Query 022015
Match_columns 304
No_of_seqs 50 out of 52
Neff 3.2
Searched_HMMs 46136
Date Fri Mar 29 07:22:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022015.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022015hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05708 DUF830: Orthopoxvirus 95.8 0.018 3.9E-07 47.7 5.3 46 225-274 2-47 (158)
2 PRK10030 hypothetical protein; 93.8 0.13 2.9E-06 46.3 5.6 48 223-275 19-66 (197)
3 PRK11470 hypothetical protein; 92.4 0.31 6.8E-06 44.7 5.9 58 222-286 6-64 (200)
4 PRK11479 hypothetical protein; 86.5 0.7 1.5E-05 44.4 3.5 50 218-275 58-107 (274)
5 PF01436 NHL: NHL repeat; Int 76.7 3.3 7.1E-05 26.3 2.9 17 259-276 6-22 (28)
6 PF05257 CHAP: CHAP domain; I 76.0 6.6 0.00014 31.7 5.2 46 220-279 58-104 (124)
7 PF07646 Kelch_2: Kelch motif; 67.6 5.7 0.00012 27.3 2.6 20 253-275 1-20 (49)
8 PF05382 Amidase_5: Bacterioph 59.7 16 0.00034 32.2 4.5 28 223-262 74-101 (145)
9 PF13418 Kelch_4: Galactose ox 57.1 11 0.00024 25.5 2.5 18 253-272 1-18 (49)
10 PF01344 Kelch_1: Kelch motif; 51.5 17 0.00037 24.1 2.7 22 253-277 1-22 (47)
11 TIGR02219 phage_NlpC_fam putat 47.0 32 0.00068 28.9 4.1 35 219-269 71-105 (134)
12 PRK15231 fimbrial adhesin prot 41.5 21 0.00045 32.1 2.3 48 223-272 47-99 (150)
13 cd03531 Rieske_RO_Alpha_KSH Th 39.9 38 0.00082 27.6 3.5 38 221-277 7-44 (115)
14 PF07494 Reg_prop: Two compone 38.8 29 0.00062 21.4 2.0 11 262-272 11-21 (24)
15 cd04337 Rieske_RO_Alpha_Cao Ca 38.3 56 0.0012 27.3 4.3 41 215-274 17-57 (129)
16 cd03477 Rieske_YhfW_C YhfW fam 36.4 1.1E+02 0.0025 24.1 5.6 43 222-283 5-47 (91)
17 PF07313 DUF1460: Protein of u 36.3 60 0.0013 30.3 4.6 50 222-285 151-200 (216)
18 cd03474 Rieske_T4moC Toluene-4 35.9 1E+02 0.0023 24.2 5.3 44 221-283 6-49 (108)
19 PF13964 Kelch_6: Kelch motif 35.8 54 0.0012 22.3 3.3 21 254-277 2-22 (50)
20 COG5008 PilU Tfp pilus assembl 35.5 22 0.00048 35.6 1.7 108 147-262 110-231 (375)
21 PF09713 A_thal_3526: Plant pr 32.8 11 0.00025 28.5 -0.6 38 167-204 12-51 (54)
22 PF09652 Cas_VVA1548: Putative 32.5 31 0.00066 28.8 1.8 32 196-232 8-39 (93)
23 smart00739 KOW KOW (Kyprides, 31.5 91 0.002 18.7 3.4 23 225-263 2-24 (28)
24 PF00877 NLPC_P60: NlpC/P60 fa 30.3 35 0.00076 26.6 1.8 37 219-275 46-82 (105)
25 PF14133 DUF4300: Domain of un 28.4 47 0.001 31.7 2.6 25 254-279 185-209 (250)
26 PF13854 Kelch_5: Kelch motif 28.2 64 0.0014 21.7 2.6 17 253-272 4-20 (42)
27 PF01904 DUF72: Protein of unk 27.5 2.4E+02 0.0051 25.7 6.8 82 160-242 84-178 (230)
28 cd09011 Glo_EDI_BRP_like_23 Th 27.1 71 0.0015 24.5 3.0 19 256-274 100-118 (120)
29 cd03467 Rieske Rieske domain; 26.9 2E+02 0.0044 21.9 5.5 45 221-284 6-50 (98)
30 PF04473 DUF553: Transglutamin 24.6 65 0.0014 28.5 2.6 19 256-275 109-127 (153)
31 TIGR02604 Piru_Ver_Nterm putat 24.3 60 0.0013 31.1 2.5 17 258-275 17-33 (367)
32 TIGR01589 A_thal_3526 uncharac 23.9 19 0.00042 27.6 -0.7 38 167-204 15-54 (57)
33 cd03480 Rieske_RO_Alpha_PaO Ri 23.7 1E+02 0.0022 26.0 3.5 41 216-275 18-59 (138)
34 TIGR03081 metmalonyl_epim meth 23.7 60 0.0013 24.6 2.0 15 256-270 108-124 (128)
35 cd03469 Rieske_RO_Alpha_N Ries 23.3 1.2E+02 0.0025 24.0 3.6 35 222-275 7-42 (118)
36 cd03532 Rieske_RO_Alpha_VanA_D 23.2 98 0.0021 25.0 3.2 40 216-275 6-45 (116)
37 cd03422 YedF YedF is a bacteri 22.3 2.2E+02 0.0048 21.3 4.8 45 223-272 21-65 (69)
38 PF13629 T2SS-T3SS_pil_N: Pilu 21.6 97 0.0021 23.4 2.7 42 225-273 26-68 (72)
39 TIGR03047 PS_II_psb28 photosys 20.8 1.5E+02 0.0032 25.6 3.9 54 231-292 27-82 (109)
40 PF14288 FKS1_dom1: 1,3-beta-g 20.5 31 0.00067 29.6 -0.2 75 178-264 7-97 (117)
41 cd03538 Rieske_RO_Alpha_AntDO 20.4 1.4E+02 0.0031 25.5 3.8 41 216-275 23-64 (146)
42 smart00788 Adenylsucc_synt Ade 20.3 44 0.00096 34.1 0.8 34 243-279 25-60 (421)
43 PF09916 DUF2145: Uncharacteri 20.3 1.4E+02 0.0031 28.0 4.0 46 228-293 8-53 (201)
44 cd08357 Glo_EDI_BRP_like_18 Th 20.2 1E+02 0.0022 23.2 2.6 18 254-271 104-121 (125)
No 1
>PF05708 DUF830: Orthopoxvirus protein of unknown function (DUF830); PDB: 2IF6_B 3KW0_C.
Probab=95.82 E-value=0.018 Score=47.75 Aligned_cols=46 Identities=17% Similarity=0.266 Sum_probs=35.5
Q ss_pred CCCCCEEEEEeecccCCchhhHHHhhcCcCcceeEEEEecCCCcEEEEec
Q 022015 225 IHSGDFLAVSKIRGRWGGFETLEKWVTGAYAGHTAVCLRDSEGKLWVGES 274 (304)
Q Consensus 225 IhSGDFLaVsrirgrwdGfdtlikW~TGA~aGHTav~Lrd~dGeLwV~ES 274 (304)
.|+||.|...-- +.+...++=+|++..||.+|.+++.+++.||+|+
T Consensus 2 l~~GDIil~~~~----~~~s~~i~~~t~~~~~HvgI~~~~~~~~~~viea 47 (158)
T PF05708_consen 2 LQTGDIILTRGK----SSLSKAIRPVTSSPYSHVGIVIGDEGQEPYVIEA 47 (158)
T ss_dssp --TT-EEEEEE-----SCCHHHHHHHHTSS--EEEEEEEETTE-EEEEEE
T ss_pred CCCeeEEEEECC----chHHHHHHHHhCCCCCEEEEEEecCCCceEEEEe
Confidence 589999988644 7789999999999999999999987778999999
No 2
>PRK10030 hypothetical protein; Provisional
Probab=93.82 E-value=0.13 Score=46.25 Aligned_cols=48 Identities=17% Similarity=0.113 Sum_probs=41.6
Q ss_pred CcCCCCCEEEEEeecccCCchhhHHHhhcCcCcceeEEEEecCCCcEEEEecc
Q 022015 223 EEIHSGDFLAVSKIRGRWGGFETLEKWVTGAYAGHTAVCLRDSEGKLWVGESG 275 (304)
Q Consensus 223 ~DIhSGDFLaVsrirgrwdGfdtlikW~TGA~aGHTav~Lrd~dGeLwV~ES~ 275 (304)
.++|+||.|-.+-- +.....|+.+|++.-.|.++..+. +|+.+|+|+-
T Consensus 19 ~~l~~GDlif~~g~----~~~s~aI~~~T~s~~SHVGIi~~~-~~~~~ViEAv 66 (197)
T PRK10030 19 WQPQTGDIIFQISR----SSQSKAIQLATHSDYSHTGMIVKR-NKKPYVFEAV 66 (197)
T ss_pred cCCCCCCEEEEeCC----CcHhHHHhHhhCCCCceEEEEEEE-CCcEEEEEec
Confidence 38899999988743 556899999999999999999985 8999999995
No 3
>PRK11470 hypothetical protein; Provisional
Probab=92.42 E-value=0.31 Score=44.71 Aligned_cols=58 Identities=17% Similarity=0.210 Sum_probs=43.4
Q ss_pred CCcCCCCCEEEEEeecccCCchhhHHHhhcCcCcceeEEEEecCCCcEEEEeccCccccc-ccccc
Q 022015 222 VEEIHSGDFLAVSKIRGRWGGFETLEKWVTGAYAGHTAVCLRDSEGKLWVGESGHENDEV-KLTDL 286 (304)
Q Consensus 222 ~~DIhSGDFLaVsrirgrwdGfdtlikW~TGA~aGHTav~Lrd~dGeLwV~ES~~en~~~-~~~~~ 286 (304)
+.++|+||.|-++--.+. + -.|+.+||+...|..|..+-..++-+|+||- +++ ++|.|
T Consensus 6 ~~~l~~GDLvF~~~~~~~---~-~aI~~aT~s~~sHvGII~~~~~~~~~VlEA~---~~~vr~TpL 64 (200)
T PRK11470 6 PAEYEIGDIVFTCIGAAL---F-GQISAASNCWSNHVGIIIGHNGEDFLVAESR---VPLSTVTTL 64 (200)
T ss_pred cCCCCCCCEEEEeCCcch---h-HHHHhccCCccceEEEEEEEcCCceEEEEec---CCceEEeEH
Confidence 469999999998853222 3 3588899999999999995435689999994 344 55554
No 4
>PRK11479 hypothetical protein; Provisional
Probab=86.49 E-value=0.7 Score=44.37 Aligned_cols=50 Identities=24% Similarity=0.337 Sum_probs=40.7
Q ss_pred ccCCCCcCCCCCEEEEEeecccCCchhhHHHhhcCcCcceeEEEEecCCCcEEEEecc
Q 022015 218 TNVTVEEIHSGDFLAVSKIRGRWGGFETLEKWVTGAYAGHTAVCLRDSEGKLWVGESG 275 (304)
Q Consensus 218 v~i~~~DIhSGDFLaVsrirgrwdGfdtlikW~TGA~aGHTav~Lrd~dGeLwV~ES~ 275 (304)
..|+.+++|+||.|....- +.+.-.|++.|++...|.+|.+- ||+ ++|+-
T Consensus 58 ~~Vs~~~LqpGDLVFfst~----t~~S~~Ik~~T~s~~SHVgIylG--dg~--vIEA~ 107 (274)
T PRK11479 58 KEITAPDLKPGDLLFSSSL----GVTSFGIRVFSTSSVSHVAIYLG--ENN--VAEAT 107 (274)
