Query 021113
Match_columns 317
No_of_seqs 123 out of 148
Neff 5.1
Searched_HMMs 46136
Date Fri Mar 29 07:42:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021113.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021113hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK03995 hypothetical protein; 100.0 9.1E-91 2E-95 652.6 26.2 264 1-312 1-266 (267)
2 PRK14866 hypothetical protein; 100.0 3.9E-85 8.6E-90 649.2 25.6 266 1-315 1-272 (451)
3 PF04414 tRNA_deacylase: D-ami 100.0 6.1E-77 1.3E-81 543.2 12.2 211 55-312 1-213 (213)
4 COG1650 Uncharacterized protei 100.0 1.5E-71 3.2E-76 517.4 17.2 263 1-312 1-265 (266)
5 cd07367 CarBb CarBb is the B s 75.3 29 0.00062 33.0 10.1 101 71-186 42-165 (268)
6 COG1650 Uncharacterized protei 69.0 2.6 5.6E-05 40.6 1.5 77 87-189 3-81 (266)
7 cd07366 3MGA_Dioxygenase Subun 68.8 92 0.002 30.8 12.2 110 70-186 85-231 (328)
8 cd07373 2A5CPDO_A The alpha su 66.5 38 0.00082 32.1 8.8 107 71-186 42-164 (271)
9 PRK13358 protocatechuate 4,5-d 63.7 84 0.0018 29.6 10.5 104 70-185 41-164 (269)
10 smart00646 Ami_3 Ami_3. 54.7 16 0.00034 29.5 3.4 32 156-187 76-112 (113)
11 TIGR02883 spore_cwlD N-acetylm 52.6 16 0.00034 32.7 3.4 33 156-188 149-186 (189)
12 cd07370 HPCD The Class III ext 49.9 2E+02 0.0044 27.3 10.7 61 71-137 45-108 (280)
13 cd07368 PhnC_Bs_like PhnC is a 46.6 1.3E+02 0.0028 28.7 8.8 71 70-154 45-125 (277)
14 TIGR02298 HpaD_Fe 3,4-dihydrox 42.5 3.2E+02 0.0068 26.2 11.9 62 70-137 46-110 (282)
15 PF07708 Tash_PEST: Tash prote 42.3 12 0.00026 22.3 0.7 11 160-170 8-18 (19)
16 cd02696 MurNAc-LAA N-acetylmur 39.5 38 0.00083 29.1 3.7 33 156-188 134-171 (172)
17 PF13309 HTH_22: HTH domain 39.0 53 0.0011 24.6 3.9 41 262-313 3-43 (64)
18 PRK11104 hemG protoporphyrinog 38.2 57 0.0012 28.9 4.7 26 1-26 1-26 (177)
19 cd07371 2A5CPDO_AB The alpha a 34.7 4E+02 0.0087 25.2 10.8 105 71-186 39-161 (268)
20 PRK13363 protocatechuate 4,5-d 32.0 5.2E+02 0.011 25.7 10.8 25 70-94 87-115 (335)
21 PF05890 Ebp2: Eukaryotic rRNA 31.5 34 0.00074 33.0 2.3 20 298-317 91-110 (271)
22 COG0716 FldA Flavodoxins [Ener 31.3 1.1E+02 0.0023 26.1 5.2 28 1-28 2-29 (151)
23 PF02900 LigB: Catalytic LigB 30.7 1.3E+02 0.0028 28.1 6.0 110 70-187 40-168 (272)
24 PF01520 Amidase_3: N-acetylmu 30.7 60 0.0013 27.8 3.5 34 155-188 135-173 (175)
25 PF01591 6PF2K: 6-phosphofruct 27.9 69 0.0015 29.9 3.6 32 280-311 95-126 (222)
26 cd07372 2A5CPDO_B The beta sub 27.7 5.7E+02 0.012 24.8 11.0 25 70-98 49-73 (294)
27 TIGR02867 spore_II_P stage II 27.6 64 0.0014 29.7 3.3 111 67-188 76-195 (196)
28 PRK05678 succinyl-CoA syntheta 27.3 1.2E+02 0.0026 29.5 5.2 48 261-315 77-124 (291)
29 PF00205 TPP_enzyme_M: Thiamin 27.3 45 0.00099 27.6 2.1 30 282-311 14-43 (137)
30 PRK00881 purH bifunctional pho 27.2 1.1E+02 0.0024 32.3 5.2 107 164-311 391-504 (513)
31 COG3360 Uncharacterized conser 26.7 40 0.00087 26.4 1.5 23 162-185 9-32 (71)
32 PF14437 MafB19-deam: MafB19-l 25.9 1.5E+02 0.0032 26.4 5.1 46 263-311 85-130 (146)
33 cd07362 HPCD_like Class III ex 22.7 6.6E+02 0.014 23.8 12.2 107 70-186 42-166 (272)
34 PF14098 SSPI: Small, acid-sol 21.8 38 0.00082 26.2 0.5 44 261-305 18-63 (65)
35 KOG2541 Palmitoyl protein thio 21.3 4.1E+02 0.0089 26.2 7.5 21 77-97 14-34 (296)
36 PRK09271 flavodoxin; Provision 21.1 1.2E+02 0.0027 26.1 3.7 25 1-25 1-25 (160)
37 TIGR01019 sucCoAalpha succinyl 20.5 2E+02 0.0043 27.9 5.3 48 261-315 75-122 (286)
38 PRK03881 hypothetical protein; 20.1 9.6E+02 0.021 24.7 11.2 21 71-92 45-65 (467)
No 1
>PRK03995 hypothetical protein; Provisional
Probab=100.00 E-value=9.1e-91 Score=652.65 Aligned_cols=264 Identities=36% Similarity=0.548 Sum_probs=243.1
Q ss_pred CEEEEEEeCCCcccccHHHHHHcCCCCCCCCCcCCCcceeeeccEEEEEeccccccccchhHHHHhhcCCCccEEEEEec
Q 021113 1 MVILIVATTIDPASINPANALLAMPGWKPGPFFQDDMKSFVNQEVRVLQHNKSIIEEDDLDKRWQEATGEVVGEVIFLSK 80 (317)
Q Consensus 1 M~~~iv~S~~DpAs~ni~~~Ll~~~~w~~~~~~~~~~~~~~~~~~~l~~~d~~~I~~D~Ld~~~~~~~g~~~d~iIflSR 80 (317)
||++||+|++||||+||+++|+++++|++.+.. ++.++|+.++|+|+++++++|++|++|++ ++|+|||+||
T Consensus 1 mm~~iv~S~~DpAs~~i~~~L~~~~~~~~~~~~-~~~~~y~~~~~~l~~~~~~~i~~d~~d~~-------~~d~iIflSR 72 (267)
T PRK03995 1 MMYLIVYSKKDPASQNIKELLIELFGFKETGKF-DANPVYVKGGYVIEEIDEDVIYFDYLDEK-------KGEYIIFLSR 72 (267)
T ss_pred CeEEEEEeCCChhhHHHHHHHHHhcCCcccCcc-CCcceeeeCCEEEEEeccceeeccccccc-------CCCEEEEEec
Confidence 899999999999999999999999999998776 78899999999999999999999999975 7999999999
Q ss_pred CCCCCCCCceeeecCCCCCCCCCCCCCCCCCCCcccCCCCCc-hHHHHHHHHHHHhCCCCCCeeEEEeecccCCC-CCCC
Q 021113 81 HTAVSNRPALTVHPIGVPHLREGEPLPQGGRPGWAAPPNPRI-GPWLRLLKKIALSHNLVPEFEITLEGTHHGPV-TSKP 158 (317)
Q Consensus 81 H~s~~~~p~LTvH~tGN~~~~~~~~a~~GG~p~~la~a~P~l-~~~l~~L~~~~~~~~~~~~fev~~EATHHGPt-~~~P 158 (317)
|+|++++|+||||+|||| ++|.|||+|+++|+|+|++ ++||+.|++++ +.++|+||||||||||| +++|
T Consensus 73 H~s~~~~p~LTvH~tGN~-----~~a~~GG~p~~la~a~P~~~~~lL~~l~~~~----~~~~yevt~EaTHHGPt~l~~P 143 (267)
T PRK03995 73 HSSKAKKPSLTVHTPGNP-----GEASYGGKPKELAIANPRLMTSLLRNLKKLA----KELGFEVTFEATHHGPTELKVP 143 (267)
T ss_pred ccCCCCCceEEEECCCCC-----chhhcCCCCCccccCCHHHHHHHHHHHHHhc----CCCCcEEEEEccccCCCCCCCC
Confidence 999999999999999998 5899999999999999994 68888888876 34589999999999999 8999
Q ss_pred ceEEEecCChhhhcChhHHHHHHHHHHHhhcCCCCCCCCCcccCCCCCceEEEeCCCCCccchhhheeecCeeEEeeeCC
Q 021113 159 TMFLEIGSTEEYWKRQDAAQVIALLIWDGLGLGGGDAVGNWNRESDKNKVLLGIGGGHYAPRHMDIVLKDDVWVAHLLSG 238 (317)
Q Consensus 159 s~FvEIGSte~eW~d~~a~~~vA~av~~~l~~~~~~~~~~~~~~~~~~~~~ig~GGgHYapr~t~~~l~~~~~~GHi~~k 238 (317)
++||||||||+||+|++|+++||++|+++|+.. +.++.+++||||||||+||||+++|++++|||||+||
T Consensus 144 s~FvEIGSte~eW~d~~a~~~vA~avl~~l~~~----------~~~~~~~~iGiGGgHYapr~T~~~l~~~~~~GHi~pk 213 (267)
T PRK03995 144 SVFVEIGSTEEEWKNERAGEILAEAVIEVLDSI----------EYEKFKPAIGIGGGHYAPKFTKLALESEYCFGHIIPK 213 (267)
T ss_pred eEEEEeCCCHHHhCCcHHHHHHHHHHHHHHhcc----------cccCCCEEEEECCCCccHHHHHHHhhCCeeEEeEccc
Confidence 999999999999999999999999999997421 1346789999999999999999999999999999999
Q ss_pred CccCCCCCCCcccccccccccccHHHHHHHHHHhhhccCCCCceEEEEecCCCchHHHHHHHHHHHhcCCcccC
Q 021113 239 YSLPMEDPSQSKVDSESKEIGGTWKEAIKAAYEATRSAFPGGEILAHLDHKSFKGWQKNAITGFLSEQNIKVGK 312 (317)
Q Consensus 239 y~l~~~~~~~~~~~~~~~~~~~~~~~~i~~a~~~s~~~~~~g~~~a~id~Ks~k~~~R~~i~~~l~~~gi~v~k 312 (317)
|++++.+ +++|++|++++...+ ..|+|||||+|+++|++|+++|+++||+|+|
T Consensus 214 y~l~~~~-----------------~~~i~~a~~ks~~~~----~~~~id~K~~k~~~r~~i~~~le~~gi~v~~ 266 (267)
T PRK03995 214 YALDHLS-----------------EEVLIQAIEKSTPEI----DRIVIDWKGVKSEDRERIIEFLEELGIEVEK 266 (267)
T ss_pred cchhcCC-----------------HHHHHHHHHhccCCC----CEEEEecCCCCHHHHHHHHHHHHHCCCeEEe
Confidence 9999642 468999999986554 3789999999999999999999999999986
No 2
>PRK14866 hypothetical protein; Provisional
Probab=100.00 E-value=3.9e-85 Score=649.20 Aligned_cols=266 Identities=30% Similarity=0.496 Sum_probs=238.6
Q ss_pred CEEEEEEeCCCcccccHHHHHHcCCCCCCCCCc---CCCcceeeeccEEEEEeccccccccchhHHHHhhcCCCccEEEE
Q 021113 1 MVILIVATTIDPASINPANALLAMPGWKPGPFF---QDDMKSFVNQEVRVLQHNKSIIEEDDLDKRWQEATGEVVGEVIF 77 (317)
