Query 042294
Match_columns 131
No_of_seqs 122 out of 545
Neff 7.4
Searched_HMMs 46136
Date Fri Mar 29 04:48:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042294.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042294hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1520 Predicted alkaloid syn 100.0 3.9E-41 8.4E-46 268.1 13.3 131 1-131 244-376 (376)
2 COG3386 Gluconolactonase [Carb 98.7 1.3E-07 2.8E-12 75.1 10.2 82 1-122 188-277 (307)
3 PF08450 SGL: SMP-30/Gluconola 98.7 1.4E-07 3E-12 71.3 9.0 78 2-120 160-245 (246)
4 KOG4499 Ca2+-binding protein R 97.7 0.00028 6.1E-09 54.6 8.3 58 21-119 212-273 (310)
5 PF08450 SGL: SMP-30/Gluconola 95.7 0.12 2.6E-06 38.8 9.1 90 7-130 66-163 (246)
6 COG4257 Vgb Streptogramin lyas 95.2 0.097 2.1E-06 41.6 7.1 82 7-129 130-216 (353)
7 PRK11028 6-phosphogluconolacto 91.5 3.5 7.6E-05 32.1 10.3 19 19-37 78-97 (330)
8 TIGR03032 conserved hypothetic 91.0 0.56 1.2E-05 37.8 5.2 70 8-97 230-301 (335)
9 COG3386 Gluconolactonase [Carb 89.9 2.2 4.8E-05 34.0 7.8 94 9-130 93-192 (307)
10 COG3211 PhoX Predicted phospha 89.4 0.82 1.8E-05 39.5 5.2 20 22-41 501-520 (616)
11 PF07494 Reg_prop: Two compone 89.0 0.4 8.6E-06 23.6 1.9 13 26-38 10-22 (24)
12 PF01436 NHL: NHL repeat; Int 88.5 0.28 6E-06 25.0 1.2 18 22-39 3-20 (28)
13 PF03088 Str_synth: Strictosid 87.1 0.6 1.3E-05 30.6 2.5 40 3-43 39-79 (89)
14 PF03022 MRJP: Major royal jel 84.4 8.3 0.00018 30.3 8.1 66 17-121 182-255 (287)
15 PF06977 SdiA-regulated: SdiA- 84.0 3.2 7E-05 32.1 5.5 43 78-120 192-240 (248)
16 PF05787 DUF839: Bacterial pro 80.3 1.3 2.8E-05 37.9 2.3 82 22-122 437-522 (524)
17 PRK11028 6-phosphogluconolacto 80.2 25 0.00055 27.2 9.9 19 111-129 284-302 (330)
18 PLN02919 haloacid dehalogenase 79.8 16 0.00035 33.9 9.3 28 103-130 859-887 (1057)
19 COG4257 Vgb Streptogramin lyas 78.6 20 0.00044 28.8 8.2 31 8-38 90-121 (353)
20 TIGR02604 Piru_Ver_Nterm putat 78.4 25 0.00055 28.2 9.2 88 10-119 105-201 (367)
21 PF06977 SdiA-regulated: SdiA- 75.2 33 0.0007 26.5 8.6 48 79-129 44-92 (248)
22 TIGR02604 Piru_Ver_Nterm putat 73.0 36 0.00077 27.4 8.7 28 12-39 3-32 (367)
23 PF03088 Str_synth: Strictosid 70.0 27 0.0006 22.7 6.9 83 24-130 1-86 (89)
24 COG3292 Predicted periplasmic 69.5 8.7 0.00019 33.6 4.5 33 86-121 362-395 (671)
25 COG2088 SpoVG Uncharacterized 64.7 8.8 0.00019 25.3 2.8 33 28-60 37-73 (95)
26 PHA02865 MHC-like TNF binding 63.9 6.4 0.00014 32.0 2.6 24 18-41 263-289 (338)
27 KOG1520 Predicted alkaloid syn 62.4 28 0.00061 28.7 6.0 67 18-122 112-181 (376)
28 PF10282 Lactonase: Lactonase, 58.9 89 0.0019 24.7 9.3 50 80-129 270-320 (345)
29 TIGR02658 TTQ_MADH_Hv methylam 57.3 1.1E+02 0.0023 25.1 11.3 54 77-130 75-135 (352)
30 PF06739 SBBP: Beta-propeller 57.0 11 0.00024 20.4 2.0 19 22-40 14-32 (38)
31 cd08033 LARP_6 La RNA-binding 56.7 10 0.00023 24.1 2.1 47 29-92 30-76 (77)
32 PF01502 PRA-CH: Phosphoribosy 54.4 36 0.00077 21.6 4.3 31 2-39 28-58 (75)
33 COG3292 Predicted periplasmic 52.4 12 0.00025 32.8 2.4 16 25-40 169-184 (671)
34 PF06079 Apyrase: Apyrase; In 50.8 58 0.0013 26.0 5.9 48 76-124 71-122 (291)
35 PF04393 DUF535: Protein of un 50.6 36 0.00078 26.8 4.7 39 86-124 123-164 (288)
36 KOG0404 Thioredoxin reductase 49.3 7.9 0.00017 30.3 0.8 12 16-27 57-68 (322)
37 PHA02122 hypothetical protein 48.0 61 0.0013 19.6 4.8 34 84-119 27-60 (65)
38 PRK11138 outer membrane biogen 47.0 84 0.0018 25.2 6.5 49 78-130 344-393 (394)
39 PF13570 PQQ_3: PQQ-like domai 46.7 45 0.00097 17.6 4.1 20 105-124 14-33 (40)
40 KOG0639 Transducin-like enhanc 46.2 69 0.0015 27.9 5.9 106 11-123 451-574 (705)
41 COG3204 Uncharacterized protei 44.4 49 0.0011 26.7 4.6 46 77-122 253-304 (316)
42 PF01599 Ribosomal_S27: Riboso 43.8 34 0.00074 19.8 2.7 37 82-119 6-43 (47)
43 PF10460 Peptidase_M30: Peptid 43.4 25 0.00054 28.9 2.9 57 31-102 305-361 (366)
44 cd06481 ACD_HspB9_like Alpha c 42.7 22 0.00048 22.7 2.1 25 13-37 9-35 (87)
45 PTZ00486 apyrase Superfamily; 41.8 1.1E+02 0.0024 25.1 6.3 48 76-123 132-184 (352)
46 PF13449 Phytase-like: Esteras 41.8 47 0.001 26.3 4.2 17 25-41 89-105 (326)
47 PF03022 MRJP: Major royal jel 41.3 1.7E+02 0.0037 22.8 10.1 52 79-130 34-95 (287)
48 cd08035 LARP_4 La RNA-binding 41.2 29 0.00063 22.0 2.4 47 29-92 28-74 (75)
49 PF13360 PQQ_2: PQQ-like domai 39.9 1.4E+02 0.003 21.4 7.0 50 78-127 131-188 (238)
50 PLN02919 haloacid dehalogenase 39.7 1.4E+02 0.0031 27.9 7.5 23 18-40 499-521 (1057)
51 TIGR02276 beta_rpt_yvtn 40-res 39.5 57 0.0012 16.9 3.2 18 112-129 3-20 (42)
52 COG2133 Glucose/sorbosone dehy 38.3 69 0.0015 26.7 4.7 33 11-43 163-199 (399)
53 cd08030 LA_like_plant La-motif 37.4 27 0.00059 22.9 1.9 52 27-91 29-88 (90)
54 PF11208 DUF2992: Protein of u 37.3 20 0.00043 25.2 1.3 13 31-43 6-18 (132)
55 cd08036 LARP_5 La RNA-binding 34.6 33 0.00071 21.8 1.8 14 79-92 61-74 (75)
56 TIGR03606 non_repeat_PQQ dehyd 33.7 3E+02 0.0064 23.4 9.5 27 12-39 21-48 (454)
57 PHA02598 denA endonuclease II; 32.5 74 0.0016 22.6 3.5 39 81-120 13-51 (138)
58 cd00216 PQQ_DH Dehydrogenases 31.1 1.4E+02 0.0029 25.1 5.5 42 78-122 415-458 (488)
59 TIGR03300 assembly_YfgL outer 30.8 1.4E+02 0.003 23.6 5.3 41 78-122 74-115 (377)
60 PF03607 DCX: Doublecortin; I 30.2 29 0.00063 20.6 1.0 34 87-124 26-59 (60)
61 PF07463 NUMOD4: NUMOD4 motif; 30.1 59 0.0013 18.6 2.3 23 14-36 1-23 (51)
62 PF07995 GSDH: Glucose / Sorbo 29.7 1.9E+02 0.0041 22.9 5.9 70 23-130 4-89 (331)
63 PF13953 PapC_C: PapC C-termin 29.4 1.3E+02 0.0027 18.1 3.8 16 107-122 26-41 (68)
64 KOG0090 Signal recognition par 28.3 2E+02 0.0043 22.3 5.4 45 77-121 39-83 (238)
65 TIGR03300 assembly_YfgL outer 27.7 2.1E+02 0.0046 22.5 5.9 43 78-123 329-372 (377)
66 PF09826 Beta_propel: Beta pro 27.2 4E+02 0.0087 22.9 9.5 90 2-122 252-345 (521)
67 PF09142 TruB_C: tRNA Pseudour 27.1 46 0.001 19.6 1.5 23 77-99 25-47 (56)
68 COG4014 Uncharacterized protei 27.0 59 0.0013 21.5 2.1 21 21-41 24-44 (97)
69 PF11211 DUF2997: Protein of u 27.0 54 0.0012 18.8 1.8 30 81-110 2-31 (48)
70 PF09264 Sial-lect-inser: Vibr 26.6 95 0.0021 23.3 3.4 27 75-101 56-82 (198)
71 PF09910 DUF2139: Uncharacteri 25.7 2.8E+02 0.0061 22.6 6.1 79 31-128 259-338 (339)
72 PF01011 PQQ: PQQ enzyme repea 25.5 1.1E+02 0.0025 15.9 3.1 23 77-99 8-31 (38)
73 cd06498 ACD_alphaB-crystallin_ 24.1 63 0.0014 20.5 1.8 28 13-41 9-37 (84)
74 PF01731 Arylesterase: Arylest 23.4 1.5E+02 0.0033 19.0 3.6 29 12-41 45-75 (86)
75 PF06089 Asparaginase_II: L-as 23.3 1E+02 0.0022 25.0 3.3 28 76-103 13-40 (324)
76 PF05935 Arylsulfotrans: Aryls 22.2 4.4E+02 0.0096 22.1 7.0 39 79-119 167-208 (477)
77 cd08032 LARP_7 La RNA-binding 22.2 47 0.001 21.4 1.0 47 29-92 35-81 (82)
78 smart00564 PQQ beta-propeller 21.1 1.2E+02 0.0027 14.7 3.0 12 110-121 4-15 (33)
79 COG3490 Uncharacterized protei 20.4 1.4E+02 0.0031 24.2 3.5 19 26-44 231-251 (366)
No 1
>KOG1520 consensus Predicted alkaloid synthase/Surface mucin Hemomucin [General function prediction only]
Probab=100.00 E-value=3.9e-41 Score=268.13 Aligned_cols=131 Identities=42% Similarity=0.764 Sum_probs=119.4
Q ss_pred CeeeeeCCCCCceeEee-eCCcCCCceeecCCCCEEEEeecCCchHHHHhhcCHHHHHHHHhcChhhhh-hhhhcCCcce
Q 042294 1 MKYWLEGPKTGTVELVA-NLPGFPDNVRINERGQFWVAIDCCRTAAQEVLSHNPWIRSIYFRLPIRMSF-LARVMGMKMY 78 (131)
Q Consensus 1 ~rywl~G~k~G~~e~f~-~LPG~PDNI~~~~~G~~Wval~~~r~~~~~~l~~~P~lRk~~~~lp~~~~~-~~~~~~~~~~ 78 (131)
+||||+|+|+||+|+|+ +|||||||||++++|+||||+++.|+.+.++++++||+||++.++|..+.. +.......|+
T Consensus 244 ~rywi~g~k~gt~EvFa~~LPG~PDNIR~~~~G~fWVal~~~~~~~~~~~~~~p~vr~~~~~~~~~~~~~~~~~~~~~p~ 323 (376)
T KOG1520|consen 244 KRYWIKGPKAGTSEVFAEGLPGYPDNIRRDSTGHFWVALHSKRSTLWRLLMKYPWVRKFIAKLPKYMELLYFLNNGGKPH 323 (376)
T ss_pred eeeEecCCccCchhhHhhcCCCCCcceeECCCCCEEEEEecccchHHHhhhcChHHHHHHHhhccchhhhhhhhccCCCc
Confidence 59999999999999999 699999999999999999999999999999999999999999999866533 2222234566
Q ss_pred EEEEEEcCCCeEEEEEECCCCCcccceEEEEEeCCEEEEecCCCCeEEEeeCC
Q 042294 79 TVISLFNENGEILEVLEDPRGVVMKLVSEVKEAQGKLWIGTVAHNHIATLPYP 131 (131)
Q Consensus 79 ~~v~~v~~~G~i~~~l~d~~g~~~~~is~v~~~~g~LylGS~~~~~i~~~~l~ 131 (131)
+.|.++|++|+|+++|||++|+.+..+|+|.|++|+||+||+.++||++++|+
T Consensus 324 ~~V~~~d~~G~il~~lhD~~g~~~~~~sev~E~dg~LyiGS~~~p~i~~lkl~ 376 (376)
T KOG1520|consen 324 SAVKLSDETGKILESLHDKEGKVITLVSEVGEHDGHLYIGSLFNPYIARLKLP 376 (376)
T ss_pred eEEEEecCCCcEEEEEecCCCCceEEEEEEeecCCeEEEcccCcceeEEEecC
Confidence 88889999999999999999999999999999999999999999999999986
No 2
>COG3386 Gluconolactonase [Carbohydrate transport and metabolism]
Probab=98.72 E-value=1.3e-07 Score=75.13 Aligned_cols=82 Identities=26% Similarity=0.439 Sum_probs=65.9
Q ss_pred Ceeeee---CCCCCceeE-ee-eCCcCCCceeecCCCCEEEEeecCCchHHHHhhcCHHHHHHHHhcChhhhhhhhhcCC
Q 042294 1 MKYWLE---GPKTGTVEL-VA-NLPGFPDNVRINERGQFWVAIDCCRTAAQEVLSHNPWIRSIYFRLPIRMSFLARVMGM 75 (131)
Q Consensus 1 ~rywl~---G~k~G~~e~-f~-~LPG~PDNI~~~~~G~~Wval~~~r~~~~~~l~~~P~lRk~~~~lp~~~~~~~~~~~~ 75 (131)
+||++. |+..+.... +. .-||.||++..|++|++|++....
