Query 033171
Match_columns 125
No_of_seqs 117 out of 756
Neff 8.0
Searched_HMMs 46136
Date Fri Mar 29 10:41:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033171.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033171hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2104 Nuclear transport fact 100.0 2.8E-44 6.1E-49 235.5 12.2 122 1-124 2-123 (126)
2 cd00780 NTF2 Nuclear transport 100.0 3.4E-39 7.3E-44 216.3 15.4 118 4-124 1-119 (119)
3 PF02136 NTF2: Nuclear transpo 100.0 5.4E-33 1.2E-37 184.8 12.2 114 8-122 1-118 (118)
4 KOG4353 RNA export factor NXT1 100.0 2.1E-33 4.5E-38 186.8 7.1 117 4-124 11-136 (139)
5 KOG0116 RasGAP SH3 binding pro 100.0 1E-31 2.2E-36 211.5 11.9 120 2-124 10-134 (419)
6 PF10429 Mtr2: Nuclear pore RN 99.6 6.2E-16 1.3E-20 107.6 5.7 100 6-107 4-108 (166)
7 KOG3763 mRNA export factor TAP 99.3 2.1E-11 4.5E-16 98.7 10.1 117 3-122 335-495 (585)
8 cd00531 NTF2_like Nuclear tran 99.3 2.4E-10 5.2E-15 73.8 12.7 112 10-122 2-123 (124)
9 TIGR02246 conserved hypothetic 98.2 8.6E-05 1.9E-09 48.8 12.1 112 5-120 2-123 (128)
10 PF15008 DUF4518: Domain of un 98.1 4.7E-05 1E-09 57.3 9.4 119 3-123 125-259 (262)
11 PF13474 SnoaL_3: SnoaL-like d 98.0 0.00015 3.3E-09 47.0 10.3 108 10-120 2-116 (121)
12 PF14534 DUF4440: Domain of un 97.6 0.0012 2.6E-08 41.5 9.6 102 11-115 3-107 (107)
13 PF12680 SnoaL_2: SnoaL-like d 97.3 0.0031 6.8E-08 39.0 7.8 76 13-92 1-79 (102)
14 cd00781 ketosteroid_isomerase 96.8 0.024 5.2E-07 36.9 9.1 50 9-58 5-57 (122)
15 PF12893 Lumazine_bd_2: Putati 96.7 0.067 1.4E-06 35.0 10.8 104 7-121 4-116 (116)
16 PF08332 CaMKII_AD: Calcium/ca 96.6 0.056 1.2E-06 36.7 10.1 110 6-117 3-121 (128)
17 PF13577 SnoaL_4: SnoaL-like d 96.5 0.063 1.4E-06 34.8 9.7 69 6-74 6-80 (127)
18 COG4875 Uncharacterized protei 92.6 2.3 4.9E-05 29.0 10.5 55 2-56 33-89 (156)
19 COG4319 Ketosteroid isomerase 92.5 2.1 4.6E-05 29.4 8.7 99 18-118 21-127 (137)
20 TIGR02096 conserved hypothetic 89.5 4.1 8.9E-05 26.3 10.0 57 12-68 3-64 (129)
21 PRK09636 RNA polymerase sigma 71.5 13 0.00029 28.0 5.6 51 8-58 172-231 (293)
22 TIGR02960 SigX5 RNA polymerase 68.0 13 0.00028 28.2 4.9 50 8-57 205-257 (324)
23 PRK08241 RNA polymerase factor 67.3 7.8 0.00017 29.8 3.6 51 7-57 214-267 (339)
24 COG3631 Ketosteroid isomerase- 67.2 36 0.00079 23.0 7.6 64 8-71 5-77 (133)
25 PF07366 SnoaL: SnoaL-like pol 64.9 9.8 0.00021 24.6 3.2 54 14-69 5-64 (126)
26 PF07080 DUF1348: Protein of u 58.1 10 0.00022 26.1 2.3 39 18-56 21-60 (143)
27 smart00593 RUN domain involved 53.9 27 0.00058 20.2 3.5 46 8-57 9-54 (64)
28 COG5073 VID24 Vacuolar import 44.7 14 0.0003 28.0 1.4 71 15-92 56-126 (272)
29 cd00667 ring_hydroxylating_dio 42.4 1.1E+02 0.0023 20.7 14.1 115 6-122 3-147 (160)
30 PF12642 TpcC: Conjugative tra 42.1 1.3E+02 0.0028 21.7 8.7 31 7-37 140-171 (232)
31 PF05553 DUF761: Cotton fibre 40.2 26 0.00056 18.7 1.7 20 3-22 3-22 (38)
32 PF07858 LEH: Limonene-1,2-epo 38.4 1.2E+02 0.0027 20.3 9.3 52 3-57 1-54 (125)
33 PF12870 Lumazine_bd: Lumazine 34.4 1.1E+02 0.0024 18.6 4.7 30 83-116 82-111 (111)
34 PF02759 RUN: RUN domain; Int 32.7 25 0.00053 22.9 1.1 26 13-38 82-107 (133)
35 TIGR02957 SigX4 RNA polymerase 32.6 1.3E+02 0.0028 22.6 5.1 50 9-58 166-224 (281)
36 PF08478 POTRA_1: POTRA domain 30.1 1E+02 0.0022 17.5 3.4 32 47-85 36-67 (69)
37 KOG0480 DNA replication licens 28.8 32 0.00069 29.8 1.3 76 6-93 73-148 (764)
38 TIGR03231 anthran_1_2_B anthra 27.6 2.1E+02 0.0045 19.7 10.6 107 10-118 2-137 (155)
39 PF07293 DUF1450: Protein of u 27.1 1.1E+02 0.0025 18.8 3.3 50 40-93 9-60 (78)
40 PF07341 DUF1473: Protein of u 25.7 29 0.00064 24.1 0.5 26 8-33 57-84 (163)
41 PRK01151 rps17E 30S ribosomal 23.3 75 0.0016 18.5 1.9 19 5-23 8-26 (58)
42 PF12392 DUF3656: Collagenase 23.0 2.2E+02 0.0048 18.4 4.5 27 44-72 65-91 (122)
43 PF07029 CryBP1: CryBP1 protei 22.5 2.9E+02 0.0063 19.5 5.0 29 63-91 131-159 (161)
44 cd06479 ACD_HspB7_like Alpha c 22.3 1.8E+02 0.0038 17.8 3.6 25 81-105 32-56 (81)
45 COG3558 Uncharacterized protei 20.9 95 0.002 21.1 2.2 50 7-56 12-62 (154)
No 1
>KOG2104 consensus Nuclear transport factor 2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=2.8e-44 Score=235.55 Aligned_cols=122 Identities=53% Similarity=0.867 Sum_probs=117.3
Q ss_pred CCCCHHHHHHHHHHHHhhccccChhhhcccccCCceEEEcCceecCHHHHHHHHhcCCCCcceEEeEEeeeeecCCCCcE
Q 033171 1 MEDQTELVGKTFVGHYYHLFDNDRASLSSLYQPTSMLTFEGQKFFGVDDISTKFNQLPFDQCRHMISTIDSQPCPSTGGL 80 (125)
Q Consensus 1 ~~~~~~~i~~~Fv~~YY~~l~~~r~~L~~~Y~~~S~~t~~g~~~~G~~~I~~~l~~lp~~~~~~~i~s~D~q~~~~~~~i 80 (125)
|++.++.+|+.|+++||.+||.+|+.|..+|.+.|+|||+|+.++|+++|.+||.+|||++++|.|+++||||+ ++|||
T Consensus 2 ~d~~~e~v~~~FvqhYY~~FD~dR~ql~~lY~~~S~LTfEGqq~qG~~~IveKl~sLpFqkiqh~IttvD~QPt-~~g~i 80 (126)
T KOG2104|consen 2 LDPVYEAVAKAFVQHYYSLFDNDRSQLGALYIDTSMLTFEGQQIQGKDAIVEKLTSLPFQKIQHSITTVDSQPT-PDGGI 80 (126)
T ss_pred CCccHHHHHHHHHHHHHHHhcCchhHhhhhhcccceeeEcchhhcchHHHHHHHhcCChhhhhceeeecccccC-CCCcE
Confidence 46678999999999999999999999999999999999999999999999999999999999999999999999 99999
Q ss_pred EEEEEEEEEEcCCCCceeeEEEEEEeeCCCCcEEEEceeEEeec
Q 033171 81 LIFVSGSLQLAGEDHHLRFSQMFHLIPTPRGSFAVQNDIFRLNY 124 (125)
Q Consensus 81 lI~V~G~~~~~~~~~~~~F~qtF~L~~~~~~~y~I~nD~fr~~~ 124 (125)
+|+|.|+++.++++ +.+|+|.|.|.|+.+|+||+.|||||+.+
T Consensus 81 lv~V~G~Lk~dEd~-~~~FsQvF~L~~n~~~~~~v~ndiFRLn~ 123 (126)
T KOG2104|consen 81 LVMVVGQLKLDEDP-ILRFSQVFLLKPNIQGSYYVFNDIFRLNL 123 (126)
T ss_pred EEEEeeeeeeccCC-ccceeeEEEEeEcCCCCEEEEeeeEEEec
Confidence 99999999999775 99999999999997799999999999975
No 2
>cd00780 NTF2 Nuclear transport factor 2 (NTF2) domain plays an important role in the trafficking of macromolecules, ions and small molecules between the cytoplasm and nucleus. This bi-directional transport of macromolecules across the nuclear envelope requires many soluble factors that includes GDP-binding protein Ran (RanGDP). RanGDP is required for both import and export of proteins and poly(A) RNA. RanGDP also has been implicated in cell cycle control, specifically in mitotic spindle assembly. In interphase cells, RanGDP is predominately nuclear and thought to be GTP bound, but it is also present in the cytoplasm, probably in the GDP-bound state. NTF2 mediates the nuclear import of RanGDP. NTF2 binds to both RanGDP and FxFG repeat-containing nucleoporins.
Probab=100.00 E-value=3.4e-39 Score=216.30 Aligned_cols=118 Identities=46% Similarity=0.778 Sum_probs=113.3
Q ss_pred CHHHHHHHHHHHHhhccccChhhhcccccCCceEEEcC-ceecCHHHHHHHHhcCCCCcceEEeEEeeeeecCCCCcEEE
Q 033171 4 QTELVGKTFVGHYYHLFDNDRASLSSLYQPTSMLTFEG-QKFFGVDDISTKFNQLPFDQCRHMISTIDSQPCPSTGGLLI 82 (125)
Q Consensus 4 ~~~~i~~~Fv~~YY~~l~~~r~~L~~~Y~~~S~~t~~g-~~~~G~~~I~~~l~~lp~~~~~~~i~s~D~q~~~~~~~ilI 82 (125)
++++||+.||++||++|+++|+.|++||+++|.|+|+| +.+.|+++|.++|.+||++.++|+|.++||||+ .+++++|
T Consensus 1 ~~~~v~~~Fv~~YY~~l~~~~~~L~~fY~~~s~~~~~~~~~~~g~~~I~~~l~~lp~~~~~~~i~~~d~q~~-~~~~ili 79 (119)
T cd00780 1 SAEDVAKAFVQQYYSIFDNNREGLHRLYGDTSMLSREGMKQVTGRDAIVEKLSSLPFQKTKHKITTVDSQPT-PSGGVIV 79 (119)
T ss_pred CHHHHHHHHHHHHHHHHhcCHHHHHhhcCCCcEEEECCceEecCHHHHHHHHHhCCCcceEEEEEEEeeeEc-CCCCEEE
Confidence 47899999999999999999999999999999999999 999999999999999999899999999999999 7799999
Q ss_pred EEEEEEEEcCCCCceeeEEEEEEeeCCCCcEEEEceeEEeec
Q 033171 83 FVSGSLQLAGEDHHLRFSQMFHLIPTPRGSFAVQNDIFRLNY 124 (125)
Q Consensus 83 ~V~G~~~~~~~~~~~~F~qtF~L~~~~~~~y~I~nD~fr~~~ 124 (125)
+|+|.++.++.+ ++.|+|+|+|.+.+ ++|+|.||+|||+.