Q Consensus 1 M~~~iv~S~~DpAs~ni~~~Ll~~~~w~~~~~~---~~~~~~~~~~~~~l~~~d~~~I~~D~Ld~~~~~~~g~~~d~iIf 77 (317)
||++||+|++||||+||+++|+++++|++.+.. ++++++|++++|+|+++++++||+|+||++|+ ++|+|||
T Consensus 1 m~~~iv~S~~DpAS~ni~~~L~~l~~~~~~~~~~~~~~~~~~y~~~~~~l~~~~~~~i~~D~ld~~~~-----~~d~iIf 75 (451)
T PRK14866 1 MMIAIVVSRADPASVHIREHLLELLDWEERSDEGRPDGGGTYYRSDGFELREFDERHIHLDGIAEAFF-----DPDLLIF 75 (451)
T ss_pred CeEEEEEeCCCchhhhHHHHHHHhcCCcccCCccccccccceeecCcEEEEEechhheeccchhhccC-----CCCEEEE
Confidence 899999999999999999999999999987531 23469999999999999999999999999984 8999999
Q ss_pred EecCCCCCCCCceeeecCCCCCCCCCCCCCCCCCCCcccCCCCCc-hHHHHHHHHHHHhCCCCCCeeEEEeecccCCC-C
Q 021113 78 LSKHTAVSNRPALTVHPIGVPHLREGEPLPQGGRPGWAAPPNPRI-GPWLRLLKKIALSHNLVPEFEITLEGTHHGPV-T 155 (317)
Q Consensus 78 lSRH~s~~~~p~LTvH~tGN~~~~~~~~a~~GG~p~~la~a~P~l-~~~l~~L~~~~~~~~~~~~fev~~EATHHGPt-~ 155 (317)
+|||+|++++|+||||+|||| ++|.|||+|+++|+|+|++ +++|+.|++++ .++|+|+||||||||| +
T Consensus 76 ~SRH~s~~~~p~LTvH~tGN~-----~~a~~GG~p~~la~a~P~~~~~lL~~l~~~~-----~~~yevt~EaTHHGPt~l 145 (451)
T PRK14866 76 ASRHSSVDTGPLLTAHFTGNF-----GPAEYGGEPGSLAPAAPNAMKAVLEALAEHA-----PEGYDVSMECTHHGPTDV 145 (451)
T ss_pred EecccCCCCCceEEEECCCCC-----ChhhcCCCCCccccCCHHHHHHHHHHHHHhC-----cCCcEEEEEccccCCCCC
Confidence 999999999999999999997 5899999999999999996 45556555542 2379999999999999 7
Q ss_pred CCCceEEEecCChhhhcChhHHHHHHHHHHHhhcCCCCCCCCCcccCCCCCceEEEeCCCCCccchhhheeecCeeEEee
Q 021113 156 SKPTMFLEIGSTEEYWKRQDAAQVIALLIWDGLGLGGGDAVGNWNRESDKNKVLLGIGGGHYAPRHMDIVLKDDVWVAHL 235 (317)
Q Consensus 156 ~~Ps~FvEIGSte~eW~d~~a~~~vA~av~~~l~~~~~~~~~~~~~~~~~~~~~ig~GGgHYapr~t~~~l~~~~~~GHi 235 (317)
++||+||||||||+||+|++|+++||++|+++++.+ .++.+++||||||||+||||+++|++++|||||
T Consensus 146 ~~Ps~FvEIGSte~eW~d~~a~~~vA~ail~~~~~~-----------~~~~~~~iG~GGgHYapr~t~i~le~~~~~GHi 214 (451)
T PRK14866 146 GVPSLFVELGSTEKEWDDPDAARAVARAILDLRGVP-----------PHTDRPLVGFGGGHYAPRQTRIVLETDWAFGHI 214 (451)
T ss_pred CCceEEEEeCCCHHHhCCcHHHHHHHHHHHHHhccc-----------ccCCCEEEEeCCCCcchhHHHHhhcCCeeEEee
Confidence 999999999999999999999999999999987532 124689999999999999999999999999999
Q ss_pred eCCCccCCCCCCCcccccccccccccHHH-HHHHHHHhhhccCCCCceEEEEecCCCchHHHHHHHHHHHhcCCcccCCC
Q 021113 236 LSGYSLPMEDPSQSKVDSESKEIGGTWKE-AIKAAYEATRSAFPGGEILAHLDHKSFKGWQKNAITGFLSEQNIKVGKPN 314 (317)
Q Consensus 236 ~~ky~l~~~~~~~~~~~~~~~~~~~~~~~-~i~~a~~~s~~~~~~g~~~a~id~Ks~k~~~R~~i~~~l~~~gi~v~k~~ 314 (317)
+|||++++.+ .+ +|++|+++++ ..+|||||||+|+++|++|+++|+++||+|+|..
T Consensus 215 ~pky~l~~l~-----------------~~~~i~~a~~~~~------~~~a~iD~Ks~k~~~r~~i~~~l~~lgl~vi~e~ 271 (451)
T PRK14866 215 AADWQLGALG-----------------DPAVLRAAFEASG------ADAAYIDRKAMSSGDRPRLEALLEELGLRVLSET 271 (451)
T ss_pred ccccchhccC-----------------cHHHHHHHHHhcC------CCEEEEecCCCCHHHHHHHHHHHHHCCCEEEEee
Confidence 9999999531 24 8899999874 3579999999999999999999999999999875
Q ss_pred C
Q 021113 315 D 315 (317)
Q Consensus 315 ~ 315 (317)
+
T Consensus 272 ~ 272 (451)
T PRK14866 272 W 272 (451)
T ss_pred h
Confidence 3
No 3
>PF04414 tRNA_deacylase: D-aminoacyl-tRNA deacylase; InterPro: IPR007508 D-aminoacyl-tRNA deacylases hydrolyse the ester bond between the polynucleotide and the D-amino acid, thereby preventing the accumulation of such mis-acylated and metabolically inactive tRNA molecules. Several aminoacyl-tRNA synthetases have the ability to transfer the D-isomer of their amino acid onto their cognate tRNA. ; GO: 0016788 hydrolase activity, acting on ester bonds; PDB: 1YQE_A 2GFQ_B.
Probab=100.00 E-value=6.1e-77 Score=543.17 Aligned_cols=211 Identities=40% Similarity=0.618 Sum_probs=161.7
Q ss_pred ccccchhHHHHhhcCCCccEEEEEecCCCCCCCCceeeecCCCCCCCCCCCCCCCCCCCcccCCCCCc-hHHHHHHHHHH
Q 021113 55 IEEDDLDKRWQEATGEVVGEVIFLSKHTAVSNRPALTVHPIGVPHLREGEPLPQGGRPGWAAPPNPRI-GPWLRLLKKIA 133 (317)
Q Consensus 55 I~~D~Ld~~~~~~~g~~~d~iIflSRH~s~~~~p~LTvH~tGN~~~~~~~~a~~GG~p~~la~a~P~l-~~~l~~L~~~~ 133 (317)
||+|+||+. +.++|+|||+|||+|++|+|+||||+|||| ++|+|||+|+++++|+|++ +++|+.|++++
T Consensus 1 i~~D~~d~~-----~~~~d~iIf~SrH~s~~~~p~LTvH~tGN~-----~~a~~GG~p~~la~a~P~~~~~~l~~l~~~~ 70 (213)
T PF04414_consen 1 IYEDNLDEL-----FEDPDLIIFLSRHSSESGRPSLTVHTTGNF-----GEAEYGGKPGELAPANPRLMKALLRALKKHA 70 (213)
T ss_dssp GG-TTHHHC-----TS--SEEEEEEEEE-TT---EEEEE--EES-----S--TTSS-TTEE-BB-HHHHHHHHHHHHHHG
T ss_pred Ccccccccc-----cCCCCEEEEEeeccCCCCCceEEEeCCCCC-----CccccCCCCCccccCCHHHHHHHHHHHHHhc
Confidence 789999985 468999999999999999999999999998 4699999999999999996 68888888886
Q ss_pred HhCCCCCCeeEEEeecccCCC-CCCCceEEEecCChhhhcChhHHHHHHHHHHHhhcCCCCCCCCCcccCCCCCceEEEe
Q 021113 134 LSHNLVPEFEITLEGTHHGPV-TSKPTMFLEIGSTEEYWKRQDAAQVIALLIWDGLGLGGGDAVGNWNRESDKNKVLLGI 212 (317)
Q Consensus 134 ~~~~~~~~fev~~EATHHGPt-~~~Ps~FvEIGSte~eW~d~~a~~~vA~av~~~l~~~~~~~~~~~~~~~~~~~~~ig~ 212 (317)
.+ +|+|+||||||||| +++|++||||||||+||+|++|+++||++|+++++.+.. ..+.+++|||
T Consensus 71 ~e-----~y~v~~EaTHHGPt~~~~Ps~FvEIGSte~eW~d~~a~~~vA~avl~~~~~~~~---------~~~~~~~ig~ 136 (213)
T PF04414_consen 71 PE-----GYEVSYEATHHGPTDLSVPSVFVEIGSTEEEWNDPDAAEAVARAVLEVLESDEK---------AECCPVAIGF 136 (213)
T ss_dssp GC-----T-EEEE--S-SS-----SBEEEEEEEESHHHHT-HHHHHHHHHHHHHHHHHTTC---------STT-EEEEEE
T ss_pred cC-----CCEEEEEeeccCCCCCCCCcEEEEeCCCHHHhCChHHHHHHHHHHHHHhccccc---------ccccceeEEe
Confidence 52 79999999999999 899999999999999999999999999999999865321 1235899999
Q ss_pred CCCCCccchhhheeecCeeEEeeeCCCccCCCCCCCcccccccccccccHHHHHHHHHHhhhccCCCCceEEEEecCCCc
Q 021113 213 GGGHYAPRHMDIVLKDDVWVAHLLSGYSLPMEDPSQSKVDSESKEIGGTWKEAIKAAYEATRSAFPGGEILAHLDHKSFK 292 (317)
Q Consensus 213 GGgHYapr~t~~~l~~~~~~GHi~~ky~l~~~~~~~~~~~~~~~~~~~~~~~~i~~a~~~s~~~~~~g~~~a~id~Ks~k 292 (317)
|||||+||||+++|++++|||||+|||+|+..+ +++|++|+++++. ..|||||||+|
T Consensus 137 GG~HYapr~t~~~l~~~~~~GHi~~ky~l~~l~-----------------~~~l~~a~~~s~~------~~a~id~K~l~ 193 (213)
T PF04414_consen 137 GGGHYAPRFTKLALETEYAFGHIIPKYALDELD-----------------EDVLRQAIEKSGA------DVAIIDWKSLK 193 (213)
T ss_dssp -S-TT-HHHHHHHHHCSEEEEEEE-GGGGGG-------------------HHHHHHHHCHCT-------SEEEEETTTS-
T ss_pred cCcccchhhhhhhhcCCeEEEeeccCcchhhcC-----------------HHHHHHHHHhCCC------cEEEEecCCCC
Confidence 999999999999999999999999999998541 6899999999943 35999999999
Q ss_pred hHHHHHHHHHHHhcCCcccC
Q 021113 293 GWQKNAITGFLSEQNIKVGK 312 (317)
Q Consensus 293 ~~~R~~i~~~l~~~gi~v~k 312 (317)
+++|++|+++|+++||+|+|
T Consensus 194 ~~~r~~i~~~l~~~gi~v~k 213 (213)
T PF04414_consen 194 SEDRRRIEELLEELGIEVIK 213 (213)
T ss_dssp HHHHHHHHHHHHHHT-EEEE
T ss_pred HHHHHHHHHHHHHcCCeeeC
Confidence 99999999999999999986
No 4
>COG1650 Uncharacterized protein conserved in archaea [Function unknown]
Probab=100.00 E-value=1.5e-71 Score=517.41 Aligned_cols=263 Identities=32% Similarity=0.488 Sum_probs=233.5
Q ss_pred CEEEEEEeCCCcccccHHHHHHcCCCCCCCCCcCCCcceeeeccEEEEEeccccccccchhHHHHhhcCCCccEEEEEec
Q 021113 1 MVILIVATTIDPASINPANALLAMPGWKPGPFFQDDMKSFVNQEVRVLQHNKSIIEEDDLDKRWQEATGEVVGEVIFLSK 80 (317)
Q Consensus 1 M~~~iv~S~~DpAs~ni~~~Ll~~~~w~~~~~~~~~~~~~~~~~~~l~~~d~~~I~~D~Ld~~~~~~~g~~~d~iIflSR 80 (317)