T Consensus 188 ~r~~~d~~~g~~~~~~~~~~~~~~~G~PDG~~vDadG~lw~~a~~~---------------------------------- 233 (307)
T COG3386 188 HRYDLDPATGPIGGRRGFVDFDEEPGLPDGMAVDADGNLWVAAVWG---------------------------------- 233 (307)
T ss_pred EEEecCcccCccCCcceEEEccCCCCCCCceEEeCCCCEEEecccC----------------------------------
Confidence 378887 787776433 33 568999999999999999743321
Q ss_pred cceEEEEEEcCCCeEEEEEECCCCCcccceEEEEEeC---CEEEEecCCC
Q 042294 76 KMYTVISLFNENGEILEVLEDPRGVVMKLVSEVKEAQ---GKLWIGTVAH 122 (131)
Q Consensus 76 ~~~~~v~~v~~~G~i~~~l~d~~g~~~~~is~v~~~~---g~LylGS~~~ 122 (131)
-+.|.+++++|+.+..+..|. ..+|.+++.| ++||+.|...
T Consensus 234 --g~~v~~~~pdG~l~~~i~lP~----~~~t~~~FgG~~~~~L~iTs~~~ 277 (307)
T COG3386 234 --GGRVVRFNPDGKLLGEIKLPV----KRPTNPAFGGPDLNTLYITSARS 277 (307)
T ss_pred --CceEEEECCCCcEEEEEECCC----CCCccceEeCCCcCEEEEEecCC
Confidence 146999999999999999996 5789999987 9999999887
No 3
>PF08450 SGL: SMP-30/Gluconolaconase/LRE-like region; InterPro: IPR013658 This family describes a region that is found in proteins expressed by a variety of eukaryotic and prokaryotic species. These proteins include various enzymes, such as senescence marker protein 30 (SMP-30, Q15493 from SWISSPROT), gluconolactonase (Q01578 from SWISSPROT) and luciferin-regenerating enzyme (LRE, Q86DU5 from SWISSPROT). SMP-30 is known to hydrolyse diisopropyl phosphorofluoridate in the liver, and has been noted as having sequence similarity, in the region described in this family, with PON1 (P52430 from SWISSPROT) and LRE. ; PDB: 2GHS_A 2DG0_L 2DG1_D 2DSO_D 3E5Z_A 2IAT_A 2IAV_A 2GVV_A 3HLI_A 2GVU_A ....
Probab=98.69 E-value=1.4e-07 Score=71.35 Aligned_cols=78 Identities=22% Similarity=0.457 Sum_probs=59.1
Q ss_pred eeeeeCC--CCCceeEeeeCC---cCCCceeecCCCCEEEEeecCCchHHHHhhcCHHHHHHHHhcChhhhhhhhhcCCc
Q 042294 2 KYWLEGP--KTGTVELVANLP---GFPDNVRINERGQFWVAIDCCRTAAQEVLSHNPWIRSIYFRLPIRMSFLARVMGMK 76 (131)
Q Consensus 2 rywl~G~--k~G~~e~f~~LP---G~PDNI~~~~~G~~Wval~~~r~~~~~~l~~~P~lRk~~~~lp~~~~~~~~~~~~~ 76 (131)
||.+..+ ..+..++|++++ |+||++..|++|++|||....
T Consensus 160 ~~~~~~~~~~~~~~~~~~~~~~~~g~pDG~~vD~~G~l~va~~~~----------------------------------- 204 (246)
T PF08450_consen 160 RFDLDADGGELSNRRVFIDFPGGPGYPDGLAVDSDGNLWVADWGG----------------------------------- 204 (246)
T ss_dssp EEEEETTTCCEEEEEEEEE-SSSSCEEEEEEEBTTS-EEEEEETT-----------------------------------
T ss_pred EEeccccccceeeeeeEEEcCCCCcCCCcceEcCCCCEEEEEcCC-----------------------------------
Confidence 5666533 346677887544 569999999999999998853
Q ss_pred ceEEEEEEcCCCeEEEEEECCCCCcccceEEEEEe---CCEEEEecC
Q 042294 77 MYTVISLFNENGEILEVLEDPRGVVMKLVSEVKEA---QGKLWIGTV 120 (131)
Q Consensus 77 ~~~~v~~v~~~G~i~~~l~d~~g~~~~~is~v~~~---~g~LylGS~ 120 (131)
+.|.++|++|+++..++-|. +.+|++++. .++||+.|-
T Consensus 205 --~~I~~~~p~G~~~~~i~~p~----~~~t~~~fgg~~~~~L~vTta 245 (246)
T PF08450_consen 205 --GRIVVFDPDGKLLREIELPV----PRPTNCAFGGPDGKTLYVTTA 245 (246)
T ss_dssp --TEEEEEETTSCEEEEEE-SS----SSEEEEEEESTTSSEEEEEEB
T ss_pred --CEEEEECCCccEEEEEcCCC----CCEEEEEEECCCCCEEEEEeC
Confidence 44999999999999999983 468999995 388999874
No 4
>KOG4499 consensus Ca2+-binding protein Regucalcin/SMP30 [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=97.69 E-value=0.00028 Score=54.61 Aligned_cols=58 Identities=21% Similarity=0.286 Sum_probs=49.9
Q ss_pred cCCCceeecCCCCEEEEeecCCchHHHHhhcCHHHHHHHHhcChhhhhhhhhcCCcceEEEEEEcC-CCeEEEEEECCCC
Q 042294 21 GFPDNVRINERGQFWVAIDCCRTAAQEVLSHNPWIRSIYFRLPIRMSFLARVMGMKMYTVISLFNE-NGEILEVLEDPRG 99 (131)
Q Consensus 21 G~PDNI~~~~~G~~Wval~~~r~~~~~~l~~~P~lRk~~~~lp~~~~~~~~~~~~~~~~~v~~v~~-~G~i~~~l~d~~g 99 (131)
=.||++..|.+|.+|||..+. +.|.++|+ +|+++..+.-|+
T Consensus 212 ~~PDGm~ID~eG~L~Va~~ng-------------------------------------~~V~~~dp~tGK~L~eiklPt- 253 (310)
T KOG4499|consen 212 LEPDGMTIDTEGNLYVATFNG-------------------------------------GTVQKVDPTTGKILLEIKLPT- 253 (310)
T ss_pred CCCCcceEccCCcEEEEEecC-------------------------------------cEEEEECCCCCcEEEEEEcCC-
Confidence 489999999999999999864 66999995 699999999996
Q ss_pred CcccceEEEEEeC---CEEEEec
Q 042294 100 VVMKLVSEVKEAQ---GKLWIGT 119 (131)
Q Consensus 100 ~~~~~is~v~~~~---g~LylGS 119 (131)
+.||++++.| +-||...
T Consensus 254 ---~qitsccFgGkn~d~~yvT~ 273 (310)
T KOG4499|consen 254 ---PQITSCCFGGKNLDILYVTT 273 (310)
T ss_pred ---CceEEEEecCCCccEEEEEe
Confidence 7899999977 5677764
No 5
>PF08450 SGL: SMP-30/Gluconolaconase/LRE-like region; InterPro: IPR013658 This family describes a region that is found in proteins expressed by a variety of eukaryotic and prokaryotic species. These proteins include various enzymes, such as senescence marker protein 30 (SMP-30, Q15493 from SWISSPROT), gluconolactonase (Q01578 from SWISSPROT) and luciferin-regenerating enzyme (LRE, Q86DU5 from SWISSPROT). SMP-30 is known to hydrolyse diisopropyl phosphorofluoridate in the liver, and has been noted as having sequence similarity, in the region described in this family, with PON1 (P52430 from SWISSPROT) and LRE. ; PDB: 2GHS_A 2DG0_L 2DG1_D 2DSO_D 3E5Z_A 2IAT_A 2IAV_A 2GVV_A 3HLI_A 2GVU_A ....
Probab=95.75 E-value=0.12 Score=38.84 Aligned_cols=90 Identities=18% Similarity=0.289 Sum_probs=61.6
Q ss_pred CCCCCceeEeeeCC------cCCCceeecCCCCEEEEeecCCchHHHHhhcCHHHHHHHHhcChhhhhhhhhcCCcceEE
Q 042294 7 GPKTGTVELVANLP------GFPDNVRINERGQFWVAIDCCRTAAQEVLSHNPWIRSIYFRLPIRMSFLARVMGMKMYTV 80 (131)
Q Consensus 7 G~k~G~~e~f~~LP------G~PDNI~~~~~G~~Wval~~~r~~~~~~l~~~P~lRk~~~~lp~~~~~~~~~~~~~~~~~ 80 (131)
=++.|+.+.++..+ -.|..+..|++|++|++-...... .....+.
T Consensus 66 d~~~g~~~~~~~~~~~~~~~~~~ND~~vd~~G~ly~t~~~~~~~-----------------------------~~~~~g~ 116 (246)
T PF08450_consen 66 DPDTGKVTVLADLPDGGVPFNRPNDVAVDPDGNLYVTDSGGGGA-----------------------------SGIDPGS 116 (246)
T ss_dssp ETTTTEEEEEEEEETTCSCTEEEEEEEE-TTS-EEEEEECCBCT-----------------------------TCGGSEE
T ss_pred ecCCCcEEEEeeccCCCcccCCCceEEEcCCCCEEEEecCCCcc-----------------------------ccccccc
Confidence 35778888888542 357778889999999997754221 0011178
Q ss_pred EEEEcCCCeEEEEEECCCCCcccceEEEEEe--CCEEEEecCCCCeEEEeeC
Q 042294 81 ISLFNENGEILEVLEDPRGVVMKLVSEVKEA--QGKLWIGTVAHNHIATLPY 130 (131)
Q Consensus 81 v~~v~~~G~i~~~l~d~~g~~~~~is~v~~~--~g~LylGS~~~~~i~~~~l 130 (131)
+.+++.+|++....++- ...-.+... +..||+.......|.++++
T Consensus 117 v~~~~~~~~~~~~~~~~-----~~pNGi~~s~dg~~lyv~ds~~~~i~~~~~ 163 (246)
T PF08450_consen 117 VYRIDPDGKVTVVADGL-----GFPNGIAFSPDGKTLYVADSFNGRIWRFDL 163 (246)
T ss_dssp EEEEETTSEEEEEEEEE-----SSEEEEEEETTSSEEEEEETTTTEEEEEEE
T ss_pred eEEECCCCeEEEEecCc-----ccccceEECCcchheeecccccceeEEEec
Confidence 99999998877766552 334455553 5689999999999998875
No 6
>COG4257 Vgb Streptogramin lyase [Defense mechanisms]
Probab=95.25 E-value=0.097 Score=41.64 Aligned_cols=82 Identities=22% Similarity=0.383 Sum_probs=60.9
Q ss_pred CCCCCceeEee-eCCcCCCcee---ecCCCCEEEEeecCCchHHHHhhcCHHHHHHHHhcChhhhhhhhhcCCcceEEEE
Q 042294 7 GPKTGTVELVA-NLPGFPDNVR---INERGQFWVAIDCCRTAAQEVLSHNPWIRSIYFRLPIRMSFLARVMGMKMYTVIS 82 (131)
Q Consensus 7 G~k~G~~e~f~-~LPG~PDNI~---~~~~G~~Wval~~~r~~~~~~l~~~P~lRk~~~~lp~~~~~~~~~~~~~~~~~v~ 82 (131)
++|.++.+.|- -+---++|+. +|++|++|-.-... -+|
T Consensus 130 dpkt~evt~f~lp~~~a~~nlet~vfD~~G~lWFt~q~G-----------------------------------~yG--- 171 (353)
T COG4257 130 DPKTLEVTRFPLPLEHADANLETAVFDPWGNLWFTGQIG-----------------------------------AYG--- 171 (353)
T ss_pred cCcccceEEeecccccCCCcccceeeCCCccEEEeeccc-----------------------------------cce---
Confidence 36778888885 3333478887 58999999754321 123
Q ss_pred EEcCCCeEEEEEECCCCCcccceEEEEE-eCCEEEEecCCCCeEEEee
Q 042294 83 LFNENGEILEVLEDPRGVVMKLVSEVKE-AQGKLWIGTVAHNHIATLP 129 (131)
Q Consensus 83 ~v~~~G~i~~~l~d~~g~~~~~is~v~~-~~g~LylGS~~~~~i~~~~ 129 (131)
++|+.-.+++++..|.|. .-..++. -+|.+|..|+..++|++++
T Consensus 172 rLdPa~~~i~vfpaPqG~---gpyGi~atpdGsvwyaslagnaiarid 216 (353)
T COG4257 172 RLDPARNVISVFPAPQGG---GPYGICATPDGSVWYASLAGNAIARID 216 (353)
T ss_pred ecCcccCceeeeccCCCC---CCcceEECCCCcEEEEeccccceEEcc
Confidence 788888889999999876 3456666 4789999999999999986
No 7
>PRK11028 6-phosphogluconolactonase; Provisional
Probab=91.54 E-value=3.5 Score=32.10 Aligned_cols=19 Identities=37% Similarity=0.889 Sum_probs=14.1
Q ss_pred CCcCCCceeecCCCCE-EEE
Q 042294 19 LPGFPDNVRINERGQF-WVA 37 (131)
Q Consensus 19 LPG~PDNI~~~~~G~~-Wva 37 (131)
++|-|..|.++++|++ +++
T Consensus 78 ~~~~p~~i~~~~~g~~l~v~ 97 (330)
T PRK11028 78 LPGSPTHISTDHQGRFLFSA 97 (330)
T ss_pred CCCCceEEEECCCCCEEEEE
Confidence 5677888888988874 444
No 8
>TIGR03032 conserved hypothetical protein TIGR03032. This protein family is uncharacterized. A number of motifs are conserved perfectly among all member sequences. The function of this protein is unknown.
Probab=91.03 E-value=0.56 Score=37.82 Aligned_cols=70 Identities=23% Similarity=0.452 Sum_probs=46.7
Q ss_pred CCCCceeEeeeCCcCCCceeecCCCC-EEEEeecCCchHHHHhhcCHHHHHHHHhcChhhhhhhhhcCCcceEEEEEEc-
Q 042294 8 PKTGTVELVANLPGFPDNVRINERGQ-FWVAIDCCRTAAQEVLSHNPWIRSIYFRLPIRMSFLARVMGMKMYTVISLFN- 85 (131)
Q Consensus 8 ~k~G~~e~f~~LPG~PDNI~~~~~G~-~Wval~~~r~~~~~~l~~~P~lRk~~~~lp~~~~~~~~~~~~~~~~~v~~v~- 85 (131)
+++|+.|+.+.+||+|-+|... |. +.|+++.+|.. +....||-.-. +. .....+..+|
T Consensus 230 ~~~G~~e~Va~vpG~~rGL~f~--G~llvVgmSk~R~~------------~~f~glpl~~~----l~--~~~CGv~vidl 289 (335)
T TIGR03032 230 PQAGKFQPVAFLPGFTRGLAFA--GDFAFVGLSKLRES------------RVFGGLPIEER----LD--ALGCGVAVIDL 289 (335)
T ss_pred CCCCcEEEEEECCCCCccccee--CCEEEEEeccccCC------------CCcCCCchhhh----hh--hhcccEEEEEC
Confidence 4579999999999999999999 65 56899998842 11222221100 00 1224466777
Q ss_pred CCCeEEEEEECC
Q 042294 86 ENGEILEVLEDP 97 (131)
Q Consensus 86 ~~G~i~~~l~d~ 97 (131)
.+|++++.++=.