T Consensus 80 ~V~G~~~~~~~~-~~~F~q~F~L~~~~-~~~~I~nD~fr~~~ 119 (119)
T cd00780 80 MVTGSLKLDEQP-PRKFSQTFVLAPQN-GGYFVLNDIFRFVD 119 (119)
T ss_pred EEEEEEEECCCC-ceeEeEEEEEEecC-CeEEEEeeEEEecC
Confidence 999999999875 99999999999999 99999999999974
No 3
>PF02136 NTF2: Nuclear transport factor 2 (NTF2) domain; InterPro: IPR002075 Nuclear transport factor 2 (NTF2) is a homodimer which stimulates efficient nuclear import of a cargo protein. NTF2 binds to both RanGDP and FxFG repeat-containing nucleoporins. NTF2 folds into a cone with a deep hydrophobic cavity, the opening of which is surrounded by several negatively charged residues. RanGDP binds to NTF2 by inserting a conserved phenylalanine residue into the hydrophobic pocket of NTF2 and making electrostatic interactions with the conserved negatively charged residues that surround the cavity []. This entry represent the main structural domain of NTF2 and related domains which are found in other nuclear import proteins.; GO: 0006810 transport, 0005622 intracellular; PDB: 3UJM_B 1JKG_B 1JN5_B 1M98_A 3MG1_A 3MG2_A 3MG3_B 2Z76_A 2Z7A_D 2Z77_A ....
Probab=100.00 E-value=5.4e-33 Score=184.79 Aligned_cols=114 Identities=39% Similarity=0.729 Sum_probs=105.9
Q ss_pred HHHHHHHHHhhcccc-Chhhhcccc-cCCceEEEcCc-eecCHHHHHHHHhcCCCCcceEEeEEeeeeec-CCCCcEEEE
Q 033171 8 VGKTFVGHYYHLFDN-DRASLSSLY-QPTSMLTFEGQ-KFFGVDDISTKFNQLPFDQCRHMISTIDSQPC-PSTGGLLIF 83 (125)
Q Consensus 8 i~~~Fv~~YY~~l~~-~r~~L~~~Y-~~~S~~t~~g~-~~~G~~~I~~~l~~lp~~~~~~~i~s~D~q~~-~~~~~ilI~ 83 (125)
+|+.|+++||++||+ +|+.|.+|| .+.|.++|+|+ ...|+++|.++|.+||...++|.|.++||||+ ..+++++|+
T Consensus 1 v~~~Fv~~Yy~~~d~~~~~~L~~~Y~~~~s~~~~~~~~~~~G~~~I~~~~~~l~~~~~~~~i~~~d~qp~~~~~~~i~i~ 80 (118)
T PF02136_consen 1 VANSFVQQYYQLFDSGDREGLHKLYHDDASFLTWNGNRPVVGREAIQEFFQSLPATGVQHRITSVDCQPSPSSDGSILIT 80 (118)
T ss_dssp HHHHHHHHHHHHHHHTHGGGGGGGEEEEEEEEEETTECEEESHHHHHHHHHHHTTSSEEEEEEEEEEEEEEECCSEEEEE
T ss_pred CHHHHHHHHHHHHccCCHHHHHHHHcCCCeeecCCCchhhhhHHHHHHHHhcCCCcccEEEecccccccccccCCcEEEE
Confidence 689999999999999 999999999 77888999999 99999999999999996666999999999953 268999999
Q ss_pred EEEEEEEcCCCCceeeEEEEEEeeCCCCcEEEEceeEEe
Q 033171 84 VSGSLQLAGEDHHLRFSQMFHLIPTPRGSFAVQNDIFRL 122 (125)
Q Consensus 84 V~G~~~~~~~~~~~~F~qtF~L~~~~~~~y~I~nD~fr~ 122 (125)
|+|.++.++.+.+++|+|+|+|.+.+ ++|+|.||||||
T Consensus 81 v~G~~~~~~~~~~~~F~q~FvL~~~~-~~~~I~nd~~r~ 118 (118)
T PF02136_consen 81 VTGQFKEDDNPNPRRFSQTFVLVPQN-NGYFIANDIFRF 118 (118)
T ss_dssp EEEEEEETTSEEEEEEEEEEEEEEET-TEEEEEEEEEEE
T ss_pred EEeEEEecCCCcccEEEEEEEEEEcC-CEEEEEeeEEEC
Confidence 99999999986579999999999999 999999999997
No 4
>KOG4353 consensus RNA export factor NXT1 [RNA processing and modification]
Probab=100.00 E-value=2.1e-33 Score=186.77 Aligned_cols=117 Identities=29% Similarity=0.526 Sum_probs=107.9
Q ss_pred CHHHHHHHHHHHHhhccccChhhhcccccCCceEEEcCceecCHHHHHHHHhcCCCCcceEEeEEeeeeecCC-----CC
Q 033171 4 QTELVGKTFVGHYYHLFDNDRASLSSLYQPTSMLTFEGQKFFGVDDISTKFNQLPFDQCRHMISTIDSQPCPS-----TG 78 (125)
Q Consensus 4 ~~~~i~~~Fv~~YY~~l~~~r~~L~~~Y~~~S~~t~~g~~~~G~~~I~~~l~~lp~~~~~~~i~s~D~q~~~~-----~~ 78 (125)
++.+.|++|++.||..+|++|+.|.+||.++|.++|||+++.|.+.|.+.++.|| .++|+|.++||||.+. +.
T Consensus 11 s~cr~A~eFv~~YY~smD~rR~~i~rlY~~~atlvWNGn~v~g~esls~ff~~LP--sS~~qi~~lD~Qpv~dqat~~q~ 88 (139)
T KOG4353|consen 11 SACRAAEEFVNVYYSSMDKRRRGIGRLYLDNATLVWNGNPVSGTESLSEFFNMLP--SSEFQINDLDCQPVHDQATGSQT 88 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHhhccceEEEcCCcchhHHHHHHHHHhCC--Cccccccccccccchhhcccccc
Confidence 5678999999999999999999999999999999999999999999999999999 9999999999999842 34
Q ss_pred cEEEEEEEEEEEcCCCCceeeEEEEEEeeCCCCcEE----EEceeEEeec
Q 033171 79 GLLIFVSGSLQLAGEDHHLRFSQMFHLIPTPRGSFA----VQNDIFRLNY 124 (125)
Q Consensus 79 ~ilI~V~G~~~~~~~~~~~~F~qtF~L~~~~~~~y~----I~nD~fr~~~ 124 (125)
++||+|+|.++++++. +|.|.|||.|.+.. +.|. |.+|+||+.+
T Consensus 89 ~vLvvvsGtVkFdG~k-~r~F~qt~ll~~e~-~~~k~~~~v~Sd~fr~~d 136 (139)
T KOG4353|consen 89 TVLVVVSGTVKFDGNK-QRVFNQTFLLTAED-PPFKTVWKVASDCFRFQD 136 (139)
T ss_pred eEEEEEeeeEEEcCCc-cccccceeEEeecC-Cccchhhhhhhhhhhhhh
Confidence 7999999999999996 99999999999876 5554 9999999864
No 5
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=99.97 E-value=1e-31 Score=211.46 Aligned_cols=120 Identities=35% Similarity=0.565 Sum_probs=114.6
Q ss_pred CCCHHHHHHHHHHHHhhccccChhhhcccccCCceEEEcCc-----eecCHHHHHHHHhcCCCCcceEEeEEeeeeecCC
Q 033171 2 EDQTELVGKTFVGHYYHLFDNDRASLSSLYQPTSMLTFEGQ-----KFFGVDDISTKFNQLPFDQCRHMISTIDSQPCPS 76 (125)
Q Consensus 2 ~~~~~~i~~~Fv~~YY~~l~~~r~~L~~~Y~~~S~~t~~g~-----~~~G~~~I~~~l~~lp~~~~~~~i~s~D~q~~~~ 76 (125)
-++++.||..||++||+.|.+.|+.|++||.++|.+++.|. .+.|.++|++++.+|+++.|+.+|.++|+|.+ .
T Consensus 10 ~~~~~~vg~~Fv~qYY~~L~~~P~~lhrfY~~~S~ltr~~~dg~m~s~t~~~~I~~~i~sld~~~~s~eI~tvdsQ~S-~ 88 (419)
T KOG0116|consen 10 VPTPQLVGNEFVRQYYNVLQNSPSKLHRFYMDDSVLTRPGLDGKMVSVTGLEAIHEKIMSLDYEVCSVEISTVDSQAS-L 88 (419)
T ss_pred CCCHHHHHHHHHHHHHHHHhhChHHHHHHhhccceeeccCCCCceEEEecHHHhhhheeecCCCceeEEEEEEehhhh-c
Confidence 56899999999999999999999999999999999999763 68899999999999999999999999999998 8
Q ss_pred CCcEEEEEEEEEEEcCCCCceeeEEEEEEeeCCCCcEEEEceeEEeec
Q 033171 77 TGGLLIFVSGSLQLAGEDHHLRFSQMFHLIPTPRGSFAVQNDIFRLNY 124 (125)
Q Consensus 77 ~~~ilI~V~G~~~~~~~~~~~~F~qtF~L~~~~~~~y~I~nD~fr~~~ 124 (125)
++|++|+|+|.++.++.+ .|+|+|||+|+|.+ ++|||.||||||++
T Consensus 89 ~~GvvI~VtG~lt~~~~~-rRkF~QtFfLapq~-~~yfVlNDiFRfvd 134 (419)
T KOG0116|consen 89 EKGVVIMVTGYLTNKDGP-RRKFSQTFFLAPQE-KGYFVLNDIFRFVD 134 (419)
T ss_pred cCCeEEEEEEEEEeCCCc-ceEEEEEEEEeecC-CceEEEechhhhcc
Confidence 999999999999999997 99999999999999 69999999999986
No 6
>PF10429 Mtr2: Nuclear pore RNA shuttling protein Mtr2; InterPro: IPR019488 Mtr2 is a monomeric, dual-action, RNA-shuttle protein found in yeasts. Transport across the nuclear-cytoplasmic membrane is via the macro-molecular membrane-spanning nuclear pore complex, NPC. The pore is lined by a subset of NPC members called nucleoporins that present FG (Phe-Gly) receptors, characteristically GLFG and FXFG motifs, for shuttling RNAs and proteins. RNA cargo is bound to soluble transport proteins (nuclear export factors) such as Mex67 in yeasts, and TAP in metazoa, which pass along the pore by binding to successive FG receptors. Mtr2 when bound to Mex67 maximises this FG-binding. Mtr2 also acts independently of Mex67 in transporting the large ribosomal RNA subunit through the pore []. ; PDB: 1Q40_A 1Q42_A 1OF5_B.