|+ +||+|..||||+||+++|.+.++|.++ ...+|+.+++.++.++..++|.|.+|+. .+..+++|||+||
T Consensus 1 m~-~lv~S~~D~as~ni~~~l~~~~~~~e~-----~~~~~~~~e~~~v~~e~~~~~~d~~~~~----~~~~~e~iif~SR 70 (266)
T COG1650 1 MK-VLVLSASDPASMNIAEYLGEDREFKET-----VVDVLKSGEFYIVATEDTHIYPDYIDAP----LSPKGEYIIFASR 70 (266)
T ss_pred Cc-eeeecCCChhhHHHHHhcccccccccc-----ccceeeccceeeeecchhhccccccccc----ccCcchhhhhhhh
Confidence 76 899999999999999999999999975 5678999999999999999999999886 3678999999999
Q ss_pred CCCCCCCCceeeecCCCCCCCCCCCCCCCCCCCcccCCCCCc-hHHHHHHHHHHHhCCCCCCeeEEEeecccCCC-CCCC
Q 021113 81 HTAVSNRPALTVHPIGVPHLREGEPLPQGGRPGWAAPPNPRI-GPWLRLLKKIALSHNLVPEFEITLEGTHHGPV-TSKP 158 (317)
Q Consensus 81 H~s~~~~p~LTvH~tGN~~~~~~~~a~~GG~p~~la~a~P~l-~~~l~~L~~~~~~~~~~~~fev~~EATHHGPt-~~~P 158 (317)
|+|++++|+||||+|||| +.+|.+||+|++++.++|++ +++++.|++++...++ |+||||||||||| .++|
T Consensus 71 H~S~a~r~slTVH~~GN~----~~~a~~GG~P~~~~va~P~~mka~l~~l~e~~~~~~~---fevt~EaTHHgPt~~~~P 143 (266)
T COG1650 71 HSSKAGRPSLTVHPPGNP----GPEADLGGKPKELAVANPRLMKAALRELKELYDEGGL---FEVTFEATHHGPTELDVP 143 (266)
T ss_pred hhhccCCCceeecCCCCC----ccccccCCCcchhcccChHHHHHHHHHHHHhccCCcc---EEEEEEeeccCCCCCCCc
Confidence 999999999999999998 47999999999999999995 6888999888765443 9999999999999 8999
Q ss_pred ceEEEecCChhhhcChhHHHHHHHHHHHhhcCCCCCCCCCcccCCCCCceEEEeCCCCCccchhhheeecCeeEEeeeCC
Q 021113 159 TMFLEIGSTEEYWKRQDAAQVIALLIWDGLGLGGGDAVGNWNRESDKNKVLLGIGGGHYAPRHMDIVLKDDVWVAHLLSG 238 (317)
Q Consensus 159 s~FvEIGSte~eW~d~~a~~~vA~av~~~l~~~~~~~~~~~~~~~~~~~~~ig~GGgHYapr~t~~~l~~~~~~GHi~~k 238 (317)
++||||||||+||.|+.|++++|++++++|.- . .. . .+++++|||||||+|+||+++|++.+||||++||
T Consensus 144 ~~fvEIGStEeeW~d~~age~la~a~~eal~~--~------d~-~-d~~~avg~GGgHYap~~t~~~le~~~~~GH~vpk 213 (266)
T COG1650 144 SLFVEIGSTEEEWTDDEAGEILAEALEEALDN--V------DE-G-DFKAAVGFGGGHYAPKQTKLALESAVDFGHIVPK 213 (266)
T ss_pred cEEEEecCchHhhcCccchHHHHHHHHHHhcc--c------cc-c-ccceeEeecCcceeehhhhhhhhccccccccccc
Confidence 99999999999999999999999999998631 1 11 1 2358999999999999999999999999999999
Q ss_pred CccCCCCCCCcccccccccccccHHHHHHHHHHhhhccCCCCceEEEEecCCCchHHHHHHHHHHHhcCCcccC
Q 021113 239 YSLPMEDPSQSKVDSESKEIGGTWKEAIKAAYEATRSAFPGGEILAHLDHKSFKGWQKNAITGFLSEQNIKVGK 312 (317)
Q Consensus 239 y~l~~~~~~~~~~~~~~~~~~~~~~~~i~~a~~~s~~~~~~g~~~a~id~Ks~k~~~R~~i~~~l~~~gi~v~k 312 (317)
|+.+..+ ..+|+++++++.. .-.|+|||||+|+.+|+++.++++++||++.+
T Consensus 214 y~~~~l~-----------------~~~i~~~v~~~~~-----a~~~ivD~k~~~~~~r~~v~~~a~~~gle~~~ 265 (266)
T COG1650 214 YDHDALT-----------------EVVLKQAVKKSPA-----AEKAIVDRKGSKSNVRRRVKSLAEELGLEVEK 265 (266)
T ss_pred cchhhcc-----------------HHHHHHHHhcCcc-----ceEEEEeccccccHHHHHHHHHHHhcCccEEe
Confidence 9766431 2377888877652 34699999999999999999999999999875
No 5
>cd07367 CarBb CarBb is the B subunit of the Class III Extradiol ring-cleavage dioxygenase, 2-aminophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. CarBb is the B subunit of 2-aminophenol 1,6-dioxygenase (CarB), which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. It is a key enzyme in the carbazole degradation pathway isolated from bacterial strains with carbazole degradation ability. The enzyme is a heterotetramer composed of two A and two B subunits. CarB belongs to the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Although the enzyme was originally isolated as a meta-cleavage enzyme for 2'-aminobiphenyl-2,3-diol involved in carbazole degradation, it has also shown high specificity for 2,3-dihydroxybiphenyl.
Probab=75.27 E-value=29 Score=32.98 Aligned_cols=101 Identities=18% Similarity=0.254 Sum_probs=57.1
Q ss_pred CccEEEEEec-CCCCC----CCCceeeecCCCCCCCCCCCCCCC--CCCCcccCCCCCchHHHHHHHHHHHhCCCCCCee
Q 021113 71 VVGEVIFLSK-HTAVS----NRPALTVHPIGVPHLREGEPLPQG--GRPGWAAPPNPRIGPWLRLLKKIALSHNLVPEFE 143 (317)
Q Consensus 71 ~~d~iIflSR-H~s~~----~~p~LTvH~tGN~~~~~~~~a~~G--G~p~~la~a~P~l~~~l~~L~~~~~~~~~~~~fe 143 (317)
+||.||++|= |. .+ ..|.+++.+.=.. -++| |-|....+.+|.+. +.|.+...+.| |+
T Consensus 42 ~Pd~ivvis~dH~-~~~~~~~~p~~~i~~~~~~-------~~~~~~g~p~~~~~gd~~LA---~~i~~~l~~~g----~~ 106 (268)
T cd07367 42 RPDVLVVISSDHL-FNINLSLQPPFVVGTADSY-------TPFGDMDIPRELFPGHREFA---RAFVRQAAEDG----FD 106 (268)
T ss_pred CCCEEEEEeCchh-hhcccccCCceEEeecccc-------ccCCcCCCCcccCCCCHHHH---HHHHHHHHHcC----CC
Confidence 7999999999 63 33 5677887542211 1233 77877777777754 34444444443 44
Q ss_pred EEEee---cccC---CC------CCCCceEEEecCC----hhhhcChhHHHHHHHHHHH
Q 021113 144 ITLEG---THHG---PV------TSKPTMFLEIGST----EEYWKRQDAAQVIALLIWD 186 (317)
Q Consensus 144 v~~EA---THHG---Pt------~~~Ps~FvEIGSt----e~eW~d~~a~~~vA~av~~ 186 (317)
+.... -.|| |. .+.|.+=|=|-.+ ....+.-+.+++|+++|.+
T Consensus 107 ~~~~~~~~lDHG~~vPL~~l~p~~~iPvV~isin~~~~p~~~~~~~~~lG~al~~~i~~ 165 (268)
T cd07367 107 LAQAEELRPDHGVMVPLLFMGPKLDIPVVPLIVNINTDPAPSPRRCWALGKVLAQYVEK 165 (268)
T ss_pred eeeecCccCCcchhchHHHhCCCCCCCEEEEEecccCCCCCCHHHHHHHHHHHHHHHHh
Confidence 44322 4577 33 2456654433222 1234444788888888754
No 6
>COG1650 Uncharacterized protein conserved in archaea [Function unknown]
Probab=69.02 E-value=2.6 Score=40.60 Aligned_cols=77 Identities=14% Similarity=-0.104 Sum_probs=57.2
Q ss_pred CCceeeecCCCCCCCCCCCCCCCCCCCcccCC-CCCchHHHHHHHHHHHhCCCCCCeeEEEeecccCCC-CCCCceEEEe
Q 021113 87 RPALTVHPIGVPHLREGEPLPQGGRPGWAAPP-NPRIGPWLRLLKKIALSHNLVPEFEITLEGTHHGPV-TSKPTMFLEI 164 (317)
Q Consensus 87 ~p~LTvH~tGN~~~~~~~~a~~GG~p~~la~a-~P~l~~~l~~L~~~~~~~~~~~~fev~~EATHHGPt-~~~Ps~FvEI 164 (317)
.++++.|-|++. .-++|++.+..+.+. .+. + +. .+.|.|.+|.|||+|. ...|
T Consensus 3 ~lv~S~~D~as~-----ni~~~l~~~~~~~e~~~~~-------~-~~------~e~~~v~~e~~~~~~d~~~~~------ 57 (266)
T COG1650 3 VLVLSASDPASM-----NIAEYLGEDREFKETVVDV-------L-KS------GEFYIVATEDTHIYPDYIDAP------ 57 (266)
T ss_pred eeeecCCChhhH-----HHHHhccccccccccccce-------e-ec------cceeeeecchhhccccccccc------
Confidence 567777778876 467888888888775 111 1 11 1148899999999999 7778
Q ss_pred cCChhhhcChhHHHHHHHHHHHhhc
Q 021113 165 GSTEEYWKRQDAAQVIALLIWDGLG 189 (317)
Q Consensus 165 GSte~eW~d~~a~~~vA~av~~~l~ 189 (317)
++...|.+--+.+.-+++....|.
T Consensus 58 -~~~~~e~iif~SRH~S~a~r~slT 81 (266)
T COG1650 58 -LSPKGEYIIFASRHSSKAGRPSLT 81 (266)
T ss_pred -ccCcchhhhhhhhhhhccCCCcee
Confidence 888999999888888888766553
No 7
>cd07366 3MGA_Dioxygenase Subunit B of the Class III Extradiol ring-cleavage dioxygenase, 3-O-Methylgallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 3-O-Methylgallate. 3-O-Methylgallate Dioxygenase catalyzes the oxidization and subsequent ring-opening of 3-O-Methylgallate (3MGA) between carbons 2 and 3. 3-O-Methylgallate Dioxygenase is a key enzyme in the syringate degradation pathway, in which the syringate is first converted to 3-O-Methylgallate by O-demethylase. This enzyme is a member of the class III extradiol dioxygenase family, a group of enzymes which uses a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. LigAB-like enzymes are usually composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. This model represents the catalytic subunit, B.