T ss_pred cccChhhCCCCCEEEEecC----CccccceecccCCCCcEEEEEec--CCe--EEEcC
Confidence 3678899999999997643 45677899999999999999994 454 78884
No 5
>PF01436 NHL: NHL repeat; InterPro: IPR001258 The NHL repeat, named after NCL-1, HT2A and Lin-41, is found largely in a large number of eukaryotic and prokaryotic proteins. For example, the repeat is found in a variety of enzymes of the copper type II, ascorbate-dependent monooxygenase family which catalyse the C terminus alpha-amidation of biological peptides []. In many it occurs in tandem arrays, for example in the ringfinger beta-box, coiled-coil (RBCC) eukaryotic growth regulators []. The 'Brain Tumor' protein (Brat) is one such growth regulator that contains a 6-bladed NHL-repeat beta-propeller [, ]. The NHL repeats are also found in serine/threonine protein kinase (STPK) in diverse range of pathogenic bacteria. These STPK are transmembrane receptors with a intracellular N-terminal kinase domain and extracellular C-terminal sensor domain. In the STPK, PknD, from Mycobacterium tuberculosis, the sensor domain forms a rigid, six-bladed b-propeller composed of NHL repeats with a flexible tether to the transmembrane domain.; GO: 0005515 protein binding; PDB: 3FVZ_A 3FW0_A 1RWL_A 1RWI_A 1Q7F_A.
Probab=76.74 E-value=3.3 Score=26.33 Aligned_cols=17 Identities=41% Similarity=0.915 Sum_probs=13.8
Q ss_pred EEEEecCCCcEEEEeccC
Q 022015 259 AVCLRDSEGKLWVGESGH 276 (304)
Q Consensus 259 av~Lrd~dGeLwV~ES~~ 276 (304)
-+|+ |++|++||+||+.
T Consensus 6 gvav-~~~g~i~VaD~~n 22 (28)
T PF01436_consen 6 GVAV-DSDGNIYVADSGN 22 (28)
T ss_dssp EEEE-ETTSEEEEEECCC
T ss_pred EEEE-eCCCCEEEEECCC
Confidence 4677 6899999999765
No 6
>PF05257 CHAP: CHAP domain; InterPro: IPR007921 The CHAP (cysteine, histidine-dependent amidohydrolases/peptidases) domain is a region between 110 and 140 amino acids that is found in proteins from bacteria, bacteriophages, archaea and eukaryotes of the Trypanosomidae family. Many of these proteins are uncharacterised, but it has been proposed that they may function mainly in peptidoglycan hydrolysis. The CHAP domain is found in a wide range of protein architectures; it is commonly associated with bacterial type SH3 domains and with several families of amidase domains. It has been suggested that CHAP domain containing proteins utilise a catalytic cysteine residue in a nucleophilic-attack mechanism [, ]. The CHAP domain contains two invariant residues, a cysteine and a histidine. These residues form part of the putative active site of CHAP domain containing proteins. Secondary structure predictions show that the CHAP domain belongs to the alpha + beta structural class, with the N-terminal half largely containing predicted alpha helices and the C-terminal half principally composed of predicted beta strands [, ]. Some proteins known to contain a CHAP domain are listed below: Bacterial and trypanosomal glutathionylspermidine amidases. A variety of bacterial autolysins. A Nocardia aerocolonigenes putative esterase. Streptococcus pneumoniae choline-binding protein D. Methanosarcina mazei protein MM2478, a putative chloride channel. Several phage-encoded peptidoglycan hydrolases. Cysteine peptidases belonging to MEROPS peptidase family C51 (D-alanyl-glycyl endopeptidase, clan CA). ; PDB: 2LRJ_A 2VPM_B 2VOB_B 2VPS_A 2K3A_A 2IO9_A 2IO8_A 2IOB_A 2IOA_B 2IO7_B ....
Probab=76.02 E-value=6.6 Score=31.66 Aligned_cols=46 Identities=24% Similarity=0.208 Sum_probs=33.5
Q ss_pred CCCCcCCCCCEEEEEeecccCCchhhHHHhhcCcCcceeEEEEec-CCCcEEEEeccCccc
Q 022015 220 VTVEEIHSGDFLAVSKIRGRWGGFETLEKWVTGAYAGHTAVCLRD-SEGKLWVGESGHEND 279 (304)
Q Consensus 220 i~~~DIhSGDFLaVsrirgrwdGfdtlikW~TGA~aGHTav~Lrd-~dGeLwV~ES~~en~ 279 (304)
-.....++||.+... ..++...||+++.... .+|.+.++|.-..+.
T Consensus 58 ~~~~~P~~Gdivv~~--------------~~~~~~~GHVaIV~~v~~~~~i~v~e~N~~~~ 104 (124)
T PF05257_consen 58 STGSTPQPGDIVVWD--------------SGSGGGYGHVAIVESVNDGGTITVIEQNWGNG 104 (124)
T ss_dssp EECS---TTEEEEEE--------------ECTTTTT-EEEEEEEE-TTSEEEEEECSSTBS
T ss_pred ccCcccccceEEEec--------------cCCCCCCCeEEEEEEECCCCEEEEEECCcCCC
Confidence 345677899988875 4567889999999988 779999999986543
No 7
>PF07646 Kelch_2: Kelch motif; InterPro: IPR011498 Kelch is a 50-residue motif, named after the Drosophila mutant in which it was first identified []. This sequence motif represents one beta-sheet blade, and several of these repeats can associate to form a beta-propeller. For instance, the motif appears 6 times in Drosophila egg-chamber regulatory protein, creating a 6-bladed beta-propeller. The motif is also found in mouse protein MIPP [] and in a number of poxviruses. In addition, kelch repeats have been recognised in alpha- and beta-scruin [, ], and in galactose oxidase from the fungus Dactylium dendroides [, ]. The structure of galactose oxidase reveals that the repeated sequence corresponds to a 4-stranded anti-parallel beta-sheet motif that forms the repeat unit in a super-barrel structural fold []. The known functions of kelch-containing proteins are diverse: scruin is an actin cross-linking protein; galactose oxidase catalyses the oxidation of the hydroxyl group at the C6 position in D-galactose; neuraminidase hydrolyses sialic acid residues from glycoproteins; and kelch may have a cytoskeletal function, as it is localised to the actin-rich ring canals that connect the 15 nurse cells to the developing oocyte in Drosophila []. Nevertheless, based on the location of the kelch pattern in the catalytic unit in galactose oxidase, functionally important residues have been predicted in glyoxal oxidase []. This entry represents a type of kelch sequence motif that comprises one beta-sheet blade.; GO: 0005515 protein binding
Probab=67.63 E-value=5.7 Score=27.33 Aligned_cols=20 Identities=40% Similarity=0.557 Sum_probs=16.0
Q ss_pred cCcceeEEEEecCCCcEEEEecc
Q 022015 253 AYAGHTAVCLRDSEGKLWVGESG 275 (304)
Q Consensus 253 A~aGHTav~Lrd~dGeLwV~ES~ 275 (304)
.+.||+++++ |+||||+=--
T Consensus 1 ~r~~hs~~~~---~~kiyv~GG~ 20 (49)
T PF07646_consen 1 PRYGHSAVVL---DGKIYVFGGY 20 (49)
T ss_pred CccceEEEEE---CCEEEEECCc
Confidence 3689999988 7999997433
No 8
>PF05382 Amidase_5: Bacteriophage peptidoglycan hydrolase ; InterPro: IPR008044 This entry is represented by Bacteriophage SFi21, lysin (Cell wall hydrolase; 3.5.1.28 from EC). At least one of proteins in this entry, the Pal protein from the pneumococcal bacteriophage Dp-1 (O03979 from SWISSPROT) has been shown to be an N-acetylmuramoyl-L-alanine amidase []. According to the known modular structure of this and other peptidoglycan hydrolases from the pneumococcal system, the active site should reside within this domain while a C-terminal domain binds to the choline residues of the cell wall teichoic acids [, ].