Probab=99.62 E-value=6.2e-16 Score=107.61 Aligned_cols=100 Identities=17% Similarity=0.299 Sum_probs=81.3
Q ss_pred HHHHHHHHHHHhhcccc-----ChhhhcccccCCceEEEcCceecCHHHHHHHHhcCCCCcceEEeEEeeeeecCCCCcE
Q 033171 6 ELVGKTFVGHYYHLFDN-----DRASLSSLYQPTSMLTFEGQKFFGVDDISTKFNQLPFDQCRHMISTIDSQPCPSTGGL 80 (125)
Q Consensus 6 ~~i~~~Fv~~YY~~l~~-----~r~~L~~~Y~~~S~~t~~g~~~~G~~~I~~~l~~lp~~~~~~~i~s~D~q~~~~~~~i 80 (125)
.++++.||++||..||. -++.|..||.++|.++|||+++.++.+.++.|.+.| ..++|++.++|||.+|..|.+
T Consensus 4 tq~~E~FvKk~la~LD~~~~~~l~~~l~~F~~~~~~II~Ng~Pi~~~~~F~~~w~~~p-v~TqH~L~s~D~H~IPGsgt~ 82 (166)
T PF10429_consen 4 TQIIETFVKKILAHLDEQDPPNLNSFLTQFLPPNCKIIWNGTPIAQPTAFQQTWQQQP-VQTQHQLTSFDCHVIPGSGTF 82 (166)
T ss_dssp CCCHHHHHHHHHHHHCT-SS--HHHHHTTCECCEEEEEETTEEES-HHHHHHHHHCCS---EEEEEEEEEEEEETTTTEE
T ss_pred chhHHHHHHHHHHHhcCcchHHHHHHhHhhcCCCcEEEECCccCCCHHHHHHHHHhCc-cceeeeeeeeeeeEeCCCCeE
Confidence 35789999999999993 257778899999999999999999999999999999 489999999999999778899
Q ss_pred EEEEEEEEEEcCCCCceeeEEEEEEee
Q 033171 81 LIFVSGSLQLAGEDHHLRFSQMFHLIP 107 (125)
Q Consensus 81 lI~V~G~~~~~~~~~~~~F~qtF~L~~ 107 (125)
+|.|+|.|++++++ +-+-.|...|.+
T Consensus 83 i~N~n~KVRFDEsG-rdk~G~~a~l~~ 108 (166)
T PF10429_consen 83 IINVNCKVRFDESG-RDKLGEDADLPQ 108 (166)
T ss_dssp EEEEEEEEEEB-SS-B-TTS-B--TTS
T ss_pred EEeeeEEEEecCCC-CCCCCCceeecc
Confidence 99999999998875 555566666544
No 7
>KOG3763 consensus mRNA export factor TAP/MEX67 [RNA processing and modification]
Probab=99.30 E-value=2.1e-11 Score=98.66 Aligned_cols=117 Identities=21% Similarity=0.338 Sum_probs=94.2
Q ss_pred CCHHHHHHHHHHHHhhccccCh-hhhcccccCCceEEEc--C---------------------------------ceecC
Q 033171 3 DQTELVGKTFVGHYYHLFDNDR-ASLSSLYQPTSMLTFE--G---------------------------------QKFFG 46 (125)
Q Consensus 3 ~~~~~i~~~Fv~~YY~~l~~~r-~~L~~~Y~~~S~~t~~--g---------------------------------~~~~G 46 (125)
+...++..+|+++||..+|+++ ..+...|+++|+++.- - ....|
T Consensus 335 ~~l~~LV~~Fl~~y~~~yD~~d~q~~~~~y~dns~FSlsi~~~~~~s~~~~~~~~~Y~k~SRNi~~l~~~~~r~srl~~g 414 (585)
T KOG3763|consen 335 EELKQLVLQFLQQYYKIYDNNDGQLLLYAYHDNSTFSLTINFLPVPSHPDPSSLGKYFKDSRNILKLKDPYLRASRLKHG 414 (585)
T ss_pred hHHHHHHHHHHHHHHHhhcCchhhhHHhhcCccceeEEEecccCCCCCCchHHHHHHHhhcchhhhhcCHHHHHHhhhcc
Confidence 4567899999999999999865 5556788899998752 1 14578
Q ss_pred HHHHHHHHhcCCCCcceEEeEE--eeeeecCCCCcEEEEEEEEEEEcCC---CCcee---eEEEEEEeeCCCCcEEEEce
Q 033171 47 VDDISTKFNQLPFDQCRHMIST--IDSQPCPSTGGLLIFVSGSLQLAGE---DHHLR---FSQMFHLIPTPRGSFAVQND 118 (125)
Q Consensus 47 ~~~I~~~l~~lp~~~~~~~i~s--~D~q~~~~~~~ilI~V~G~~~~~~~---~~~~~---F~qtF~L~~~~~~~y~I~nD 118 (125)
...|.+.|++|| +++|.+.+ +|..-. ...++.+.|+|.++-.+. +.-+. |++||++.|.++.+-.|.||
T Consensus 415 ~~~Iv~aLs~LP--kT~Hdl~s~vvDv~~~-~~~~l~ftv~G~f~d~~g~~~~s~~~~~~FtRtfvv~P~~ns~l~iv~d 491 (585)
T KOG3763|consen 415 ACDIVVALSALP--KTQHDLDSFVVDVWYQ-TGNLLGFTVAGVFRDGEGQNSPSNRALLGFTRTFVVTPRENSGLAIVND 491 (585)
T ss_pred chHHHHHHHhCc--cchhhhhhhheeeeec-ccceEEEEEEEEeecCCccCCcccccccccceEEEEeeCCCCceEEEec
Confidence 899999999999 99999998 666544 567899999999987642 22234 99999999998899999999
Q ss_pred eEEe
Q 033171 119 IFRL 122 (125)
Q Consensus 119 ~fr~ 122 (125)
.+-.
T Consensus 492 ~Lfi 495 (585)
T KOG3763|consen 492 QLFI 495 (585)
T ss_pred eeEE
Confidence 8744
No 8
>cd00531 NTF2_like Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of divergent evolution wherein the proteins have many common structural details but diverge greatly in their function. For example, nuclear transport factor 2 (NTF2) mediates the nuclear import of RanGDP and binds to both RanGDP and FxFG repeat-containing nucleoporins while Ketosteroid isomerases catalyze the isomerization of delta-5-3-ketosteroid to delta-4-3-ketosteroid, by intramolecular transfer of the C4-beta proton to the C6-beta position. While the function of the beta sub-unit of the Ring hydroxylating dioxygenases is not known, Scytalone Dehydratases catalyzes two reactions in the biosynthetic pathway that produces fungal melanin. Members of the NTF2-like superfamily are widely distributed among bacteria, archaea
Probab=99.28 E-value=2.4e-10 Score=73.81 Aligned_cols=112 Identities=31% Similarity=0.498 Sum_probs=92.8
Q ss_pred HHHHHHHhhccc-cChhhhcccccCCceEEEcC-----ceecCHHHHHHHHhcCCC--CcceEEeEEeeeeecCCCCcEE
Q 033171 10 KTFVGHYYHLFD-NDRASLSSLYQPTSMLTFEG-----QKFFGVDDISTKFNQLPF--DQCRHMISTIDSQPCPSTGGLL 81 (125)
Q Consensus 10 ~~Fv~~YY~~l~-~~r~~L~~~Y~~~S~~t~~g-----~~~~G~~~I~~~l~~lp~--~~~~~~i~s~D~q~~~~~~~il 81 (125)
+.|+.+|+..+| ++++.|..||.+++.+.+.+ ....|+++|.+.+..++. ....|.+.+++++..+.+....
T Consensus 2 ~~l~~~y~~~ld~~~~~~l~~~~~~d~~~~~~~~~~~~~~~~g~~~i~~~~~~~~~~~~~~~h~~~~~~~~~~~~~~~~~ 81 (124)
T cd00531 2 EQFLYRYARLLDAGDREWLALLYADDAYFEPPGGDGLIYPDDGREAIEDRVRRLPFGPSRTRHLVSNVDVQPGDDGEGVV 81 (124)
T ss_pred HHHHHHHHHHhCCchHHHHHhhCcCcEEEEEccCCEEEEcCChHHHHHHHHHhcCCCCCceEEEEEeEEEEeCCCCEEEE
Confidence 579999999999 57899999999999999987 577899999999998873 3566777889998873334567
Q ss_pred EEEEEEEEEcCC--CCceeeEEEEEEeeCCCCcEEEEceeEEe
Q 033171 82 IFVSGSLQLAGE--DHHLRFSQMFHLIPTPRGSFAVQNDIFRL 122 (125)
Q Consensus 82 I~V~G~~~~~~~--~~~~~F~qtF~L~~~~~~~y~I~nD~fr~ 122 (125)
+.+.+.+..... +....+.+.|.+.+.+ +.|.|.+..+++
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-g~w~i~~~~~~~ 123 (124)
T cd00531 82 VSVFGVLRTRGDGEQDVFAGGQTFVLRPQG-GGGKIANRRFRL 123 (124)
T ss_pred EEEEEEEEEccCCceeEEEEEEEEEEEEeC-CEEEEEEEEEec
Confidence 778888877762 3467899999999986 999999999886
No 9
>TIGR02246 conserved hypothetical protein. This family consists of uncharacterized proteins found in a number of genera and species, including Streptomyces, Xanthomonas, Oceanobacillus iheyensis, Caulobacter crescentus CB15, and Xylella fastidiosa. The function is unknown.
Probab=98.21 E-value=8.6e-05 Score=48.78 Aligned_cols=112 Identities=15% Similarity=0.260 Sum_probs=73.3
Q ss_pred HHHHHHHHHHHHhhcccc-ChhhhcccccCCceEE-EcCceecCHHHHHHHHhcCC---CCcceEEeEEeeeeecCCCCc
Q 033171 5 TELVGKTFVGHYYHLFDN-DRASLSSLYQPTSMLT-FEGQKFFGVDDISTKFNQLP---FDQCRHMISTIDSQPCPSTGG 79 (125)
Q Consensus 5 ~~~i~~~Fv~~YY~~l~~-~r~~L~~~Y~~~S~~t-~~g~~~~G~~~I~~~l~~lp---~~~~~~~i~s~D~q~~~~~~~ 79 (125)
.++--+..+..|+..+++ +++.+..+|.+++.+. ..|....|+++|.+.+..+- ...+.+.++..+..-. .++.
T Consensus 2 d~~~i~~l~~~~~~a~~~~D~~~~~~~~~~Da~~~~~~g~~~~G~~~i~~~~~~~~~~~~~~~~~~~~~~~i~~~-~~~~ 80 (128)
T TIGR02246 2 DERAIRALVATWEAAWAAGDAEGFADLFTPDGVFVTVPGQVWKGREAIAAAHEAFLAGPYKGTRVTIDVIEVRFL-GPDL 80 (128)
T ss_pred hHHHHHHHHHHHHHHHHcCCHHHHHHhhCCCceEECCCCCeecCHHHHHHHHHHHhcccCCCcEEEeeeEEEEec-CCCE
Confidence 345567889999999997 7899999999999987 66778899999999887532 1233456655555444 3333
Q ss_pred EEEEEEEEEE--EcCCCC---ceeeEEEEEEeeCCCCcEEEEceeE
Q 033171 80 LLIFVSGSLQ--LAGEDH---HLRFSQMFHLIPTPRGSFAVQNDIF 120 (125)
Q Consensus 80 ilI~V~G~~~--~~~~~~---~~~F~qtF~L~~~~~~~y~I~nD~f 120 (125)
.+ |.+... ..+... .....-++++.+.+ |+|.|..+-+
T Consensus 81 A~--~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~-g~W~I~~~h~ 123 (128)
T TIGR02246 81 AI--VHAIQTITAPGKGRARPDAAVRLTFVAVKRD-GRWLLAADHN 123 (128)
T ss_pred EE--EEEEEEEEcCCCCCCCCCcceEEEEEEEeeC-CeEEEEeccC
Confidence 33 444433 322111 11234466676766 9999988744
No 10
>PF15008 DUF4518: Domain of unknown function (DUF4518)
Probab=98.06 E-value=4.7e-05 Score=57.34 Aligned_cols=119 Identities=15% Similarity=0.324 Sum_probs=84.6
Q ss_pred CCHHHHHHHHHHHHhhccccChhhh--cccccCCce-EEEc-C-----ceecCHHHHHHHHhcCCCCcc-eE--EeEE--
Q 033171 3 DQTELVGKTFVGHYYHLFDNDRASL--SSLYQPTSM-LTFE-G-----QKFFGVDDISTKFNQLPFDQC-RH--MIST-- 68 (125)
Q Consensus 3 ~~~~~i~~~Fv~~YY~~l~~~r~~L--~~~Y~~~S~-~t~~-g-----~~~~G~~~I~~~l~~lp~~~~-~~--~i~s-- 68 (125)
.+.+.+|++|.++||.+|++.++++ .-|+.+-+. +..+ + ..+.|.+.+..+|.+|..+.. .+ .+.+
T Consensus 125 ~~~~~L~~~F~~WFf~llNs~~~~wgpqhFW~Da~L~~~~~~~~~~~e~~~~Ga~~vs~~Llsl~~e~~l~fnPNl~~~G 204 (262)
T PF15008_consen 125 YPIHLLAEEFCEWFFELLNSPQDDWGPQHFWPDAKLKLYYSTSEQNVEEYCEGAEEVSLRLLSLVKEERLFFNPNLDSDG 204 (262)
T ss_pred CCHHHHHHHHHHHHHHHhcccccccChhhccCCCeEEEEEEcCCCceeEEecCHHHHHHHHHHHhhcccEEECCCCCCCC
Confidence 4678999999999999999844444 346655442 3332 1 134899999999998862211 01 1223
Q ss_pred eeeeecCCCCcEEEEEEEEEEEcCCCCceeeEEEEEEeeCC--CCcEEEEceeEEee
Q 033171 69 IDSQPCPSTGGLLIFVSGSLQLAGEDHHLRFSQMFHLIPTP--RGSFAVQNDIFRLN 123 (125)
Q Consensus 69 ~D~q~~~~~~~ilI~V~G~~~~~~~~~~~~F~qtF~L~~~~--~~~y~I~nD~fr~~ 123 (125)
+.|..+ +-|-++|.|+|++-.++.- .--|-|.|=|..++ ++.|.|.+=-+|+.
T Consensus 205 ~k~~~~-phGlV~V~v~GTvH~~~~C-lGiFEq~FGLiRdP~~~N~WKiK~~~l~i~ 259 (262)
T PF15008_consen 205 VKGRIS-PHGLVLVAVCGTVHRDNTC-LGIFEQIFGLIRDPFAENNWKIKFVNLRIR 259 (262)
T ss_pred cceEEc-CCCcEEEEEeeeEecCCce-EeehhhhhhcccCccccCceeEEEEEEEEE
Confidence 556555 5678999999999987653 55699999998764 69999998888764
No 11
>PF13474 SnoaL_3: SnoaL-like domain; PDB: 2GXF_A 3KSP_A 3KE7_A 3BB9_E 3CNX_A 3F7S_A 3GWR_B.