T Consensus 290 ~tG~vv~~l~fe 301 (335)
T TIGR03032 290 NSGDVVHWLRFE 301 (335)
T ss_pred CCCCEEEEEEeC
Confidence 579999998864
No 9
>COG3386 Gluconolactonase [Carbohydrate transport and metabolism]
Probab=89.91 E-value=2.2 Score=33.99 Aligned_cols=94 Identities=17% Similarity=0.240 Sum_probs=58.4
Q ss_pred CCCce-eEee-eCCcCCCc----eeecCCCCEEEEeecCCchHHHHhhcCHHHHHHHHhcChhhhhhhhhcCCcceEEEE
Q 042294 9 KTGTV-ELVA-NLPGFPDN----VRINERGQFWVAIDCCRTAAQEVLSHNPWIRSIYFRLPIRMSFLARVMGMKMYTVIS 82 (131)
Q Consensus 9 k~G~~-e~f~-~LPG~PDN----I~~~~~G~~Wval~~~r~~~~~~l~~~P~lRk~~~~lp~~~~~~~~~~~~~~~~~v~ 82 (131)
+.|.. +.++ .-+|.|+| .+.+++|.||++-..- .. ... ...++.|.+.
T Consensus 93 ~~~~~~t~~~~~~~~~~~~r~ND~~v~pdG~~wfgt~~~-~~-----------------~~~--------~~~~~~G~ly 146 (307)
T COG3386 93 DTGGKITLLAEPEDGLPLNRPNDGVVDPDGRIWFGDMGY-FD-----------------LGK--------SEERPTGSLY 146 (307)
T ss_pred cCCceeEEeccccCCCCcCCCCceeEcCCCCEEEeCCCc-cc-----------------cCc--------cccCCcceEE
Confidence 44555 5554 45555554 5578899999987652 00 000 0125668899
Q ss_pred EEcCCCeEEEEEECCCCCcccceEEEEEeCCEEEEecCCCCeEEEeeC
Q 042294 83 LFNENGEILEVLEDPRGVVMKLVSEVKEAQGKLWIGTVAHNHIATLPY 130 (131)
Q Consensus 83 ~v~~~G~i~~~l~d~~g~~~~~is~v~~~~g~LylGS~~~~~i~~~~l 130 (131)
++|++|.+++-+.+. -.++.--.....+..||+.--..+.|-++++
T Consensus 147 r~~p~g~~~~l~~~~--~~~~NGla~SpDg~tly~aDT~~~~i~r~~~ 192 (307)
T COG3386 147 RVDPDGGVVRLLDDD--LTIPNGLAFSPDGKTLYVADTPANRIHRYDL 192 (307)
T ss_pred EEcCCCCEEEeecCc--EEecCceEECCCCCEEEEEeCCCCeEEEEec
Confidence 999989988888762 1122222222244589999888888888765
No 10
>COG3211 PhoX Predicted phosphatase [General function prediction only]
Probab=89.37 E-value=0.82 Score=39.48 Aligned_cols=20 Identities=30% Similarity=0.750 Sum_probs=17.5
Q ss_pred CCCceeecCCCCEEEEeecC
Q 042294 22 FPDNVRINERGQFWVAIDCC 41 (131)
Q Consensus 22 ~PDNI~~~~~G~~Wval~~~ 41 (131)
.||||.+|+.|++||+--..
T Consensus 501 ~PDnl~fD~~GrLWi~TDg~ 520 (616)
T COG3211 501 SPDNLAFDPWGRLWIQTDGS 520 (616)
T ss_pred CCCceEECCCCCEEEEecCC
Confidence 49999999999999987553
No 11
>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=88.97 E-value=0.4 Score=23.58 Aligned_cols=13 Identities=15% Similarity=0.698 Sum_probs=9.9
Q ss_pred eeecCCCCEEEEe
Q 042294 26 VRINERGQFWVAI 38 (131)
Q Consensus 26 I~~~~~G~~Wval 38 (131)
|..|++|++|||.
T Consensus 10 i~~D~~G~lWigT 22 (24)
T PF07494_consen 10 IYEDSDGNLWIGT 22 (24)
T ss_dssp EEE-TTSCEEEEE
T ss_pred EEEcCCcCEEEEe
Confidence 4568999999985
No 12
>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=88.53 E-value=0.28 Score=24.98 Aligned_cols=18 Identities=28% Similarity=0.674 Sum_probs=15.8
Q ss_pred CCCceeecCCCCEEEEee
Q 042294 22 FPDNVRINERGQFWVAID 39 (131)
Q Consensus 22 ~PDNI~~~~~G~~Wval~ 39 (131)
+|-+|..+++|++|||=.
T Consensus 3 ~P~gvav~~~g~i~VaD~ 20 (28)
T PF01436_consen 3 YPHGVAVDSDGNIYVADS 20 (28)
T ss_dssp SEEEEEEETTSEEEEEEC
T ss_pred CCcEEEEeCCCCEEEEEC
Confidence 588999999999999854
No 13
>PF03088 Str_synth: Strictosidine synthase; InterPro: IPR018119 This entry represents a conserved region found in strictosidine synthase (4.3.3.2 from EC), a key enzyme in alkaloid biosynthesis. It catalyses the Pictet-Spengler stereospecific condensation of tryptamine with secologanin to form strictosidine []. The structure of the native enzyme from the Indian medicinal plant Rauvolfia serpentina (Serpentwood) (Devilpepper) represents the first example of a six-bladed four-stranded beta-propeller fold from the plant kingdom [].; GO: 0016844 strictosidine synthase activity, 0009058 biosynthetic process; PDB: 2FPB_A 2V91_B 2FP8_A 3V1S_B 2FPC_A 2VAQ_A 2FP9_B.
Probab=87.13 E-value=0.6 Score=30.62 Aligned_cols=40 Identities=20% Similarity=0.317 Sum_probs=30.6
Q ss_pred eeeeCCCCCceeEee-eCCcCCCceeecCCCCEEEEeecCCc
Q 042294 3 YWLEGPKTGTVELVA-NLPGFPDNVRINERGQFWVAIDCCRT 43 (131)
Q Consensus 3 ywl~G~k~G~~e~f~-~LPG~PDNI~~~~~G~~Wval~~~r~ 43 (131)
.+-=-|++++.++++ +|. ||.+|..++|+.|.+-.-+.|.
T Consensus 39 ll~ydp~t~~~~vl~~~L~-fpNGVals~d~~~vlv~Et~~~ 79 (89)
T PF03088_consen 39 LLRYDPSTKETTVLLDGLY-FPNGVALSPDESFVLVAETGRY 79 (89)
T ss_dssp EEEEETTTTEEEEEEEEES-SEEEEEE-TTSSEEEEEEGGGT
T ss_pred EEEEECCCCeEEEehhCCC-ccCeEEEcCCCCEEEEEeccCc
Confidence 334458999999999 898 8999999999998776555443
No 14
>PF03022 MRJP: Major royal jelly protein; InterPro: IPR003534 The major royal jelly proteins (MRJPs) comprise 12.5% of the mass, and 82-90% of the protein content [], of honeybee (Apis mellifera) royal jelly. Royal jelly is a substance secreted by the cephalic glands of nurse bees [] and it is used to trigger development of a queen bee from a bee larva. The biological function of the MRJPs is unknown, but they are believed to play a major role in nutrition due to their high essential amino acid content []. Two royal jelly proteins, MRJP3 and MRJP5, contain a tandem repeat that results from a high genetic variablility. This polymorphism may be useful for genotyping individual bees [].; PDB: 3Q6P_B 3Q6K_A 3Q6T_A 2QE8_B.
Probab=84.40 E-value=8.3 Score=30.25 Aligned_cols=66 Identities=18% Similarity=0.345 Sum_probs=44.8
Q ss_pred eeCCcCCCceeecCCCCEEEEeecCCchHHHHhhcCHHHHHHHHhcChhhhhhhhhcCCcceEEEEEEcCCC-----eEE
Q 042294 17 ANLPGFPDNVRINERGQFWVAIDCCRTAAQEVLSHNPWIRSIYFRLPIRMSFLARVMGMKMYTVISLFNENG-----EIL 91 (131)
Q Consensus 17 ~~LPG~PDNI~~~~~G~~Wval~~~r~~~~~~l~~~P~lRk~~~~lp~~~~~~~~~~~~~~~~~v~~v~~~G-----~i~ 91 (131)
.+-++--|++..|++|.++.+.... ..|.+.|.++ +.-
T Consensus 182 G~k~~~s~g~~~D~~G~ly~~~~~~-------------------------------------~aI~~w~~~~~~~~~~~~ 224 (287)
T PF03022_consen 182 GDKGSQSDGMAIDPNGNLYFTDVEQ-------------------------------------NAIGCWDPDGPYTPENFE 224 (287)
T ss_dssp EE---SECEEEEETTTEEEEEECCC-------------------------------------TEEEEEETTTSB-GCCEE
T ss_pred cccCCCCceEEECCCCcEEEecCCC-------------------------------------CeEEEEeCCCCcCccchh
Confidence 3555678999999999999988753 2288889888 555
Q ss_pred EEEECCCCCcccceEEEEEeC---CEEEEecCC
Q 042294 92 EVLEDPRGVVMKLVSEVKEAQ---GKLWIGTVA 121 (131)
Q Consensus 92 ~~l~d~~g~~~~~is~v~~~~---g~LylGS~~ 121 (131)
...+|+. .+...+++.... |+||+-|-.
T Consensus 225 ~l~~d~~--~l~~pd~~~i~~~~~g~L~v~snr 255 (287)
T PF03022_consen 225 ILAQDPR--TLQWPDGLKIDPEGDGYLWVLSNR 255 (287)
T ss_dssp EEEE-CC---GSSEEEEEE-T--TS-EEEEE-S
T ss_pred eeEEcCc--eeeccceeeeccccCceEEEEECc
Confidence 5668864 356788888865 999997643
No 15
>PF06977 SdiA-regulated: SdiA-regulated; InterPro: IPR009722 This entry represents a conserved region approximately 100 residues long within a number of hypothetical bacterial proteins that may be regulated by SdiA, a member of the LuxR family of transcriptional regulators []. Some proteins contain the IPR001258 from INTERPRO repeat.; PDB: 3QQZ_A.
Probab=84.03 E-value=3.2 Score=32.10 Aligned_cols=43 Identities=16% Similarity=0.264 Sum_probs=26.9
Q ss_pred eEEEEEEcCCCeEEEEEECCCC-----CcccceEEEEE-eCCEEEEecC
Q 042294 78 YTVISLFNENGEILEVLEDPRG-----VVMKLVSEVKE-AQGKLWIGTV 120 (131)
Q Consensus 78 ~~~v~~v~~~G~i~~~l~d~~g-----~~~~~is~v~~-~~g~LylGS~ 120 (131)
..+++++|.+|+++..+.-..| +.++..-+|+. .+|+||+.|=
T Consensus 192 s~~l~~~d~~G~~~~~~~L~~g~~gl~~~~~QpEGIa~d~~G~LYIvsE 240 (248)
T PF06977_consen 192 SRLLLELDRQGRVVSSLSLDRGFHGLSKDIPQPEGIAFDPDGNLYIVSE 240 (248)
T ss_dssp TTEEEEE-TT--EEEEEE-STTGGG-SS---SEEEEEE-TT--EEEEET
T ss_pred CCeEEEECCCCCEEEEEEeCCcccCcccccCCccEEEECCCCCEEEEcC
Confidence 4568999999999999886654 34677888888 4699999983
No 16
>PF05787 DUF839: Bacterial protein of unknown function (DUF839); InterPro: IPR008557 This family consists of bacterial proteins of unknown function.
