=23.17 Aligned_cols=15 Identities=27% Similarity=0.631 Sum_probs=12.8
Q ss_pred CCCCccceeEEEEEE
Q 031311 96 LQGHLLAGEERFSIE 110 (161)
Q Consensus 96 LpGH~e~GEE~F~Ve 110 (161)
=.||+..|.-.|.|.
T Consensus 83 ~DGH~~~G~~~F~V~ 97 (97)
T PF04234_consen 83 ADGHPVSGSFSFTVK 97 (97)
T ss_dssp TTSCEEEEEEEEEE-
T ss_pred cCCCCcCCEEEEEEC
Confidence 479999999999984
No 25
>COG4894 Uncharacterized conserved protein [Function unknown]
Probab=22.87 E-value=1.2e+02 Score=24.70 Aligned_cols=46 Identities=20% Similarity=0.283 Sum_probs=32.8
Q ss_pred cceeEEEEEEEeCCCeEEEEE--EEeecCChh--hHhhhhhhHHHHHHHHH
Q 031311 101 LAGEERFSIELDDNNQVWYEI--VSFSKPADF--LSFIGYPYVQLRQKYFA 147 (161)
Q Consensus 101 e~GEE~F~Ve~~~dg~V~~~I--~AFSRPa~~--l~rlg~P~~r~~Qr~f~ 147 (161)
-++-++|.|. |+||++.|.| ..||.|.+. .-..|-|+...-|...+
T Consensus 15 ~~~gd~f~I~-d~dgE~af~VeGs~f~i~dtlti~Da~G~~l~~i~~kll~ 64 (159)
T COG4894 15 FSFGDAFHIY-DRDGEEAFKVEGSFFSIGDTLTITDASGKTLVSIEQKLLS 64 (159)
T ss_pred hhcccceEEE-CCCCcEEEEEeeeEEeeCceEEEEecCCCChHHHHHHHhh
Confidence 3566788886 6788888877 789999873 23356677777776553
No 26
>PF01852 START: START domain; InterPro: IPR002913 START (StAR-related lipid-transfer) is a lipid-binding domain in StAR, HD-ZIP and signalling proteins []. StAR (Steroidogenic Acute Regulatory protein) is a mitochondrial protein that is synthesised in response to luteinising hormone stimulation []. Expression of the protein in the absence of hormone stimulation is sufficient to induce steroid production, suggesting that this protein is required in the acute regulation of steroidogenesis. Representatives of the START domain family have been shown to bind different ligands such as sterols (StAR protein) and phosphatidylcholine (PC-TP). Ligand binding by the START domain can also regulate the activities of other domains that co-occur with the START domain in multidomain proteins such as Rho-gap, the homeodomain, and the thioesterase domain [, ]. The crystal structure of START domain of human MLN64 shows an alpha/beta fold built around an U-shaped incomplete beta-barrel. Most importantly, the interior of the protein encompasses a 26 x 12 x 11 Angstroms hydrophobic tunnel that is apparently large enough to bind a single cholesterol molecule []. The START domain structure revealed an unexpected similarity to that of the birch pollen allergen Bet v 1 and to bacterial polyketide cyclases/aromatases [, ]. ; PDB: 1JSS_B 2R55_B 1LN3_B 1LN1_A 1LN2_B 3FO5_A 2Z9Y_A 2E3R_A 3H3Q_B 2E3P_B ....
Probab=22.78 E-value=3.6e+02 Score=20.72 Aligned_cols=53 Identities=19% Similarity=0.221 Sum_probs=39.4
Q ss_pred EEEEEEEeCCCeEEEEEEEeecCChhh-HhhhhhhHHHHHHHHHHHHHHHHHHH
Q 031311 105 ERFSIELDDNNQVWYEIVSFSKPADFL-SFIGYPYVQLRQKYFAHQSVNAVKKH 157 (161)
Q Consensus 105 E~F~Ve~~~dg~V~~~I~AFSRPa~~l-~rlg~P~~r~~Qr~f~rry~~am~~~ 157 (161)
-.|.++-.++|.+.++..+.+-|..|+ ..+...++....-.+......++++.