Probab=68.80 E-value=92 Score=30.84 Aligned_cols=110 Identities=16% Similarity=0.185 Sum_probs=57.9
Q ss_pred CCccEEEEEecCCC----CCCCCceeee----cCCCCCCC----CC--CCCCCCCCC--CcccCCCCCchHHHHHHHHHH
Q 021113 70 EVVGEVIFLSKHTA----VSNRPALTVH----PIGVPHLR----EG--EPLPQGGRP--GWAAPPNPRIGPWLRLLKKIA 133 (317)
Q Consensus 70 ~~~d~iIflSRH~s----~~~~p~LTvH----~tGN~~~~----~~--~~a~~GG~p--~~la~a~P~l~~~l~~L~~~~ 133 (317)
.+||.+|++|-|-. .+..|.+++. ..|++... .. ..+..||-| ..--+.+|.+ -+.|.+..
T Consensus 85 ~~PDvlVIispDH~~~f~~~~~P~f~I~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gd~eL---A~~I~~~l 161 (328)
T cd07366 85 ARIDVAVIVGDDQKELFDEALLPAFAIYYGDTITNGPRTREQLDRMPPHEAAAGYAPDEARTYPCHPEL---ARHLIKHT 161 (328)
T ss_pred hCCCEEEEEcCccHhhhccccCCceEEeecceeecChhhccccccccccccccccCCCCCcCCCCCHHH---HHHHHHHH
Confidence 48999999999533 3468999998 44443100 00 011122322 2122223333 34444444
Q ss_pred HhCCCCCCeeEEE----eecc---cCCC---------CCCCceEEEecCCh-----hhhcChhHHHHHHHHHHH
Q 021113 134 LSHNLVPEFEITL----EGTH---HGPV---------TSKPTMFLEIGSTE-----EYWKRQDAAQVIALLIWD 186 (317)
Q Consensus 134 ~~~~~~~~fev~~----EATH---HGPt---------~~~Ps~FvEIGSte-----~eW~d~~a~~~vA~av~~ 186 (317)
.+. +|+++. ...+ ||=+ .+.|.+=|=|...- .-.+--+.+++|+++|-+
T Consensus 162 ~~~----G~dv~~~~~~~~~~~lDHG~~~~l~~~~p~~~iPVVpisin~~~~p~~ps~~r~y~lG~aL~~ai~~ 231 (328)
T cd07366 162 VAD----GFDVAALDHLPDTVGIPHAFGFIYRRIMGDLVIPVVPVLINTFYPPNQPSARRCFEFGRAVARAIRS 231 (328)
T ss_pred HHc----CCCeeeecccCcccCCCcchhhHHHHhcCCCCCcEEEEeecCCCCCCCCCHHHHHHHHHHHHHHHHh
Confidence 433 566765 5666 8832 14577766654421 223344778888888754
No 8
>cd07373 2A5CPDO_A The alpha subunit of the Class III extradiol dioxygenase, 2-amino-5-chlorophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol. 2-amino-5-chlorophenol 1,6-dioxygenase (2A5CPDO) catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol, which is an intermediate during p-chloronitrobenzene degradation. This enzyme is a member of the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. The active enzyme is probably a heterotetramer, composed of two alpha and two beta subunits. The alpha and beta subunits share significant sequence similarity and may have evolved by gene duplication. This model describes the alpha subunit, which does not contain a potential metal binding site and may not possess catalytic activity.
Probab=66.52 E-value=38 Score=32.13 Aligned_cols=107 Identities=8% Similarity=-0.072 Sum_probs=55.8
Q ss_pred CccEEEEEecCCCCCCCCceeeecCCCCC-CCCCCCCCCCCCCCcccCCCCCchHHHHHHHHHHHhCCCCCCeeEE---E
Q 021113 71 VVGEVIFLSKHTAVSNRPALTVHPIGVPH-LREGEPLPQGGRPGWAAPPNPRIGPWLRLLKKIALSHNLVPEFEIT---L 146 (317)
Q Consensus 71 ~~d~iIflSRH~s~~~~p~LTvH~tGN~~-~~~~~~a~~GG~p~~la~a~P~l~~~l~~L~~~~~~~~~~~~fev~---~ 146 (317)
+||.||++|=|--.+ .+.+++-..=+++ -..+.--.|||-|.. .+.+|.+. +.+.+.....+ +.+. .
T Consensus 42 ~Pd~IvviS~Hw~~~-~~~~~v~~~~~~g~~~~~~~~df~g~p~~-~~g~~eLA---~~i~~~~~~~g----i~~~~~~~ 112 (271)
T cd07373 42 RPDVVLVYSTQWFAV-LDQQWLTRPRSEGVHVDENWHEFGELPYD-IRSDTALA---EACVTACPEHG----VHARGVDY 112 (271)
T ss_pred CCCEEEEECCCCccc-ccceeEeeccccccccccChhHhcCcccc-cCCCHHHH---HHHHHHHHHCC----CcEEEecC
Confidence 799999999996553 4445552200000 000112357888874 44555543 44445544443 4443 2
Q ss_pred e--ecccC---CC-------CCCCceEEEecCChhhhcChhHHHHHHHHHHH
Q 021113 147 E--GTHHG---PV-------TSKPTMFLEIGSTEEYWKRQDAAQVIALLIWD 186 (317)
Q Consensus 147 E--ATHHG---Pt-------~~~Ps~FvEIGSte~eW~d~~a~~~vA~av~~ 186 (317)
+ --.|| |. .+.|.+=+=+.....-..--+.+++|+++|.+
T Consensus 113 ~~~~lDHG~~vPL~~l~~~~~~iPvV~~s~~~~~~~~~~~~lG~al~~~l~~ 164 (271)
T cd07373 113 DGFPIDTGTITACTLMGIGTEALPLVVASNNLYHSGEITEKLGAIAADAAKD 164 (271)
T ss_pred CCCCCcchhHHHHHHHcccCCCCCEEEEEeCCCCCHHHHHHHHHHHHHHHHH
Confidence 2 24576 22 24677766664433333333667777777654
No 9
>PRK13358 protocatechuate 4,5-dioxygenase subunit beta; Provisional
Probab=63.71 E-value=84 Score=29.59 Aligned_cols=104 Identities=13% Similarity=0.138 Sum_probs=58.7
Q ss_pred CCccEEEEEec-CCCC---CCCCceeeecCCCCCCCCCCCCCCCCCCCcccCCCCCchHHHHHHHHHHHhCCCCCCeeEE
Q 021113 70 EVVGEVIFLSK-HTAV---SNRPALTVHPIGVPHLREGEPLPQGGRPGWAAPPNPRIGPWLRLLKKIALSHNLVPEFEIT 145 (317)
Q Consensus 70 ~~~d~iIflSR-H~s~---~~~p~LTvH~tGN~~~~~~~~a~~GG~p~~la~a~P~l~~~l~~L~~~~~~~~~~~~fev~ 145 (317)
.+||.||++|= |... ...|.+++ .+|... ..-.++ |-|.++.+.+|.+. +.|.+..... ++++.
T Consensus 41 ~~Pd~iViis~~h~~~~~~~~~~~~~i-~~~~~~---~p~gd~-g~~~~~~~g~~~LA---~~l~~~~~~~----~~~~a 108 (269)
T PRK13358 41 LRPDVLVVIGSDHLFNFNTGCQPPFLV-GTGDSD---TPYGDM-DIPRELVPGHRAFA---QAIALHRAAD----GFDLA 108 (269)
T ss_pred cCCCEEEEEeCchhhhcccccCCCeEE-EecCCC---CCcccc-CCCcccCCCCHHHH---HHHHHHHHHc----CCCee
Confidence 37999999999 5533 34666777 344321 111234 78888887778764 3333333222 46666
Q ss_pred Eeecc---cC---CC--C----CCCceEEEecCChh----hhcChhHHHHHHHHHH
Q 021113 146 LEGTH---HG---PV--T----SKPTMFLEIGSTEE----YWKRQDAAQVIALLIW 185 (317)
Q Consensus 146 ~EATH---HG---Pt--~----~~Ps~FvEIGSte~----eW~d~~a~~~vA~av~ 185 (317)
....| || |. . +.|.+=|=|++... .+.--+-+++|++++-
T Consensus 109 ~~~~~~~DHg~~vPl~~l~~~~~~pvVpisv~~~~~p~~~~~~~~~lG~al~~~~~ 164 (269)
T PRK13358 109 QAEELRPDHGVMIPLLFMDPGRRIPVVPVYVNINTDPFPSAKRCAALGEVIRQAVE 164 (269)
T ss_pred eccccCCCcchhhhHHHhcCCCCCCEEEEEecccCCCCCCHHHHHHHHHHHHHHHH
Confidence 55566 88 55 1 34777666666422 2333345555555553
No 10
>smart00646 Ami_3 Ami_3.
Probab=54.71 E-value=16 Score=29.50 Aligned_cols=32 Identities=25% Similarity=0.327 Sum_probs=26.1
Q ss_pred CCCceEEEecC-----ChhhhcChhHHHHHHHHHHHh
Q 021113 156 SKPTMFLEIGS-----TEEYWKRQDAAQVIALLIWDG 187 (317)
Q Consensus 156 ~~Ps~FvEIGS-----te~eW~d~~a~~~vA~av~~~ 187 (317)
+.|+++||+|= .++-+.++.-.+.+|++|.++
T Consensus 76 ~~PavlvE~gfisN~~d~~~l~~~~~~~~iA~~I~~g 112 (113)
T smart00646 76 NMPAVLVELGFITNPSDARKLKSAAYQQKLARAIAKG 112 (113)
T ss_pred CCCeeeEEecccCCHHHHHHhCCHHHHHHHHHHHHhh
Confidence 68999999995 344567888899999999775
No 11
>TIGR02883 spore_cwlD N-acetylmuramoyl-L-alanine amidase CwlD. Members of this protein family are the CwlD family of N-acetylmuramoyl-L-alanine amidase. This family has been called the germination-specific N-acetylmuramoyl-L-alanine amidase. CwlD is required, along with the putative deactylase PdaA, to make muramic delta-lactam, a novel peptidoglycan constituent found only in spores. CwlD mutants show a germination defect.
Probab=52.56 E-value=16 Score=32.68 Aligned_cols=33 Identities=33% Similarity=0.468 Sum_probs=23.8
Q ss_pred CCCceEEEec--CCh--hh-hcChhHHHHHHHHHHHhh
Q 021113 156 SKPTMFLEIG--STE--EY-WKRQDAAQVIALLIWDGL 188 (317)
Q Consensus 156 ~~Ps~FvEIG--Ste--~e-W~d~~a~~~vA~av~~~l 188 (317)
+.|+++||+| |.+ .. +.+++..+.+|++|.+++
T Consensus 149 ~~PavLvE~gFisn~~D~~~l~~~~~~~~~A~aia~gI 186 (189)
T TIGR02883 149 EVPGVIVECGFLSNPEEAELLKDEDYQQKIAAAIYKGV 186 (189)
T ss_pred CCCEEEEEecccCCHHHHHHhCCHHHHHHHHHHHHHHH
Confidence 6899999999 332 23 457777778888887764
No 12
>cd07370 HPCD The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate. 3,4-dihydroxyphenylacetate (homoprotocatechuate) 2,3-dioxygenase (HPCD) catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate (hpca), a central intermediate in the bacterial degradation of aromatic compounds. The enzyme incorporates both atoms of molecular oxygen into hpca, resulting in aromatic ring-opening to yield alpha-hydroxy-delta-carboxymethyl cis-muconic semialdehyde. HPCD is a member of the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon.