Probab=80.25 E-value=1.3 Score=37.85 Aligned_cols=82 Identities=17% Similarity=0.311 Sum_probs=44.4
Q ss_pred CCCceeecCCCCEEEEeecCCchHHHHhhcCHHHHHHHHhcChhhhhhhhhcCCcceEE-EEEEc-CCCeEEEEEECCCC
Q 042294 22 FPDNVRINERGQFWVAIDCCRTAAQEVLSHNPWIRSIYFRLPIRMSFLARVMGMKMYTV-ISLFN-ENGEILEVLEDPRG 99 (131)
Q Consensus 22 ~PDNI~~~~~G~~Wval~~~r~~~~~~l~~~P~lRk~~~~lp~~~~~~~~~~~~~~~~~-v~~v~-~~G~i~~~l~d~~g 99 (131)
.||||.+|++|++||+--..-.... ++...+... .+ .+. ...|. +..-+ ..|++.+.+..|.|
T Consensus 437 sPDNL~~d~~G~LwI~eD~~~~~~~-----------l~g~t~~G~-~~-~~~--~~~G~~~~~~~~~~g~~~rf~~~P~g 501 (524)
T PF05787_consen 437 SPDNLAFDPDGNLWIQEDGGGSNNN-----------LPGVTPDGE-VY-DFA--RNDGNNVWAYDPDTGELKRFLVGPNG 501 (524)
T ss_pred CCCceEECCCCCEEEEeCCCCCCcc-----------cccccccCc-ee-eee--ecccceeeeccccccceeeeccCCCC
Confidence 7999999999999999654321100 111111100 00 000 00010 22223 45888888888886
Q ss_pred CcccceEEEEEe--CCEEEEecCCC
Q 042294 100 VVMKLVSEVKEA--QGKLWIGTVAH 122 (131)
Q Consensus 100 ~~~~~is~v~~~--~g~LylGS~~~ 122 (131)
..+|++++. +.+||+ ++.+
T Consensus 502 ---aE~tG~~fspDg~tlFv-niQH 522 (524)
T PF05787_consen 502 ---AEITGPCFSPDGRTLFV-NIQH 522 (524)
T ss_pred ---cccccceECCCCCEEEE-EEeC
Confidence 467888885 566776 4443
No 17
>PRK11028 6-phosphogluconolactonase; Provisional
Probab=80.15 E-value=25 Score=27.21 Aligned_cols=19 Identities=16% Similarity=0.132 Sum_probs=11.2
Q ss_pred eCCEEEEecCCCCeEEEee
Q 042294 111 AQGKLWIGTVAHNHIATLP 129 (131)
Q Consensus 111 ~~g~LylGS~~~~~i~~~~ 129 (131)
.+.+||.++-..+.|.+++
T Consensus 284 dg~~l~va~~~~~~v~v~~ 302 (330)
T PRK11028 284 SGKYLIAAGQKSHHISVYE 302 (330)
T ss_pred CCCEEEEEEccCCcEEEEE
Confidence 3456666665566666554
No 18
>PLN02919 haloacid dehalogenase-like hydrolase family protein
Probab=79.82 E-value=16 Score=33.91 Aligned_cols=28 Identities=14% Similarity=0.243 Sum_probs=21.7
Q ss_pred cceEEEEE-eCCEEEEecCCCCeEEEeeC
Q 042294 103 KLVSEVKE-AQGKLWIGTVAHNHIATLPY 130 (131)
Q Consensus 103 ~~is~v~~-~~g~LylGS~~~~~i~~~~l 130 (131)
...+++.. .+|+||+..-.++.|-++++
T Consensus 859 ~~P~GIavd~dG~lyVaDt~Nn~Irvid~ 887 (1057)
T PLN02919 859 SEPAGLALGENGRLFVADTNNSLIRYLDL 887 (1057)
T ss_pred CCceEEEEeCCCCEEEEECCCCEEEEEEC
Confidence 34566666 46889999999999988875
No 19
>COG4257 Vgb Streptogramin lyase [Defense mechanisms]
Probab=78.55 E-value=20 Score=28.80 Aligned_cols=31 Identities=26% Similarity=0.499 Sum_probs=26.4
Q ss_pred CCCCceeEee-eCCcCCCceeecCCCCEEEEe
Q 042294 8 PKTGTVELVA-NLPGFPDNVRINERGQFWVAI 38 (131)
Q Consensus 8 ~k~G~~e~f~-~LPG~PDNI~~~~~G~~Wval 38 (131)
|++|+.|.+. .-.--|-.|..++||..||.=
T Consensus 90 P~tGev~~ypLg~Ga~Phgiv~gpdg~~Witd 121 (353)
T COG4257 90 PATGEVETYPLGSGASPHGIVVGPDGSAWITD 121 (353)
T ss_pred CCCCceEEEecCCCCCCceEEECCCCCeeEec
Confidence 6899999986 555689999999999999963
No 20
>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=78.43 E-value=25 Score=28.20 Aligned_cols=88 Identities=14% Similarity=0.152 Sum_probs=50.3
Q ss_pred CCceeEee-eCCc-------CCCceeecCCCCEEEEeecCCchHHHHhhcCHHHHHHHHhcChhhhhhhhhcCCcceEEE
Q 042294 10 TGTVELVA-NLPG-------FPDNVRINERGQFWVAIDCCRTAAQEVLSHNPWIRSIYFRLPIRMSFLARVMGMKMYTVI 81 (131)
Q Consensus 10 ~G~~e~f~-~LPG-------~PDNI~~~~~G~~Wval~~~r~~~~~~l~~~P~lRk~~~~lp~~~~~~~~~~~~~~~~~v 81 (131)
.|+.|+++ .+++ .+.++..++||.+|++..+.-+... ..|. .+.. . .....+.+
T Consensus 105 d~~~~~l~~~~~~~~~~~~~~~~~l~~gpDG~LYv~~G~~~~~~~----~~~~-------~~~~-~------~~~~~g~i 166 (367)
T TIGR02604 105 DGEREVLLSGFGGQINNHHHSLNSLAWGPDGWLYFNHGNTLASKV----TRPG-------TSDE-S------RQGLGGGL 166 (367)
T ss_pred CCccEEEEEccCCCCCcccccccCceECCCCCEEEecccCCCcee----ccCC-------CccC-c------ccccCceE
Confidence 35788887 5654 2678999999999998875311100 0000 0000 0 01234679
Q ss_pred EEEcCCCeEEEEEECCCCCcccceEEEEE-eCCEEEEec
Q 042294 82 SLFNENGEILEVLEDPRGVVMKLVSEVKE-AQGKLWIGT 119 (131)
Q Consensus 82 ~~v~~~G~i~~~l~d~~g~~~~~is~v~~-~~g~LylGS 119 (131)
++++++|..++.+.. |- ...-.+.+ ..|.||+..
T Consensus 167 ~r~~pdg~~~e~~a~--G~--rnp~Gl~~d~~G~l~~td 201 (367)
T TIGR02604 167 FRYNPDGGKLRVVAH--GF--QNPYGHSVDSWGDVFFCD 201 (367)
T ss_pred EEEecCCCeEEEEec--Cc--CCCccceECCCCCEEEEc
Confidence 999998887777653 32 33334444 357787754
No 21
>PF06977 SdiA-regulated: SdiA-regulated; InterPro: IPR009722 This entry represents a conserved region approximately 100 residues long within a number of hypothetical bacterial proteins that may be regulated by SdiA, a member of the LuxR family of transcriptional regulators []. Some proteins contain the IPR001258 from INTERPRO repeat.; PDB: 3QQZ_A.
Probab=75.23 E-value=33 Score=26.54 Aligned_cols=48 Identities=10% Similarity=0.167 Sum_probs=27.8
Q ss_pred EEEEEEcCCCeEEEEEECCCCCcccceEEEEE-eCCEEEEecCCCCeEEEee
Q 042294 79 TVISLFNENGEILEVLEDPRGVVMKLVSEVKE-AQGKLWIGTVAHNHIATLP 129 (131)
Q Consensus 79 ~~v~~v~~~G~i~~~l~d~~g~~~~~is~v~~-~~g~LylGS~~~~~i~~~~ 129 (131)
+.++++|.+|++++.+.-. | +.-.-+|+. .++++.+.+=...-+-+++
T Consensus 44 ~~i~els~~G~vlr~i~l~-g--~~D~EgI~y~g~~~~vl~~Er~~~L~~~~ 92 (248)
T PF06977_consen 44 GEIYELSLDGKVLRRIPLD-G--FGDYEGITYLGNGRYVLSEERDQRLYIFT 92 (248)
T ss_dssp TEEEEEETT--EEEEEE-S-S---SSEEEEEE-STTEEEEEETTTTEEEEEE
T ss_pred CEEEEEcCCCCEEEEEeCC-C--CCCceeEEEECCCEEEEEEcCCCcEEEEE
Confidence 4489999999999998753 3 234455555 4577777664444444443
No 22
>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=72.98 E-value=36 Score=27.36 Aligned_cols=28 Identities=43% Similarity=0.621 Sum_probs=22.1
Q ss_pred ceeEee-e-CCcCCCceeecCCCCEEEEee
Q 042294 12 TVELVA-N-LPGFPDNVRINERGQFWVAID 39 (131)
Q Consensus 12 ~~e~f~-~-LPG~PDNI~~~~~G~~Wval~ 39 (131)
+.|.|+ + +=..|-.|..|++|++||+-.
T Consensus 3 ~~~l~A~~p~~~~P~~ia~d~~G~l~V~e~ 32 (367)
T TIGR02604 3 KVTLFAAEPLLRNPIAVCFDERGRLWVAEG 32 (367)
T ss_pred EEEEEECCCccCCCceeeECCCCCEEEEeC
Confidence 357788 3 225799999999999999864
No 23
>PF03088 Str_synth: Strictosidine synthase; InterPro: IPR018119 This entry represents a conserved region found in strictosidine synthase (4.3.3.2 from EC), a key enzyme in alkaloid biosynthesis. It catalyses the Pictet-Spengler stereospecific condensation of tryptamine with secologanin to form strictosidine []. The structure of the native enzyme from the Indian medicinal plant Rauvolfia serpentina (Serpentwood) (Devilpepper) represents the first example of a six-bladed four-stranded beta-propeller fold from the plant kingdom [].; GO: 0016844 strictosidine synthase activity, 0009058 biosynthetic process; PDB: 2FPB_A 2V91_B 2FP8_A 3V1S_B 2FPC_A 2VAQ_A 2FP9_B.
Probab=70.00 E-value=27 Score=22.71 Aligned_cols=83 Identities=8% Similarity=0.127 Sum_probs=48.8
Q ss_pred CceeecCC-CCEEEEeecCCchHHHHhhcCHHHHHHHHhcChhhhhhhhhcCCcceEEEEEEcCCCeEEEEEECCCCCcc
Q 042294 24 DNVRINER-GQFWVAIDCCRTAAQEVLSHNPWIRSIYFRLPIRMSFLARVMGMKMYTVISLFNENGEILEVLEDPRGVVM 102 (131)
Q Consensus 24 DNI~~~~~-G~~Wval~~~r~~~~~~l~~~P~lRk~~~~lp~~~~~~~~~~~~~~~~~v~~v~~~G~i~~~l~d~~g~~~ 102 (131)
|.+..+++ |.++..-.+.|-...+++ .-++ . ..+.|.++++|+..+.++.+-|. +
T Consensus 1 ndldv~~~~g~vYfTdsS~~~~~~~~~------~~~l-------------e-~~~~GRll~ydp~t~~~~vl~~~----L 56 (89)
T PF03088_consen 1 NDLDVDQDTGTVYFTDSSSRYDRRDWV------YDLL-------------E-GRPTGRLLRYDPSTKETTVLLDG----L 56 (89)
T ss_dssp -EEEE-TTT--EEEEES-SS--TTGHH------HHHH-------------H-T---EEEEEEETTTTEEEEEEEE----E
T ss_pred CceeEecCCCEEEEEeCccccCcccee------eeee-------------c-CCCCcCEEEEECCCCeEEEehhC----C
Confidence 45778888 899999888765433332 1111 1 35789999999988888777663 3
Q ss_pred cceEEEEEe--CCEEEEecCCCCeEEEeeC
Q 042294 103 KLVSEVKEA--QGKLWIGTVAHNHIATLPY 130 (131)
Q Consensus 103 ~~is~v~~~--~g~LylGS~~~~~i~~~~l 130 (131)
....+|+.. +..|.+.--....|.|+=|
T Consensus 57 ~fpNGVals~d~~~vlv~Et~~~Ri~rywl 86 (89)
T PF03088_consen 57 YFPNGVALSPDESFVLVAETGRYRILRYWL 86 (89)
T ss_dssp SSEEEEEE-TTSSEEEEEEGGGTEEEEEES
T ss_pred CccCeEEEcCCCCEEEEEeccCceEEEEEE
Confidence 456677664 4568888777777776643
No 24
>COG3292 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]
Probab=69.45 E-value=8.7 Score=33.55 Aligned_cols=33 Identities=27% Similarity=0.748 Sum_probs=23.1
Q ss_pred CCCeEEEEEECCCCCcccceEEEEE-eCCEEEEecCC
Q 042294 86 ENGEILEVLEDPRGVVMKLVSEVKE-AQGKLWIGTVA 121 (131)
Q Consensus 86 ~~G~i~~~l~d~~g~~~~~is~v~~-~~g~LylGS~~ 121 (131)
..|.++.+.+.-.|+ .||.+++ .+|+||+||..
T Consensus 362 stG~~v~sv~q~Rg~---nit~~~~d~~g~lWlgs~q 395 (671)
T COG3292 362 STGELVRSVHQLRGM---NITTTLEDSRGRLWLGSMQ 395 (671)
T ss_pred CCCcEEEEeeecccc---ccchhhhccCCcEEEEecc
Confidence 568888885544554 4455555 48999999976
No 25
>COG2088 SpoVG Uncharacterized protein, involved in the regulation of septum location [Cell envelope biogenesis, outer membrane]
Probab=64.70 E-value=8.8 Score=25.27 Aligned_cols=33 Identities=18% Similarity=0.166 Sum_probs=24.6
Q ss_pred ecCCCCEEEEeecCCch---HHHHhhcC-HHHHHHHH
Q 042294 28 INERGQFWVAIDCCRTA---AQEVLSHN-PWIRSIYF 60 (131)
Q Consensus 28 ~~~~G~~Wval~~~r~~---~~~~l~~~-P~lRk~~~ 60 (131)
.+++-++|||+++.|.+ +.|..|+- +..|+-+.
T Consensus 37 i~G~~GlfVAMPSrrt~dgEFrDI~HPI~~~~R~kIq 73 (95)
T COG2088 37 IEGNNGLFVAMPSRRTPDGEFRDIAHPINSDTREKIQ 73 (95)
T ss_pred EeCCcceEEEccCccCCCcchhhccCcCCHHHHHHHH
Confidence 45667899999999986 56777774 67776554
No 26
>PHA02865 MHC-like TNF binding protein; Provisional
Probab=63.94 E-value=6.4 Score=31.99 Aligned_cols=24 Identities=25% Similarity=0.487 Sum_probs=19.5
Q ss_pred eCCcCCCceeecCCC-CE--EEEeecC
Q 042294 18 NLPGFPDNVRINERG-QF--WVAIDCC 41 (131)
Q Consensus 18 ~LPG~PDNI~~~~~G-~~--Wval~~~ 41 (131)
.-||||-|++.|.|| +| |+++..+
T Consensus 263 ge~~~~~~~~pn~DggTfQ~~~~v~v~ 289 (338)
T PHA02865 263 GEPGFPTNTKKDNDKNTFSSTPSVRVP 289 (338)
T ss_pred cccccccceeeCCCCCeeEEEEEEEeC
Confidence 458999999999995 76 8888643
No 27
>KOG1520 consensus Predicted alkaloid synthase/Surface mucin Hemomucin [General function prediction only]
Probab=62.39 E-value=28 Score=28.73 Aligned_cols=67 Identities=22% Similarity=0.446 Sum_probs=45.7
Q ss_pred eCCcCCCceeecCCC-CEEEEeecCCchHHHHhhcCHHHHHHHHhcChhhhhhhhhcCCcceEEEEEEcCCCeEEEEEEC
Q 042294 18 NLPGFPDNVRINERG-QFWVAIDCCRTAAQEVLSHNPWIRSIYFRLPIRMSFLARVMGMKMYTVISLFNENGEILEVLED 96 (131)
Q Consensus 18 ~LPG~PDNI~~~~~G-~~Wval~~~r~~~~~~l~~~P~lRk~~~~lp~~~~~~~~~~~~~~~~~v~~v~~~G~i~~~l~d 96 (131)
++=|-|=+|+++..| .++||=. |-.++.|+++|+..+.+.|
T Consensus 112 ~~CGRPLGl~f~~~ggdL~VaDA--------------------------------------YlGL~~V~p~g~~a~~l~~ 153 (376)
T KOG1520|consen 112 PLCGRPLGIRFDKKGGDLYVADA--------------------------------------YLGLLKVGPEGGLAELLAD 153 (376)
T ss_pred cccCCcceEEeccCCCeEEEEec--------------------------------------ceeeEEECCCCCcceeccc
Confidence 344899999999888 7888632 2228888888888777765
Q ss_pred -CCCCcccceEEEEEe-CCEEEEecCCC
Q 042294 97 -PRGVVMKLVSEVKEA-QGKLWIGTVAH 122 (131)
Q Consensus 97 -~~g~~~~~is~v~~~-~g~LylGS~~~ 122 (131)
.+|+.+...-++... +|.+|+.....