Probab=59.74 E-value=16 Score=32.16 Aligned_cols=28 Identities=21% Similarity=0.482 Sum_probs=21.3
Q ss_pred CcCCCCCEEEEEeecccCCchhhHHHhhcCcCcceeEEEE
Q 022015 223 EEIHSGDFLAVSKIRGRWGGFETLEKWVTGAYAGHTAVCL 262 (304)
Q Consensus 223 ~DIhSGDFLaVsrirgrwdGfdtlikW~TGA~aGHTav~L 262 (304)
.++|.||.+...+- |. ++...|||.|++
T Consensus 74 ~~~q~GDI~I~g~~-g~-----------S~G~~GHtgif~ 101 (145)
T PF05382_consen 74 WNLQRGDIFIWGRR-GN-----------SAGAGGHTGIFM 101 (145)
T ss_pred ccccCCCEEEEcCC-CC-----------CCCCCCeEEEEe
Confidence 37999999986543 32 455689999999
No 9
>PF13418 Kelch_4: Galactose oxidase, central domain; PDB: 2UVK_B.
Probab=57.08 E-value=11 Score=25.49 Aligned_cols=18 Identities=28% Similarity=0.516 Sum_probs=12.3
Q ss_pred cCcceeEEEEecCCCcEEEE
Q 022015 253 AYAGHTAVCLRDSEGKLWVG 272 (304)
Q Consensus 253 A~aGHTav~Lrd~dGeLwV~ 272 (304)
++.||+++.+ .++++||.
T Consensus 1 pR~~h~~~~~--~~~~i~v~ 18 (49)
T PF13418_consen 1 PRYGHSAVSI--GDNSIYVF 18 (49)
T ss_dssp --BS-EEEEE---TTEEEEE
T ss_pred CcceEEEEEE--eCCeEEEE
Confidence 4789999998 36899986
No 10
>PF01344 Kelch_1: Kelch motif; InterPro: IPR006652 Kelch is a 50-residue motif, named after the Drosophila mutant in which it was first identified []. This sequence motif represents one beta-sheet blade, and several of these repeats can associate to form a beta-propeller. For instance, the motif appears 6 times in Drosophila egg-chamber regulatory protein, creating a 6-bladed beta-propeller. The motif is also found in mouse protein MIPP [] and in a number of poxviruses. In addition, kelch repeats have been recognised in alpha- and beta-scruin [, ], and in galactose oxidase from the fungus Dactylium dendroides [, ]. The structure of galactose oxidase reveals that the repeated sequence corresponds to a 4-stranded anti-parallel beta-sheet motif that forms the repeat unit in a super-barrel structural fold []. The known functions of kelch-containing proteins are diverse: scruin is an actin cross-linking protein; galactose oxidase catalyses the oxidation of the hydroxyl group at the C6 position in D-galactose; neuraminidase hydrolyses sialic acid residues from glycoproteins; and kelch may have a cytoskeletal function, as it is localised to the actin-rich ring canals that connect the 15 nurse cells to the developing oocyte in Drosophila []. Nevertheless, based on the location of the kelch pattern in the catalytic unit in galactose oxidase, functionally important residues have been predicted in glyoxal oxidase []. This entry represents a type of kelch sequence motif that comprises one beta-sheet blade.; GO: 0005515 protein binding; PDB: 2XN4_A 2WOZ_A 3II7_A 4ASC_A 1U6D_X 1ZGK_A 2FLU_X 2VPJ_A 2DYH_A 1X2R_A ....
Probab=51.53 E-value=17 Score=24.08 Aligned_cols=22 Identities=27% Similarity=0.368 Sum_probs=17.1
Q ss_pred cCcceeEEEEecCCCcEEEEeccCc
Q 022015 253 AYAGHTAVCLRDSEGKLWVGESGHE 277 (304)
Q Consensus 253 A~aGHTav~Lrd~dGeLwV~ES~~e 277 (304)
++++|+++.+ ++++||+=-..+
T Consensus 1 pR~~~~~~~~---~~~iyv~GG~~~ 22 (47)
T PF01344_consen 1 PRSGHAAVVV---GNKIYVIGGYDG 22 (47)
T ss_dssp -BBSEEEEEE---TTEEEEEEEBES
T ss_pred CCccCEEEEE---CCEEEEEeeecc
Confidence 4689999998 799999865554
No 11
>TIGR02219 phage_NlpC_fam putative phage cell wall peptidase, NlpC/P60 family. Members of this family show sequence similarity to members of the NlpC/P60 family described by Pfam model pfam00877 and by Anantharaman and Aravind (PubMed:12620121). The NlpC/P60 family includes a number of characterized bacterial cell wall hydrolases. Members of this related family are all found in prophage regions of bacterial genomes.
Probab=46.97 E-value=32 Score=28.90 Aligned_cols=35 Identities=26% Similarity=0.391 Sum_probs=25.5
Q ss_pred cCCCCcCCCCCEEEEEeecccCCchhhHHHhhcCcCcceeEEEEecCCCcE
Q 022015 219 NVTVEEIHSGDFLAVSKIRGRWGGFETLEKWVTGAYAGHTAVCLRDSEGKL 269 (304)
Q Consensus 219 ~i~~~DIhSGDFLaVsrirgrwdGfdtlikW~TGA~aGHTav~Lrd~dGeL 269 (304)
.++.+++|+||++... . ..|..++|..+.+ + +|++
T Consensus 71 ~v~~~~~qpGDlvff~-~-------------~~~~~~~HvGIy~-G-~g~~ 105 (134)
T TIGR02219 71 PVPCDAAQPGDVLVFR-W-------------RPGAAAKHAAIAA-S-PTRF 105 (134)
T ss_pred ccchhcCCCCCEEEEe-e-------------CCCCCCcEEEEEe-C-CCcE
Confidence 4566789999998653 3 2355688999999 3 6764
No 12
>PRK15231 fimbrial adhesin protein SefD; Provisional
Probab=41.49 E-value=21 Score=32.12 Aligned_cols=48 Identities=17% Similarity=0.204 Sum_probs=41.2
Q ss_pred CcCCCCCEEEEEeecccCCchhhHHHhhc----CcCcceeEEE-EecCCCcEEEE
Q 022015 223 EEIHSGDFLAVSKIRGRWGGFETLEKWVT----GAYAGHTAVC-LRDSEGKLWVG 272 (304)
Q Consensus 223 ~DIhSGDFLaVsrirgrwdGfdtlikW~T----GA~aGHTav~-Lrd~dGeLwV~ 272 (304)
+.+++|+.||-.||--| +||- +.||.. |..+||=.+- .+|+.-||+|-
T Consensus 47 ~~l~dg~~laTGri~cr-egfh-iwmns~~~q~gg~P~~YIvqGk~dsqh~LrVR 99 (150)
T PRK15231 47 DRITSNKIIGTGHLFNR-EGKK-ILISSSLEKIKNTPGAYIIRGQNNSAHKLRIR 99 (150)
T ss_pred hhccCCcEEeeeeEEec-CCeE-EEEecchhhcCCCccEEEEECCCCCcceEEEE
Confidence 68999999999999888 7998 889987 8899998887 77777788873
No 13
>cd03531 Rieske_RO_Alpha_KSH The alignment model represents the N-terminal rieske iron-sulfur domain of KshA, the oxygenase component of 3-ketosteroid 9-alpha-hydroxylase (KSH). The terminal oxygenase component of KSH is a key enzyme in the microbial steroid degradation pathway, catalyzing the 9 alpha-hydroxylation of 4-androstene-3,17-dione (AD) and 1,4-androstadiene-3,17-dione (ADD). KSH is a two-component class IA monooxygenase, with terminal oxygenase (KshA) and oxygenase reductase (KshB) components. KSH activity has been found in many actino- and proteo- bacterial genera including Rhodococcus, Nocardia, Arthrobacter, Mycobacterium, and Burkholderia.
Probab=39.93 E-value=38 Score=27.58 Aligned_cols=38 Identities=24% Similarity=0.269 Sum_probs=28.9
Q ss_pred CCCcCCCCCEEEEEeecccCCchhhHHHhhcCcCcceeEEEEecCCCcEEEEeccCc
Q 022015 221 TVEEIHSGDFLAVSKIRGRWGGFETLEKWVTGAYAGHTAVCLRDSEGKLWVGESGHE 277 (304)
Q Consensus 221 ~~~DIhSGDFLaVsrirgrwdGfdtlikW~TGA~aGHTav~Lrd~dGeLwV~ES~~e 277 (304)
..+||..|+...+. + .|...+..|+.||++++++.-=-
T Consensus 7 ~~~dl~~g~~~~~~-~------------------~g~~i~l~r~~~g~~~a~~n~Cp 44 (115)
T cd03531 7 LARDFRDGKPHGVE-A------------------FGTKLVVFADSDGALNVLDAYCR 44 (115)
T ss_pred EHHHCCCCCeEEEE-E------------------CCeEEEEEECCCCCEEEEcCcCC
Confidence 35778888888766 3 25688889988999999987433
No 14
>PF07494 Reg_prop: Two component regulator propeller; InterPro: IPR011110 A large group of two component regulator proteins appear to have the same N-terminal structure of 14 tandem repeats. These repeats show homology to members of IPR002372 from INTERPRO and IPR001680 from INTERPRO indicating that they are likely to form a beta-propeller. This family has been built with artificially high cut-offs in order to avoid overlaps with other beta-propeller families. The fourteen repeats are likely to form two propellers; it is not clear if these structures are likely to recruit other proteins or interact with DNA.; PDB: 3V9F_D 3VA6_B 3OTT_B 4A2M_D 4A2L_B.