Probab=98.02 E-value=0.00015 Score=46.99 Aligned_cols=108 Identities=15% Similarity=0.247 Sum_probs=77.2
Q ss_pred HHHHHHHhhcccc-ChhhhcccccCCceEEEcC--ceecCHHHHHHHHhc-CC-CCcceEEeEEeeeeecCCCCcEEEEE
Q 033171 10 KTFVGHYYHLFDN-DRASLSSLYQPTSMLTFEG--QKFFGVDDISTKFNQ-LP-FDQCRHMISTIDSQPCPSTGGLLIFV 84 (125)
Q Consensus 10 ~~Fv~~YY~~l~~-~r~~L~~~Y~~~S~~t~~g--~~~~G~~~I~~~l~~-lp-~~~~~~~i~s~D~q~~~~~~~ilI~V 84 (125)
+++++.|++.+.+ +.+.+..+|.+++.+...+ ....|.++|.+.+.. +. .......+..+.++.. ++..++..
T Consensus 2 ~~~~~~~~~a~~~~D~~~~~~~~~~d~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~--~~~a~~~~ 79 (121)
T PF13474_consen 2 EALLEEWIEAFERGDIDALLSLFSDDFVFFGTGPGEIWRGREAIRAYFERDFESFRPISIEFEDVQVSVS--GDVAVVTG 79 (121)
T ss_dssp HHHHHHHHHHHHCT-HHHHHHHEEEEEEEEETTSSSEEESHHHHHHHHHHHHHTHSEEEEEEEEEEEEEE--TTEEEEEE
T ss_pred HHHHHHHHHHHHhCCHHHHHHhhCCCEEEEcCCCCceECCHHHHHHHHHHHhhhCceEEEEEEEEEEEEC--CCEEEEEE
Confidence 4678899988886 6799999999998887744 567899999998865 11 1366667776777654 45566666
Q ss_pred EEEEEE--cCCCCceeeEEEEEEeeCCCCcEEEEceeE
Q 033171 85 SGSLQL--AGEDHHLRFSQMFHLIPTPRGSFAVQNDIF 120 (125)
Q Consensus 85 ~G~~~~--~~~~~~~~F~qtF~L~~~~~~~y~I~nD~f 120 (125)
.+.++. ++.+....+-.|+++.+.+ +.|.|...-.
T Consensus 80 ~~~~~~~~~~~~~~~~~r~t~v~~k~~-~~Wki~h~H~ 116 (121)
T PF13474_consen 80 EFRLRFRNDGEEIEMRGRATFVFRKED-GGWKIVHIHW 116 (121)
T ss_dssp EEEEEEECTTCEEEEEEEEEEEEEEET-TEEEEEEEEE
T ss_pred EEEEEEecCCccceeeEEEEEEEEEEC-CEEEEEEEEe
Confidence 666654 3333346678899998888 8999986543
No 12
>PF14534 DUF4440: Domain of unknown function (DUF4440); PDB: 3HX8_A 3SOY_A 3ROB_B 3GZR_A 3B7C_A 3CU3_A 3FSD_A 2R4I_C 1TP6_A.
Probab=97.65 E-value=0.0012 Score=41.50 Aligned_cols=102 Identities=14% Similarity=0.163 Sum_probs=69.4
Q ss_pred HHHHHHhhcccc-ChhhhcccccCCceEEEcCceecCHHHHHHHHhcCCCCcceEEeEEeeeeecCCCCcEEEEEEEEEE
Q 033171 11 TFVGHYYHLFDN-DRASLSSLYQPTSMLTFEGQKFFGVDDISTKFNQLPFDQCRHMISTIDSQPCPSTGGLLIFVSGSLQ 89 (125)
Q Consensus 11 ~Fv~~YY~~l~~-~r~~L~~~Y~~~S~~t~~g~~~~G~~~I~~~l~~lp~~~~~~~i~s~D~q~~~~~~~ilI~V~G~~~ 89 (125)
...+.|...+.+ +.+.+..+|.++..+...+....|++++.+.+..-+.......+.....++. ++..++.....++
T Consensus 3 a~~~~~~~A~~~~D~~~~~~~~~~d~~~~~~~g~~~~~~~~l~~~~~~~~~~~~~~~~~~~v~~~--gd~a~~~~~~~~~ 80 (107)
T PF14534_consen 3 ALEEQYEDAFNAGDIDALASLYADDFVFVGPGGTILGKEAILAAFKSGFARFSSIKFEDVEVRVL--GDTAVVRGRWTFT 80 (107)
T ss_dssp HHHHHHHHHHHTTHHHHHHTTEEEEEEEEETTSEEEEHHHHHHHHHHHCEEEEEEEEEEEEEEEE--TTEEEEEEEEEEE
T ss_pred HHHHHHHHHHHhCCHHHHHhhhCCCEEEECCCCCEeCHHHHHHHHhhccCCCceEEEEEEEEEEE--CCEEEEEEEEEEE
Confidence 456778877775 5899999999999998877766799999999987443344455556666666 3444445555555
Q ss_pred EcCCCC--ceeeEEEEEEeeCCCCcEEE
Q 033171 90 LAGEDH--HLRFSQMFHLIPTPRGSFAV 115 (125)
Q Consensus 90 ~~~~~~--~~~F~qtF~L~~~~~~~y~I 115 (125)
...... ....-.+-++.+.+ |+|.|
T Consensus 81 ~~~~g~~~~~~~~~~~v~~k~~-g~W~i 107 (107)
T PF14534_consen 81 WRGDGEPVTIRGRFTSVWKKQD-GKWRI 107 (107)
T ss_dssp ETTTTEEEEEEEEEEEEEEEET-TEEEE
T ss_pred EecCCceEEEEEEEEEEEEEeC-CEEEC
Confidence 544321 23455566666666 89976
No 13
>PF12680 SnoaL_2: SnoaL-like domain; PDB: 3F40_A 3RGA_A 3G8Z_A 3DMC_A 3FH1_A 1TUH_A 3F14_A 3ER7_A 1Z1S_A 3F7X_A ....
Probab=97.26 E-value=0.0031 Score=38.97 Aligned_cols=76 Identities=16% Similarity=0.293 Sum_probs=53.2
Q ss_pred HHHHhhcccc-ChhhhcccccCCceEEEcCceecCHHHHHHHHhcCC--CCcceEEeEEeeeeecCCCCcEEEEEEEEEE
Q 033171 13 VGHYYHLFDN-DRASLSSLYQPTSMLTFEGQKFFGVDDISTKFNQLP--FDQCRHMISTIDSQPCPSTGGLLIFVSGSLQ 89 (125)
Q Consensus 13 v~~YY~~l~~-~r~~L~~~Y~~~S~~t~~g~~~~G~~~I~~~l~~lp--~~~~~~~i~s~D~q~~~~~~~ilI~V~G~~~ 89 (125)
|+.||..+++ +.+.+..+|++++.+..++.+..|+++|.+.++.+. +....+.+..+ .. .++.+++......+
T Consensus 1 V~~~~~a~~~~d~~~i~~~~~~d~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~---~~-~gd~v~~~~~~~~~ 76 (102)
T PF12680_consen 1 VRRFFEAWNAGDLDAIAALFAPDAVFHDPGGTLRGREAIREFFEEFFESFPDIRFEIHDI---FA-DGDRVVVEWTVTGT 76 (102)
T ss_dssp HHHHHHHHHTTHHHHHHHTEEEEEEEEETTSEEESHHHHHHHHHHHHHHEEEEEEEEEEE---EE-ETTEEEEEEEEEEE
T ss_pred CHHHHHHHHcCCHHHHHHHcCCCEEEEeCCCcccCHHHHHHHHHHHHhcCCceEEEEEEE---EE-cCCEEEEEEEEEEE
Confidence 6789999987 579999999999999999888999999999988764 12444444443 22 23445555554443
Q ss_pred EcC
Q 033171 90 LAG 92 (125)
Q Consensus 90 ~~~ 92 (125)
...
T Consensus 77 ~~~ 79 (102)
T PF12680_consen 77 TPP 79 (102)
T ss_dssp ETT
T ss_pred EcC
Confidence 333
No 14
>cd00781 ketosteroid_isomerase ketosteroid isomerase: Many biological reactions proceed by enzymatic cleavage of a C-H bond adjacent to carbonyl or a carboxyl group, leading to an enol or a enolate intermediate that is subsequently re-protonated at the same or an adjacent carbon. Ketosteroid isomerases are important members of this class of enzymes which are the most proficient of all enzymes known and have served as a paradigm for enzymatic enolizations since its discovery in 1954. This CD includes members of this class that calalyze the isomerization of various beta,gamma-unsaturated isomers at nearly a diffusion-controlled rate. These enzymes are widely distributed in bacteria.
Probab=96.79 E-value=0.024 Score=36.91 Aligned_cols=50 Identities=16% Similarity=0.165 Sum_probs=42.3
Q ss_pred HHHHHHHHhhcccc-ChhhhcccccCCceEEEc--CceecCHHHHHHHHhcCC
Q 033171 9 GKTFVGHYYHLFDN-DRASLSSLYQPTSMLTFE--GQKFFGVDDISTKFNQLP 58 (125)
Q Consensus 9 ~~~Fv~~YY~~l~~-~r~~L~~~Y~~~S~~t~~--g~~~~G~~~I~~~l~~lp 58 (125)
.+..++.||..+++ +.+.+..+|.+++.+.+. +.+..|+++|.+.+..++
T Consensus 5 ~~~~v~~~~~a~~~~D~~~~~~l~aed~~~~~p~~~~~~~G~~~i~~~~~~~~ 57 (122)
T cd00781 5 MKAAVQRYVEAVNAGDPEGIVALFADDATVEDPVGSPPRSGRAAIAAFYAQSL 57 (122)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHcCCCeEEeCCCCCCCccCHHHHHHHHHHHh
Confidence 45678889999986 689999999999999763 346899999999999876
No 15
>PF12893 Lumazine_bd_2: Putative lumazine-binding; PDB: 3BLZ_C 3DUK_F 3FKA_C.
Probab=96.72 E-value=0.067 Score=34.99 Aligned_cols=104 Identities=18% Similarity=0.305 Sum_probs=70.5
Q ss_pred HHHHHHHHHHhhcccc-ChhhhcccccCCceEEEc--Cc-eecCHHHHHHHHhcC-----CCCcceEEeEEeeeeecCCC
Q 033171 7 LVGKTFVGHYYHLFDN-DRASLSSLYQPTSMLTFE--GQ-KFFGVDDISTKFNQL-----PFDQCRHMISTIDSQPCPST 77 (125)
Q Consensus 7 ~i~~~Fv~~YY~~l~~-~r~~L~~~Y~~~S~~t~~--g~-~~~G~~~I~~~l~~l-----p~~~~~~~i~s~D~q~~~~~ 77 (125)
+..++-|+.|+..+.+ +...|.+.+++++.+... |+ .....++..+.+.+- +...+...|.++|...
T Consensus 4 ~~I~~~v~~Y~dg~~~gD~~~l~~~f~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~i~~i~i~g---- 79 (116)
T PF12893_consen 4 AAIEATVQDYFDGLYNGDSEKLRSAFHPDARLQGVRKGKLRTMPIEEFIARVKSRVSPKPPGQERKESILSIDIDG---- 79 (116)
T ss_dssp HHHHHHHHHHHHHHHHT-HHHHGGGEEEEEEEEEEETTEEEEEETHHHHHHHHHC---H-SSTT-EEEEEEEEEET----
T ss_pred HHHHHHHHHHHHHHHhcCHHHHHHhhCCCcEEEEEcCCceEEeCHHHHHHHHHhhccccCCCCCceeEEEEEEEEC----
Confidence 4456678889988875 789999999999987543 33 334566777766642 2335666777777643
Q ss_pred CcEEEEEEEEEEEcCCCCceeeEEEEEEeeCCCCcEEEEceeEE
Q 033171 78 GGLLIFVSGSLQLAGEDHHLRFSQMFHLIPTPRGSFAVQNDIFR 121 (125)
Q Consensus 78 ~~ilI~V~G~~~~~~~~~~~~F~qtF~L~~~~~~~y~I~nD~fr 121 (125)
+.-.+.|.=.+. ...|...|.|.+.+ |+|.|.|-+|.