Probab=49.95 E-value=2e+02 Score=27.26 Aligned_cols=61 Identities=11% Similarity=0.064 Sum_probs=30.5
Q ss_pred CccEEEEEecCCCCCCCCceeeecCCCCCCCCCCCCCCCCCCCc---ccCCCCCchHHHHHHHHHHHhCC
Q 021113 71 VVGEVIFLSKHTAVSNRPALTVHPIGVPHLREGEPLPQGGRPGW---AAPPNPRIGPWLRLLKKIALSHN 137 (317)
Q Consensus 71 ~~d~iIflSRH~s~~~~p~LTvH~tGN~~~~~~~~a~~GG~p~~---la~a~P~l~~~l~~L~~~~~~~~ 137 (317)
+||.||++|=|--.+....++....-. +.-.+.|-|.+ +....|.-..+.+.|.+.....+
T Consensus 45 ~Pd~ivviS~H~~~~~~~~i~~~~~~~------g~~~~~g~p~~~~~i~~~~~gd~ela~~i~~~~~~~g 108 (280)
T cd07370 45 GVDTIVVFDTHWLVNAGYHINANARFS------GLFTSNELPHFIADMPYDYAGDPELAHLIAEEATEHG 108 (280)
T ss_pred CCCEEEEECCCcccccceeEeccCCCC------ceecCCCCCchhcCCCCCCCCCHHHHHHHHHHHHHCC
Confidence 799999999995443334443433221 23345565642 23333322233355545544443
No 13
>cd07368 PhnC_Bs_like PhnC is a Class III Extradiol ring-cleavage dioxygenase involved in the polycyclic aromatic hydrocarbon (PAH) catabolic pathway. This subfamily is composed of Burkholderia sp. PhnC and similar poteins. PhnC is one of nine protein products encoded by the phn locus. These proteins are involved in the polycyclic aromatic hydrocarbon (PAH) catabolic pathway. PhnC is a member of the class III extradiol dioxygenase family, a group os enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. LigAB-like enzymes are usually composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. This model represents the catalytic subunit, B.
Probab=46.56 E-value=1.3e+02 Score=28.72 Aligned_cols=71 Identities=15% Similarity=0.185 Sum_probs=35.3
Q ss_pred CCccEEEEEe-cCCCC---CCCCceeeec---CCCCCCCCCCCCCCCCCCCcccCCCCCchHHHHHHHHHHHhCCCCCCe
Q 021113 70 EVVGEVIFLS-KHTAV---SNRPALTVHP---IGVPHLREGEPLPQGGRPGWAAPPNPRIGPWLRLLKKIALSHNLVPEF 142 (317)
Q Consensus 70 ~~~d~iIflS-RH~s~---~~~p~LTvH~---tGN~~~~~~~~a~~GG~p~~la~a~P~l~~~l~~L~~~~~~~~~~~~f 142 (317)
.+||.+|++| =|.-. .-.|.+++-. .|++ ..+.|-|..--+.+|.+. +.|.+..... +|
T Consensus 45 ~~pD~ivvi~~dH~~~f~~~~~P~f~i~~~~~~g~~-------~~~~~~~~~~~~g~~eLA---~~i~~~l~~~----g~ 110 (277)
T cd07368 45 LQVTSVVVIGDDHYTLFGTYCLPMYLIGTGDVDGPY-------DPLPGLPRAVIENNEPLA---HHIMQHGLEY----GI 110 (277)
T ss_pred cCCCEEEEEcCchHhhhhhccCCceEEecccccCCc-------cccCCCCcccCcCCHHHH---HHHHHHHHHc----CC
Confidence 4899999998 44332 2455555542 2322 122333322223344443 4444544443 46
Q ss_pred eEEEeec---ccCCC
Q 021113 143 EITLEGT---HHGPV 154 (317)
Q Consensus 143 ev~~EAT---HHGPt 154 (317)
+++...+ +||.+
T Consensus 111 ~~~~~~~~~lDHG~~ 125 (277)
T cd07368 111 DWAVARSFTVDHAAT 125 (277)
T ss_pred CEeeecCcCCCcchh
Confidence 5654433 89976
No 14
>TIGR02298 HpaD_Fe 3,4-dihydroxyphenylacetate 2,3-dioxygenase. This enzyme catalyzes the ring-opening step in the degradation of 4-hydroxyphenylacetate.
Probab=42.46 E-value=3.2e+02 Score=26.22 Aligned_cols=62 Identities=13% Similarity=0.041 Sum_probs=32.0
Q ss_pred CCccEEEEEecCCCCCCCCceeeecCCCCCCCCCCCCCCCCCCC---cccCCCCCchHHHHHHHHHHHhCC
Q 021113 70 EVVGEVIFLSKHTAVSNRPALTVHPIGVPHLREGEPLPQGGRPG---WAAPPNPRIGPWLRLLKKIALSHN 137 (317)
Q Consensus 70 ~~~d~iIflSRH~s~~~~p~LTvH~tGN~~~~~~~~a~~GG~p~---~la~a~P~l~~~l~~L~~~~~~~~ 137 (317)
.+||.||++|=|--.+....++.... + .+.=.+.|-|. .+....|.-..+-+.|.+.....+
T Consensus 46 ~~Pd~IVViS~H~~~~~~~~i~~~~~--~----~g~~~~~g~p~~l~~~~y~~~gd~eLA~~i~~~~~~~g 110 (282)
T TIGR02298 46 MGVDTIVVFDTHWLVNSGYHINCNDQ--F----SGSYTSHELPHFIQDLRYDYPGNPALGQLIADEAQEHG 110 (282)
T ss_pred cCCCEEEEECCCCCcCCCeEEecCCC--C----cceecCCCCChhhhCceeeCCCCHHHHHHHHHHHHHCC
Confidence 37999999999966653333323221 1 12234556675 333443332233355555555443
No 15
>PF07708 Tash_PEST: Tash protein PEST motif; InterPro: IPR011695 The PEST motif is found in one or more copies in Tash AT-hook proteins from Theileria annulata. Tash proteins are transported to the host nucleus and are thought to be involved in pathogenesis []. The PEST motif is often found in conjunction with the (IPR007480 from INTERPRO), whose function is unknown. These repeats may be part of the PEST motif (a signal for rapid proteolytic degradation) [], though this is not proven. This motif is also found in other T. annulata proteins, which have no other known domains.
Probab=42.26 E-value=12 Score=22.28 Aligned_cols=11 Identities=55% Similarity=0.649 Sum_probs=8.7
Q ss_pred eEEEecCChhh
Q 021113 160 MFLEIGSTEEY 170 (317)
Q Consensus 160 ~FvEIGSte~e 170 (317)
+=|||||++++
T Consensus 8 i~vEi~SDeee 18 (19)
T PF07708_consen 8 IPVEIGSDEEE 18 (19)
T ss_pred EEEEecccccC
Confidence 44999999874
No 16
>cd02696 MurNAc-LAA N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino acids in certain cell wall glycopeptides. These proteins are Zn-dependent peptidases with highly conserved residues involved in cation co-ordination. MurNAc-LAA in this family is one of several peptidoglycan hydrolases (PGHs) found in bacterial and bacteriophage or prophage genomes that are involved in the degradation of the peptidoglycan. In Escherichia coli, there are five MurNAc-LAAs present: AmiA, AmiB, AmiC and AmiD that are periplasmic, and AmpD that is cytoplasmic. Three of these (AmiA, AmiB and AmiC) belong to this family, the other two (AmiD and AmpD) do not. E. coli AmiA, AmiB and AmiC play an important role in cleaving the septum to release daughter cells after cell division. In general, bacterial MurNAc-LAAs
Probab=39.47 E-value=38 Score=29.06 Aligned_cols=33 Identities=21% Similarity=0.377 Sum_probs=27.3
Q ss_pred CCCceEEEecCC-----hhhhcChhHHHHHHHHHHHhh
Q 021113 156 SKPTMFLEIGST-----EEYWKRQDAAQVIALLIWDGL 188 (317)
Q Consensus 156 ~~Ps~FvEIGSt-----e~eW~d~~a~~~vA~av~~~l 188 (317)
..|++.||+|-- ...|++++..+.+|++|.+++
T Consensus 134 ~~PavlvE~~f~~n~~D~~~l~~~~~~~~ia~ai~~gi 171 (172)
T cd02696 134 KMPAVLVELGFISNPEDAKLLNSPEYQDKIAEAIAEGI 171 (172)
T ss_pred CCCEEEEEecccCCHHHHHHhCCHHHHHHHHHHHHHHh
Confidence 579999999963 456788888999999998764
No 17
>PF13309 HTH_22: HTH domain
Probab=39.05 E-value=53 Score=24.62 Aligned_cols=41 Identities=17% Similarity=0.068 Sum_probs=30.7
Q ss_pred HHHHHHHHHHhhhccCCCCceEEEEecCCCchHHHHHHHHHHHhcCCcccCC
Q 021113 262 WKEAIKAAYEATRSAFPGGEILAHLDHKSFKGWQKNAITGFLSEQNIKVGKP 313 (317)
Q Consensus 262 ~~~~i~~a~~~s~~~~~~g~~~a~id~Ks~k~~~R~~i~~~l~~~gi~v~k~ 313 (317)
+.++|++.+... -.+...++.++|..|++.|.+.|+=-+|.
T Consensus 3 i~~~i~~~~~~~-----------~~~~~~l~~~~k~~iV~~L~~~G~F~lKg 43 (64)
T PF13309_consen 3 IESIIEEVIAEV-----------GKPPSRLSKEEKKEIVRQLYEKGIFLLKG 43 (64)
T ss_pred HHHHHHHHHHHh-----------CCChhhCCHHHHHHHHHHHHHCCCcccCc
Confidence 445666665543 24567899999999999999999866664
No 18
>PRK11104 hemG protoporphyrinogen oxidase; Provisional
Probab=38.21 E-value=57 Score=28.90 Aligned_cols=26 Identities=19% Similarity=0.115 Sum_probs=23.1
Q ss_pred CEEEEEEeCCCcccccHHHHHHcCCC
Q 021113 1 MVILIVATTIDPASINPANALLAMPG 26 (317)
Q Consensus 1 M~~~iv~S~~DpAs~ni~~~Ll~~~~ 26 (317)
|+++|||++..=....||+.|-+.++
T Consensus 1 MkilIvY~S~~G~T~~iA~~Ia~~l~ 26 (177)
T PRK11104 1 MKTLILYSSRDGQTRKIASYIASELK 26 (177)
T ss_pred CcEEEEEECCCChHHHHHHHHHHHhC
Confidence 89999999999999999999976664
No 19
>cd07371 2A5CPDO_AB The alpha and beta subunits of the Class III extradiol dioxygenase, 2-amino-5-chlorophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol. This subfamily contains both alpha and beta subunits of 2-amino-5-chlorophenol 1,6-dioxygenase (2A5CPDO), which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol, an intermediate during p-chloronitrobenzene degradation. 2A5CPDO is a member of the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. The active enzyme is probably a heterotetramer, composed of two alpha and two beta subunits. Alpha and beta subunits share significant sequence similarity and may have evolved by gene duplication.
Probab=34.69 E-value=4e+02 Score=25.16 Aligned_cols=105 Identities=8% Similarity=-0.086 Sum_probs=53.3
Q ss_pred CccEEEEEecCCCCCCCCceeeec---CCCCCCCCCCCCCCCCCCCcccCCCCCchHHHHHHHHHHHhCCCCCCeeEEE-
Q 021113 71 VVGEVIFLSKHTAVSNRPALTVHP---IGVPHLREGEPLPQGGRPGWAAPPNPRIGPWLRLLKKIALSHNLVPEFEITL- 146 (317)
Q Consensus 71 ~~d~iIflSRH~s~~~~p~LTvH~---tGN~~~~~~~~a~~GG~p~~la~a~P~l~~~l~~L~~~~~~~~~~~~fev~~- 146 (317)
+||.||++|=|--... +.+++-. .|... ..+-..+| .+....|.-..+-..|.+..+.. ++.+..