T Consensus 154 ~~~G~~~kf~N~ldI~~~g~vyFTDSSs 181 (376)
T KOG1520|consen 154 EAEGKPFKFLNDLDIDPEGVVYFTDSSS 181 (376)
T ss_pred cccCeeeeecCceeEcCCCeEEEecccc
Confidence 345555554444442 68899886554
No 28
>PF10282 Lactonase: Lactonase, 7-bladed beta-propeller; InterPro: IPR019405 6-phosphogluconolactonases (6PGL) 3.1.1.31 from EC, which hydrolyses 6-phosphogluconolactone to 6-phosphogluconate is opne of the enzymes in the pentose phosphate pathway. Two families of structurally dissimilar 6PGLs are known to exist: the Escherichia coli (strain K12) YbhE IPR022528 from INTERPRO [] and the Pseudomonas aeruginosa DevB IPR005900 from INTERPRO [] types. This entry contains bacterial 6-phosphogluconolactonases (6PGL) YbhE-type 3.1.1.31 from EC which hydrolyse 6-phosphogluconolactone to 6-phosphogluconate. The entry also contains the fungal muconate lactonizing enzyme carboxy-cis,cis-muconate cyclase 5.5.1.5 from EC and muconate cycloisomerase 5.5.1.1 from EC, which convert cis,cis-muconates to muconolactones and vice versa as part of the microbial beta-ketoadipate pathway. Structures have been reported for the E. coli 6-phosphogluconolactonase and Neurospora crassa muconate cycloisomerase. Structures of proteins in this family have revealed a 7-bladed beta-propeller fold [].; PDB: 3SCY_A 1L0Q_A 3HFQ_B 3FGB_A 1RI6_A 3U4Y_A 3BWS_A 1JOF_H.
Probab=58.86 E-value=89 Score=24.70 Aligned_cols=50 Identities=12% Similarity=0.142 Sum_probs=25.1
Q ss_pred EEEEEcC-CCeEEEEEECCCCCcccceEEEEEeCCEEEEecCCCCeEEEee
Q 042294 80 VISLFNE-NGEILEVLEDPRGVVMKLVSEVKEAQGKLWIGTVAHNHIATLP 129 (131)
Q Consensus 80 ~v~~v~~-~G~i~~~l~d~~g~~~~~is~v~~~~g~LylGS~~~~~i~~~~ 129 (131)
.++++|+ +|++...=.-+.+...+.--.+...|.+||.+.-.++-|.+++
T Consensus 270 ~vf~~d~~~g~l~~~~~~~~~G~~Pr~~~~s~~g~~l~Va~~~s~~v~vf~ 320 (345)
T PF10282_consen 270 SVFDLDPATGTLTLVQTVPTGGKFPRHFAFSPDGRYLYVANQDSNTVSVFD 320 (345)
T ss_dssp EEEEECTTTTTEEEEEEEEESSSSEEEEEE-TTSSEEEEEETTTTEEEEEE
T ss_pred EEEEEecCCCceEEEEEEeCCCCCccEEEEeCCCCEEEEEecCCCeEEEEE
Confidence 3667753 4554333222232222322222235677777777777777665
No 29
>TIGR02658 TTQ_MADH_Hv methylamine dehydrogenase heavy chain. This family consists of the heavy chain of methylamine dehydrogenase light chain, a periplasmic enzyme. The enzyme contains a tryptophan tryptophylquinone (TTQ) prothetic group derived from two Trp residues in the light subunity. The enzyme forms a complex with the type I blue copper protein amicyanin and a cytochrome. Electron transfer procedes from TQQ to the copper and then to the heme group of the cytochrome.
Probab=57.27 E-value=1.1e+02 Score=25.05 Aligned_cols=54 Identities=7% Similarity=0.123 Sum_probs=31.3
Q ss_pred ceEEEEEEc-CCCeEEEEEECCCC-----CcccceEEEEEeCCEEEEecCC-CCeEEEeeC
Q 042294 77 MYTVISLFN-ENGEILEVLEDPRG-----VVMKLVSEVKEAQGKLWIGTVA-HNHIATLPY 130 (131)
Q Consensus 77 ~~~~v~~v~-~~G~i~~~l~d~~g-----~~~~~is~v~~~~g~LylGS~~-~~~i~~~~l 130 (131)
....|-.+| .+++++..+.-|.. ...+....+...|.+||+.+.. .+.++++++
T Consensus 75 ~~d~V~v~D~~t~~~~~~i~~p~~p~~~~~~~~~~~~ls~dgk~l~V~n~~p~~~V~VvD~ 135 (352)
T TIGR02658 75 RTDYVEVIDPQTHLPIADIELPEGPRFLVGTYPWMTSLTPDNKTLLFYQFSPSPAVGVVDL 135 (352)
T ss_pred CCCEEEEEECccCcEEeEEccCCCchhhccCccceEEECCCCCEEEEecCCCCCEEEEEEC
Confidence 334455566 46777777765432 1122344444455677777777 777777765
No 30
>PF06739 SBBP: Beta-propeller repeat; InterPro: IPR010620 This family is related to IPR001680 from INTERPRO and is likely to also form a beta-propeller. SBBP stands for Seven Bladed Beta Propeller.
Probab=57.01 E-value=11 Score=20.41 Aligned_cols=19 Identities=11% Similarity=0.405 Sum_probs=16.1
Q ss_pred CCCceeecCCCCEEEEeec
Q 042294 22 FPDNVRINERGQFWVAIDC 40 (131)
Q Consensus 22 ~PDNI~~~~~G~~Wval~~ 40 (131)
++-+|..|++|+++|+-.+
T Consensus 14 ~~~~IavD~~GNiYv~G~T 32 (38)
T PF06739_consen 14 YGNGIAVDSNGNIYVTGYT 32 (38)
T ss_pred eEEEEEECCCCCEEEEEee
Confidence 3678999999999998765
No 31
>cd08033 LARP_6 La RNA-binding domain of La-related protein 6. This domain is found in animal and plant proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=56.70 E-value=10 Score=24.11 Aligned_cols=47 Identities=13% Similarity=0.261 Sum_probs=27.1
Q ss_pred cCCCCEEEEeecCCchHHHHhhcCHHHHHHHHhcChhhhhhhhhcCCcceEEEEEEcCCCeEEE
Q 042294 29 NERGQFWVAIDCCRTAAQEVLSHNPWIRSIYFRLPIRMSFLARVMGMKMYTVISLFNENGEILE 92 (131)
Q Consensus 29 ~~~G~~Wval~~~r~~~~~~l~~~P~lRk~~~~lp~~~~~~~~~~~~~~~~~v~~v~~~G~i~~ 92 (131)
|++| ||.+. .++..+.+|++..-...-... . ..+-+++++++|+-++
T Consensus 30 ~~dG--~Vpl~--------~i~~F~rmk~l~~d~~~I~~A------l-~~S~~lev~~d~~~VR 76 (77)
T cd08033 30 NKEG--YVPIK--------LIASFKKVKALTRDWRVVAAA------L-RRSSKLVVSEDGKKVR 76 (77)
T ss_pred CCCC--cEehH--------HHhcchHHHHHcCCHHHHHHH------H-HhCCeEEEcCCCCccC
Confidence 5566 88765 467778888775422111110 1 1233889999987653
No 32
>PF01502 PRA-CH: Phosphoribosyl-AMP cyclohydrolase; InterPro: IPR002496 Phosphoribosyl-AMP cyclohydrolase 3.5.4.19 from EC catalyses the third step in the histidine biosynthetic pathway: 5-phosphoribosyl-AMP + H2O = 5-(5-phospho-D-ribosylaminoformimino)-1-(5-phospho-ribosyl) imidazole-4-carboxamide It requires Zn2+ ions for activity [].; GO: 0004635 phosphoribosyl-AMP cyclohydrolase activity, 0000105 histidine biosynthetic process; PDB: 1ZPS_B.
Probab=54.37 E-value=36 Score=21.65 Aligned_cols=31 Identities=19% Similarity=0.466 Sum_probs=19.6
Q ss_pred eeeeeCCCCCceeEeeeCCcCCCceeecCCCCEEEEee
Q 042294 2 KYWLEGPKTGTVELVANLPGFPDNVRINERGQFWVAID 39 (131)
Q Consensus 2 rywl~G~k~G~~e~f~~LPG~PDNI~~~~~G~~Wval~ 39 (131)
+.|.||+..|....+.+ |+.|=|+.-.+..+
T Consensus 28 ~lW~KGetSG~~q~v~~-------i~~DCD~D~ll~~V 58 (75)
T PF01502_consen 28 RLWRKGETSGNTQKVVE-------IRLDCDGDALLFKV 58 (75)
T ss_dssp EEEETTTTTS--EEEEE-------EEE-TTSSEEEEEE
T ss_pred cEeeEECCCCCEEEEEE-------EEecCCCCeEEEEE
Confidence 78999999999888775 45565555444433
No 33
>COG3292 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]
Probab=52.45 E-value=12 Score=32.77 Aligned_cols=16 Identities=19% Similarity=0.557 Sum_probs=12.4
Q ss_pred ceeecCCCCEEEEeec
Q 042294 25 NVRINERGQFWVAIDC 40 (131)
Q Consensus 25 NI~~~~~G~~Wval~~ 40 (131)
++..|.+|.+|||...
T Consensus 169 aLv~D~~g~lWvgT~d 184 (671)
T COG3292 169 ALVFDANGRLWVGTPD 184 (671)
T ss_pred eeeeeccCcEEEecCC
Confidence 5667888999998653
No 34
>PF06079 Apyrase: Apyrase; InterPro: IPR009283 This family consists of several eukaryotic apyrase (or adenosine diphosphatase) proteins (3.6.1.5 from EC), and related nucleoside diphosphatases (3.6.1.6 from EC). The salivary apyrases of blood-feeding arthropods are nucleotide hydrolysing enzymes implicated in the inhibition of host platelet aggregation through the hydrolysis of extracellular adenosine diphosphate [].; GO: 0005509 calcium ion binding, 0016462 pyrophosphatase activity; PDB: 2H2N_A 1S18_A 2H2U_A 1S1D_B.
Probab=50.83 E-value=58 Score=25.98 Aligned_cols=48 Identities=15% Similarity=0.210 Sum_probs=28.0
Q ss_pred cceEEEEEEcCCCeEEEE--EECCCCCcccceE--EEEEeCCEEEEecCCCCe
Q 042294 76 KMYTVISLFNENGEILEV--LEDPRGVVMKLVS--EVKEAQGKLWIGTVAHNH 124 (131)
Q Consensus 76 ~~~~~v~~v~~~G~i~~~--l~d~~g~~~~~is--~v~~~~g~LylGS~~~~~ 124 (131)
.+.|+|.++..+ +.+.- |.|-+|..-...- =++..|++||+||+-..+
T Consensus 71 DrTGiVyeI~~~-~~vPwviL~dGdG~~~kGfK~EWaTVKd~~LyvGs~Gkew 122 (291)
T PF06079_consen 71 DRTGIVYEIKGD-KAVPWVILSDGDGNTSKGFKAEWATVKDDKLYVGSIGKEW 122 (291)
T ss_dssp TTT-EEEEEETT-EEEEEEE-BSTTTTESSB----EEEEETTEEEEE--SS-E
T ss_pred CCCceEEEEeCC-ceeceEEEeCCCCCccccccceeeEEeCCeeeeccCCCce
Confidence 356888888765 65554 6776765433322 266789999999987554
No 35
>PF04393 DUF535: Protein of unknown function (DUF535); InterPro: IPR007488 Family member Shigella flexneri VirK (Q99QA5 from SWISSPROT) is a virulence protein required for the expression, or correct membrane localisation of IcsA (VirG) on the bacterial cell surface [, ]. This family also includes Pasteurella haemolytica lapB (P32181 from SWISSPROT), which is thought to be membrane-associated.
Probab=50.56 E-value=36 Score=26.82 Aligned_cols=39 Identities=21% Similarity=0.282 Sum_probs=31.2
Q ss_pred CCCeEEEEEECCCCCcccceEEEEE---eCCEEEEecCCCCe
Q 042294 86 ENGEILEVLEDPRGVVMKLVSEVKE---AQGKLWIGTVAHNH 124 (131)
Q Consensus 86 ~~G~i~~~l~d~~g~~~~~is~v~~---~~g~LylGS~~~~~ 124 (131)
.+|+..-.|.|.+|..+..+|=... .+..||+|++-+|.
T Consensus 123 kEGel~L~L~~~~~~~ly~~tF~~~~~~~~~~l~IG~lQGp~ 164 (288)
T PF04393_consen 123 KEGELSLSLRDEEGQRLYSLTFSFVPQNGENTLFIGGLQGPK 164 (288)
T ss_pred CceeeEEEEEcCCCceEEEEEEEEEccCCCceEEEEeeeCCC
Confidence 5899999999988777766666655 57899999998763
No 36
>KOG0404 consensus Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]
Probab=49.33 E-value=7.9 Score=30.35 Aligned_cols=12 Identities=58% Similarity=1.276 Sum_probs=10.1
Q ss_pred eeeCCcCCCcee
Q 042294 16 VANLPGFPDNVR 27 (131)
Q Consensus 16 f~~LPG~PDNI~ 27 (131)
+.|.|||||+|.
T Consensus 57 veNfPGFPdgi~ 68 (322)
T KOG0404|consen 57 VENFPGFPDGIT 68 (322)
T ss_pred cccCCCCCcccc
Confidence 349999999996
No 37
>PHA02122 hypothetical protein
Probab=47.97 E-value=61 Score=19.55 Aligned_cols=34 Identities=24% Similarity=0.225 Sum_probs=23.4
Q ss_pred EcCCCeEEEEEECCCCCcccceEEEEEeCCEEEEec
Q 042294 84 FNENGEILEVLEDPRGVVMKLVSEVKEAQGKLWIGT 119 (131)
Q Consensus 84 v~~~G~i~~~l~d~~g~~~~~is~v~~~~g~LylGS 119 (131)
-+-+|-|+.|+.|. |.-+ -+---..++|+|++|.
T Consensus 27 ~~~~~iiihs~~~~-gd~v-~vn~e~~~ng~l~i~q 60 (65)
T PHA02122 27 DGCENIIIHSFKDD-GDEV-IVNFELVVNGKLIINQ 60 (65)
T ss_pred CCCCcEEEEeeccC-CCEE-EEEEEEEECCEEEEee
Confidence 35789999999984 4422 2333334889999985
No 38
>PRK11138 outer membrane biogenesis protein BamB; Provisional
Probab=47.05 E-value=84 Score=25.21 Aligned_cols=49 Identities=18% Similarity=0.178 Sum_probs=30.5
Q ss_pred eEEEEEEc-CCCeEEEEEECCCCCcccceEEEEEeCCEEEEecCCCCeEEEeeC
Q 042294 78 YTVISLFN-ENGEILEVLEDPRGVVMKLVSEVKEAQGKLWIGTVAHNHIATLPY 130 (131)
Q Consensus 78 ~~~v~~v~-~~G~i~~~l~d~~g~~~~~is~v~~~~g~LylGS~~~~~i~~~~l 130 (131)
.+.+..+| .+|+++...+-..+. ..++-...+++||+++-.+. +-.+++
T Consensus 344 ~G~l~~ld~~tG~~~~~~~~~~~~---~~s~P~~~~~~l~v~t~~G~-l~~~~~ 393 (394)
T PRK11138 344 EGYLHWINREDGRFVAQQKVDSSG---FLSEPVVADDKLLIQARDGT-VYAITR 393 (394)
T ss_pred CCEEEEEECCCCCEEEEEEcCCCc---ceeCCEEECCEEEEEeCCce-EEEEeC
Confidence 35566677 478888877653222 23455567899999987653 333444
No 39
>PF13570 PQQ_3: PQQ-like domain; PDB: 3HXJ_B 3Q54_A.