Probab=38.80 E-value=29 Score=21.44 Aligned_cols=11 Identities=55% Similarity=1.371 Sum_probs=8.3
Q ss_pred EecCCCcEEEE
Q 022015 262 LRDSEGKLWVG 272 (304)
Q Consensus 262 Lrd~dGeLwV~ 272 (304)
+.|.+|.|||+
T Consensus 11 ~~D~~G~lWig 21 (24)
T PF07494_consen 11 YEDSDGNLWIG 21 (24)
T ss_dssp EE-TTSCEEEE
T ss_pred EEcCCcCEEEE
Confidence 34888999997
No 15
>cd04337 Rieske_RO_Alpha_Cao Cao (chlorophyll a oxygenase) is a rieske non-heme iron-sulfur protein located within the plastid-envelope inner and thylakoid membranes, that catalyzes the conversion of chlorophyllide a to chlorophyllide b. CAO is found not only in plants but also in chlorophytes and prochlorophytes. This domain represents the N-terminal rieske domain of the oxygenase alpha subunit. ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. Cao is closely related to several other plant RO's including Tic 55, a 55 kDa protein associated with protein transport through the inner
Probab=38.34 E-value=56 Score=27.30 Aligned_cols=41 Identities=15% Similarity=0.295 Sum_probs=30.6
Q ss_pred CccccCCCCcCCCCCEEEEEeecccCCchhhHHHhhcCcCcceeEEEEecCCCcEEEEec
Q 022015 215 PWFTNVTVEEIHSGDFLAVSKIRGRWGGFETLEKWVTGAYAGHTAVCLRDSEGKLWVGES 274 (304)
Q Consensus 215 p~~v~i~~~DIhSGDFLaVsrirgrwdGfdtlikW~TGA~aGHTav~Lrd~dGeLwV~ES 274 (304)
-|..-...+||.+||...+. + .|...+..|+.||++++.+.
T Consensus 17 ~W~~v~~~~el~~g~~~~~~-v------------------~g~~l~l~r~~~g~v~A~~n 57 (129)
T cd04337 17 FWYPVEFSKDLKMDTMVPFE-L------------------FGQPWVLFRDEDGTPGCIRD 57 (129)
T ss_pred ccEEEEEHHHCCCCCeEEEE-E------------------CCcEEEEEECCCCcEEEEeC
Confidence 36334456889999988775 3 35577888988999999987
No 16
>cd03477 Rieske_YhfW_C YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. It is commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes. YhfW is found in bacteria, some eukaryotes and archaea.
Probab=36.38 E-value=1.1e+02 Score=24.07 Aligned_cols=43 Identities=21% Similarity=0.299 Sum_probs=30.3
Q ss_pred CCcCCCCCEEEEEeecccCCchhhHHHhhcCcCcceeEEEEecCCCcEEEEeccCccccccc
Q 022015 222 VEEIHSGDFLAVSKIRGRWGGFETLEKWVTGAYAGHTAVCLRDSEGKLWVGESGHENDEVKL 283 (304)
Q Consensus 222 ~~DIhSGDFLaVsrirgrwdGfdtlikW~TGA~aGHTav~Lrd~dGeLwV~ES~~en~~~~~ 283 (304)
.+||.+|+...+. + .|...+..|+.||++|+++..---....|
T Consensus 5 ~~dl~~g~~~~~~-~------------------~g~~v~v~r~~~g~~~A~~~~CpH~g~~l 47 (91)
T cd03477 5 IEDLAPGEGGVVN-I------------------GGKRLAVYRDEDGVLHTVSATCTHLGCIV 47 (91)
T ss_pred hhhcCCCCeEEEE-E------------------CCEEEEEEECCCCCEEEEcCcCCCCCCCC
Confidence 4788999987664 4 24566778888999999987654444433
No 17
>PF07313 DUF1460: Protein of unknown function (DUF1460); InterPro: IPR010846 This family consists of several hypothetical bacterial proteins of around 260 residues in length. The function of this family is unknown.; PDB: 2P1G_B 2IM9_A.
Probab=36.25 E-value=60 Score=30.25 Aligned_cols=50 Identities=20% Similarity=0.464 Sum_probs=33.3
Q ss_pred CCcCCCCCEEEEEeecccCCchhhHHHhhcCcCcceeEEEEecCCCcEEEEeccCccccccccc
Q 022015 222 VEEIHSGDFLAVSKIRGRWGGFETLEKWVTGAYAGHTAVCLRDSEGKLWVGESGHENDEVKLTD 285 (304)
Q Consensus 222 ~~DIhSGDFLaVsrirgrwdGfdtlikW~TGA~aGHTav~Lrd~dGeLwV~ES~~en~~~~~~~ 285 (304)
.+.||+||.++|..=. +|+| ..|+-++.|..|| |+....-....|.++.|
T Consensus 151 ~~~i~~GDiI~i~t~~---~GLD----------vsH~Giav~~~~~-l~l~hASs~~~~~~vvd 200 (216)
T PF07313_consen 151 LSQIKNGDIIAIVTNI---KGLD----------VSHVGIAVWKNDG-LHLRHASSLHKKVVVVD 200 (216)
T ss_dssp HTTS-TT-EEEEEEEC---TTEC----------EEEEEEEEEETTE-EEEEEEETTTTEEEEEC
T ss_pred HhcCCCCCEEEEEeCC---CCCc----------eeeEEEEEEECCe-EEEEeCCCCCCCcEEec
Confidence 4889999999987542 4554 6899999998555 88876555444444444
No 18
>cd03474 Rieske_T4moC Toluene-4-monooxygenase effector protein complex (T4mo), Rieske ferredoxin subunit; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. T4mo is a four-protein complex that catalyzes the NADH- and O2-dependent hydroxylation of toluene to form p-cresol. T4mo consists of an NADH oxidoreductase (T4moF), a diiron hydroxylase (T4moH), a catalytic effector protein (T4moD), and a Rieske ferredoxin (T4moC). T4moC contains a Rieske domain and functions as an obligate electron carrier between T4moF and T4moH. Rieske ferredoxins are found as subunits of membrane oxidase complexes, cis-dihydrodiol-forming aromatic dioxygenases, bacterial assimilatory nitrite reductases, and arsenite oxidase. Rieske ferredoxins are also found as soluble electron carriers in bacterial dioxygenase and monooxygenase complexes.
Probab=35.88 E-value=1e+02 Score=24.20 Aligned_cols=44 Identities=14% Similarity=0.328 Sum_probs=29.9
Q ss_pred CCCcCCCCCEEEEEeecccCCchhhHHHhhcCcCcceeEEEEecCCCcEEEEeccCccccccc
Q 022015 221 TVEEIHSGDFLAVSKIRGRWGGFETLEKWVTGAYAGHTAVCLRDSEGKLWVGESGHENDEVKL 283 (304)
Q Consensus 221 ~~~DIhSGDFLaVsrirgrwdGfdtlikW~TGA~aGHTav~Lrd~dGeLwV~ES~~en~~~~~ 283 (304)
..+||..|+...+. +. |-..+++|+.+|++++.+..=--..+.|
T Consensus 6 ~~~~l~~g~~~~~~-~~------------------~~~~~~~~~~~g~~~A~~n~CpH~g~~L 49 (108)
T cd03474 6 SLDDVWEGEMELVD-VD------------------GEEVLLVAPEGGEFRAFQGICPHQEIPL 49 (108)
T ss_pred ehhccCCCceEEEE-EC------------------CeEEEEEEccCCeEEEEcCcCCCCCCCc
Confidence 46789999988754 31 2256788888999999886544333333
No 19
>PF13964 Kelch_6: Kelch motif
Probab=35.79 E-value=54 Score=22.31 Aligned_cols=21 Identities=33% Similarity=0.457 Sum_probs=16.1
Q ss_pred CcceeEEEEecCCCcEEEEeccCc
Q 022015 254 YAGHTAVCLRDSEGKLWVGESGHE 277 (304)
Q Consensus 254 ~aGHTav~Lrd~dGeLwV~ES~~e 277 (304)
+.+|+++++ +|+|||+=-...