T Consensus 39 ~Pd~IvviS~Hw~~~~-~~~~i~~~~~~g~~~--~~~~~~~~----~~~y~~~g~~eLA~~i~~~~~~~----gi~~~~~ 107 (268)
T cd07371 39 RPDVVLVYSTQWIAVL-DHHWLTRPRSEGRHV--DENWPEFG----RLDYSINVDVELAEACVEEGRKA----GLVTRMM 107 (268)
T ss_pred CCCEEEEECCCCcccc-CcEEecccccceeec--Ccccchhc----eeeecCCCCHHHHHHHHHHHHHC----CCcEEEe
Confidence 7999999999988774 6666622 12110 00001222 23333333223335555555444 455653
Q ss_pred --ee--cccC---CC------CCCCceEEEecCC-hhhhcChhHHHHHHHHHHH
Q 021113 147 --EG--THHG---PV------TSKPTMFLEIGST-EEYWKRQDAAQVIALLIWD 186 (317)
Q Consensus 147 --EA--THHG---Pt------~~~Ps~FvEIGSt-e~eW~d~~a~~~vA~av~~ 186 (317)
+. -.|| |. .+.|.+=|=+..+ ....+--+.+++|++++.+
T Consensus 108 ~~~~~~lDHG~~vPL~~l~p~~~ipvV~vs~~~~~~~~~~~~~lG~al~~~l~~ 161 (268)
T cd07371 108 RYPRFPIDTGTITALTLMRPGTDIPPVVISANNLYLSGEETEGEMDLAGKATRD 161 (268)
T ss_pred cCCCCCCCchhHHHHHHhcCCCCCCeEEEEecCcCCCHHHHHHHHHHHHHHHHH
Confidence 11 2677 22 2557766654433 2333344667777777654
No 20
>PRK13363 protocatechuate 4,5-dioxygenase subunit beta; Provisional
Probab=32.01 E-value=5.2e+02 Score=25.69 Aligned_cols=25 Identities=12% Similarity=0.224 Sum_probs=19.5
Q ss_pred CCccEEEEEecCCCCC----CCCceeeec
Q 021113 70 EVVGEVIFLSKHTAVS----NRPALTVHP 94 (317)
Q Consensus 70 ~~~d~iIflSRH~s~~----~~p~LTvH~ 94 (317)
.+||.+|++|-|.... ..|.+++-.
T Consensus 87 ~~PDvlViispdh~~~F~~~~~p~f~I~~ 115 (335)
T PRK13363 87 ARIDVAVIVGNDQMELFTTDNNPAFAIYY 115 (335)
T ss_pred hCCCEEEEEcCCchhhcccccCCceEEee
Confidence 4899999999998544 358888763
No 21
>PF05890 Ebp2: Eukaryotic rRNA processing protein EBP2; InterPro: IPR008610 This family consists of several eukaryotic rRNA processing protein EBP2 sequences. Ebp2p is required for the maturation of 25S rRNA and 60S subunit assembly. Ebp2p may be one of the target proteins of Rrs1p for executing the signal to regulate ribosome biogenesis [].
Probab=31.45 E-value=34 Score=33.00 Aligned_cols=20 Identities=20% Similarity=0.401 Sum_probs=17.6
Q ss_pred HHHHHHHhcCCcccCCCCCC
Q 021113 298 AITGFLSEQNIKVGKPNDFI 317 (317)
Q Consensus 298 ~i~~~l~~~gi~v~k~~~~~ 317 (317)
..+..|.++|||+.+|.|||
T Consensus 91 ~a~~~L~~~gip~~RP~DYf 110 (271)
T PF05890_consen 91 EARPRLKKLGIPFKRPDDYF 110 (271)
T ss_pred HHHHHHHHcCCCccCCCcch
Confidence 35678999999999999996
No 22
>COG0716 FldA Flavodoxins [Energy production and conversion]
Probab=31.28 E-value=1.1e+02 Score=26.09 Aligned_cols=28 Identities=25% Similarity=0.157 Sum_probs=24.3
Q ss_pred CEEEEEEeCCCcccccHHHHHHcCCCCC
Q 021113 1 MVILIVATTIDPASINPANALLAMPGWK 28 (317)
Q Consensus 1 M~~~iv~S~~DpAs~ni~~~Ll~~~~w~ 28 (317)
|+++||+++.-==...||++|.+.+++.
T Consensus 2 ~ki~Ivy~S~tGnTe~vA~~i~~~l~~~ 29 (151)
T COG0716 2 MKILIVYGSRTGNTEKVAEIIAEELGAD 29 (151)
T ss_pred CeEEEEEEcCCCcHHHHHHHHHHHhccC
Confidence 6899999999988999999998888744
No 23
>PF02900 LigB: Catalytic LigB subunit of aromatic ring-opening dioxygenase; InterPro: IPR004183 Dioxygenases catalyse the incorporation of both atoms of molecular oxygen into substrates using a variety of reaction mechanisms. Cleavage of aromatic rings is one of the most important functions of dioxygenases, which play key roles in the degradation of aromatic compounds. The substrates of ring-cleavage dioxygenases can be classified into two groups according to the mode of scission of the aromatic ring. Intradiol enzymes (IPR000627 from INTERPRO) use a non-haem Fe(III) to cleave the aromatic ring between two hydroxyl groups (ortho-cleavage), whereas extradiol enzymes use a non-haem Fe(II) to cleave the aromatic ring between a hydroxylated carbon and an adjacent non-hydroxylated carbon (meta-cleavage) [, ]. These two subfamilies differ in sequence, structural fold, iron ligands, and the orientation of second sphere active site amino acid residues. Extradiol dioxygenases are usually homo-multimeric, bind one atom of ferrous ion per subunit and have a subunit size of about 33 kDa. Extradiol dioxygenases can be divided into three classes. Class I and II enzymes (IPR000486 from INTERPRO) show sequence similarity, with the two-domain class II enzymes having evolved from a class I enzyme through gene duplication. Class III enzymes are different in sequence and structure, but they do share several common active-site characteristics with the class II enzymes, in particular the coordination sphere and the disposition of the putative catalytic base are very similar. Class III enzymes usually have two subunits, designated A and B. Enzymes that belong to the extradiol class III family include Protocatechuate 4,5-dioxygenase (4,5-PCD; LigAB) (1.13.11.8 from EC) []; and 2'-aminobiphenyl-2,3-diol 1,2-dioxygenase (CarBaBb) []. The crystal structure of dioxygenase LigAB revealed that the molecule is an alpha2beta2 tetramer. The active site contains a non-heme iron coordinated by His12, His61, Glu242, and a water molecule located in a deep cleft of the beta subunit, which is covered by the alpha subunit []. This entry represents the structural domain of subunit B.; GO: 0008198 ferrous iron binding, 0016491 oxidoreductase activity, 0006725 cellular aromatic compound metabolic process; PDB: 2PW6_A 1B4U_D 1BOU_B.
Probab=30.70 E-value=1.3e+02 Score=28.06 Aligned_cols=110 Identities=15% Similarity=0.115 Sum_probs=50.3
Q ss_pred CCccEEEEEecCCCC----CCCCceeeecCCCCCCCCCCCCCCCCCCCcccCC---CCCchHHHHHHHHHHHhCCCCCCe
Q 021113 70 EVVGEVIFLSKHTAV----SNRPALTVHPIGVPHLREGEPLPQGGRPGWAAPP---NPRIGPWLRLLKKIALSHNLVPEF 142 (317)
Q Consensus 70 ~~~d~iIflSRH~s~----~~~p~LTvH~tGN~~~~~~~~a~~GG~p~~la~a---~P~l~~~l~~L~~~~~~~~~~~~f 142 (317)
.+||.||++|=|--. ...|.++|-..-++. .--+|+|-|.++-.. .|.-..+-+.|.+..... +|
T Consensus 40 ~~pd~ivvis~h~~~~f~~~~~p~~~v~~~~~~~----~~~d~~gfp~~~~~~~~~~~g~~~la~~i~~~l~~~----g~ 111 (272)
T PF02900_consen 40 AKPDVIVVISPHWFTNFFEDNMPAFAVGSGEEPE----GIYDFYGFPPELYEIKYPAPGDPELAERIAEHLRKA----GF 111 (272)
T ss_dssp TS-SEEEEEEEEECCS--TTCEECBEEE-SSEE-----B-BS-----SSSBSSS--EEB-HHHHHHHHHHHHHT----TS
T ss_pred cCCCEEEEEeCCcchhhcccCCccEEEecCCCcc----cccccccccccccccCCCCCCCHHHHHHHHHHHHhc----CC
Confidence 479999999999988 456666665554331 345667666544322 111122334444444444 46
Q ss_pred eEEEeecc---cC---------CCCCCCceEEEecCChhhhcChhHHHHHHHHHHHh
Q 021113 143 EITLEGTH---HG---------PVTSKPTMFLEIGSTEEYWKRQDAAQVIALLIWDG 187 (317)
Q Consensus 143 ev~~EATH---HG---------Pt~~~Ps~FvEIGSte~eW~d~~a~~~vA~av~~~ 187 (317)
+++..... || |..+.|.+=|=+-+.-.--.+++.+-.+.++|-++
T Consensus 112 ~~~~~~~~~lDHG~~vPL~~l~p~~~~Pvv~is~~~~~~p~~~~~~~~~lG~aL~~~ 168 (272)
T PF02900_consen 112 DVAASPERGLDHGVWVPLYFLFPDADIPVVPISINSFAPPSPSPERHYRLGRALRKA 168 (272)
T ss_dssp -EEECSS--B-HHHHHHHHHHCTT-SSEEEEEEEETSSS-TS-HHHHHHHHHHHHHH
T ss_pred CEEeccCcCCccccceeeeecccccCcceeeeEeecccccCCCHHHHHHHHHHHHHH
Confidence 66553222 44 33356777555555212244444444555555444
No 24
>PF01520 Amidase_3: N-acetylmuramoyl-L-alanine amidase; InterPro: IPR002508 The cell wall envelope of Gram-positive bacteria is a macromolecular, exoskeletal organelle that is assembled and turned over at designated sites. The cell wall also functions as a surface organelle that allows Gram-positive pathogens to interact with their environment, in particular the tissues of the infected host. All of these functions require that surface proteins and enzymes be properly targeted to the cell wall envelope. Two basic mechanisms, cell wall sorting and targeting, have been identified. Cell well sorting is the covalent attachment of surface proteins to the peptidoglycan via a C-terminal sorting signal that contains a consensus LPXTG sequence. More than 100 proteins that possess cell wall-sorting signals, including the M proteins of Streptococcus pyogenes, protein A of Staphylococcus aureus, and several internalins of Listeria monocytogenes, have been identified. Cell wall targeting involves the noncovalent attachment of proteins to the cell surface via specialised binding domains. Several of these wall-binding domains appear to interact with secondary wall polymers that are associated with the peptidoglycan, for example teichoic acids and polysaccharides. Proteins that are targeted to the cell surface include muralytic enzymes such as autolysins, lysostaphin, and phage lytic enzymes. Other examples for targeted proteins are the surface S-layer proteins of bacilli and clostridia, as well as virulence factors required for the pathogenesis of L. monocytogenes (internalin B) and Streptococcus pneumoniae (PspA) infections []. Autolysin 3.5.1.28 from EC hydrolyses the link between N-acetylmuramoyl residues and L-amino acid residues in certain bacterial cell wall glycopeptides.; GO: 0008745 N-acetylmuramoyl-L-alanine amidase activity, 0009253 peptidoglycan catabolic process; PDB: 3QAY_A 3CZX_A 1JWQ_A 1XOV_A 3NE8_A.