T Consensus 80 ~~A~a~v~~~~~------~~~~~d~~~L~K~d-g~WkIv~k~~~ 116 (116)
T PF12893_consen 80 DVASAKVEYEFP------GFWFVDYFTLVKTD-GGWKIVSKVYH 116 (116)
T ss_dssp TEEEEEEEEEEE------TEEEEEEEEEEEET-TEEEEEEEEEE
T ss_pred CEEEEEEEEEEC------CCceEEEEEEEEEC-CEEEEEEEecC
Confidence 334444443333 34799999999988 99999998874
No 16
>PF08332 CaMKII_AD: Calcium/calmodulin dependent protein kinase II Association; InterPro: IPR013543 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain is found at the C terminus of the Calcium/calmodulin dependent protein kinases II (CaMKII). These proteins also have a Ser/Thr protein kinase domain (IPR000719 from INTERPRO) at their N terminus []. The function of the CaMKII association domain is the assembly of the single proteins into large (8 to 14 subunits) multimers [] and is a prominent kinase in the central nervous system that may function in long-term potentiation and neurotransmitter release. ; GO: 0004683 calmodulin-dependent protein kinase activity, 0005516 calmodulin binding, 0006468 protein phosphorylation; PDB: 2W2C_F 3H51_B 3SOA_A 2UX0_A 1HKX_M 2F86_B.
Probab=96.64 E-value=0.056 Score=36.71 Aligned_cols=110 Identities=10% Similarity=0.062 Sum_probs=68.8
Q ss_pred HHHHHHHHHHHhhccccChhhhcccccCC-ceEEE--cCceecCHHHHHHHHhcCCCC---cceEEeEEeeeeecCCCCc
Q 033171 6 ELVGKTFVGHYYHLFDNDRASLSSLYQPT-SMLTF--EGQKFFGVDDISTKFNQLPFD---QCRHMISTIDSQPCPSTGG 79 (125)
Q Consensus 6 ~~i~~~Fv~~YY~~l~~~r~~L~~~Y~~~-S~~t~--~g~~~~G~~~I~~~l~~lp~~---~~~~~i~s~D~q~~~~~~~ 79 (125)
++|++.|-++==.+-..+++....+|+++ +++.. .|+...|.+.|...|..+..+ ..+..|..=..+-. .++.
T Consensus 3 ~eI~~l~~~w~~ai~tgD~~~~~~ly~~d~av~~Pt~s~~~~~g~~~~~~YF~~~l~~~~~~~~~tI~~p~V~~l-g~~~ 81 (128)
T PF08332_consen 3 QEIAALFDRWNDAIQTGDPETYAKLYAPDVAVFEPTVSNQLREGLEFHKFYFDHFLAKKPQGVNTTILNPHVRLL-GDNA 81 (128)
T ss_dssp HHHHHHHHHHHHHHHHT-HHHHHHHEEEEEEEEEGGGTTSEEESCHHHHHHHHHTGTTTSSCEEEEEEEEEEEEE-STTE
T ss_pred HHHHHHHHHHHHHHHcCCHHHHhhhcCCCeeEeccccCCceecChHHHHHHHhcccccCCCceeeEecCCeEEEc-CCCE
Confidence 56666665555455556899999999999 88865 478999999999988854322 22233444444444 3344
Q ss_pred EEEEEEEEEEEc-CCCCce--eeEEEEEEeeCCCCcEEEEc
Q 033171 80 LLIFVSGSLQLA-GEDHHL--RFSQMFHLIPTPRGSFAVQN 117 (125)
Q Consensus 80 ilI~V~G~~~~~-~~~~~~--~F~qtF~L~~~~~~~y~I~n 117 (125)
.++.=.=.++.. +++.++ .=-.||+-.+.+ |+|.|.+
T Consensus 82 Ai~~gvy~f~~~d~~G~~~~~~areT~v~~~~~-g~W~ivh 121 (128)
T PF08332_consen 82 AIDAGVYTFQFVDKDGVPRTVQARETRVWQKRD-GKWKIVH 121 (128)
T ss_dssp EEEEEEEEEEEESTTSSEEEEEEEEEEEEEEET-TEEEEEE
T ss_pred EEEeeEEEEEeecCCCCeeeEEEeEEEEEEEeC-CeEEEEE
Confidence 444333334443 333233 446678887888 8999874
No 17
>PF13577 SnoaL_4: SnoaL-like domain; PDB: 3S5C_B 3EJV_A 2RFR_A 3B8L_F 2CHC_A 3A76_A 3EF8_B.
Probab=96.52 E-value=0.063 Score=34.84 Aligned_cols=69 Identities=19% Similarity=0.359 Sum_probs=53.6
Q ss_pred HHHHHHHHHHHhhcccc-ChhhhcccccCCceEEEcC---ceecCHHHHHHHHhcC--CCCcceEEeEEeeeeec
Q 033171 6 ELVGKTFVGHYYHLFDN-DRASLSSLYQPTSMLTFEG---QKFFGVDDISTKFNQL--PFDQCRHMISTIDSQPC 74 (125)
Q Consensus 6 ~~i~~~Fv~~YY~~l~~-~r~~L~~~Y~~~S~~t~~g---~~~~G~~~I~~~l~~l--p~~~~~~~i~s~D~q~~ 74 (125)
.+..+.++..|...+|. +.+.+..++.+++.+.+.+ ....|.++|.+.+... +...+.|.+........
T Consensus 6 ~~~I~~l~~~~~~~~D~~~~~~~~~lft~d~~~~~~~~~~~~~~G~~~i~~~~~~~~~~~~~~~H~~~~~~v~~d 80 (127)
T PF13577_consen 6 RAAIRDLIARYARALDTGDWEEWADLFTEDAVFDFPGFGFGRYRGRDAIRAFLRARFDGFAATRHMVTNPVVDVD 80 (127)
T ss_dssp HHHHHHHHHHHHHHHHTT-HHHHHTTEEEEEEEEETTTCEEEEESHHHHHHHHHHHHHHEEEEEEEEEEEEEEEE
T ss_pred HHHHHHHHHHHHHHhhCCCHHHHHhccCCcEEEEEeCccccccCCHHHHHHHHHHhcccccceeEEccceEEEEc
Confidence 34567888999999996 6799999999999999987 4789999999988874 23377788777555433
No 18
>COG4875 Uncharacterized protein conserved in bacteria with a cystatin-like fold [Function unknown]
Probab=92.60 E-value=2.3 Score=28.97 Aligned_cols=55 Identities=20% Similarity=0.211 Sum_probs=44.5
Q ss_pred CCCHHHHHHHHHHHHhhccccChhhhcccccCCceE--EEcCceecCHHHHHHHHhc
Q 033171 2 EDQTELVGKTFVGHYYHLFDNDRASLSSLYQPTSML--TFEGQKFFGVDDISTKFNQ 56 (125)
Q Consensus 2 ~~~~~~i~~~Fv~~YY~~l~~~r~~L~~~Y~~~S~~--t~~g~~~~G~~~I~~~l~~ 56 (125)
+++..+||.-|=.+-=.+...+|..+...|.+++.+ +...+.-..+.+|.+.+..
T Consensus 33 ~~t~~~vAaLFdrWN~~L~TGdP~kV~anyApDaVLLPT~Sn~vR~s~~ei~DYF~~ 89 (156)
T COG4875 33 NVTEREVAALFDRWNAALTTGDPNKVAANYAPDAVLLPTMSNQVRSSRSEILDYFSH 89 (156)
T ss_pred CccHHHHHHHHHHHHhhhhcCChHHHHhhcCCceEeecccccccccCHHHHHHHHHH
Confidence 456788998888777777778999999999999986 5666677788899887765
No 19
>COG4319 Ketosteroid isomerase homolog [Function unknown]
Probab=92.54 E-value=2.1 Score=29.40 Aligned_cols=99 Identities=16% Similarity=0.219 Sum_probs=63.2
Q ss_pred hccc-cChhhhcccccCCceEEE-cCceecCHHHHHHHHhcCC-CCcceEEeEEeeeeecCCCCcEEEEEEEEEEEcC--
Q 033171 18 HLFD-NDRASLSSLYQPTSMLTF-EGQKFFGVDDISTKFNQLP-FDQCRHMISTIDSQPCPSTGGLLIFVSGSLQLAG-- 92 (125)
Q Consensus 18 ~~l~-~~r~~L~~~Y~~~S~~t~-~g~~~~G~~~I~~~l~~lp-~~~~~~~i~s~D~q~~~~~~~ilI~V~G~~~~~~-- 92 (125)
..+. ++-+.+.+||.+++.+.- .|....|+++|.+.|+..- .....+..+..+.|-. ..| =+..++|......
T Consensus 21 ~Av~a~D~~av~~~YtdDav~f~~~~~~~~Gk~~i~k~~~~~~~~~~~~~~f~~~el~v~-~~G-D~a~~~~~~~~~~~~ 98 (137)
T COG4319 21 AAVRAKDADAVADFYTDDAVVFPPPGLQRKGKAAIRKAFEGIFAMGIGPLKFTLEELQVH-ESG-DVAFVTALLLLTGTK 98 (137)
T ss_pred HHHhcccHHHHHHhcCCceEEecCCCCcccCHHHHHHHHHHHHHhccCCCcceeeeeeee-ccC-CEEEEEEeeeeeccC
Confidence 3444 356888999999998644 4889999999999998632 1123334444555533 222 2334555555433
Q ss_pred ---CCCceeeEEEEEEeeCCCCcEEEEce
Q 033171 93 ---EDHHLRFSQMFHLIPTPRGSFAVQND 118 (125)
Q Consensus 93 ---~~~~~~F~qtF~L~~~~~~~y~I~nD 118 (125)
.+....---|.++.+..+|+|+|.-|
T Consensus 99 ~dg~~~~~~~Rat~v~rK~~dg~Wk~~~d 127 (137)
T COG4319 99 KDGPPADLAGRATYVFRKEADGGWKLAHD 127 (137)
T ss_pred CCCcchhheeeeEEEEEEcCCCCEEEEEe
Confidence 22234556688899988789999887
No 20
>TIGR02096 conserved hypothetical protein, steroid delta-isomerase-related. This family of proteins about 135 amino acids in length largely restricted to the Proteobacteria. This family and a delta5-3-ketosteroid isomerase from Pseudomonas testosteroni appear homologous, especially toward their respective N-termini. Members, therefore, probably are enzymes.
Probab=89.45 E-value=4.1 Score=26.27 Aligned_cols=57 Identities=11% Similarity=0.166 Sum_probs=40.7
Q ss_pred HHHHHhhcccc-ChhhhcccccCCceEEEcC--ceecCHHHHHHHHhcCC--CCcceEEeEE
Q 033171 12 FVGHYYHLFDN-DRASLSSLYQPTSMLTFEG--QKFFGVDDISTKFNQLP--FDQCRHMIST 68 (125)
Q Consensus 12 Fv~~YY~~l~~-~r~~L~~~Y~~~S~~t~~g--~~~~G~~~I~~~l~~lp--~~~~~~~i~s 68 (125)
-++.||+.+++ +.+.+..+|++++.+...+ .+..|+++|.+.+..+. +...++++..
T Consensus 3 iv~~~~~a~~~~d~~~~~~~~~~d~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~i~~ 64 (129)
T TIGR02096 3 LAQHWIEAFNRGDMDAVLALLAEDVLYDDNQGGRVLGGKAQLARFLAPYRTAFPDLLVDVVV 64 (129)
T ss_pred HHHHHHHHHHCCCHHHHHHhcCCCeEEEcCCCCcEeccHHHHHHHHHHHHHhCchhhceeEE
Confidence 46788988886 6899999999999887653 35677999988775432 1144555443
No 21
>PRK09636 RNA polymerase sigma factor SigJ; Provisional
Probab=71.49 E-value=13 Score=28.02 Aligned_cols=51 Identities=24% Similarity=0.496 Sum_probs=42.3
Q ss_pred HHHHHHHHHhhcccc-ChhhhcccccCCceEEEcC--------ceecCHHHHHHHHhcCC
Q 033171 8 VGKTFVGHYYHLFDN-DRASLSSLYQPTSMLTFEG--------QKFFGVDDISTKFNQLP 58 (125)
Q Consensus 8 i~~~Fv~~YY~~l~~-~r~~L~~~Y~~~S~~t~~g--------~~~~G~~~I~~~l~~lp 58 (125)
.....|..|+..+.+ +.+.|..++.+++.+.-+| .++.|+++|...|..+.
T Consensus 172 ~~~~~v~~f~~A~~~gD~~~l~~Lla~Dv~~~~dggg~~~~~~~~~~G~~~v~~~l~~~~ 231 (293)
T PRK09636 172 EGAELVEAFFAALASGDLDALVALLAPDVVLHADGGGKVPTALRPIYGADKVARFFLGLA 231 (293)
T ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHhhCeEEEecCCCccCCCCccccCHHHHHHHHHHHh
Confidence 356689999999986 7899999999999998765 34689999999997764
No 22
>TIGR02960 SigX5 RNA polymerase sigma-70 factor, TIGR02960 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family.