T Consensus 2 R~~~s~v~~---~~~iyv~GG~~~ 22 (50)
T PF13964_consen 2 RYGHSAVVV---GGKIYVFGGYDN 22 (50)
T ss_pred CccCEEEEE---CCEEEEECCCCC
Confidence 678999887 789999844443
No 20
>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=35.55 E-value=22 Score=35.59 Aligned_cols=108 Identities=22% Similarity=0.270 Sum_probs=76.4
Q ss_pred Eeecccchhh--HHhhhcCeEEEEec--hhhHhHHHHHHhhccccCCC-----cccccccHHHHHHhcCCceeecCCC--
Q 022015 147 FNEWEGKLEY--EYVKNKGVSIFLMQ--AGMLGTLEALWDVFPLFTNT-----GWGENSNIGFLKKHMGASFEQRPEP-- 215 (304)
Q Consensus 147 ~k~we~~ae~--e~Ik~~Gv~IFlm~--~G~~~TL~sL~dtlpLFsnt-----~WGe~~Nl~FLk~~mG~~fe~R~~p-- 215 (304)
|.+++=++-+ -.+++.|+-||-=. +|=.-|+-+.++- .|. .--...-++|+.+|-+--+..|+.-
T Consensus 110 ~eeL~LPevlk~la~~kRGLviiVGaTGSGKSTtmAaMi~y----RN~~s~gHIiTIEDPIEfih~h~~CIvTQREvGvD 185 (375)
T COG5008 110 FEELKLPEVLKDLALAKRGLVIIVGATGSGKSTTMAAMIGY----RNKNSTGHIITIEDPIEFIHKHKRCIVTQREVGVD 185 (375)
T ss_pred HHhcCCcHHHHHhhcccCceEEEECCCCCCchhhHHHHhcc----cccCCCCceEEecChHHHHhcccceeEEeeeeccc
Confidence 3444433333 35678998888654 6777777555432 222 1113456899999999999999843
Q ss_pred ---ccccCCCCcCCCCCEEEEEeecccCCchhhHHHhhcCcCcceeEEEE
Q 022015 216 ---WFTNVTVEEIHSGDFLAVSKIRGRWGGFETLEKWVTGAYAGHTAVCL 262 (304)
Q Consensus 216 ---~~v~i~~~DIhSGDFLaVsrirgrwdGfdtlikW~TGA~aGHTav~L 262 (304)
|.+.+.-+-=|+-|.+.|..+|-| ||++-=.+=|-.||-.||-
T Consensus 186 Tesw~~AlkNtlRQapDvI~IGEvRsr----etMeyAi~fAeTGHLcmaT 231 (375)
T COG5008 186 TESWEVALKNTLRQAPDVILIGEVRSR----ETMEYAIQFAETGHLCMAT 231 (375)
T ss_pred hHHHHHHHHHHHhcCCCeEEEeecccH----hHHHHHHHHHhcCceEEEE
Confidence 334444566789999999999999 9999888889999988875
No 21
>PF09713 A_thal_3526: Plant protein 1589 of unknown function (A_thal_3526); InterPro: IPR006476 This plant-specific family of proteins are defined by an uncharacterised region 57 residues in length. It is found toward the N terminus of most proteins that contain it. Examples include at least several proteins from Arabidopsis thaliana (Mouse-ear cress) and Oryza sativa (Rice). The function of the proteins are unknown.
Probab=32.75 E-value=11 Score=28.45 Aligned_cols=38 Identities=26% Similarity=0.492 Sum_probs=30.6
Q ss_pred EEechhhHhHHHHHHhhccccCCCccc--ccccHHHHHHh
Q 022015 167 FLMQAGMLGTLEALWDVFPLFTNTGWG--ENSNIGFLKKH 204 (304)
Q Consensus 167 Flm~~G~~~TL~sL~dtlpLFsnt~WG--e~~Nl~FLk~~ 204 (304)
|+-++-+..+|..-..+-|.||.+.|. |..|.+|-+..
T Consensus 12 yMsk~E~v~~L~~~a~I~P~~T~~VW~~Le~eN~eFF~aY 51 (54)
T PF09713_consen 12 YMSKEECVRALQKQANIEPVFTSTVWQKLEKENPEFFKAY 51 (54)
T ss_pred cCCHHHHHHHHHHHcCCChHHHHHHHHHHHHHCHHHHHHh
Confidence 444566777777777788999999999 69999999875
No 22
>PF09652 Cas_VVA1548: Putative CRISPR-associated protein (Cas_VVA1548); InterPro: IPR013443 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a conserved region of about 95 amino acids found exclusively in species with CRISPR repeats. In all bacterial species that contain this entry, the genes encoding the proteins are in the midst of a cluster of cas genes.
Probab=32.51 E-value=31 Score=28.85 Aligned_cols=32 Identities=19% Similarity=0.431 Sum_probs=23.9
Q ss_pred ccHHHHHHhcCCceeecCCCccccCCCCcCCCCCEEE
Q 022015 196 SNIGFLKKHMGASFEQRPEPWFTNVTVEEIHSGDFLA 232 (304)
Q Consensus 196 ~Nl~FLk~~mG~~fe~R~~p~~v~i~~~DIhSGDFLa 232 (304)
..++++++. |+...++ +.-+|+++|++||.+.
T Consensus 8 GAieW~~~q-g~~iD~~----v~Hld~~~i~~GD~Vi 39 (93)
T PF09652_consen 8 GAIEWAKQQ-GIQIDHF----VDHLDPADIQPGDVVI 39 (93)
T ss_pred cHHHHHHHh-CCCccee----eccCCHHHccCCCEEE
Confidence 457888887 6655444 4578999999999864
No 23
>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
Probab=31.47 E-value=91 Score=18.69 Aligned_cols=23 Identities=26% Similarity=0.507 Sum_probs=16.3
Q ss_pred CCCCCEEEEEeecccCCchhhHHHhhcCcCcceeEEEEe
Q 022015 225 IHSGDFLAVSKIRGRWGGFETLEKWVTGAYAGHTAVCLR 263 (304)
Q Consensus 225 IhSGDFLaVsrirgrwdGfdtlikW~TGA~aGHTav~Lr 263 (304)
++.||.+.|. .|.++|+.+..++
T Consensus 2 ~~~G~~V~I~----------------~G~~~g~~g~i~~ 24 (28)
T smart00739 2 FEVGDTVRVI----------------AGPFKGKVGKVLE 24 (28)
T ss_pred CCCCCEEEEe----------------ECCCCCcEEEEEE
Confidence 4677777776 5677777777764
No 24
>PF00877 NLPC_P60: NlpC/P60 family; InterPro: IPR000064 The Escherichia coli NLPC/Listeria P60 domain occurs at the C terminus of a number of different bacterial and viral proteins. The viral proteins are either described as tail assembly proteins or Gp19. In bacteria, the proteins are variously described as being putative tail component of prophage, invasin, invasion associated protein, putative lipoprotein, cell wall hydrolase, or putative endopeptidase. The E. coli NLPC/Listeria P60 domain is contained within the boundaries of the cysteine peptidase domain that defines the MEROPS peptidase family C40 (clan C-). A type example being dipeptidyl-peptidase VI from Bacillus sphaericus and gamma-glutamyl-diamino acid-endopeptidase precursor from Lactococcus lactis 3.4.19.11 from EC. This group also contains proteins classified as non-peptidase homologues in that they either have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity of peptidases in the C40 family. ; PDB: 3PVQ_B 3GT2_A 3NPF_B 2K1G_A 3I86_A 3S0Q_A 2XIV_A 3PBC_A 3NE0_A 3M1U_B ....
Probab=30.32 E-value=35 Score=26.61 Aligned_cols=37 Identities=24% Similarity=0.489 Sum_probs=26.6
Q ss_pred cCCCCcCCCCCEEEEEeecccCCchhhHHHhhcCcCcceeEEEEecCCCcEEEEecc
Q 022015 219 NVTVEEIHSGDFLAVSKIRGRWGGFETLEKWVTGAYAGHTAVCLRDSEGKLWVGESG 275 (304)
Q Consensus 219 ~i~~~DIhSGDFLaVsrirgrwdGfdtlikW~TGA~aGHTav~Lrd~dGeLwV~ES~ 275 (304)
.++.++.++||.|.... +..+.|.+|.+ .+|+ +++++
T Consensus 46 ~~~~~~~~pGDlif~~~----------------~~~~~Hvgiy~--g~~~--~iha~ 82 (105)
T PF00877_consen 46 RVPISELQPGDLIFFKG----------------GGGISHVGIYL--GDGK--FIHAS 82 (105)
T ss_dssp HEEGGG-TTTEEEEEEG----------------TGGEEEEEEEE--ETTE--EEEEE
T ss_pred ccchhcCCcccEEEEeC----------------CccCCEeEEEE--eCCe--EEEeC
Confidence 36789999999998762 67789999999 2443 44554
No 25
>PF14133 DUF4300: Domain of unknown function (DUF4300)
Probab=28.42 E-value=47 Score=31.73 Aligned_cols=25 Identities=24% Similarity=0.349 Sum_probs=18.9
Q ss_pred CcceeEEEEecCCCcEEEEeccCccc
Q 022015 254 YAGHTAVCLRDSEGKLWVGESGHEND 279 (304)
Q Consensus 254 ~aGHTav~Lrd~dGeLwV~ES~~en~ 279 (304)
+.||+.|++.+.|| ++.+|=..=.+
T Consensus 185 FvGH~GVLv~~~dg-~LFiEKlaf~e 209 (250)
T PF14133_consen 185 FVGHTGVLVPTKDG-YLFIEKLAFEE 209 (250)
T ss_pred EeeeEEEEEEcCCc-EEEEEeeCCCC
Confidence 57999999987666 88888554433
No 26
>PF13854 Kelch_5: Kelch motif
Probab=28.16 E-value=64 Score=21.73 Aligned_cols=17 Identities=24% Similarity=0.456 Sum_probs=14.3
Q ss_pred cCcceeEEEEecCCCcEEEE
Q 022015 253 AYAGHTAVCLRDSEGKLWVG 272 (304)
Q Consensus 253 A~aGHTav~Lrd~dGeLwV~ 272 (304)
++.||+++.. +++|||.