Probab=30.65 E-value=60 Score=27.81 Aligned_cols=34 Identities=26% Similarity=0.360 Sum_probs=26.9
Q ss_pred CCCCceEEEecCC-----hhhhcChhHHHHHHHHHHHhh
Q 021113 155 TSKPTMFLEIGST-----EEYWKRQDAAQVIALLIWDGL 188 (317)
Q Consensus 155 ~~~Ps~FvEIGSt-----e~eW~d~~a~~~vA~av~~~l 188 (317)
.+.|++.||+|-- .+.|.++.-.+.+|++|.+++
T Consensus 135 ~~~pavliE~gfi~n~~D~~~l~~~~~~~~~A~ai~~gI 173 (175)
T PF01520_consen 135 TNMPAVLIELGFIDNPEDAKKLNDPKFQQKIAEAIAKGI 173 (175)
T ss_dssp CSSCEEEEEEEETTSHHHHHHHTHHHHHHHHHHHHHHHH
T ss_pred CCCCEEEEEeccCCCHHHHHHhCCHHHHHHHHHHHHHHh
Confidence 4789999999963 457788887788888887764
No 25
>PF01591 6PF2K: 6-phosphofructo-2-kinase; InterPro: IPR013079 6-Phosphofructo-2-kinase (2.7.1.105 from EC, 3.1.3.46 from EC) is a bifunctional enzyme that catalyses both the synthesis and the degradation of fructose-2, 6-bisphosphate. The fructose-2,6-bisphosphatase reaction involves a phosphohistidine intermediate. The catalytic pathway is: ATP + D-fructose 6-phosphate = ADP + D-fructose 2,6-bisphosphate D-fructose 2,6-bisphosphate + H2O = 6-fructose 6-phosphate + Pi The enzyme is important in the regulation of hepatic carbohydrate metabolism and is found in greatest quantities in the liver, kidney and heart. In mammals, several genes often encode different isoforms, each of which differs in its tissue distribution and enzymatic activity []. The family described here bears a resemblance to the ATP-driven phospho-fructokinases, however, they share little sequence similarity, although a few residues seem key to their interaction with fructose 6-phosphate []. This domain forms the N-terminal region of this enzyme, while IPR013078 from INTERPRO forms the C-terminal domain.; GO: 0003873 6-phosphofructo-2-kinase activity, 0005524 ATP binding, 0006000 fructose metabolic process; PDB: 2DWO_A 3QPW_A 3QPV_A 3QPU_A 2I1V_B 2DWP_A 2AXN_A 1K6M_B 3BIF_A 2BIF_A ....
Probab=27.93 E-value=69 Score=29.94 Aligned_cols=32 Identities=22% Similarity=0.225 Sum_probs=23.4
Q ss_pred CceEEEEecCCCchHHHHHHHHHHHhcCCccc
Q 021113 280 GEILAHLDHKSFKGWQKNAITGFLSEQNIKVG 311 (317)
Q Consensus 280 g~~~a~id~Ks~k~~~R~~i~~~l~~~gi~v~ 311 (317)
|..+|++|--+...+.|+.|.+.+.+.|++|+
T Consensus 95 ~G~VAI~DATN~T~~RR~~l~~~~~~~~~~vl 126 (222)
T PF01591_consen 95 GGQVAIFDATNSTRERRKMLVERFKEHGIKVL 126 (222)
T ss_dssp --SEEEEES---SHHHHHHHHHHHHHTT-EEE
T ss_pred CCeEEEEeCCCCCHHHHHHHHHHHHHcCCcEE
Confidence 34578999999999999999999999997764
No 26
>cd07372 2A5CPDO_B The beta subunit of the Class III extradiol dioxygenase, 2-amino-5-chlorophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol. 2-amino-5-chlorophenol 1,6-dioxygenase (2A5CPDO), catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol, which is an intermediate during p-chloronitrobenzene degradation. This enzyme is a member of the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. The active 2A5CPDO enzyme is probably a heterotetramer, composed of two alpha and two beta subunits. The alpha and beta subunits share significant sequence similarity and may have evolved by gene duplication. This model describes the beta subunit, which contains a putative metal binding site with two conserved histidines; these residues are equivalent to two out of three Fe(II) bindin
Probab=27.70 E-value=5.7e+02 Score=24.76 Aligned_cols=25 Identities=28% Similarity=0.235 Sum_probs=19.1
Q ss_pred CCccEEEEEecCCCCCCCCceeeecCCCC
Q 021113 70 EVVGEVIFLSKHTAVSNRPALTVHPIGVP 98 (317)
Q Consensus 70 ~~~d~iIflSRH~s~~~~p~LTvH~tGN~ 98 (317)
.+||.||++|=|--.+. ..|+.|.+
T Consensus 49 ~~Pd~IVViSpHw~~~~----~~~~~~~p 73 (294)
T cd07372 49 LKPDVLLVHSPHWITSV----GHHFLGVP 73 (294)
T ss_pred cCCCEEEEECCCccccc----CeeeecCC
Confidence 47999999999977664 26666654
No 27
>TIGR02867 spore_II_P stage II sporulation protein P. Stage II sporulation protein P is a protein of the endospore formation program in a number of lineages in the Firmicutes (low-GC Gram-positive bacteria). It is expressed in the mother cell compartment, under control of Sigma-E. SpoIIP, along with SpoIIM and SpoIID, is one of three major proteins involved in engulfment of the forespore by the mother cell. This protein family is named for the single member in Bacillus subtilis, although most sporulating bacteria have two members.
Probab=27.63 E-value=64 Score=29.67 Aligned_cols=111 Identities=17% Similarity=0.087 Sum_probs=61.8
Q ss_pred hcCCCccEEEEEecCCCCCCCCceeeecCCCCCCCCCCCCCCCCCCCcccCCCCCc-h--HHHHHHHHHHHhCCCCCCee
Q 021113 67 ATGEVVGEVIFLSKHTAVSNRPALTVHPIGVPHLREGEPLPQGGRPGWAAPPNPRI-G--PWLRLLKKIALSHNLVPEFE 143 (317)
Q Consensus 67 ~~g~~~d~iIflSRH~s~~~~p~LTvH~tGN~~~~~~~~a~~GG~p~~la~a~P~l-~--~~l~~L~~~~~~~~~~~~fe 143 (317)
.+...|++-+|++=|+=.-++...|+=.-|.. .|.. ---++..+|.. + .+-..|++..++ ..|+..
T Consensus 76 ~l~~~p~i~~viDiHRDs~~~~~~t~~inG~~------~Aki---~fVvG~~np~~~~N~~fA~~l~~~~~~--~yPgl~ 144 (196)
T TIGR02867 76 ALKENKDLKYIIDLHRDSVRRKKTTVNINGES------VAKV---MFVIGKNNPHFEKNLQLANKLHAKLEK--KYPGLS 144 (196)
T ss_pred HHHHCCCceEEEEeecCCCCCCcceEEECCEE------EEEE---EEEEcCCCCCHHHHHHHHHHHHHHHHh--hCCCcc
Confidence 33457888999999997666666676666642 1000 00223357864 2 233455555443 234433
Q ss_pred EEEeecccCCC-----CCCCceEEEecCChhhhc-ChhHHHHHHHHHHHhh
Q 021113 144 ITLEGTHHGPV-----TSKPTMFLEIGSTEEYWK-RQDAAQVIALLIWDGL 188 (317)
Q Consensus 144 v~~EATHHGPt-----~~~Ps~FvEIGSte~eW~-d~~a~~~vA~av~~~l 188 (317)
-.+-.--+|.. +..+++.||||+...-=. -..+++++|++|-+.|
T Consensus 145 rgi~~k~~~~~~YNQdl~~~alLiEiG~~~Nt~eEa~~s~~~lA~~i~~~l 195 (196)
T TIGR02867 145 RGIFYKDYGNGVYNQDLSPNAILIEVGGVDNTLEEAKRSADYLAEAIAEYL 195 (196)
T ss_pred cceEEccCCCCcccccCCCCeEEEEECCCCCcHHHHHHHHHHHHHHHHHHh
Confidence 33332222333 267999999998732211 2337888898887754
No 28
>PRK05678 succinyl-CoA synthetase subunit alpha; Validated
Probab=27.30 E-value=1.2e+02 Score=29.50 Aligned_cols=48 Identities=19% Similarity=0.141 Sum_probs=36.1
Q ss_pred cHHHHHHHHHHhhhccCCCCceEEEEecCCCchHHHHHHHHHHHhcCCcccCCCC
Q 021113 261 TWKEAIKAAYEATRSAFPGGEILAHLDHKSFKGWQKNAITGFLSEQNIKVGKPND 315 (317)
Q Consensus 261 ~~~~~i~~a~~~s~~~~~~g~~~a~id~Ks~k~~~R~~i~~~l~~~gi~v~k~~~ 315 (317)
...+++++|.++ |.-.|+|---++.-++.+++.+.+++.|+.|+-||=
T Consensus 77 ~v~~~l~e~~~~-------gvk~avI~s~Gf~~~~~~~l~~~a~~~girvlGPNc 124 (291)
T PRK05678 77 FAADAILEAIDA-------GIDLIVCITEGIPVLDMLEVKAYLERKKTRLIGPNC 124 (291)
T ss_pred HHHHHHHHHHHC-------CCCEEEEECCCCCHHHHHHHHHHHHHcCCEEECCCC
Confidence 456788888775 233467767778755556899999999999999984
No 29
>PF00205 TPP_enzyme_M: Thiamine pyrophosphate enzyme, central domain; InterPro: IPR012000 A number of enzymes require thiamine pyrophosphate (TPP) (vitamin B1) as a cofactor. It has been shown [] that some of these enzymes are structurally related. This central domain of TPP enzymes contains a 2-fold Rossman fold. ; GO: 0000287 magnesium ion binding, 0030976 thiamine pyrophosphate binding; PDB: 1OZH_C 1OZF_B 1OZG_B 2Q29_B 2Q28_A 2Q27_B 1OVM_B 1PVD_A 1PYD_B 2VK1_C ....
Probab=27.26 E-value=45 Score=27.59 Aligned_cols=30 Identities=7% Similarity=0.028 Sum_probs=24.5
Q ss_pred eEEEEecCCCchHHHHHHHHHHHhcCCccc
Q 021113 282 ILAHLDHKSFKGWQKNAITGFLSEQNIKVG 311 (317)
Q Consensus 282 ~~a~id~Ks~k~~~R~~i~~~l~~~gi~v~ 311 (317)
.++++..-.-+....+.+.++++.+|+||.