Probab=67.96 E-value=13 Score=28.24 Aligned_cols=50 Identities=14% Similarity=0.262 Sum_probs=43.1
Q ss_pred HHHHHHHHHhhcccc-ChhhhcccccCCceEEEc--CceecCHHHHHHHHhcC
Q 033171 8 VGKTFVGHYYHLFDN-DRASLSSLYQPTSMLTFE--GQKFFGVDDISTKFNQL 57 (125)
Q Consensus 8 i~~~Fv~~YY~~l~~-~r~~L~~~Y~~~S~~t~~--g~~~~G~~~I~~~l~~l 57 (125)
....-++.||..+.+ +.+.|..++.+++.+... +.++.|+++|...+..+
T Consensus 205 ~~~~~v~~~~~a~~~gD~~~l~~Lla~Dv~~~~p~~~~~~~G~~~v~~~~~~~ 257 (324)
T TIGR02960 205 EEQDLLERYIAAFESYDLDALTALLHEDAIWEMPPYTLWYQGRPAIVGFIHTV 257 (324)
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHhcCCeEEEcCCCCcceeCHHHHHHHHHHh
Confidence 346789999999986 689999999999998875 36799999999999987
No 23
>PRK08241 RNA polymerase factor sigma-70; Validated
Probab=67.34 E-value=7.8 Score=29.80 Aligned_cols=51 Identities=16% Similarity=0.234 Sum_probs=42.9
Q ss_pred HHHHHHHHHHhhcccc-ChhhhcccccCCceEEEcCc--eecCHHHHHHHHhcC
Q 033171 7 LVGKTFVGHYYHLFDN-DRASLSSLYQPTSMLTFEGQ--KFFGVDDISTKFNQL 57 (125)
Q Consensus 7 ~i~~~Fv~~YY~~l~~-~r~~L~~~Y~~~S~~t~~g~--~~~G~~~I~~~l~~l 57 (125)
+.-..-|..||..+.+ +-+.|..++.++....+.+. ++.|++++.+.+..+
T Consensus 214 ~~~~~~v~~~~~A~~~gD~~~l~~lla~Dv~~~~p~~~~~~~G~~~v~~~~~~~ 267 (339)
T PRK08241 214 PEERALLARYVAAFEAYDVDALVALLTEDATWSMPPFPLWYRGRDAIAAFLAGQ 267 (339)
T ss_pred hHHHHHHHHHHHHHhcCCHHHHHHHhcCCEEEEcCCCCCcccCHHHHHHHHHhh
Confidence 4556778999999986 67999999999998877653 489999999999886
No 24
>COG3631 Ketosteroid isomerase-related protein [General function prediction only]
Probab=67.23 E-value=36 Score=23.04 Aligned_cols=64 Identities=20% Similarity=0.259 Sum_probs=45.9
Q ss_pred HHHHHHHHHhhcccc-ChhhhcccccCCceEEEcCc------eecCHHHHHHHHhcCC--CCcceEEeEEeee
Q 033171 8 VGKTFVGHYYHLFDN-DRASLSSLYQPTSMLTFEGQ------KFFGVDDISTKFNQLP--FDQCRHMISTIDS 71 (125)
Q Consensus 8 i~~~Fv~~YY~~l~~-~r~~L~~~Y~~~S~~t~~g~------~~~G~~~I~~~l~~lp--~~~~~~~i~s~D~ 71 (125)
=+..-|++||..+++ +.+.+..+++++......|. ...|.+.+...+..+| +..+.+.+..+-+
T Consensus 5 ~~~~~v~~~f~a~~~GD~~~~~~l~a~D~v~~~p~~~~~~~~~~~g~~~~~~~~~~~~r~~~~~~~~~~~~~~ 77 (133)
T COG3631 5 DNTDLVRRYFAALSRGDLDGLLALLAEDVVWEVPGTPPLSGTFRGGVAIRRDVFALLPRLIEDGRFTVETVYV 77 (133)
T ss_pred hhhhHHHHHHHHHhcCCHHHHHhhccCceEEEeeCCCCCccccccchhhhhHHhhhChhhcccccccceEEEE
Confidence 356778999999986 67899999999998887764 3457777788888877 2234444444433
No 25
>PF07366 SnoaL: SnoaL-like polyketide cyclase; InterPro: IPR009959 This domain is found in SnoaL [] a polyketide cyclase involved in nogalamycin biosynthesis. This domain was formerly known as DUF1486. It adopts a distorted alpha-beta barrel fold []. Structural data together with site-directed mutagenesis experiments have shown that SnoaL has a different mechanism to that of the classical aldolase for catalysing intramolecular aldol condensation [].; PDB: 2GEY_C 3F9S_A 2GEX_A 3EHC_B 2F99_D 2F98_D 1SJW_A 3K0Z_B.
Probab=64.89 E-value=9.8 Score=24.55 Aligned_cols=54 Identities=19% Similarity=0.357 Sum_probs=38.7
Q ss_pred HHHhhcccc-ChhhhcccccCCceEEEcC-ceecCHHHHHHHHhc----CCCCcceEEeEEe
Q 033171 14 GHYYHLFDN-DRASLSSLYQPTSMLTFEG-QKFFGVDDISTKFNQ----LPFDQCRHMISTI 69 (125)
Q Consensus 14 ~~YY~~l~~-~r~~L~~~Y~~~S~~t~~g-~~~~G~~~I~~~l~~----lp~~~~~~~i~s~ 69 (125)
+.|...+++ +.+.+..+|+++...-..+ ....|++++.+.+.. +| ..++.|..+
T Consensus 5 ~~~~~~~n~~d~~~~~~~~~~d~~~~~~~~~~~~G~~~~~~~~~~~~~afP--D~~~~i~~~ 64 (126)
T PF07366_consen 5 RFYEEVWNRGDLDALDELVAPDVVFHDPGPGPPVGREGFKEFLKELRAAFP--DLRFEIEDV 64 (126)
T ss_dssp HHHHHHHHTT-GCHHHGTEEEEEEEEGCTTTEEEHHHHHHHHHHHHHHHST--TTEEEEEEE
T ss_pred HHHHHHHhCCCHHHHHHhcCCCEEEEecCCCCCCCHHHHHHHHHHHHHHCC--CCEEEEEEE
Confidence 344466665 6789999999999887665 688899888876654 56 666666653
No 26
>PF07080 DUF1348: Protein of unknown function (DUF1348); InterPro: IPR009783 This family consists of several highly conserved hypothetical proteins of around 150 residues in length. The function of this family is unknown.; PDB: 2IMJ_B.
Probab=58.13 E-value=10 Score=26.14 Aligned_cols=39 Identities=15% Similarity=0.323 Sum_probs=30.2
Q ss_pred hcccc-ChhhhcccccCCceEEEcCceecCHHHHHHHHhc
Q 033171 18 HLFDN-DRASLSSLYQPTSMLTFEGQKFFGVDDISTKFNQ 56 (125)
Q Consensus 18 ~~l~~-~r~~L~~~Y~~~S~~t~~g~~~~G~~~I~~~l~~ 56 (125)
...++ +|+.+..-|.++|.-.-..+-+.|+++|.++|..
T Consensus 21 daWNsrdP~~ValaYT~Ds~WRNR~eF~~GR~~I~~FLtr 60 (143)
T PF07080_consen 21 DAWNSRDPEKVALAYTPDSVWRNRDEFLTGREEIVAFLTR 60 (143)
T ss_dssp HHHTTT-HHHHHTTEEEEEEEEETTEEE-SHHHHHHHHHH
T ss_pred hccccCChhHheeccCCCCcccCcccccCcHHHHHHHHHH
Confidence 34443 7899999999999876667788999999998874
No 27
>smart00593 RUN domain involved in Ras-like GTPase signaling.
Probab=53.92 E-value=27 Score=20.22 Aligned_cols=46 Identities=17% Similarity=0.262 Sum_probs=32.6
Q ss_pred HHHHHHHHHhhccccChhhhcccccCCceEEEcCceecCHHHHHHHHhcC
Q 033171 8 VGKTFVGHYYHLFDNDRASLSSLYQPTSMLTFEGQKFFGVDDISTKFNQL 57 (125)
Q Consensus 8 i~~~Fv~~YY~~l~~~r~~L~~~Y~~~S~~t~~g~~~~G~~~I~~~l~~l 57 (125)
+-+.-+..|.+.+-.+.+-+.++|.+.|.+.-. .+.+.+...+..|
T Consensus 9 Lne~~L~~~l~~l~~~~~~~~~~Y~~~A~l~~~----~~~~~l~~~L~~L 54 (64)
T smart00593 9 LNEKLLSSWLNLLLSDEELLSKYYEPWAFLRDP----EEGEQLLGLLVGL 54 (64)
T ss_pred HHHhHHHHHHHHHHhChHHHHHhCCCCceeeCh----hHHHHHHHHHhCc
Confidence 345567788888888888999999999988531 2345555555555
No 28
>COG5073 VID24 Vacuolar import and degradation protein [Intracellular trafficking and secretion]
Probab=44.67 E-value=14 Score=27.97 Aligned_cols=71 Identities=24% Similarity=0.314 Sum_probs=47.9
Q ss_pred HHhhccccChhhhcccccCCceEEEcCceecCHHHHHHHHhcCCCCcceEEeEEeeeeecCCCCcEEEEEEEEEEEcC
Q 033171 15 HYYHLFDNDRASLSSLYQPTSMLTFEGQKFFGVDDISTKFNQLPFDQCRHMISTIDSQPCPSTGGLLIFVSGSLQLAG 92 (125)
Q Consensus 15 ~YY~~l~~~r~~L~~~Y~~~S~~t~~g~~~~G~~~I~~~l~~lp~~~~~~~i~s~D~q~~~~~~~ilI~V~G~~~~~~ 92 (125)
.||..-.+++..+...|...+-+.++|-.+.|.+ ++..|.-.+...|..||.+.. .+-++ =+++|++...+
T Consensus 56 ~~~~~~~kn~~~~~~s~~~~~~~Lr~G~qF~G~Q-----is~~~~~~v~v~i~~Vdl~~k-d~~sl-~~l~G~l~i~~ 126 (272)
T COG5073 56 TYYMIRHKNKRRLFSSYTRRSGFLRNGAQFGGVQ-----ISGYPPLTVEVNIDTVDLPKK-DDYSL-PHLCGTLNIQN 126 (272)
T ss_pred ecceecccCceEeeeeccchhhhccCccccccEe-----ccCCcceEEEEEEEEEecccc-ccccc-cceeeEEEEec
Confidence 3444445555666666666677777888888864 556664467778889998763 33344 78999998765
No 29
>cd00667 ring_hydroxylating_dioxygenases_beta Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the substrate by nonheme iron-containing dioxygenases. These enzymes consist of two or three soluble proteins that interact to form an electron-transport chain that transfers electrons from reduced nucleotides (NADH) via flavin and [2Fe-2S] redox centers to a terminal dioxygenase. Aromatic-ring-hydroxylating dioxygenases oxidize aromatic hydrocarbons and related compounds to cis-arene diols. These enzymes utilize a mononuclear non-heme iron center to catalyze the addition of dioxygen to their respective substrates. The active site of these enzymes however is in the alpha sub-unit. No functional role has been attributed to the beta sub-unit except for a structural role.