T Consensus 4 ~R~~hs~~~~---~~~iyi~ 20 (42)
T PF13854_consen 4 PRYGHSAVVV---GNNIYIF 20 (42)
T ss_pred CccceEEEEE---CCEEEEE
Confidence 6899999987 4889985
No 27
>PF01904 DUF72: Protein of unknown function DUF72; InterPro: IPR002763 The function of this family is unknown. Aquifex aeolicus has two copies of this protein. A probable aspartyl-tRNA synthetase from Escherichia coli [] belongs to this group.; PDB: 1VPY_A 1ZTV_A 1VPQ_A.
Probab=27.46 E-value=2.4e+02 Score=25.73 Aligned_cols=82 Identities=22% Similarity=0.398 Sum_probs=40.6
Q ss_pred hhcCeEEEEechh------hHhHHHHHHhhcc-cc------CCCcccccccHHHHHHhcCCceeecCCCccccCCCCcCC
Q 022015 160 KNKGVSIFLMQAG------MLGTLEALWDVFP-LF------TNTGWGENSNIGFLKKHMGASFEQRPEPWFTNVTVEEIH 226 (304)
Q Consensus 160 k~~Gv~IFlm~~G------~~~TL~sL~dtlp-LF------snt~WGe~~Nl~FLk~~mG~~fe~R~~p~~v~i~~~DIh 226 (304)
.+-|.-+|.+|-. -...|.++.+-+| -+ .|..|-...=.++|+++ |+.+.--..|..-.+.+...+
T Consensus 84 ~klg~iL~Q~Ppsf~~~~~~~~~l~~~l~~~~~~~~~avE~R~~sW~~~~~~~~l~~~-~~~~v~~d~~~~~~~p~~~~~ 162 (230)
T PF01904_consen 84 EKLGPILFQFPPSFRFTPENLERLDAFLDRLPRGFRYAVEFRHPSWFTEEVFELLREH-GVALVIADSPRLPSLPPPEPQ 162 (230)
T ss_dssp T-EEEEEEE--TT--S-HHHHHHHHHHHHHTT-TS-EEEE--BGGGGCHHHHHHHHHT-T-EEEEEE---BTTC------
T ss_pred hcceEEEEEcCCCcCCCHHHHHHHHHHHhhcccccceEEecCCcchhhHHHHHHHHHc-CCEEEEeCCcccCCCCCcccc
Confidence 3568899999864 4455666666665 22 37778876667888875 555554444432334433333
Q ss_pred CCCEEEEEeecccCCc
Q 022015 227 SGDFLAVSKIRGRWGG 242 (304)
Q Consensus 227 SGDFLaVsrirgrwdG 242 (304)
...=+++.|+.||=++
T Consensus 163 ~~~~~~y~RlhG~~~~ 178 (230)
T PF01904_consen 163 TTPDFAYVRLHGRNGE 178 (230)
T ss_dssp SSTTEEEEEE--S-TT
T ss_pred cCCCCeEEeeccCccc
Confidence 3323467799999443
No 28
>cd09011 Glo_EDI_BRP_like_23 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping.
Probab=27.08 E-value=71 Score=24.53 Aligned_cols=19 Identities=16% Similarity=0.205 Sum_probs=15.2
Q ss_pred ceeEEEEecCCCcEEEEec
Q 022015 256 GHTAVCLRDSEGKLWVGES 274 (304)
Q Consensus 256 GHTav~Lrd~dGeLwV~ES 274 (304)
|...+.++||||.++-+-|
T Consensus 100 g~r~~~~~DPdGn~iei~~ 118 (120)
T cd09011 100 GQRVVRFYDPDKHIIEVGE 118 (120)
T ss_pred ccEEEEEECCCCCEEEEec
Confidence 4467888999999997765
No 29
>cd03467 Rieske Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes. The Rieske domain can be divided into two subdomains, with an incomplete six-stranded, antiparallel beta-barrel at one end, and an iron-sulfur cluster binding subdomain at the other. The Rieske iron-sulfur center contains a [2Fe-2S] cluster, which is involved in electron transfer, and is liganded to two histidine and two cysteine residues present in conserved sequences called Rieske motifs. In RO systems, the N-terminal Rieske domain of the alpha subunit acts as an electron shuttle that accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron in the alpha subunit C-terminal domain to be used for catalysis.
Probab=26.89 E-value=2e+02 Score=21.92 Aligned_cols=45 Identities=18% Similarity=0.316 Sum_probs=31.3
Q ss_pred CCCcCCCCCEEEEEeecccCCchhhHHHhhcCcCcceeEEEEecCCCcEEEEeccCcccccccc
Q 022015 221 TVEEIHSGDFLAVSKIRGRWGGFETLEKWVTGAYAGHTAVCLRDSEGKLWVGESGHENDEVKLT 284 (304)
Q Consensus 221 ~~~DIhSGDFLaVsrirgrwdGfdtlikW~TGA~aGHTav~Lrd~dGeLwV~ES~~en~~~~~~ 284 (304)
..++|.+|+-..+. + .|...+.+|+.+|++|+.+----...+.|.
T Consensus 6 ~~~~~~~~~~~~~~-~------------------~~~~~~v~~~~~~~~~a~~~~CpH~g~~l~ 50 (98)
T cd03467 6 ALSELPPGGGRVVV-V------------------GGGPVVVVRREGGEVYALSNRCTHQGCPLS 50 (98)
T ss_pred eccccCCCceEEEE-E------------------CCeEEEEEEeCCCEEEEEcCcCCCCCccCC
Confidence 35678888877664 2 267788888878899998866555544443
No 30
>PF04473 DUF553: Transglutaminase-like domain; InterPro: IPR007562 This entry represents a transglutaminase-like domain found in a family of uncharacterised archaeal proteins that had previously been called DUF553 and UPF0252.
Probab=24.56 E-value=65 Score=28.48 Aligned_cols=19 Identities=37% Similarity=0.658 Sum_probs=16.5
Q ss_pred ceeEEEEecCCCcEEEEecc
Q 022015 256 GHTAVCLRDSEGKLWVGESG 275 (304)
Q Consensus 256 GHTav~Lrd~dGeLwV~ES~ 275 (304)
||.|++++ .||++||+.=+
T Consensus 109 ~Haa~aV~-ing~~yvlDq~ 127 (153)
T PF04473_consen 109 GHAAVAVK-INGKYYVLDQH 127 (153)
T ss_pred CeEEEEEE-ECCEEEEEeCC
Confidence 79999996 79999998643
No 31
>TIGR02604 Piru_Ver_Nterm putative membrane-bound dehydrogenase domain. All proteins that score above the trusted cutoff score of 45 to this model are large proteins of either Pirellula sp. 1 or Verrucomicrobium spinosum. These proteins all contain, in addition to this domain, several hundred residues of highly variable sequence, and then a well-conserved C-terminal domain (TIGR02603) that features a putative cytochrome c-type heme binding motif CXXCH. The membrane-bound L-sorbosone dehydrogenase from Acetobacter liquefaciens (Gluconacetobacter liquefaciens) is homologous to this domain but lacks additional sequence regions shared by members of this family and belongs to a different clade of the larger family of homologs. It and its closely related homologs are excluded from the this model by scoring between the trusted (45) and noise (18) cutoffs.
Probab=24.29 E-value=60 Score=31.06 Aligned_cols=17 Identities=53% Similarity=1.075 Sum_probs=13.5
Q ss_pred eEEEEecCCCcEEEEecc
Q 022015 258 TAVCLRDSEGKLWVGESG 275 (304)
Q Consensus 258 Tav~Lrd~dGeLwV~ES~ 275 (304)
.+|++ |++|.|||+|+.
T Consensus 17 ~~ia~-d~~G~l~V~e~~ 33 (367)
T TIGR02604 17 IAVCF-DERGRLWVAEGI 33 (367)
T ss_pred ceeeE-CCCCCEEEEeCC
Confidence 34555 999999999974
No 32
>TIGR01589 A_thal_3526 uncharacterized plant-specific domain TIGR01589. This model represents an uncharacterized plant-specific domain 57 residues in length. It is found toward the N-terminus of most proteins that contain it. Examples include at least 10 proteins from Arabidopsis thaliana and at least one from Oryza sativa.
Probab=23.87 E-value=19 Score=27.58 Aligned_cols=38 Identities=21% Similarity=0.308 Sum_probs=30.4
Q ss_pred EEechhhHhHHHHHHhhccccCCCccc--ccccHHHHHHh
Q 022015 167 FLMQAGMLGTLEALWDVFPLFTNTGWG--ENSNIGFLKKH 204 (304)
Q Consensus 167 Flm~~G~~~TL~sL~dtlpLFsnt~WG--e~~Nl~FLk~~ 204 (304)
|+-.+-..++|..-...=|.||.+.|. |..|.+|-+..