Probab=46.66 E-value=45 Score=17.62 Aligned_cols=20 Identities=30% Similarity=0.358 Sum_probs=12.4
Q ss_pred eEEEEEeCCEEEEecCCCCe
Q 042294 105 VSEVKEAQGKLWIGTVAHNH 124 (131)
Q Consensus 105 is~v~~~~g~LylGS~~~~~ 124 (131)
.++....+|+||+++-....
T Consensus 14 ~~~~~v~~g~vyv~~~dg~l 33 (40)
T PF13570_consen 14 WSSPAVAGGRVYVGTGDGNL 33 (40)
T ss_dssp -S--EECTSEEEEE-TTSEE
T ss_pred CcCCEEECCEEEEEcCCCEE
Confidence 36667789999999985543
No 40
>KOG0639 consensus Transducin-like enhancer of split protein (contains WD40 repeats) [Chromatin structure and dynamics]
Probab=46.22 E-value=69 Score=27.90 Aligned_cols=106 Identities=17% Similarity=0.244 Sum_probs=59.4
Q ss_pred CceeEeeeCCcC-CCceeec----CCCC-EEEEeecCCchHHHHhhcCHHHHHHHHh-cChhhhhhhhhcCCc-------
Q 042294 11 GTVELVANLPGF-PDNVRIN----ERGQ-FWVAIDCCRTAAQEVLSHNPWIRSIYFR-LPIRMSFLARVMGMK------- 76 (131)
Q Consensus 11 G~~e~f~~LPG~-PDNI~~~----~~G~-~Wval~~~r~~~~~~l~~~P~lRk~~~~-lp~~~~~~~~~~~~~------- 76 (131)
|.......|+.. +||.-++ +||+ +.|+--...-.+.|+.++.|.++.-+.. -|.- |..-.++.
T Consensus 451 g~k~PvsqLdcl~rdnyiRSckL~pdgrtLivGGeastlsiWDLAapTprikaeltssapaC---yALa~spDakvcFsc 527 (705)
T KOG0639|consen 451 GNKSPVSQLDCLNRDNYIRSCKLLPDGRTLIVGGEASTLSIWDLAAPTPRIKAELTSSAPAC---YALAISPDAKVCFSC 527 (705)
T ss_pred CCCCccccccccCcccceeeeEecCCCceEEeccccceeeeeeccCCCcchhhhcCCcchhh---hhhhcCCccceeeee
Confidence 555555688877 9997664 6775 6666555545677888888887754332 1111 11001111
Q ss_pred -ceEEEEEEc-CCCeEEEEEECCCCCcccceEEEEEe--CCEEEEecCCCC
Q 042294 77 -MYTVISLFN-ENGEILEVLEDPRGVVMKLVSEVKEA--QGKLWIGTVAHN 123 (131)
Q Consensus 77 -~~~~v~~v~-~~G~i~~~l~d~~g~~~~~is~v~~~--~g~LylGS~~~~ 123 (131)
..|-|...| .|-.+++.|+.-+ ..+|.+... |-+||-|.+.+.
T Consensus 528 csdGnI~vwDLhnq~~VrqfqGht----DGascIdis~dGtklWTGGlDnt 574 (705)
T KOG0639|consen 528 CSDGNIAVWDLHNQTLVRQFQGHT----DGASCIDISKDGTKLWTGGLDNT 574 (705)
T ss_pred ccCCcEEEEEcccceeeecccCCC----CCceeEEecCCCceeecCCCccc
Confidence 123233334 2344455565533 345677664 678999988763
No 41
>COG3204 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=44.44 E-value=49 Score=26.66 Aligned_cols=46 Identities=17% Similarity=0.267 Sum_probs=31.2
Q ss_pred ceEEEEEEcCCCeEEEEEECCCCC-----cccceEEEEE-eCCEEEEecCCC
Q 042294 77 MYTVISLFNENGEILEVLEDPRGV-----VMKLVSEVKE-AQGKLWIGTVAH 122 (131)
Q Consensus 77 ~~~~v~~v~~~G~i~~~l~d~~g~-----~~~~is~v~~-~~g~LylGS~~~ 122 (131)
...+++++|.+|++++.|.-..|. .++...+|+- .+|.||+-|=-+
T Consensus 253 ESr~l~Evd~~G~~~~~lsL~~g~~gL~~dipqaEGiamDd~g~lYIvSEPn 304 (316)
T COG3204 253 ESRRLLEVDLSGEVIELLSLTKGNHGLSSDIPQAEGIAMDDDGNLYIVSEPN 304 (316)
T ss_pred CCceEEEEecCCCeeeeEEeccCCCCCcccCCCcceeEECCCCCEEEEecCC
Confidence 457799999999998887554443 2344445554 459999987433
No 42
>PF01599 Ribosomal_S27: Ribosomal protein S27a; InterPro: IPR002906 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family of ribosomal proteins consists mainly of the 40S ribosomal protein S27a which is synthesized as a C-terminal extension of ubiquitin (CEP) (IPR000626 from INTERPRO). The S27a domain compromises the C-terminal half of the protein. The synthesis of ribosomal proteins as extensions of ubiquitin promotes their incorporation into nascent ribosomes by a transient metabolic stabilisation and is required for efficient ribosome biogenesis []. The ribosomal extension protein S27a contains a basic region that is proposed to form a zinc finger; its fusion gene is proposed as a mechanism to maintain a fixed ratio between ubiquitin necessary for degrading proteins and ribosomes a source of proteins [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2K4X_A 3U5C_f 3U5G_f 2XZN_9 2XZM_9.
Probab=43.77 E-value=34 Score=19.77 Aligned_cols=37 Identities=16% Similarity=0.189 Sum_probs=22.2
Q ss_pred EEEcCCCeEEEEEE-CCCCCcccceEEEEEeCCEEEEec
Q 042294 82 SLFNENGEILEVLE-DPRGVVMKLVSEVKEAQGKLWIGT 119 (131)
Q Consensus 82 ~~v~~~G~i~~~l~-d~~g~~~~~is~v~~~~g~LylGS 119 (131)
.++|.+|+|.+.-. =|. .....-.=+.+|.++.|.|.
T Consensus 6 Ykvd~~Gkv~r~rk~CP~-~~CG~GvFMA~H~dR~~CGK 43 (47)
T PF01599_consen 6 YKVDENGKVKRLRKECPS-PRCGAGVFMAEHKDRHYCGK 43 (47)
T ss_dssp CEEETTTEEEESSEE-TS-TTTTSSSEEEE-SSEEEETT
T ss_pred EEECCCCcEEEhhhcCCC-cccCCceEeeecCCCccCCC
Confidence 47889999876533 231 12233335678888999874
No 43
>PF10460 Peptidase_M30: Peptidase M30; InterPro: IPR019501 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. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This family contains metallopeptidases belonging to MEROPS peptidase family M30 (hyicolysin family, clan MA). Hyicolysin has a zinc ion which is liganded by two histidine and one glutamate residue.
Probab=43.36 E-value=25 Score=28.94 Aligned_cols=57 Identities=16% Similarity=0.157 Sum_probs=42.6
Q ss_pred CCCEEEEeecCCchHHHHhhcCHHHHHHHHhcChhhhhhhhhcCCcceEEEEEEcCCCeEEEEEECCCCCcc
Q 042294 31 RGQFWVAIDCCRTAAQEVLSHNPWIRSIYFRLPIRMSFLARVMGMKMYTVISLFNENGEILEVLEDPRGVVM 102 (131)
Q Consensus 31 ~G~~Wval~~~r~~~~~~l~~~P~lRk~~~~lp~~~~~~~~~~~~~~~~~v~~v~~~G~i~~~l~d~~g~~~ 102 (131)
+|.|-.....+ ..++.+|++-..+|..+.++.. -.|++=+..|.--|.+.-|.|..+
T Consensus 305 d~~f~lp~i~~--------~~~~~~r~l~~~~P~~l~~~~~-------~p~~~~~~~g~y~~~~~vp~~~~l 361 (366)
T PF10460_consen 305 DGGFTLPAIDP--------QAYAALRSLPSTVPATLQPYGS-------FPVVRQDVSGTYSETVRVPAGTTL 361 (366)
T ss_pred cCceeccccCc--------hhcccccccccccchhhccccc-------ceeEecCCCceeeeeEecCCCCeE
Confidence 67777666654 2468889998999988776433 236777889999999999998754
No 44
>cd06481 ACD_HspB9_like Alpha crystallin domain (ACD) found in mammalian small heat shock protein (sHsp) HspB9 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. Human (h) HspB9 is expressed exclusively in the normal testis and in various tumor samples and is a cancer/testis antigen. hHspB9 interacts with TCTEL1 (T-complex testis expressed protein -1), a subunit of dynein. hHspB9 and TCTEL1 are co-expressed in similar cells within the testis and in tumor cells. Included in this group is Xenopus Hsp30, a developmentally-regulated heat-inducible molecular chaperone.
Probab=42.67 E-value=22 Score=22.75 Aligned_cols=25 Identities=24% Similarity=0.599 Sum_probs=17.9
Q ss_pred eeEeeeCCcC-CCceeecCCCC-EEEE
Q 042294 13 VELVANLPGF-PDNVRINERGQ-FWVA 37 (131)
Q Consensus 13 ~e~f~~LPG~-PDNI~~~~~G~-~Wva 37 (131)
.++-++|||| ||+|...-+++ +.|.
T Consensus 9 ~~v~~dlpG~~~edI~V~v~~~~L~I~ 35 (87)
T cd06481 9 FSLKLDVRGFSPEDLSVRVDGRKLVVT 35 (87)
T ss_pred EEEEEECCCCChHHeEEEEECCEEEEE
Confidence 3444599998 99999986554 5553
No 45
>PTZ00486 apyrase Superfamily; Provisional
Probab=41.81 E-value=1.1e+02 Score=25.09 Aligned_cols=48 Identities=15% Similarity=0.192 Sum_probs=30.0
Q ss_pred cceEEEEEEcCCC-eEEEE--EECCCCCcccc--eEEEEEeCCEEEEecCCCC
Q 042294 76 KMYTVISLFNENG-EILEV--LEDPRGVVMKL--VSEVKEAQGKLWIGTVAHN 123 (131)
Q Consensus 76 ~~~~~v~~v~~~G-~i~~~--l~d~~g~~~~~--is~v~~~~g~LylGS~~~~ 123 (131)
.+.|+|.+++.++ +.+.- |.|-+|..-.. .-=++..+++||+||.-..
T Consensus 132 DrTGiVy~i~~~~~~~~PwvIL~dGdG~~~kGfK~EWaTVKd~~LyVGs~Gke 184 (352)
T PTZ00486 132 DRTGIVYEIDIDKKKAYPRHILSDGNGNSDKGMKIEWATVYDDKLYVGSIGKE 184 (352)
T ss_pred CCceEEEEEEcCCCcEeeEEEEecCCCCCCCCcceeeEEEECCEEEEecccce
Confidence 3568899998544 33332 66666642221 2225568999999998744
No 46
>PF13449 Phytase-like: Esterase-like activity of phytase
Probab=41.77 E-value=47 Score=26.30 Aligned_cols=17 Identities=18% Similarity=0.655 Sum_probs=13.8
Q ss_pred ceeecCCCCEEEEeecC
Q 042294 25 NVRINERGQFWVAIDCC 41 (131)
Q Consensus 25 NI~~~~~G~~Wval~~~ 41 (131)
.|+++++|.|||+.-..
T Consensus 89 gi~~~~~g~~~is~E~~ 105 (326)
T PF13449_consen 89 GIAVPPDGSFWISSEGG 105 (326)
T ss_pred HeEEecCCCEEEEeCCc
Confidence 78888899999987554
No 47
>PF03022 MRJP: Major royal jelly protein; InterPro: IPR003534 The major royal jelly proteins (MRJPs) comprise 12.5% of the mass, and 82-90% of the protein content [], of honeybee (Apis mellifera) royal jelly. Royal jelly is a substance secreted by the cephalic glands of nurse bees [] and it is used to trigger development of a queen bee from a bee larva. The biological function of the MRJPs is unknown, but they are believed to play a major role in nutrition due to their high essential amino acid content []. Two royal jelly proteins, MRJP3 and MRJP5, contain a tandem repeat that results from a high genetic variablility. This polymorphism may be useful for genotyping individual bees [].; PDB: 3Q6P_B 3Q6K_A 3Q6T_A 2QE8_B.
Probab=41.27 E-value=1.7e+02 Score=22.83 Aligned_cols=52 Identities=8% Similarity=0.170 Sum_probs=36.1
Q ss_pred EEEEEEc-CCCeEEEEEECCCCC--cccceEEEEEeC-------CEEEEecCCCCeEEEeeC
Q 042294 79 TVISLFN-ENGEILEVLEDPRGV--VMKLVSEVKEAQ-------GKLWIGTVAHNHIATLPY 130 (131)
Q Consensus 79 ~~v~~v~-~~G~i~~~l~d~~g~--~~~~is~v~~~~-------g~LylGS~~~~~i~~~~l 130 (131)
..++.+| .++++++.++=|..- .-+.+..+.... ++.|+.-...+.|-++++
T Consensus 34 pKLv~~Dl~t~~li~~~~~p~~~~~~~s~lndl~VD~~~~~~~~~~aYItD~~~~glIV~dl 95 (287)
T PF03022_consen 34 PKLVAFDLKTNQLIRRYPFPPDIAPPDSFLNDLVVDVRDGNCDDGFAYITDSGGPGLIVYDL 95 (287)
T ss_dssp -EEEEEETTTTCEEEEEE--CCCS-TCGGEEEEEEECTTTTS-SEEEEEEETTTCEEEEEET
T ss_pred cEEEEEECCCCcEEEEEECChHHcccccccceEEEEccCCCCcceEEEEeCCCcCcEEEEEc
Confidence 4578888 468899998755322 124667766644 689999999999888876
No 48
>cd08035 LARP_4 La RNA-binding domain of La-related protein 4. This domain is found in vertebrate La-related protein 4 (LARP4), also known as c-MPL binding protein. La-type domains often co-occur with RNA-recognition motifs (RRMs). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=41.20 E-value=29 Score=22.03 Aligned_cols=47 Identities=13% Similarity=0.220 Sum_probs=25.5
Q ss_pred cCCCCEEEEeecCCchHHHHhhcCHHHHHHHHhcChhhhhhhhhcCCcceEEEEEEcCCCeEEE
Q 042294 29 NERGQFWVAIDCCRTAAQEVLSHNPWIRSIYFRLPIRMSFLARVMGMKMYTVISLFNENGEILE 92 (131)
Q Consensus 29 ~~~G~~Wval~~~r~~~~~~l~~~P~lRk~~~~lp~~~~~~~~~~~~~~~~~v~~v~~~G~i~~ 92 (131)
|++| ||.+. .++....++++..-+ ..+. ...+. +-.+++|++|+-++
T Consensus 28 d~~G--~Vpi~--------~iasF~rik~lt~d~----~~I~--~AL~~-S~~levsedg~kVR 74 (75)
T cd08035 28 DSDQ--FVPIW--------TVANMEGIKKLTTDM----DLIL--DVLRS-SPMVQVDETGEKVR 74 (75)
T ss_pred CcCC--CEehH--------HHhccHHHHHhcCCH----HHHH--HHHHc-CCeEEEcCCCCccC
Confidence 5677 88874 456666666663211 1100 00112 33789999997553
No 49
>PF13360 PQQ_2: PQQ-like domain; PDB: 3HXJ_B 1YIQ_A 1KV9_A 3Q54_A 2YH3_A 3PRW_A 3P1L_A 3Q7M_A 3Q7O_A 3Q7N_A ....