Probab=42.43 E-value=1.1e+02 Score=20.71 Aligned_cols=115 Identities=10% Similarity=0.063 Sum_probs=66.6
Q ss_pred HHHHHHHHHHHhhccccC-hhhhcccccCCceEEEcCc------------e-----ecCHHHHHHHHhc---------CC
Q 033171 6 ELVGKTFVGHYYHLFDND-RASLSSLYQPTSMLTFEGQ------------K-----FFGVDDISTKFNQ---------LP 58 (125)
Q Consensus 6 ~~i~~~Fv~~YY~~l~~~-r~~L~~~Y~~~S~~t~~g~------------~-----~~G~~~I~~~l~~---------lp 58 (125)
......|+..|=.++|.. -+....+|.+++.+..... . ..|+..+.+.+.. -|
T Consensus 3 ~~~I~~ll~~ya~~LD~~~~~~w~~lft~D~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~rv~~l~~~~~~~~~~ 82 (160)
T cd00667 3 QAEVEQFLYREARLLDDRRWDEWLALFAEDCHYWVPARENRERRDEDPGLELSAIYDDDRRMLEDRVVRLRTGRAWSEDP 82 (160)
T ss_pred HHHHHHHHHHHHHHhcccCHHHHHHhhccccEEEcceeechhhhccCCCCCeeEEEeCCHHHHHHHHHHHhcCCccccCC
Confidence 345678999999999964 5888899999997754321 1 2466666654332 34
Q ss_pred CCcceEEeEEeeeeecCCCCcEEEEEEEEEEE-cCCCCceeeEE--EEEEeeCCCCcEEEEceeEEe
Q 033171 59 FDQCRHMISTIDSQPCPSTGGLLIFVSGSLQL-AGEDHHLRFSQ--MFHLIPTPRGSFAVQNDIFRL 122 (125)
Q Consensus 59 ~~~~~~~i~s~D~q~~~~~~~ilI~V~G~~~~-~~~~~~~~F~q--tF~L~~~~~~~y~I~nD~fr~ 122 (125)
...++|.|+.+-.... .++.+.+...-.+.. .....+.-|+- .-.+...+ ++|.|..-..++
T Consensus 83 ~~~~rH~vsn~~i~~~-~~d~a~~~s~~~v~~~~~~~~~~~~~g~~~d~~~r~~-~~wri~~R~~~~ 147 (160)
T cd00667 83 PSRTRHLVSNVRVLEG-DGGEIEVRSNFVVVRTRLDGESDVFAGGRYDDLRRSE-DGLRIASRRVVL 147 (160)
T ss_pred CCcceEEEccEEEEec-CCCEEEEEEEEEEEEEcCCCeEEEEEEEEEEEEEEcC-CeEEEEEEEEEE
Confidence 4578899988766554 333333333222222 11111222322 12344455 789888766554
No 30
>PF12642 TpcC: Conjugative transposon protein TcpC; InterPro: IPR024735 This family of bacterial proteins are annotated as conjugative transposon protein TcpC. The transfer clostridial plasmid (tcp) locus is part of some conjugative antibiotic resistance and virulence plasmids. TcpC was one of five genes whose products had low-level sequence identity to Tn916 proteins, having similarity to ORF13 homologues from Tn916, Tn5397, and CW459tet [].; PDB: 3UB1_A.
Probab=42.13 E-value=1.3e+02 Score=21.68 Aligned_cols=31 Identities=13% Similarity=0.391 Sum_probs=21.4
Q ss_pred HHHHHHHHHHhhcccc-ChhhhcccccCCceE
Q 033171 7 LVGKTFVGHYYHLFDN-DRASLSSLYQPTSML 37 (125)
Q Consensus 7 ~i~~~Fv~~YY~~l~~-~r~~L~~~Y~~~S~~ 37 (125)
+-...|++.|++.+-+ +.++|..+-.+.+.+
T Consensus 140 ~~i~~fl~~Ff~aY~t~~~~~L~~y~~~~~~~ 171 (232)
T PF12642_consen 140 KPIEEFLEQFFKAYLTGNQGDLSYYMKPGAII 171 (232)
T ss_dssp HHHHHHHHHHHHHHHHS-HHHHHTTB-TT---
T ss_pred HHHHHHHHHHHHHHHcCCHHHHHHHhcCCccc
Confidence 5678899999999965 558888888876644
No 31
>PF05553 DUF761: Cotton fibre expressed protein; InterPro: IPR008480 This family consists of several plant proteins of unknown function. Three of the sequences from Gossypium hirsutum (Upland cotton) in this family are described as G. hirsutum fibre expressed proteins []. The remaining sequences, found in Arabidopsis thaliana, are uncharacterised.
Probab=40.18 E-value=26 Score=18.66 Aligned_cols=20 Identities=10% Similarity=0.310 Sum_probs=16.1
Q ss_pred CCHHHHHHHHHHHHhhcccc
Q 033171 3 DQTELVGKTFVGHYYHLFDN 22 (125)
Q Consensus 3 ~~~~~i~~~Fv~~YY~~l~~ 22 (125)
.+.+.-|+.|+..||.-+--
T Consensus 3 ~evd~rAe~FI~~f~~qlrl 22 (38)
T PF05553_consen 3 DEVDRRAEEFIAKFREQLRL 22 (38)
T ss_pred hHHHHHHHHHHHHHHHHHHH
Confidence 45678899999999987753
No 32
>PF07858 LEH: Limonene-1,2-epoxide hydrolase catalytic domain; InterPro: IPR013100 Epoxide hydrolases catalyse the hydrolysis of epoxides to corresponding diols, which is important in detoxification, synthesis of signal molecules, or metabolism. Limonene-1,2- epoxide hydrolase (LEH) differs from many other epoxide hydrolases in its structure and its novel one-step catalytic mechanism. Its main fold consists of a six-stranded mixed beta-sheet, with three N-terminal alpha helices packed to one side to create a pocket that extends into the protein core. A fourth helix lies in such a way that it acts as a rim to this pocket. Although mainly lined by hydrophobic residues, this pocket features a cluster of polar groups that lie at its deepest point and constitute the enzymes active site []. ; PDB: 2BNG_C 1NWW_A 1NU3_B.
Probab=38.35 E-value=1.2e+02 Score=20.30 Aligned_cols=52 Identities=23% Similarity=0.295 Sum_probs=32.5
Q ss_pred CCHHHHHHHHHHHHhhccccC-hhhhcccccCCceEEEcC-ceecCHHHHHHHHhcC
Q 033171 3 DQTELVGKTFVGHYYHLFDND-RASLSSLYQPTSMLTFEG-QKFFGVDDISTKFNQL 57 (125)
Q Consensus 3 ~~~~~i~~~Fv~~YY~~l~~~-r~~L~~~Y~~~S~~t~~g-~~~~G~~~I~~~l~~l 57 (125)
++++++.+.|++.+- ..+ ...+..+..+.+...--+ .++.|+++|.+.|..+
T Consensus 1 ~~~~~vV~~F~~a~~---~~D~~~a~~~~~~~d~vy~Nvplp~i~G~~~~~~~l~~~ 54 (125)
T PF07858_consen 1 TTPEEVVRAFLAALE---DRDVDAALASLFDDDAVYHNVPLPPIRGRDAIRAFLRGF 54 (125)
T ss_dssp HHHHHHHHHHHHHHH---HT-HHHHHHHCEECC-EEEETTTEEEESHHHHHHHHHCC
T ss_pred CChHHHHHHHHHHHH---cCCHHHHHHHhcCCCcEEEeCCCCCcccHHHHHHHHHHH
Confidence 356778888877663 223 234554555554443223 4789999999999987
No 33
>PF12870 Lumazine_bd: Lumazine-binding domain; InterPro: IPR024267 This entry represents a lumazine-binding domain found in a family of putative lipoproteins from bacteria. Lumazine is a fluorescent accessory protein having 6,7-dimethyl-8-(1'-D-ribityl) lumazine (DMRL) as its authentic chromophore; it modulates the emission of bacterial luciferase to shorter wavelengths with increasing luminous strength.; PDB: 3K7C_C.
Probab=34.38 E-value=1.1e+02 Score=18.61 Aligned_cols=30 Identities=13% Similarity=0.138 Sum_probs=17.9
Q ss_pred EEEEEEEEcCCCCceeeEEEEEEeeCCCCcEEEE
Q 033171 83 FVSGSLQLAGEDHHLRFSQMFHLIPTPRGSFAVQ 116 (125)
Q Consensus 83 ~V~G~~~~~~~~~~~~F~qtF~L~~~~~~~y~I~ 116 (125)
.|+..+...+.. +.. .++.|.+.+ |.|+|.
T Consensus 82 ~V~v~~~~~~g~-~~~--~~~~lvk~d-g~Wkv~ 111 (111)
T PF12870_consen 82 TVTVKITYKDGK-EKT--FTVPLVKED-GKWKVC 111 (111)
T ss_dssp EEEEEEEETTS--EEE--EEEEEEEET-TEEEE-
T ss_pred EEEEEEEECCCC-eeE--EEEEEEEEC-CEEEeC
Confidence 345555555532 443 467788877 999984
No 34
>PF02759 RUN: RUN domain; InterPro: IPR004012 This domain is present in several proteins that are linked to the functions of GTPases in the Rap and Rab families. They could therefore play important roles in multiple Ras-like GTPase signalling pathways.; PDB: 3CWZ_B 2CXF_A 2DWK_A 2DWG_A 2CXL_A.
Probab=32.65 E-value=25 Score=22.89 Aligned_cols=26 Identities=23% Similarity=0.456 Sum_probs=20.5
Q ss_pred HHHHhhccccChhhhcccccCCceEE
Q 033171 13 VGHYYHLFDNDRASLSSLYQPTSMLT 38 (125)
Q Consensus 13 v~~YY~~l~~~r~~L~~~Y~~~S~~t 38 (125)
+..+...+-.+++.+.++|.+.|.|.
T Consensus 82 L~~~l~~l~~~~~~l~~~Y~~~A~l~ 107 (133)
T PF02759_consen 82 LSSWLQLLLSDPKLLRKYYEPWAFLR 107 (133)
T ss_dssp HHHHHHHHCTTHHHHCCCB-TTSCTT
T ss_pred HHHHHHHHHhcchHHcCccCCcceee
Confidence 45677778888999999999999883
No 35
>TIGR02957 SigX4 RNA polymerase sigma-70 factor, TIGR02957 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building and bidirectional best hits, to represent a conserved family. This family is found in a limited number of bacterial lineages. This family includes apparent paralogous expansion in Streptomyces coelicolor A3(2), and multiple copies in Mycobacterium smegmatis MC2, Streptomyces avermitilis MA-4680 and Nocardia farcinica IFM10152.
Probab=32.62 E-value=1.3e+02 Score=22.59 Aligned_cols=50 Identities=18% Similarity=0.319 Sum_probs=40.6
Q ss_pred HHHHHHHHhhcccc-ChhhhcccccCCceEEEcC--------ceecCHHHHHHHHhcCC
Q 033171 9 GKTFVGHYYHLFDN-DRASLSSLYQPTSMLTFEG--------QKFFGVDDISTKFNQLP 58 (125)
Q Consensus 9 ~~~Fv~~YY~~l~~-~r~~L~~~Y~~~S~~t~~g--------~~~~G~~~I~~~l~~lp 58 (125)
....+..|-..+.+ +-+.|..+-.+++.+.-+| .++.|.+.|...|..+.
T Consensus 166 ~~~~~~~f~~a~~~gD~~~l~~lL~~dv~~~~dggg~~~~~~~p~~G~~~v~~~~~~~~ 224 (281)
T TIGR02957 166 SRQLLERFVEAAQTGDLDGLLELLAEDVVLYGDGGGKVRAALRPIYGADRVARFFFGLV 224 (281)
T ss_pred HHHHHHHHHHHHHhCCHHHHHHHHhhceEEEecCCCcCCCCCcccccHHHHHHHHHHHh
Confidence 45788888888875 6899999999999998754 36889999999887653
No 36
>PF08478 POTRA_1: POTRA domain, FtsQ-type; InterPro: IPR013685 FtsQ/DivIB bacterial division proteins (IPR005548 from INTERPRO) contain an N-terminal POTRA domain (for polypeptide-transport-associated domain). This is found in different types of proteins, usually associated with a transmembrane beta-barrel. FtsQ/DivIB may have chaperone-like roles, which has also been postulated for the POTRA domain in other contexts []. ; PDB: 2ALJ_A 2VH1_B 3J00_Z 2VH2_B.
Probab=30.15 E-value=1e+02 Score=17.48 Aligned_cols=32 Identities=19% Similarity=0.325 Sum_probs=22.7
Q ss_pred HHHHHHHHhcCCCCcceEEeEEeeeeecCCCCcEEEEEE
Q 033171 47 VDDISTKFNQLPFDQCRHMISTIDSQPCPSTGGLLIFVS 85 (125)
Q Consensus 47 ~~~I~~~l~~lp~~~~~~~i~s~D~q~~~~~~~ilI~V~ 85 (125)
.+++.+.|.++| .|.++..... ..+.+.|.|.