T Consensus 14 P~il~G~g~~~~~a~~~l~~lae~~~~Pv~ 43 (137)
T PF00205_consen 14 PVILAGRGARRSGAAEELRELAEKLGIPVA 43 (137)
T ss_dssp EEEEE-HHHHHTTCHHHHHHHHHHHTSEEE
T ss_pred EEEEEcCCcChhhHHHHHHHHHHHHCCCEE
Confidence 467887766667789999999999999986
No 30
>PRK00881 purH bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional
Probab=27.17 E-value=1.1e+02 Score=32.33 Aligned_cols=107 Identities=20% Similarity=0.177 Sum_probs=67.0
Q ss_pred ecCChhhhcChhHHHHHHHHHHHhhcCCCCCCCCCcccCCCCCceEEEeCCCCCcc-chhhheeecCeeEEe------ee
Q 021113 164 IGSTEEYWKRQDAAQVIALLIWDGLGLGGGDAVGNWNRESDKNKVLLGIGGGHYAP-RHMDIVLKDDVWVAH------LL 236 (317)
Q Consensus 164 IGSte~eW~d~~a~~~vA~av~~~l~~~~~~~~~~~~~~~~~~~~~ig~GGgHYap-r~t~~~l~~~~~~GH------i~ 236 (317)
---|++||.|-.-|-.+|+.+-. .++- .-+...+||+|.|+... -=|+++++...-.|. ++
T Consensus 391 ~~pt~~e~~Dl~faw~v~K~vkS-------NaIV-----vvkd~~~vgIgaGQ~sRvd~t~~Ai~rag~~~~~~~gav~a 458 (513)
T PRK00881 391 RQPTEQELKDLLFAWKVVKHVKS-------NAIV-----YAKDGQTVGIGAGQMSRVDSARIAIEKAGDAGLDLKGAVLA 458 (513)
T ss_pred CCCCHHHHHHHHHHHHHHHhcCC-------CcEE-----EEeCCeEEEECCCCcchHHHHHHHHHHHHHhccCcCCeEEE
Confidence 33688899888877777776622 1220 11346789999999998 447777765332221 12
Q ss_pred CCCccCCCCCCCcccccccccccccHHHHHHHHHHhhhccCCCCceEEEEecCCCchHHHHHHHHHHHhcCCccc
Q 021113 237 SGYSLPMEDPSQSKVDSESKEIGGTWKEAIKAAYEATRSAFPGGEILAHLDHKSFKGWQKNAITGFLSEQNIKVG 311 (317)
Q Consensus 237 ~ky~l~~~~~~~~~~~~~~~~~~~~~~~~i~~a~~~s~~~~~~g~~~a~id~Ks~k~~~R~~i~~~l~~~gi~v~ 311 (317)
++.-+| .++.|+.|.+. |.-+++..--| =.++.+++.+++.||.++
T Consensus 459 SDafFP-------------------f~Dtie~aa~~-------Gv~aIiqPgGS---irD~evI~aAne~gIamv 504 (513)
T PRK00881 459 SDAFFP-------------------FRDGVEAAAKA-------GITAIIQPGGS---IRDEEVIAAADEHGIAMV 504 (513)
T ss_pred eeCCCC-------------------chhHHHHHHHc-------CCeEEEeCCCC---CChHHHHHHHHHcCCEEE
Confidence 232233 35688877765 44445554333 445689999999999765
No 31
>COG3360 Uncharacterized conserved protein [Function unknown]
Probab=26.65 E-value=40 Score=26.40 Aligned_cols=23 Identities=22% Similarity=0.196 Sum_probs=17.2
Q ss_pred EE-ecCChhhhcChhHHHHHHHHHH
Q 021113 162 LE-IGSTEEYWKRQDAAQVIALLIW 185 (317)
Q Consensus 162 vE-IGSte~eW~d~~a~~~vA~av~ 185 (317)
|| |||+++.| +..+.+++|+|=-
T Consensus 9 IelvGtSp~S~-d~Ai~~Ai~RA~~ 32 (71)
T COG3360 9 IELVGTSPTSI-DAAIANAIARAAD 32 (71)
T ss_pred EEEEecCCccH-HHHHHHHHHHHHh
Confidence 44 69999999 4567788888753
No 32
>PF14437 MafB19-deam: MafB19-like deaminase
Probab=25.89 E-value=1.5e+02 Score=26.36 Aligned_cols=46 Identities=20% Similarity=0.239 Sum_probs=34.9
Q ss_pred HHHHHHHHHhhhccCCCCceEEEEecCCCchHHHHHHHHHHHhcCCccc
Q 021113 263 KEAIKAAYEATRSAFPGGEILAHLDHKSFKGWQKNAITGFLSEQNIKVG 311 (317)
Q Consensus 263 ~~~i~~a~~~s~~~~~~g~~~a~id~Ks~k~~~R~~i~~~l~~~gi~v~ 311 (317)
-++|.||+++=. .. |+....++|+.-+.... .-|..+++++||+-+
T Consensus 85 ~~aiqqA~d~G~-~~-g~~~tm~Vdr~vC~~C~-~~i~~~a~~lGl~~L 130 (146)
T PF14437_consen 85 AGAIQQAYDAGK-TV-GRSMTMYVDRDVCGYCG-GDIPSMAEKLGLKSL 130 (146)
T ss_pred HHHHHHHHHhcC-cc-CCeEEEEECcccchHHH-HHHHHHHHHcCCCeE
Confidence 479999999932 22 56778899965555554 999999999999843
No 33
>cd07362 HPCD_like Class III extradiol dioxygenases with similarity to homoprotocatechuate 2,3-dioxygenase, which catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate. This subfamily of class III extradiol dioxygenases consists of two types of proteins with known enzymatic activities; 3,4-dihydroxyphenylacetate (homoprotocatechuate) 2,3-dioxygenase (HPCD) and 2-amino-5-chlorophenol 1,6-dioxygenase. HPCD catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate (hpca), a central intermediate in the bacterial degradation of aromatic compounds. The enzyme incorporates both atoms of molecular oxygen into hpca, resulting in aromatic ring-opening to yield the product alpha-hydroxy-delta-carboxymethyl cis-muconic semialdehyde. 2-amino-5-chlorophenol 1,6-dioxygenase catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol, which is an intermediate during p-chloronitrobenzene degradation. The enzyme is probably a heterotetrame
Probab=22.72 E-value=6.6e+02 Score=23.80 Aligned_cols=107 Identities=15% Similarity=0.099 Sum_probs=53.2
Q ss_pred CCccEEEEEecCCCCCCCCceeeecCCCCCCCCCCCCCCCCCCCcc---cCCCCCchHHHHHHHHHHHhCCCCCCeeEEE
Q 021113 70 EVVGEVIFLSKHTAVSNRPALTVHPIGVPHLREGEPLPQGGRPGWA---APPNPRIGPWLRLLKKIALSHNLVPEFEITL 146 (317)
Q Consensus 70 ~~~d~iIflSRH~s~~~~p~LTvH~tGN~~~~~~~~a~~GG~p~~l---a~a~P~l~~~l~~L~~~~~~~~~~~~fev~~ 146 (317)
.+||.||++|=|--.+. ..|..+.+... + --.+.|.|..+ ....|.-..+-..|.+...+. ++++..
T Consensus 42 ~~Pd~IvvvS~Hw~~~~----~~~~~~~~~~~-~-~~~~~g~p~~~~~~~y~~~g~~~LA~~i~~~l~~~----Gi~~~~ 111 (272)
T cd07362 42 LKPDVILVISCHWMSSS----FHHFVDATPRH-G-GLTAVECPDLISDVPYDYPGDPELGRLLVEEGQEA----GLRVKA 111 (272)
T ss_pred cCCCEEEEECCCccccc----ceeeeccCccc-c-ccccCcCCchhhccccCCCCCHHHHHHHHHHHHHc----CCceee
Confidence 37999999999977663 12222222111 1 13444555431 223332222334454554443 455652
Q ss_pred --ee---cccC---CC------CCCCceEEEecC-ChhhhcChhHHHHHHHHHHH
Q 021113 147 --EG---THHG---PV------TSKPTMFLEIGS-TEEYWKRQDAAQVIALLIWD 186 (317)
Q Consensus 147 --EA---THHG---Pt------~~~Ps~FvEIGS-te~eW~d~~a~~~vA~av~~ 186 (317)
+. --|| |. .+.|.+=|=+.. .....+--+.+++|.+++.+
T Consensus 112 ~~~~~~~lDHG~~vPL~~l~p~~~iPVV~vs~~~~~~~~~~~~~lG~ai~~al~~ 166 (272)
T cd07362 112 VNDPTYIWDYGTVVPLRYLNPNKDIPVVSISACWTAASLEESYTWGEVIGKALLE 166 (272)
T ss_pred ccCCCCCCCcchHHHHHHhCCCCCCcEEEEeccCCCCCHHHHHHHHHHHHHHHHh
Confidence 21 3377 32 246777776665 23333334556666666644
No 34
>PF14098 SSPI: Small, acid-soluble spore protein I
Probab=21.79 E-value=38 Score=26.18 Aligned_cols=44 Identities=23% Similarity=0.384 Sum_probs=33.3
Q ss_pred cHHHHHHHHHH-hhhccCCC-CceEEEEecCCCchHHHHHHHHHHHh
Q 021113 261 TWKEAIKAAYE-ATRSAFPG-GEILAHLDHKSFKGWQKNAITGFLSE 305 (317)
Q Consensus 261 ~~~~~i~~a~~-~s~~~~~~-g~~~a~id~Ks~k~~~R~~i~~~l~~ 305 (317)
-++++|..|+. +-....|| |+.+ =+-||+....+|+...+.|.+
T Consensus 18 el~~~I~daI~sgEE~~LPGLGVlF-E~~W~~~~~~ek~~m~~~l~~ 63 (65)
T PF14098_consen 18 ELKDTIEDAIQSGEEKALPGLGVLF-EVIWKNSDESEKQEMVNTLEQ 63 (65)
T ss_pred HHHHHHHHHHhccchhcCCchHHHH-HHHHHhCCHHHHHHHHHHHHh
Confidence 47889999998 45667888 4333 234999999999998887765
No 35
>KOG2541 consensus Palmitoyl protein thioesterase [Lipid transport and metabolism; Posttranslational modification, protein turnover, chaperones]
Probab=21.32 E-value=4.1e+02 Score=26.22 Aligned_cols=21 Identities=29% Similarity=0.338 Sum_probs=18.3
Q ss_pred EEecCCCCCCCCceeeecCCC
Q 021113 77 FLSKHTAVSNRPALTVHPIGV 97 (317)
Q Consensus 77 flSRH~s~~~~p~LTvH~tGN 97 (317)
+++-|.|-+++|..-+|=.|.
T Consensus 14 ~~~~~~s~s~~P~ii~HGigd 34 (296)
T KOG2541|consen 14 LALIHVSPSPVPVIVWHGIGD 34 (296)
T ss_pred HHhcccCcccCCEEEEeccCc
Confidence 567788999999999999995
No 36
>PRK09271 flavodoxin; Provisional
Probab=21.11 E-value=1.2e+02 Score=26.05 Aligned_cols=25 Identities=16% Similarity=0.143 Sum_probs=21.3
Q ss_pred CEEEEEEeCCCcccccHHHHHHcCC
Q 021113 1 MVILIVATTIDPASINPANALLAMP 25 (317)
Q Consensus 1 M~~~iv~S~~DpAs~ni~~~Ll~~~ 25 (317)
|+++||+.+.==-...||++|.+.+
T Consensus 1 mkv~IvY~S~tGnTe~~A~~ia~~l 25 (160)
T PRK09271 1 MRILLAYASLSGNTREVAREIEERC 25 (160)
T ss_pred CeEEEEEEcCCchHHHHHHHHHHHH
Confidence 8999999998888888998886654
No 37
>TIGR01019 sucCoAalpha succinyl-CoA synthetase, alpha subunit. ATP citrate lyases appear to form an outgroup.
Probab=20.52 E-value=2e+02 Score=27.93 Aligned_cols=48 Identities=19% Similarity=0.128 Sum_probs=35.8
Q ss_pred cHHHHHHHHHHhhhccCCCCceEEEEecCCCchHHHHHHHHHHHhcCCcccCCCC
Q 021113 261 TWKEAIKAAYEATRSAFPGGEILAHLDHKSFKGWQKNAITGFLSEQNIKVGKPND 315 (317)
Q Consensus 261 ~~~~~i~~a~~~s~~~~~~g~~~a~id~Ks~k~~~R~~i~~~l~~~gi~v~k~~~ 315 (317)
...+++++|.++ |.-.++|---++.....+++.+.+++.|+.|+-||=
T Consensus 75 ~v~~~l~e~~~~-------Gvk~avIis~Gf~e~~~~~l~~~a~~~girilGPNc 122 (286)
T TIGR01019 75 FAADAIFEAIDA-------GIELIVCITEGIPVHDMLKVKRYMEESGTRLIGPNC 122 (286)
T ss_pred HHHHHHHHHHHC-------CCCEEEEECCCCCHHHHHHHHHHHHHcCCEEECCCC
Confidence 346777777765 233466767777666557899999999999999984
No 38
>PRK03881 hypothetical protein; Provisional
Probab=20.15 E-value=9.6e+02 Score=24.67 Aligned_cols=21 Identities=24% Similarity=0.351 Sum_probs=14.7
Q ss_pred CccEEEEEecCCCCCCCCceee
Q 021113 71 VVGEVIFLSKHTAVSNRPALTV 92 (317)
Q Consensus 71 ~~d~iIflSRH~s~~~~p~LTv 92 (317)
+||.||++|=|-- .-.+.+++
T Consensus 45 ~Pd~IVVispH~~-~~~~~~~i 65 (467)
T PRK03881 45 KPDTIIIISPHGP-VFRDAVAI 65 (467)
T ss_pred CCCEEEEECCCcc-cccCcEEE
Confidence 7999999999955 32344444
Done!