T Consensus 15 yMsk~E~v~~L~~~a~I~P~~T~~VW~~LekeN~eFF~aY 54 (57)
T TIGR01589 15 YMSKEETVSFLFENAGISPKFTRFVWYLLEKENADFFRCY 54 (57)
T ss_pred HCCHHHHHHHHHHHcCCCchhHHHHHHHHHHHHHHHHHHH
Confidence 344456677777777888999999999 69999998864
No 33
>cd03480 Rieske_RO_Alpha_PaO Rieske non-heme iron oxygenase (RO) family, Pheophorbide a oxygenase (PaO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of a small subfamily of enzymes found in plants as well as oxygenic cyanobacterial photosynthesizers including LLS1 (lethal leaf spot 1, also known as PaO) and ACD1 (accelerated cell death 1). ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. PaO expression increases upon physical wounding of plant leaves and is thought to catalyze a key step in chlorophyll degradation. The
Probab=23.68 E-value=1e+02 Score=26.04 Aligned_cols=41 Identities=15% Similarity=0.272 Sum_probs=29.9
Q ss_pred ccccCCCCcCCCCCEEEEEeecccCCchhhHHHhhcCcCcceeEEEEecC-CCcEEEEecc
Q 022015 216 WFTNVTVEEIHSGDFLAVSKIRGRWGGFETLEKWVTGAYAGHTAVCLRDS-EGKLWVGESG 275 (304)
Q Consensus 216 ~~v~i~~~DIhSGDFLaVsrirgrwdGfdtlikW~TGA~aGHTav~Lrd~-dGeLwV~ES~ 275 (304)
|..-...+||..|+...+. + -|...+..|+. ||++|+.+..
T Consensus 18 W~~v~~~~el~~g~~~~~~-~------------------~g~~i~v~r~~~dG~~~A~~n~ 59 (138)
T cd03480 18 WYPVAYVEDLDPSRPTPFT-L------------------LGRDLVIWWDRNSQQWRAFDDQ 59 (138)
T ss_pred eEEEEEHHHCCCCCcEEEE-E------------------CCeeEEEEEECCCCEEEEEcCC
Confidence 6334456889999987664 3 25677888876 9999998864
No 34
>TIGR03081 metmalonyl_epim methylmalonyl-CoA epimerase. Members of this protein family are the enzyme methylmalonyl-CoA epimerase (EC 5.1.99.1), also called methylmalonyl-CoA racemase. This enzyme converts (2R)-methylmalonyl-CoA to (2S)-methylmalonyl-CoA, which is then a substrate for methylmalonyl-CoA mutase (TIGR00642). It is known in bacteria, archaea, and as a mitochondrial protein in animals. It is closely related to lactoylglutathione lyase (TIGR00068), which is also called glyoxylase I, and is also a homodimer.
Probab=23.66 E-value=60 Score=24.61 Aligned_cols=15 Identities=27% Similarity=0.483 Sum_probs=12.5
Q ss_pred ceeEEEE--ecCCCcEE
Q 022015 256 GHTAVCL--RDSEGKLW 270 (304)
Q Consensus 256 GHTav~L--rd~dGeLw 270 (304)
|+.++++ |||||.++
T Consensus 108 g~~~~~~~~~dp~G~~~ 124 (128)
T TIGR03081 108 GKPVAFLHPKSTGGVLI 124 (128)
T ss_pred CCEEEEecccccCcEEE
Confidence 6778888 89999886
No 35
>cd03469 Rieske_RO_Alpha_N Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable microorganisms to tolerate and even exclusively utilize aromatic compounds for growth. ROs consist of two or three components: reductase, oxygenase, and ferredoxin (in some cases) components. The oxygenase component may contain alpha and beta subunits, with the beta subunit having a purely structural function. Some oxygenase components contain only an alpha subunit. The oxygenase alpha subunit has two domains, an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from the reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. Reduced pyridine nucleotide is used as the i
Probab=23.26 E-value=1.2e+02 Score=23.96 Aligned_cols=35 Identities=23% Similarity=0.490 Sum_probs=26.4
Q ss_pred CCcCC-CCCEEEEEeecccCCchhhHHHhhcCcCcceeEEEEecCCCcEEEEecc
Q 022015 222 VEEIH-SGDFLAVSKIRGRWGGFETLEKWVTGAYAGHTAVCLRDSEGKLWVGESG 275 (304)
Q Consensus 222 ~~DIh-SGDFLaVsrirgrwdGfdtlikW~TGA~aGHTav~Lrd~dGeLwV~ES~ 275 (304)
.+||. +|+.+.+. + .|+..+..|+.||++++.+.-
T Consensus 7 ~~el~~~g~~~~~~-~------------------~~~~i~v~r~~~g~~~a~~n~ 42 (118)
T cd03469 7 SSELPEPGDYVTLE-L------------------GGEPLVLVRDRDGEVRAFHNV 42 (118)
T ss_pred HHHCCCCCCEEEEE-E------------------CCccEEEEECCCCCEEEEEEe
Confidence 46787 89877654 3 167788888889999998753
No 36
>cd03532 Rieske_RO_Alpha_VanA_DdmC Rieske non-heme iron oxygenase (RO) family, Vanillate-O-demethylase oxygenase (VanA) and dicamba O-demethylase oxygenase (DdmC) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. Vanillate-O-demethylase is a heterodimeric enzyme consisting of a terminal oxygenase (VanA) and reductase (VanB) components. This enzyme reductively catalyzes the conversion of vanillate into protocatechuate and formaldehyde. Protocatechuate and vanillate are important intermediate metabolites in the degrad
Probab=23.19 E-value=98 Score=25.02 Aligned_cols=40 Identities=23% Similarity=0.383 Sum_probs=28.2
Q ss_pred ccccCCCCcCCCCCEEEEEeecccCCchhhHHHhhcCcCcceeEEEEecCCCcEEEEecc
Q 022015 216 WFTNVTVEEIHSGDFLAVSKIRGRWGGFETLEKWVTGAYAGHTAVCLRDSEGKLWVGESG 275 (304)
Q Consensus 216 ~~v~i~~~DIhSGDFLaVsrirgrwdGfdtlikW~TGA~aGHTav~Lrd~dGeLwV~ES~ 275 (304)
|..-...+||. |+...+.- .|...+..|+.||++++.+.-
T Consensus 6 W~~v~~~~el~-~~~~~~~~-------------------~g~~i~l~r~~~g~~~a~~n~ 45 (116)
T cd03532 6 WYVAAWADELG-DKPLARTL-------------------LGEPVVLYRTQDGRVAALEDR 45 (116)
T ss_pred EEEEEEHHHcC-CCcEEEEE-------------------CCceEEEEECCCCCEEEeCCc
Confidence 53444567776 77766542 366788899889999998863
No 37
>cd03422 YedF YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=22.28 E-value=2.2e+02 Score=21.26 Aligned_cols=45 Identities=11% Similarity=0.128 Sum_probs=33.0
Q ss_pred CcCCCCCEEEEEeecccCCchhhHHHhhcCcCcceeEEEEecCCCcEEEE
Q 022015 223 EEIHSGDFLAVSKIRGRWGGFETLEKWVTGAYAGHTAVCLRDSEGKLWVG 272 (304)
Q Consensus 223 ~DIhSGDFLaVsrirgrwdGfdtlikW~TGA~aGHTav~Lrd~dGeLwV~ 272 (304)
.++.+||.|.|. .... ...+-+.+|.. ..||......+ +|..|.+
T Consensus 21 ~~l~~G~~l~V~-~d~~-~s~~ni~~~~~--~~g~~v~~~~~-~~~~~~~ 65 (69)
T cd03422 21 PSLKPGEILEVI-SDCP-QSINNIPIDAR--NHGYKVLAIEQ-SGPTIRY 65 (69)
T ss_pred HcCCCCCEEEEE-ecCc-hHHHHHHHHHH--HcCCEEEEEEe-cCCEEEE
Confidence 578999988773 3333 56788999996 78999998865 5555654
No 38
>PF13629 T2SS-T3SS_pil_N: Pilus formation protein N terminal region
Probab=21.62 E-value=97 Score=23.38 Aligned_cols=42 Identities=19% Similarity=0.392 Sum_probs=29.5
Q ss_pred CCCCCEEEEEeecccCCchhhHHHhhcCcCcceeEEEEecCCCc-EEEEe
Q 022015 225 IHSGDFLAVSKIRGRWGGFETLEKWVTGAYAGHTAVCLRDSEGK-LWVGE 273 (304)
Q Consensus 225 IhSGDFLaVsrirgrwdGfdtlikW~TGA~aGHTav~Lrd~dGe-LwV~E 273 (304)
|-.++..-+.=+..| +-.++|-.+|-|.+.+||.+|+ ++..+
T Consensus 26 v~dp~Iadv~~~~~~-------~v~i~gk~~G~T~l~vw~~~~~~~~~~~ 68 (72)
T PF13629_consen 26 VGDPEIADVTVLSPN-------EVYITGKKPGTTTLIVWDKDGRVIQTYD 68 (72)
T ss_pred ECCCCEEEEEEeCCC-------EEEEEEeCceeEEEEEECCCCCEEEEEE
Confidence 334445555545333 6678899999999999999998 66543
No 39
>TIGR03047 PS_II_psb28 photosystem II reaction center protein Psb28. Members of this protein family are the Psb28 protein of photosystem II. Two different protein families, apparently without homology between them, have been designated PsbW. Cyanobacterial proteins previously designated PsbW are members of the family described here. However, while members of the plant PsbW family are not found (so far) in Cyanobacteria, members of the present family do occur in plants. We therefore support the alternative designation that has emerged for this protein family, Psp28, rather than PsbW.