T Consensus 36 ~~~~~~~l~~~p------~V~~v~V~r~-~P~~l~I~V~ 67 (69)
T PF08478_consen 36 LKKIEQRLEKLP------WVKSVSVSRR-FPNTLEIKVK 67 (69)
T ss_dssp HHHHHHCCCCTT------TEEEEEEEEE-TTTEEEEEEE
T ss_pred HHHHHHHHHcCC------CEEEEEEEEe-CCCEEEEEEE
Confidence 578888888888 5666666665 5567777764
No 37
>KOG0480 consensus DNA replication licensing factor, MCM6 component [Replication, recombination and repair]
Probab=28.83 E-value=32 Score=29.83 Aligned_cols=76 Identities=18% Similarity=0.319 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHhhccccChhhhcccccCCceEEEcCceecCHHHHHHHHhcCCCCcceEEeEEeeeeecCCCCcEEEEEE
Q 033171 6 ELVGKTFVGHYYHLFDNDRASLSSLYQPTSMLTFEGQKFFGVDDISTKFNQLPFDQCRHMISTIDSQPCPSTGGLLIFVS 85 (125)
Q Consensus 6 ~~i~~~Fv~~YY~~l~~~r~~L~~~Y~~~S~~t~~g~~~~G~~~I~~~l~~lp~~~~~~~i~s~D~q~~~~~~~ilI~V~ 85 (125)
+.++.....+||..+----..++.+-.+ |.++...-...|.-.+-++| ..|.|..+++-.+ |-||.++
T Consensus 73 ~~la~~l~~~~~r~~p~m~~av~~~l~d-----~~~~~~~~~~~~~v~f~nlp---~~~~irdlra~~i----G~Lv~is 140 (764)
T KOG0480|consen 73 QNLATALEENYYRVLPCMCRAVHKVLKD-----WSTNSGALVKKIYVRFYNLP---TRHKIRDLRAARI----GKLVRIS 140 (764)
T ss_pred HHHHHHHHHhhhhhHHHHHHHHHHHHHc-----ccccccccceeEEEEEeccc---cccccccccHhhh----cceEEEE
Confidence 3455556666666654322334433223 55555444456666777787 3367777666444 6789999
Q ss_pred EEEEEcCC
Q 033171 86 GSLQLAGE 93 (125)
Q Consensus 86 G~~~~~~~ 93 (125)
|+|..-..
T Consensus 141 GtVvRts~ 148 (764)
T KOG0480|consen 141 GTVVRTSP 148 (764)
T ss_pred EEEEEeec
Confidence 99876543
No 38
>TIGR03231 anthran_1_2_B anthranilate 1,2-dioxygenase, small subunit. Anthranilate (2-aminobenzoate) is an intermediate of tryptophan (Trp) biosynthesis and degradation. Members of this family are the small subunit of anthranilate 1,2-dioxygenase, which acts in Trp degradation by converting anthranilate to catechol. Closely related paralogs typically are the benzoate 1,2-dioxygenase small subunit, among the larger set of ring-hydroxylating dioxygenases.
Probab=27.64 E-value=2.1e+02 Score=19.69 Aligned_cols=107 Identities=15% Similarity=0.173 Sum_probs=57.8
Q ss_pred HHHHHHHhhccccC-hhhhcccccCCceEEEcC---------ce--------ecCHHHHHH---H------HhcCCCCcc
Q 033171 10 KTFVGHYYHLFDND-RASLSSLYQPTSMLTFEG---------QK--------FFGVDDIST---K------FNQLPFDQC 62 (125)
Q Consensus 10 ~~Fv~~YY~~l~~~-r~~L~~~Y~~~S~~t~~g---------~~--------~~G~~~I~~---~------l~~lp~~~~ 62 (125)
++|+.+|=.++|.. -+.-..++.+++..-.+. .+ ..++.-+.. . ++..|...+
T Consensus 2 ~~~l~~ea~llD~~~~~~W~~lf~~d~~Y~vP~~~~~~~~~~d~~~~~~li~~d~~~~L~~RV~rl~~~~a~s~~P~srt 81 (155)
T TIGR03231 2 EQFLYRKAELCDAQDWDAYLDLFDEDSEFHLPQWISEHNYTRDPKRELSLIYYEDRSGLEDRVFRIRTGKAASTTPMPRT 81 (155)
T ss_pred hhHHHHHHHHhcccCHHHHHHHhCcCceEEeeccCCccccccCCCCCceEEEcCChhHHHHHHHHHhCCCeeecCCCCee
Confidence 57889999999975 477777888887544311 00 112222222 2 334676677
Q ss_pred eEEeEEeeeeecCCCCcEEEEEEEE-EEEcCCCCceeeEEE-EEEeeCCCCcEEEEce
Q 033171 63 RHMISTIDSQPCPSTGGLLIFVSGS-LQLAGEDHHLRFSQM-FHLIPTPRGSFAVQND 118 (125)
Q Consensus 63 ~~~i~s~D~q~~~~~~~ilI~V~G~-~~~~~~~~~~~F~qt-F~L~~~~~~~y~I~nD 118 (125)
.|.|+.+-.... .++.+.+..+=. +....+....-|... ..|.+.+ ++|.|..-
T Consensus 82 rh~vsnv~v~~~-~~~~i~v~s~f~~~~~r~~~~~~~~g~~~~~Lrr~~-~g~kI~~R 137 (155)
T TIGR03231 82 LHNIHNVRIAEL-EDGLLRVRVNWRTLFNRLGLEGCFYGHATYVLKPTG-DSWLIRRK 137 (155)
T ss_pred EEEEcCEEEEec-CCCEEEEEEEEEEEEEcCCCcEEEEEEEEEEEEEeC-CEEEEEEE
Confidence 899998777655 333333322211 112222212233333 4577766 78887653
No 39
>PF07293 DUF1450: Protein of unknown function (DUF1450); InterPro: IPR009910 This entry consists of several hypothetical bacterial proteins of around 80 residues in length representing two families. Members contain four highly conserved cysteine residues and their function is unknown.
Probab=27.05 E-value=1.1e+02 Score=18.79 Aligned_cols=50 Identities=16% Similarity=0.215 Sum_probs=36.5
Q ss_pred cCceecCHHHHHHHHhcCCCCcceEEeEEeeeeec--CCCCcEEEEEEEEEEEcCC
Q 033171 40 EGQKFFGVDDISTKFNQLPFDQCRHMISTIDSQPC--PSTGGLLIFVSGSLQLAGE 93 (125)
Q Consensus 40 ~g~~~~G~~~I~~~l~~lp~~~~~~~i~s~D~q~~--~~~~~ilI~V~G~~~~~~~ 93 (125)
.+|...|.+.+.++|.+-| .. +|.-++|+.. +........|.|.+...+.
T Consensus 9 ~~Nl~~g~~~~~~~Le~~p--~~--~Vie~gCl~~Cg~C~~~pFAlVnG~~V~A~t 60 (78)
T PF07293_consen 9 VSNLASGTDQVYEKLEKDP--DI--DVIEYGCLSYCGPCAKKPFALVNGEIVAAET 60 (78)
T ss_pred ccCchhhhHHHHHHHhcCC--Cc--cEEEcChhhhCcCCCCCccEEECCEEEecCC
Confidence 3567789999999999877 43 5556777654 1235688899999887764
No 40
>PF07341 DUF1473: Protein of unknown function (DUF1473); InterPro: IPR009941 This entry represents a family of hypothetical proteins of around 150 residues in length found in Borrelia species. The function of this family is unknown.
Probab=25.72 E-value=29 Score=24.07 Aligned_cols=26 Identities=23% Similarity=0.681 Sum_probs=19.3
Q ss_pred HHHHHHHHHhhccccChhh--hcccccC
Q 033171 8 VGKTFVGHYYHLFDNDRAS--LSSLYQP 33 (125)
Q Consensus 8 i~~~Fv~~YY~~l~~~r~~--L~~~Y~~ 33 (125)
|...|+..||..++++|+. +.+.|-+
T Consensus 57 Is~~FlDEFY~ILn~nR~y~s~YK~~L~ 84 (163)
T PF07341_consen 57 ISPGFLDEFYEILNQNREYSSLYKYYLP 84 (163)
T ss_pred cCHhHHHHHHHHHhhhHHHHHHHHHHHH
Confidence 6678999999999998854 3444433
No 41
>PRK01151 rps17E 30S ribosomal protein S17e; Validated
Probab=23.26 E-value=75 Score=18.52 Aligned_cols=19 Identities=21% Similarity=0.438 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHhhccccC
Q 033171 5 TELVGKTFVGHYYHLFDND 23 (125)
Q Consensus 5 ~~~i~~~Fv~~YY~~l~~~ 23 (125)
...+|+..++.||..|..+
T Consensus 8 IKr~a~~lieky~~~ft~D 26 (58)
T PRK01151 8 IKRTAEELLEKYPDLFTTD 26 (58)
T ss_pred HHHHHHHHHHHhHHHhccc
Confidence 4578999999999998754
No 42
>PF12392 DUF3656: Collagenase ; InterPro: IPR020988 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This domain is found in a number of proteins belonging to the MEROPS peptidase family U32. Peptidase family U32 contains endopeptidases, including collagenase, from bacteria.
Probab=22.99 E-value=2.2e+02 Score=18.42 Aligned_cols=27 Identities=11% Similarity=0.218 Sum_probs=23.8
Q ss_pred ecCHHHHHHHHhcCCCCcceEEeEEeeee
Q 033171 44 FFGVDDISTKFNQLPFDQCRHMISTIDSQ 72 (125)
Q Consensus 44 ~~G~~~I~~~l~~lp~~~~~~~i~s~D~q 72 (125)
....+.|.+.|..+. .+.+.+..+++.
T Consensus 65 p~~~e~i~~ql~KlG--~T~F~~~~i~i~ 91 (122)
T PF12392_consen 65 PLDEERIRKQLSKLG--NTPFELENIEID 91 (122)
T ss_pred ccCHHHHHHHHHhhC--CCcEEEEEEEEE
Confidence 356799999999999 999999999987
No 43
>PF07029 CryBP1: CryBP1 protein; InterPro: IPR009751 This family consists of several CryBP1 like proteins from Bacillus thuringiensis and Paenibacillus popilliae. Members of this family are thought to be involved in the overall toxicity of the bacteria to their hosts [,].
Probab=22.46 E-value=2.9e+02 Score=19.54 Aligned_cols=29 Identities=10% Similarity=0.338 Sum_probs=21.2
Q ss_pred eEEeEEeeeeecCCCCcEEEEEEEEEEEc
Q 033171 63 RHMISTIDSQPCPSTGGLLIFVSGSLQLA 91 (125)
Q Consensus 63 ~~~i~s~D~q~~~~~~~ilI~V~G~~~~~ 91 (125)
...+.+++.+|...+.+=+|.++|.+++.
T Consensus 131 ~V~v~dl~v~p~~e~~c~~vkitG~F~f~ 159 (161)
T PF07029_consen 131 NVVVCDLQVKPIQEDDCQFVKITGKFQFH 159 (161)
T ss_pred EEEEEEeEEEEcccCCceEEEEEEEEEEE
Confidence 34566788888844567899999998763
No 44
>cd06479 ACD_HspB7_like Alpha crystallin domain (ACD) found in mammalian small heat shock protein (sHsp) HspB7, also known as cardiovascular small heat shock protein (cvHsp), and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. HspB7 is a 25-kDa protein, preferentially expressed in heart and skeletal muscle. It binds the cytoskeleton protein alpha-filamin (also known as actin-binding protein 280). The expression of HspB7 is increased during rat muscle aging. Its expression is also modulated in obesity implicating this protein in this and related metabolic disorders. As the human gene encoding HspB7 is mapped to chromosome 1p36.23-p34.3 it is a positional candidate for several dystrophies and myopathies.
Probab=22.32 E-value=1.8e+02 Score=17.79 Aligned_cols=25 Identities=16% Similarity=0.057 Sum_probs=16.2
Q ss_pred EEEEEEEEEEcCCCCceeeEEEEEE
Q 033171 81 LIFVSGSLQLAGEDHHLRFSQMFHL 105 (125)
Q Consensus 81 lI~V~G~~~~~~~~~~~~F~qtF~L 105 (125)
.+.|+|.-+.........|+++|.|
T Consensus 32 ~L~I~ger~~~~~~~~g~F~R~~~L 56 (81)
T cd06479 32 QIEVHAEKLASDGTVMNTFTHKCQL 56 (81)
T ss_pred EEEEEEEEeccCCCEEEEEEEEEEC
Confidence 4556777543333234789999988
No 45
>COG3558 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.92 E-value=95 Score=21.11 Aligned_cols=50 Identities=16% Similarity=0.160 Sum_probs=33.1
Q ss_pred HHHHHHHHHHhhcccc-ChhhhcccccCCceEEEcCceecCHHHHHHHHhc
Q 033171 7 LVGKTFVGHYYHLFDN-DRASLSSLYQPTSMLTFEGQKFFGVDDISTKFNQ 56 (125)
Q Consensus 7 ~i~~~Fv~~YY~~l~~-~r~~L~~~Y~~~S~~t~~g~~~~G~~~I~~~l~~ 56 (125)
++|.+=|.-==...++ +|..+.--|.++|.-.-...-++|+++|+++|..
T Consensus 12 eta~~kvr~aed~wnsrdp~kv~layt~ds~wrnraef~~gre~i~~fl~r 62 (154)
T COG3558 12 ETAIQKVRMAEDAWNSRDPAKVALAYTEDSFWRNRAEFFQGREKIQEFLTR 62 (154)
T ss_pred HHHHHHHHHhHhccccCChhheeeeeccchhhhhHHHHHccHHHHHHHHHh
Confidence 3333334333344443 5777888888888754445678999999998874
Done!