T Consensus 150 s~~~i~~~~~~~~~vt~~~~~D~~G~iP~~~~n~~~~~~~~~~~~~~~~~~~~~ 203 (206)
T PF01852_consen 150 SGWVIRPLGDGRTRVTYVSQVDPKGWIPSWLVNMVVKSQPPNFLKNLRKALKKQ 203 (206)
T ss_dssp EEEEEEEETTCEEEEEEEEEEESSSSSHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred EeEEEEEccCCCceEEEEEEECCCCCChHHHHHHHHHHhHHHHHHHHHHHHHHh
Confidence 457888888999999999999999876 45566666666666666666666543
No 27
>PF07357 DRAT: Dinitrogenase reductase ADP-ribosyltransferase (DRAT); InterPro: IPR009953 This family consists of several bacterial dinitrogenase reductase ADP-ribosyltransferase (DRAT) proteins. Members of this family seem to be specific to Rhodospirillum, Rhodobacter and Azospirillum species. Dinitrogenase reductase ADP-ribosyl transferase (DRAT) carries out the transfer of the ADP-ribose from NAD to the Arg-101 residue of one subunit of the dinitrogenase reductase homodimer, resulting in inactivation of that enzyme. Dinitrogenase reductase-activating glycohydrolase (DRAG) removes the ADP-ribose group attached to dinitrogenase reductase, thus restoring nitrogenase activity. The DRAT-DRAG system negatively regulates nitrogenase activity in response to exogenous NH4+ or energy limitation in the form of a shift to darkness or to anaerobic conditions [].
Probab=21.43 E-value=62 Score=28.35 Aligned_cols=77 Identities=17% Similarity=0.204 Sum_probs=45.2
Q ss_pred HHHHhcCcccccceeEEcC------CCCC--c-CCcEEEEeeeccccee-------eeceEEEEEeecccccCCcceeEE
Q 031311 28 YSIMRVFWHFGLNWAFVDP------KTPI--Q-NGVKFCVCVKEFLPWV-------TLPLQIVYVNESIRKKKTAASFGF 91 (161)
Q Consensus 28 ~~aL~~W~~~~~~w~~V~~------~~p~--~-~G~~V~v~~g~~~~~~-------~~pcRVv~V~de~~~~~~~~r~GF 91 (161)
.=+|.++.+....+++... +..+ + .....+|++.-+-.+. .++-.|..+.-.- ...=|
T Consensus 160 Q~~l~rf~~P~~~hltLyRGvn~~~eh~v~~~~~~r~~vvrLNNL~SFtsdre~A~eFGd~Ile~~VPl------~Ki~f 233 (262)
T PF07357_consen 160 QWELARFRFPGRRHLTLYRGVNDFDEHEVLERLDKREAVVRLNNLVSFTSDRERADEFGDYILEVRVPL------SKIFF 233 (262)
T ss_pred HHHHHhccCCCCceEEEecCCCchhhhhhhhccCCceEEEEecCccccccchHHHhhhCCEEEEEeccc------eEEEE
Confidence 3455666666667777642 1222 2 2346666654322111 2344455444322 26667
Q ss_pred eeccCCCCccceeEEEEEE
Q 031311 92 GSGTLQGHLLAGEERFSIE 110 (161)
Q Consensus 92 aYGTLpGH~e~GEE~F~Ve 110 (161)
--+=||+|++.||..|.|-
T Consensus 234 f~~LLp~~~L~GE~EyLVI 252 (262)
T PF07357_consen 234 FNGLLPGHPLKGEGEYLVI 252 (262)
T ss_pred ecccCCccccCCCceEEEE
Confidence 7889999999999999995
No 28
>COG2069 CdhD CO dehydrogenase/acetyl-CoA synthase delta subunit (corrinoid Fe-S protein) [Energy production and conversion]
Probab=21.32 E-value=46 Score=30.30 Aligned_cols=34 Identities=24% Similarity=0.242 Sum_probs=30.5
Q ss_pred HhhhcccCCCchHHHHHHHhcCcccccceeEEcCC
Q 031311 13 LLASKKIKGSQKMVSYSIMRVFWHFGLNWAFVDPK 47 (161)
Q Consensus 13 ~~~~~~~~~~~~~~A~~aL~~W~~~~~~w~~V~~~ 47 (161)
+|+|+.+ ++||++.++|-+.+.|--++|..++.+
T Consensus 230 lLaSanl-dlDy~~ia~AA~ky~H~VLswt~~D~N 263 (403)
T COG2069 230 LLASANL-DLDYERIAEAALKYDHVVLSWTQMDVN 263 (403)
T ss_pred Eeecccc-ccCHHHHHHHHHhcCceEEEeeccChH
Confidence 4589999 999999999999999999999888754
No 29
>PF14398 ATPgrasp_YheCD: YheC/D like ATP-grasp
Probab=20.70 E-value=4.2e+02 Score=22.27 Aligned_cols=34 Identities=35% Similarity=0.684 Sum_probs=25.9
Q ss_pred ceeEEEEEEEeCCCeEEE-EEEEeecCChh-hHhhhhh
Q 031311 102 AGEERFSIELDDNNQVWY-EIVSFSKPADF-LSFIGYP 137 (161)
Q Consensus 102 ~GEE~F~Ve~~~dg~V~~-~I~AFSRPa~~-l~rlg~P 137 (161)
.||--+-+-.|.||.+|+ ||- |+|... +..+..+
T Consensus 209 ~gElGiDl~iD~~g~iWliEvN--~kP~~~~~~~~~~~ 244 (262)
T PF14398_consen 209 LGELGIDLGIDKNGKIWLIEVN--SKPGKFDFRDIGDK 244 (262)
T ss_pred eeEEEEEEEEcCCCCEEEEEEe--CCCCcchhhcccch
Confidence 789999999999999996 775 489864 4444434
No 30
>PF01356 A_amylase_inhib: Alpha amylase inhibitor; InterPro: IPR000833 Alpha-amylase inhibitor inhibits mammalian alpha-amylases specifically, by forming a tight stoichiometric 1:1 complex with alpha-amylase. The inhibitor has no action on plant and microbial alpha amylases. A crystal structure has been determined for tendamistat, the 74-amino acid inhibitor produced by Streptomyces tendae that targets a wide range of mammalian alpha-amylases []. The binding of tendamistat to alpha-amylase leads to the steric blockage of the active site of the enzyme. The crystal structure of tendamistat revealed an immunoglobulin-like fold that could potentially adopt multiple conformations. Such molecular flexibility could enable an induced-fit type of binding that would both optimise binding and allow broad target specificity. More information about this protein can be found at Protein of the Month: alpha-Amylase [].; GO: 0015066 alpha-amylase inhibitor activity; PDB: 2KER_A 3AIT_A 1BVN_T 1HOE_A 4AIT_A 2AIT_A 1OK0_A.