Probab=39.92 E-value=1.4e+02 Score=21.41 Aligned_cols=50 Identities=8% Similarity=0.059 Sum_probs=32.4
Q ss_pred eEEEEEEc-CCCeEEEEEECCCCCcccc-------eEEEEEeCCEEEEecCCCCeEEE
Q 042294 78 YTVISLFN-ENGEILEVLEDPRGVVMKL-------VSEVKEAQGKLWIGTVAHNHIAT 127 (131)
Q Consensus 78 ~~~v~~v~-~~G~i~~~l~d~~g~~~~~-------is~v~~~~g~LylGS~~~~~i~~ 127 (131)
.+.+..+| .+|+++-.++-........ .+.+...++++|+++-....+..
T Consensus 131 ~g~l~~~d~~tG~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~g~~~~~ 188 (238)
T PF13360_consen 131 SGKLVALDPKTGKLLWKYPVGEPRGSSPISSFSDINGSPVISDGRVYVSSGDGRVVAV 188 (238)
T ss_dssp CSEEEEEETTTTEEEEEEESSTT-SS--EEEETTEEEEEECCTTEEEEECCTSSEEEE
T ss_pred cCcEEEEecCCCcEEEEeecCCCCCCcceeeecccccceEEECCEEEEEcCCCeEEEE
Confidence 46688889 6799999987644221111 24555567899999887764443
No 50
>PLN02919 haloacid dehalogenase-like hydrolase family protein
Probab=39.68 E-value=1.4e+02 Score=27.87 Aligned_cols=23 Identities=9% Similarity=0.328 Sum_probs=18.0
Q ss_pred eCCcCCCceeecCCCCEEEEeec
Q 042294 18 NLPGFPDNVRINERGQFWVAIDC 40 (131)
Q Consensus 18 ~LPG~PDNI~~~~~G~~Wval~~ 40 (131)
+..|.|-++-+|++|.+---+.+
T Consensus 499 ~V~~iPt~ilid~~G~iv~~~~G 521 (1057)
T PLN02919 499 GVSSWPTFAVVSPNGKLIAQLSG 521 (1057)
T ss_pred CCCccceEEEECCCCeEEEEEec
Confidence 56799999999999987544444
No 51
>TIGR02276 beta_rpt_yvtn 40-residue YVTN family beta-propeller repeat. This repeat of about 40 amino acids is found in up to 14 copies per protein. Archaea Methanosarcina mazei and Methanosarcina acetivorans each have over 10 genes that encode tandem copies of this repeat, which is also found in other species. PSIPRED predicts with high confidence that each 40-residue repeats contains four beta strands. This model overlaps somewhat with the NHL repeat (Pfam pfam01436) and also shows sequence similarity to the WD domain, G-beta repeat (Pfam pfam00400).
Probab=39.55 E-value=57 Score=16.85 Aligned_cols=18 Identities=17% Similarity=0.386 Sum_probs=11.4
Q ss_pred CCEEEEecCCCCeEEEee
Q 042294 112 QGKLWIGTVAHNHIATLP 129 (131)
Q Consensus 112 ~g~LylGS~~~~~i~~~~ 129 (131)
+++||+.+...+.|..++
T Consensus 3 ~~~lyv~~~~~~~v~~id 20 (42)
T TIGR02276 3 GTKLYVTNSGSNTVSVID 20 (42)
T ss_pred CCEEEEEeCCCCEEEEEE
Confidence 355676666666666665
No 52
>COG2133 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]
Probab=38.35 E-value=69 Score=26.70 Aligned_cols=33 Identities=9% Similarity=0.171 Sum_probs=24.6
Q ss_pred CceeEeeeCCcCC----CceeecCCCCEEEEeecCCc
Q 042294 11 GTVELVANLPGFP----DNVRINERGQFWVAIDCCRT 43 (131)
Q Consensus 11 G~~e~f~~LPG~P----DNI~~~~~G~~Wval~~~r~ 43 (131)
+..++|.++|+.+ -.|.+++||.++|++-+.-+
T Consensus 163 ~~~~i~~~lP~~~~H~g~~l~f~pDG~Lyvs~G~~~~ 199 (399)
T COG2133 163 EPKVIFRGIPKGGHHFGGRLVFGPDGKLYVTTGSNGD 199 (399)
T ss_pred cccEEeecCCCCCCcCcccEEECCCCcEEEEeCCCCC
Confidence 4455666899644 67889999999999876533
No 53
>cd08030 LA_like_plant La-motif domain of plant proteins similar to the La autoantigen. This domain is found in plant proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=37.44 E-value=27 Score=22.91 Aligned_cols=52 Identities=13% Similarity=0.165 Sum_probs=28.4
Q ss_pred eecCCCCEEEEeecCCchHHHHhhcCHHHHHHHHhc-------Chh-hhhhhhhcCCcceEEEEEEcCCCeEE
Q 042294 27 RINERGQFWVAIDCCRTAAQEVLSHNPWIRSIYFRL-------PIR-MSFLARVMGMKMYTVISLFNENGEIL 91 (131)
Q Consensus 27 ~~~~~G~~Wval~~~r~~~~~~l~~~P~lRk~~~~l-------p~~-~~~~~~~~~~~~~~~v~~v~~~G~i~ 91 (131)
.-|++| ||.+. .++....+|++...- |.. +..+ +..-..+-++++++||+-+
T Consensus 29 ~~~~dG--~V~i~--------~i~~F~rmk~l~~~~~~~~~~~~~~~~~~I---~~ALk~S~~levseD~~~V 88 (90)
T cd08030 29 EEDPDG--MVSLA--------LICSFSRMRSLLGLGGGKPEDVPEDTLKAV---AEALRTSTLLKVSEDGKRV 88 (90)
T ss_pred ccCCCC--CEehH--------HHhcChHHHHHhhcccccccccchhHHHHH---HHHHccCCEEEEcCCCCcc
Confidence 335667 88765 467778888876531 111 1111 1011123388899998755
No 54
>PF11208 DUF2992: Protein of unknown function (DUF2992); InterPro: IPR016787 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=37.27 E-value=20 Score=25.21 Aligned_cols=13 Identities=31% Similarity=0.644 Sum_probs=9.9
Q ss_pred CCCEEEEeecCCc
Q 042294 31 RGQFWVAIDCCRT 43 (131)
Q Consensus 31 ~G~~Wval~~~r~ 43 (131)
||.||||+....+
T Consensus 6 dg~FWvGv~E~~~ 18 (132)
T PF11208_consen 6 DGPFWVGVFERHE 18 (132)
T ss_pred cCCcEEEEEEEEE
Confidence 6899999976543
No 55
>cd08036 LARP_5 La RNA-binding domain of La-related protein 5. This domain is found in vertebrate La-related protein 5 (LARP5). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Probab=34.57 E-value=33 Score=21.83 Aligned_cols=14 Identities=21% Similarity=0.337 Sum_probs=10.5
Q ss_pred EEEEEEcCCCeEEE
Q 042294 79 TVISLFNENGEILE 92 (131)
Q Consensus 79 ~~v~~v~~~G~i~~ 92 (131)
+-.+++|++|+-++
T Consensus 61 S~~vevse~g~kVR 74 (75)
T cd08036 61 LPLVQVDEKGEKVR 74 (75)
T ss_pred CCeEEECCCCCccC
Confidence 34899999998653
No 56
>TIGR03606 non_repeat_PQQ dehydrogenase, PQQ-dependent, s-GDH family. PQQ, or pyrroloquinoline-quinone, serves as a cofactor for a number of sugar and alcohol dehydrogenases in a limited number of bacterial species. Most characterized PQQ-dependent enzymes have multiple repeats of a sequence region described by pfam01011 (PQQ enzyme repeat), but this protein family in unusual in lacking that repeat. Below the noise cutoff are related proteins mostly from species that lack PQQ biosynthesis.
Probab=33.72 E-value=3e+02 Score=23.36 Aligned_cols=27 Identities=19% Similarity=0.272 Sum_probs=22.1
Q ss_pred ceeEee-eCCcCCCceeecCCCCEEEEee
Q 042294 12 TVELVA-NLPGFPDNVRINERGQFWVAID 39 (131)
Q Consensus 12 ~~e~f~-~LPG~PDNI~~~~~G~~Wval~ 39 (131)
+.|+++ .|. .|=.|.+.+||++||+--
T Consensus 21 ~~~~va~GL~-~Pw~maflPDG~llVtER 48 (454)
T TIGR03606 21 DKKVLLSGLN-KPWALLWGPDNQLWVTER 48 (454)
T ss_pred EEEEEECCCC-CceEEEEcCCCeEEEEEe
Confidence 567888 687 699999999999998754
No 57
>PHA02598 denA endonuclease II; Provisional
Probab=32.49 E-value=74 Score=22.59 Aligned_cols=39 Identities=13% Similarity=0.151 Sum_probs=27.3
Q ss_pred EEEEcCCCeEEEEEECCCCCcccceEEEEEeCCEEEEecC
Q 042294 81 ISLFNENGEILEVLEDPRGVVMKLVSEVKEAQGKLWIGTV 120 (131)
Q Consensus 81 v~~v~~~G~i~~~l~d~~g~~~~~is~v~~~~g~LylGS~ 120 (131)
=+.++.+|+|.+++-.+. ..-..|=.....|..||+|--
T Consensus 13 ~l~l~~~~~i~~~f~~~~-~~~n~VY~~~~~~~viYVGKA 51 (138)
T PHA02598 13 ELELDKNGRIDRSFIKCP-NKKNVIYAIAVDDELVYIGKT 51 (138)
T ss_pred EEEecCCCcCcccccCCc-ccceEEEEEEeCCeEEEEeeh
Confidence 577889999999976542 333445555566788999954
No 58
>cd00216 PQQ_DH Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller.
Probab=31.09 E-value=1.4e+02 Score=25.08 Aligned_cols=42 Identities=21% Similarity=0.412 Sum_probs=28.3
Q ss_pred eEEEEEEc-CCCeEEEEEECCCCCcccceEEE-EEeCCEEEEecCCC
Q 042294 78 YTVISLFN-ENGEILEVLEDPRGVVMKLVSEV-KEAQGKLWIGTVAH 122 (131)
Q Consensus 78 ~~~v~~v~-~~G~i~~~l~d~~g~~~~~is~v-~~~~g~LylGS~~~ 122 (131)
.+.+.++| .+|+++-+++-+.+-.. +=+ ...+|++|+++...
T Consensus 415 dG~l~ald~~tG~~lW~~~~~~~~~a---~P~~~~~~g~~yv~~~~g 458 (488)
T cd00216 415 DGYFRAFDATTGKELWKFRTPSGIQA---TPMTYEVNGKQYVGVMVG 458 (488)
T ss_pred CCeEEEEECCCCceeeEEECCCCceE---cCEEEEeCCEEEEEEEec
Confidence 46677888 57999988876542211 222 25689999998765
No 59
>TIGR03300 assembly_YfgL outer membrane assembly lipoprotein YfgL. Members of this protein family are YfgL, a lipoprotein component of a complex that acts protein insertion into the bacterial outer membrane. Other members of this complex are NlpB, YfiO, and YaeT. This protein contains multiple copies of a repeat that, in other contexts, are associated with binding of the coenzyme PQQ.
Probab=30.84 E-value=1.4e+02 Score=23.57 Aligned_cols=41 Identities=20% Similarity=0.234 Sum_probs=27.1
Q ss_pred eEEEEEEc-CCCeEEEEEECCCCCcccceEEEEEeCCEEEEecCCC
Q 042294 78 YTVISLFN-ENGEILEVLEDPRGVVMKLVSEVKEAQGKLWIGTVAH 122 (131)
Q Consensus 78 ~~~v~~v~-~~G~i~~~l~d~~g~~~~~is~v~~~~g~LylGS~~~ 122 (131)
.+.+.++| .+|+++=..+.+. . ..++....++++|+|+..+
T Consensus 74 ~g~v~a~d~~tG~~~W~~~~~~-~---~~~~p~v~~~~v~v~~~~g 115 (377)
T TIGR03300 74 DGTVVALDAETGKRLWRVDLDE-R---LSGGVGADGGLVFVGTEKG 115 (377)
T ss_pred CCeEEEEEccCCcEeeeecCCC-C---cccceEEcCCEEEEEcCCC
Confidence 35688888 5788887766543 2 2234555688899887654
No 60
>PF03607 DCX: Doublecortin; InterPro: IPR003533 X-linked lissencephaly is a severe brain malformation affecting males. Recently it has been demonstrated that the doublecortin gene is implicated in this disorder []. Doublecortin was found to bind to the microtubule cytoskeleton. In vivo and in vitro assays show that Doublecortin stabilises microtubules and causes bundling []. Doublecortin is a basic protein with an iso-electric point of 10, typical of microtubule-binding proteins. However, its sequence contains no known microtubule-binding domain(s). The detailed sequence analysis of Doublecortin and Doublecortin-like proteins allowed the identification of an evolutionarily conserved Doublecortin (DC) domain. This domain is found in the N terminus of proteins and consists of one or two tandemly repeated copies of an around 80 amino acids region. It has been suggested that the first DC domain of Doublecortin binds tubulin and enhances microtubule polymerisation []. Some proteins known to contain a DC domain are listed below: Doublecortin. It is required for neuronal migration []. A large number of point mutations in the human DCX gene leading to lissencephaly are located within the DC domains []. Human serine/threonine-protein kinase DCAMKL1. It is a probable kinase that may be involved in a calcium-signaling pathway controling neuronal migration in the developing brain []. Retinitis pigmentosa 1 protein. It could play a role in the differentiation of photoreceptor cells. Mutation in the human RP1 gene cause retinitis pigmentosa of type 1 []. ; GO: 0035556 intracellular signal transduction; PDB: 1UF0_A 1MG4_A 1MFW_A 2DNF_A 2XRP_I 2BQQ_A 1MJD_A.