Probab=20.84 E-value=1.5e+02 Score=25.56 Aligned_cols=54 Identities=24% Similarity=0.205 Sum_probs=39.4
Q ss_pred EEEEeecccCCchhhHHH--hhcCcCcceeEEEEecCCCcEEEEeccCccccccccccccccch
Q 022015 231 LAVSKIRGRWGGFETLEK--WVTGAYAGHTAVCLRDSEGKLWVGESGHENDEVKLTDLLTCCDS 292 (304)
Q Consensus 231 LaVsrirgrwdGfdtlik--W~TGA~aGHTav~Lrd~dGeLwV~ES~~en~~~~~~~~~~~~~~ 292 (304)
-|+.+. +-...+.+ -.+|...| |.|.|++|+|-+-|+..+=-.|+... +.|---
T Consensus 27 ~a~f~F----~~p~al~~~~~~~~~itG---m~LiDeEGei~tr~v~~KFvnGkp~~-iEa~y~ 82 (109)
T TIGR03047 27 TALFRF----ENPKALDKFNSDTGEITG---MYLIDEEGEIVTREVKAKFVNGKPKA-LEAVYI 82 (109)
T ss_pred EEEEEE----CCchhhhhccccccceee---EEEEccCccEEEEecceEEECCCccE-EEEEEE
Confidence 444544 55666666 56788888 99999999999999988877777665 445433
No 40
>PF14288 FKS1_dom1: 1,3-beta-glucan synthase subunit FKS1, domain-1
Probab=20.50 E-value=31 Score=29.58 Aligned_cols=75 Identities=25% Similarity=0.359 Sum_probs=40.5
Q ss_pred HHHHhhccccCCCcccccccHHHH-------HHhcCCceeecCCCcc-----ccCCCCcCCCCCEE--EEEeecccCCch
Q 022015 178 EALWDVFPLFTNTGWGENSNIGFL-------KKHMGASFEQRPEPWF-----TNVTVEEIHSGDFL--AVSKIRGRWGGF 243 (304)
Q Consensus 178 ~sL~dtlpLFsnt~WGe~~Nl~FL-------k~~mG~~fe~R~~p~~-----v~i~~~DIhSGDFL--aVsrirgrwdGf 243 (304)
++|+-.+ |||++|+.|. =|+|-..+....+... .........+|+|| +|+=| =.+
T Consensus 7 iaLYLLi-------WGEAaNlRfmPECLCfIFh~ma~~~~~~~~~~~~~~~~~~~~~~~~~~~~FL~~VItPi----Y~~ 75 (117)
T PF14288_consen 7 IALYLLI-------WGEAANLRFMPECLCFIFHHMAMDYYRSLESQGSENTGEPVPPPSVPEGSFLDHVITPI----YEF 75 (117)
T ss_pred HHHHHHH-------HHHHhcccccHHHHHHHHHHHHHHHHhhhhccccccccCCCCCCCCCchHHHHhhhHHH----HHH
Confidence 3555555 9999999764 4556666554433211 11245677889998 44443 111
Q ss_pred --hhHHHhhcCcCcceeEEEEec
Q 022015 244 --ETLEKWVTGAYAGHTAVCLRD 264 (304)
Q Consensus 244 --dtlikW~TGA~aGHTav~Lrd 264 (304)
++.-+| .+.-+-|+.+.--|
T Consensus 76 i~~q~~~~-~~~~~dH~~~~nYD 97 (117)
T PF14288_consen 76 IRDQQYSS-VRGEADHSDWRNYD 97 (117)
T ss_pred HHHHhHhh-cCCCCCccccCCCC
Confidence 111222 34455677765544
No 41
>cd03538 Rieske_RO_Alpha_AntDO Rieske non-heme iron oxygenase (RO) family, Anthranilate 1,2-dioxygenase (AntDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to tolerate and utilize aromatic compounds for growth. The oxygenase alpha subunit contains an N-terminal Rieske domain with an [2Fe-2S] cluster and a C-terminal catalytic domain with a mononuclear Fe(II) binding site. The Rieske [2Fe-2S] cluster accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron for catalysis. AntDO converts anthranilate to catechol, a naturally occurring compound formed through tryptophan degradation and an important intermediate in the metabolism of many N-heterocyclic compounds such as indole, o-nitrobenzoate, carbazole, and quinaldine.
Probab=20.39 E-value=1.4e+02 Score=25.48 Aligned_cols=41 Identities=20% Similarity=0.432 Sum_probs=30.0
Q ss_pred ccccCCCCcCC-CCCEEEEEeecccCCchhhHHHhhcCcCcceeEEEEecCCCcEEEEecc
Q 022015 216 WFTNVTVEEIH-SGDFLAVSKIRGRWGGFETLEKWVTGAYAGHTAVCLRDSEGKLWVGESG 275 (304)
Q Consensus 216 ~~v~i~~~DIh-SGDFLaVsrirgrwdGfdtlikW~TGA~aGHTav~Lrd~dGeLwV~ES~ 275 (304)
|..-...+||. +||++.+. + -|...+..|+.||++++.+.-
T Consensus 23 W~~v~~~~elp~~G~~~~~~-i------------------~g~~i~v~r~~~g~v~A~~n~ 64 (146)
T cd03538 23 WIYVGHESQVPNPGDYITTR-I------------------GDQPVVMVRHTDGSVHVLYNR 64 (146)
T ss_pred CEEEEEHHHCCCCCCEEEEE-E------------------CCeeEEEEECCCCCEEEEecc
Confidence 63334457786 79998875 4 255788899889999998853
No 42
>smart00788 Adenylsucc_synt Adenylosuccinate synthetase. Adenylosuccinate synthetase plays an important role in purine biosynthesis, by catalyzing the GTP-dependent conversion of IMP and aspartic acid to AMP. Adenylosuccinate synthetase has been characterized from various sources ranging from Escherichia coli (gene purA) to vertebrate tissues. In vertebrates, two isozymes are present - one involved in purine biosynthesis and the other in the purine nucleotide cycle. The crystal structure of adenylosuccinate synthetase from E. coli reveals that the dominant structural element of each monomer of the homodimer is a central beta-sheet of 10 strands. The first nine strands of the sheet are mutually parallel with right-handed crossover connections between the strands. The 10th strand is antiparallel with respect to the first nine strands. In addition, the enzyme has two antiparallel beta-sheets, comprised of two strands and three strands each, 11 alpha-helices and two short 3/10-helices. Furt
Probab=20.30 E-value=44 Score=34.13 Aligned_cols=34 Identities=32% Similarity=0.377 Sum_probs=23.3
Q ss_pred hhhHHHhhcCcCcceeEEEEecCCCc--EEEEeccCccc
Q 022015 243 FETLEKWVTGAYAGHTAVCLRDSEGK--LWVGESGHEND 279 (304)
Q Consensus 243 fdtlikW~TGA~aGHTav~Lrd~dGe--LwV~ES~~en~ 279 (304)
.|-...+-.|+.||||++. + .++ |..+=||--+.
T Consensus 25 ~d~VvR~~GG~NAGHTvv~--~-g~k~~lhllPSGil~~ 60 (421)
T smart00788 25 ADVVVRFQGGNNAGHTVVV--G-GKKYKLHLLPSGILNP 60 (421)
T ss_pred CCEEEEccccCCCCcEEEE--C-CEEEEEEecCccccCC
Confidence 3555666789999999984 2 333 56667777664
No 43
>PF09916 DUF2145: Uncharacterized protein conserved in bacteria (DUF2145); InterPro: IPR014547 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=20.25 E-value=1.4e+02 Score=27.99 Aligned_cols=46 Identities=22% Similarity=0.533 Sum_probs=32.7
Q ss_pred CCEEEEEeecccCCchhhHHHhhcCcCcceeEEEEecCCCcEEEEeccCccccccccccccccchh
Q 022015 228 GDFLAVSKIRGRWGGFETLEKWVTGAYAGHTAVCLRDSEGKLWVGESGHENDEVKLTDLLTCCDSM 293 (304)
Q Consensus 228 GDFLaVsrirgrwdGfdtlikW~TGA~aGHTav~Lrd~dGeLwV~ES~~en~~~~~~~~~~~~~~~ 293 (304)
.....|.|. || .+.+| |=+-.|.++++|++|| -|. +..|+.-|++.
T Consensus 8 a~vvilaR~-Gq-----dls~~--GirySH~a~a~~~~dG-~w~-----------V~~lyn~c~~~ 53 (201)
T PF09916_consen 8 ARVVILARA-GQ-----DLSRY--GIRYSHAAFAVRTADG-GWR-----------VYHLYNDCGTD 53 (201)
T ss_pred CcEEEEEec-CC-----ChHHc--CCeeeeEEEEEEcCCC-Cee-----------eeehhhhcCch
Confidence 345666766 55 56777 9999999999999889 443 34566666653
No 44
>cd08357 Glo_EDI_BRP_like_18 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping. The proteins of this family share three conserved metal binding amino acids with the type I extradiol dioxygenases, which shows no domain swapping.
Probab=20.21 E-value=1e+02 Score=23.23 Aligned_cols=18 Identities=17% Similarity=0.246 Sum_probs=13.1
Q ss_pred CcceeEEEEecCCCcEEE
Q 022015 254 YAGHTAVCLRDSEGKLWV 271 (304)
Q Consensus 254 ~aGHTav~Lrd~dGeLwV 271 (304)
..|+..+.++||||.++-
T Consensus 104 ~~~~~~~~~~DPdG~~iE 121 (125)
T cd08357 104 PGEQETFFLKDPSGNALE 121 (125)
T ss_pred cCceeEEEEECCCCCEEE
Confidence 344566778899998874
Done!