Probab=20.43 E-value=83 Score=22.30 Aligned_cols=27 Identities=26% Similarity=0.367 Sum_probs=16.7
Q ss_pred eeeceEEEEEeecccccCCcceeEEeeccCCCCcc
Q 031311 67 VTLPLQIVYVNESIRKKKTAASFGFGSGTLQGHLL 101 (161)
Q Consensus 67 ~~~pcRVv~V~de~~~~~~~~r~GFaYGTLpGH~e 101 (161)
-..||||+- |. +-.-|+ +|||-.+|+.
T Consensus 37 ~~~PCrv~~----PG---~~~Tf~-Gygt~gn~v~ 63 (68)
T PF01356_consen 37 QEVPCRVIP----PG---DIATFP-GYGTNGNYVL 63 (68)
T ss_dssp -CEEEEEE-----TT---EEEEEE--TTTTTBSEE
T ss_pred CcceeEEeC----CC---CEEEec-ccccCCCeEe
Confidence 457999883 22 233566 8999888864
No 31
>KOG4408 consensus Putative Mg2+ and Co2+ transporter CorD [Inorganic ion transport and metabolism]
Probab=20.24 E-value=92 Score=28.62 Aligned_cols=55 Identities=9% Similarity=0.156 Sum_probs=39.8
Q ss_pred cccchhhHHhhhcccCCCchHHHHHHHhcCcc-cccceeEEcCCCC--CcCCcEEEEee
Q 031311 5 TKELLPSLLLASKKIKGSQKMVSYSIMRVFWH-FGLNWAFVDPKTP--IQNGVKFCVCV 60 (161)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~A~~aL~~W~~-~~~~w~~V~~~~p--~~~G~~V~v~~ 60 (161)
+.|+||+.--|++--.+.+-.+++++|..|.- ...+|+.++ |-+ ...+.+|.+..
T Consensus 206 ~heLf~~~pdl~r~~~~~~~f~~q~tl~~W~e~kn~gwl~~~-dVh~etTenI~Vtvst 263 (386)
T KOG4408|consen 206 QHELFDQFPDLARDPAAIPPFVIQDTLTAWQESKNHGWLPIR-DVHRETTENIRVTVST 263 (386)
T ss_pred chhhhhhhhhhhcCcccCCchhhhHHHHHHHhcCCCCCcChh-hCChhhcCCeEEEEEE
Confidence 34788888545665557778899999999986 778999886 433 35666666643
No 32
>smart00783 A_amylase_inhib Alpha amylase inhibitor. Alpha amylase inhibitor inhibits mammalian alpha-amylases specifically, by forming a tight stoichiometric 1:1 complex with alpha-amylase. The inhibitor has no action on plant and microbial alpha amylases.
Probab=20.22 E-value=80 Score=22.41 Aligned_cols=27 Identities=30% Similarity=0.375 Sum_probs=18.9
Q ss_pred eeeceEEEEEeecccccCCcceeEEeeccCCCCcc
Q 031311 67 VTLPLQIVYVNESIRKKKTAASFGFGSGTLQGHLL 101 (161)
Q Consensus 67 ~~~pcRVv~V~de~~~~~~~~r~GFaYGTLpGH~e 101 (161)
-..|||++. |. +-.-|+ +|||-.+|+.
T Consensus 38 ~~~pCr~~~----PG---~~~Tf~-GYgt~gn~v~ 64 (69)
T smart00783 38 TWGPCRTAA----PG---DITTFG-GYGTNGNHVL 64 (69)
T ss_pred CcceeEeeC----CC---CEEEec-ccccCCCcee
Confidence 357999872 22 344677 8999999874
Done!