Probab=30.22 E-value=29 Score=20.60 Aligned_cols=34 Identities=18% Similarity=0.241 Sum_probs=21.1
Q ss_pred CCeEEEEEECCCCCcccceEEEEEeCCEEEEecCCCCe
Q 042294 87 NGEILEVLEDPRGVVMKLVSEVKEAQGKLWIGTVAHNH 124 (131)
Q Consensus 87 ~G~i~~~l~d~~g~~~~~is~v~~~~g~LylGS~~~~~ 124 (131)
.| ++.+.+++|..+..+++ ..+|..|+.+-..+|
T Consensus 26 ~g--Vr~lyt~~G~~V~~l~~--l~dg~~yVa~g~e~f 59 (60)
T PF03607_consen 26 SG--VRKLYTLDGKRVKSLDE--LEDGGSYVASGREPF 59 (60)
T ss_dssp TS---SEEEETTSSEESSGGG--S-TTEEEEEESSSS-
T ss_pred cc--cceEECCCCCEeCCHHH--HCCCCEEEEEcCCcC
Confidence 56 66677788877777776 246677877755443
No 61
>PF07463 NUMOD4: NUMOD4 motif; InterPro: IPR010902 NUMOD4 is a putative DNA-binding motif found in homing endonucleases and related proteins [].; GO: 0016788 hydrolase activity, acting on ester bonds; PDB: 1U3E_M.
Probab=30.06 E-value=59 Score=18.61 Aligned_cols=23 Identities=17% Similarity=0.473 Sum_probs=15.4
Q ss_pred eEeeeCCcCCCceeecCCCCEEE
Q 042294 14 ELVANLPGFPDNVRINERGQFWV 36 (131)
Q Consensus 14 e~f~~LPG~PDNI~~~~~G~~Wv 36 (131)
|++..+|||+.--..+..|++.-
T Consensus 1 E~Wk~I~g~~~~Y~VSn~GrVrs 23 (51)
T PF07463_consen 1 EIWKPIPGYEGKYEVSNLGRVRS 23 (51)
T ss_dssp --EEE-TTSTTTEEEETTS-EEE
T ss_pred CcceEcCCCCCcEEEcCCceEEE
Confidence 56778899988888888888754
No 62
>PF07995 GSDH: Glucose / Sorbosone dehydrogenase; InterPro: IPR012938 Proteins containing this domain are thought to be glucose/sorbosone dehydrogenases. The best characterised of these proteins is soluble glucose dehydrogenase (P13650 from SWISSPROT) from Acinetobacter calcoaceticus, which oxidises glucose to gluconolactone. The enzyme is a calcium-dependent homodimer which uses PQQ as a cofactor [].; GO: 0016901 oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor, 0048038 quinone binding, 0005975 carbohydrate metabolic process; PDB: 2ISM_A 2WG3_D 3HO5_A 3HO4_A 3HO3_A 2WFT_A 2WG4_B 2WFX_B 1CRU_A 1CQ1_B ....
Probab=29.73 E-value=1.9e+02 Score=22.90 Aligned_cols=70 Identities=14% Similarity=0.188 Sum_probs=0.0
Q ss_pred CCceeecCCCCEEEEeecCCchHHHHhhcCHHHHHHHHhcChhhhhhhhhcCCcceEEEEEEcCCCeE---EEEEECCCC
Q 042294 23 PDNVRINERGQFWVAIDCCRTAAQEVLSHNPWIRSIYFRLPIRMSFLARVMGMKMYTVISLFNENGEI---LEVLEDPRG 99 (131)
Q Consensus 23 PDNI~~~~~G~~Wval~~~r~~~~~~l~~~P~lRk~~~~lp~~~~~~~~~~~~~~~~~v~~v~~~G~i---~~~l~d~~g 99 (131)
|=.|...+||+++|+--. |.|..++.+|+. +..+.+-..
T Consensus 4 P~~~a~~pdG~l~v~e~~--------------------------------------G~i~~~~~~g~~~~~v~~~~~v~~ 45 (331)
T PF07995_consen 4 PRSMAFLPDGRLLVAERS--------------------------------------GRIWVVDKDGSLKTPVADLPEVFA 45 (331)
T ss_dssp EEEEEEETTSCEEEEETT--------------------------------------TEEEEEETTTEECEEEEE-TTTBT
T ss_pred ceEEEEeCCCcEEEEeCC--------------------------------------ceEEEEeCCCcCcceecccccccc
Q ss_pred CcccceEEEEEeC-----CEEEEecCCC--------CeEEEeeC
Q 042294 100 VVMKLVSEVKEAQ-----GKLWIGTVAH--------NHIATLPY 130 (131)
Q Consensus 100 ~~~~~is~v~~~~-----g~LylGS~~~--------~~i~~~~l 130 (131)
.-....-++..+. ++||+..... ..|.|+.+
T Consensus 46 ~~~~gllgia~~p~f~~n~~lYv~~t~~~~~~~~~~~~v~r~~~ 89 (331)
T PF07995_consen 46 DGERGLLGIAFHPDFASNGYLYVYYTNADEDGGDNDNRVVRFTL 89 (331)
T ss_dssp STTBSEEEEEE-TTCCCC-EEEEEEEEE-TSSSSEEEEEEEEEE
T ss_pred cccCCcccceeccccCCCCEEEEEEEcccCCCCCcceeeEEEec
No 63
>PF13953 PapC_C: PapC C-terminal domain; PDB: 3L48_E 2XET_A 3RFZ_E 2KT6_A.
Probab=29.36 E-value=1.3e+02 Score=18.12 Aligned_cols=16 Identities=6% Similarity=0.368 Sum_probs=7.2
Q ss_pred EEEEeCCEEEEecCCC
Q 042294 107 EVKEAQGKLWIGTVAH 122 (131)
Q Consensus 107 ~v~~~~g~LylGS~~~ 122 (131)
+++-.+|.+||..+..
T Consensus 26 g~Vg~~G~vyl~~~~~ 41 (68)
T PF13953_consen 26 GIVGQDGQVYLSGLPP 41 (68)
T ss_dssp EEB-GCGEEEEEEE-T
T ss_pred EEEcCCCEEEEECCCC
Confidence 3334455666655543
No 64
>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]
Probab=28.32 E-value=2e+02 Score=22.29 Aligned_cols=45 Identities=9% Similarity=0.112 Sum_probs=38.0
Q ss_pred ceEEEEEEcCCCeEEEEEECCCCCcccceEEEEEeCCEEEEecCC
Q 042294 77 MYTVISLFNENGEILEVLEDPRGVVMKLVSEVKEAQGKLWIGTVA 121 (131)
Q Consensus 77 ~~~~v~~v~~~G~i~~~l~d~~g~~~~~is~v~~~~g~LylGS~~ 121 (131)
+...++.....|+-.--+|--+|..-..+|++.+..+..++||-.
T Consensus 39 ~~Vll~Gl~dSGKT~LF~qL~~gs~~~TvtSiepn~a~~r~gs~~ 83 (238)
T KOG0090|consen 39 NAVLLVGLSDSGKTSLFTQLITGSHRGTVTSIEPNEATYRLGSEN 83 (238)
T ss_pred CcEEEEecCCCCceeeeeehhcCCccCeeeeeccceeeEeecCcc
Confidence 456677788899987777777788888999999999999999876
No 65
>TIGR03300 assembly_YfgL outer membrane assembly lipoprotein YfgL. Members of this protein family are YfgL, a lipoprotein component of a complex that acts protein insertion into the bacterial outer membrane. Other members of this complex are NlpB, YfiO, and YaeT. This protein contains multiple copies of a repeat that, in other contexts, are associated with binding of the coenzyme PQQ.
Probab=27.68 E-value=2.1e+02 Score=22.48 Aligned_cols=43 Identities=12% Similarity=0.114 Sum_probs=28.3
Q ss_pred eEEEEEEcC-CCeEEEEEECCCCCcccceEEEEEeCCEEEEecCCCC
Q 042294 78 YTVISLFNE-NGEILEVLEDPRGVVMKLVSEVKEAQGKLWIGTVAHN 123 (131)
Q Consensus 78 ~~~v~~v~~-~G~i~~~l~d~~g~~~~~is~v~~~~g~LylGS~~~~ 123 (131)
.+.+..+|. +|+++..++-..+. ..++-...+++||+++..+.
T Consensus 329 ~G~l~~~d~~tG~~~~~~~~~~~~---~~~sp~~~~~~l~v~~~dG~ 372 (377)
T TIGR03300 329 EGYLHWLSREDGSFVARLKTDGSG---IASPPVVVGDGLLVQTRDGD 372 (377)
T ss_pred CCEEEEEECCCCCEEEEEEcCCCc---cccCCEEECCEEEEEeCCce
Confidence 355666774 58888777654321 34555667889999988654
No 66
>PF09826 Beta_propel: Beta propeller domain; InterPro: IPR019198 This entry consists of predicted secreted proteins containing a C-terminal beta-propeller domain distantly related to WD-40 repeats.
Probab=27.18 E-value=4e+02 Score=22.86 Aligned_cols=90 Identities=20% Similarity=0.295 Sum_probs=57.3
Q ss_pred eeeeeCCCCCceeEee--eCCcCC-CceeecC-CCCEEEEeecCCchHHHHhhcCHHHHHHHHhcChhhhhhhhhcCCcc
Q 042294 2 KYWLEGPKTGTVELVA--NLPGFP-DNVRINE-RGQFWVAIDCCRTAAQEVLSHNPWIRSIYFRLPIRMSFLARVMGMKM 77 (131)
Q Consensus 2 rywl~G~k~G~~e~f~--~LPG~P-DNI~~~~-~G~~Wval~~~r~~~~~~l~~~P~lRk~~~~lp~~~~~~~~~~~~~~ 77 (131)
|+-|+| |+.+-.+ ..||+. +..++|+ +|.|=||....... .. .....
T Consensus 252 kf~~~~---~~~~y~~sg~V~G~llnqFsmdE~~G~LRvaTT~~~~~---------------------~~-----~~~~s 302 (521)
T PF09826_consen 252 KFALDG---GKIEYVGSGSVPGYLLNQFSMDEYDGYLRVATTSGNWW---------------------WD-----SEDTS 302 (521)
T ss_pred EEEccC---CcEEEEEEEEECcEEcccccEeccCCEEEEEEecCccc---------------------cc-----CCCCc
Confidence 344444 6667666 688865 4467787 45677776543100 00 01123
Q ss_pred eEEEEEEcCCCeEEEEEECCCCCcccceEEEEEeCCEEEEecCCC
Q 042294 78 YTVISLFNENGEILEVLEDPRGVVMKLVSEVKEAQGKLWIGTVAH 122 (131)
Q Consensus 78 ~~~v~~v~~~G~i~~~l~d~~g~~~~~is~v~~~~g~LylGS~~~ 122 (131)
..-|.-+|++-+++..+++-. . --.|-+|.+.|++.|+-.+..
T Consensus 303 ~N~lyVLD~~L~~vG~l~~la-~-gE~IysvRF~Gd~~Y~VTFrq 345 (521)
T PF09826_consen 303 SNNLYVLDEDLKIVGSLEGLA-P-GERIYSVRFMGDRAYLVTFRQ 345 (521)
T ss_pred eEEEEEECCCCcEeEEccccC-C-CceEEEEEEeCCeEEEEEEee
Confidence 344666799999999998732 1 147899999999999987654
No 67
>PF09142 TruB_C: tRNA Pseudouridine synthase II, C terminal; InterPro: IPR015225 Pseudouridine synthases catalyse the isomerisation of uridine to pseudouridine (Psi) in a variety of RNA molecules, and may function as RNA chaperones. Pseudouridine is the most abundant modified nucleotide found in all cellular RNAs. There are four distinct families of pseudouridine synthases that share no global sequence similarity, but which do share the same fold of their catalytic domain(s) and uracil-binding site and are descended from a common molecular ancestor. The catalytic domain consists of two subdomains, each of which has an alpha+beta structure that has some similarity to the ferredoxin-like fold (note: some pseudouridine synthases contain additional domains). The active site is the most conserved structural region of the superfamily and is located between the two homologous domains. These families are []: Pseudouridine synthase I, TruA. Pseudouridine synthase II, TruB, which contains and additional C-terminal PUA domain. Pseudouridine synthase RsuA (ribosomal small subunit) and RluC/RluD (ribosomal large subunits), both of which contain an additional N-terminal alpha-L RNA-binding motif. Pseudouridine synthase TruD, which has a natural circular permutation in the catalytic domain, as well as an insertion of a family-specific alpha+beta subdomain. TruB is responsible for the pseudouridine residue present in the T loops of virtually all tRNAs. TruB recognises the preformed 3-D structure of the T loop primarily through shape complementarity. It accesses its substrate uridyl residue by flipping out the nucleotide and disrupts the tertiary structure of tRNA []. The C-terminal domain adopts a secondary structure consisting of a four-stranded beta sheet and one alpha helix, similar to that found in PUA domains. It is predominantly involved in RNA-binding, being mostly found in tRNA pseudouridine synthase B (TruB) []. ; GO: 0003723 RNA binding, 0009982 pseudouridine synthase activity, 0001522 pseudouridine synthesis, 0009451 RNA modification; PDB: 1SGV_B.
Probab=27.14 E-value=46 Score=19.62 Aligned_cols=23 Identities=22% Similarity=0.456 Sum_probs=14.6
Q ss_pred ceEEEEEEcCCCeEEEEEECCCC
Q 042294 77 MYTVISLFNENGEILEVLEDPRG 99 (131)
Q Consensus 77 ~~~~v~~v~~~G~i~~~l~d~~g 99 (131)
..+.+-.+++||+.+..+++..+
T Consensus 25 ~~g~~aa~~pdG~lvAL~~~~g~ 47 (56)
T PF09142_consen 25 PPGPVAAFAPDGRLVALLEERGG 47 (56)
T ss_dssp --S-EEEE-TTS-EEEEEEEETT
T ss_pred CCceEEEECCCCcEEEEEEccCC
Confidence 34667788999999999987543
No 68
>COG4014 Uncharacterized protein conserved in archaea [Function unknown]
Probab=27.02 E-value=59 Score=21.46 Aligned_cols=21 Identities=29% Similarity=0.689 Sum_probs=16.5
Q ss_pred cCCCceeecCCCCEEEEeecC
Q 042294 21 GFPDNVRINERGQFWVAIDCC 41 (131)
Q Consensus 21 G~PDNI~~~~~G~~Wval~~~ 41 (131)
|----|+-+++|++||-|-+.
T Consensus 24 grV~dIkkdEdG~~WV~Ldst 44 (97)
T COG4014 24 GRVVDIKKDEDGDIWVVLDST 44 (97)
T ss_pred eeEEEEEeecCCceEEEEecC
Confidence 444457889999999999874
No 69
>PF11211 DUF2997: Protein of unknown function (DUF2997); InterPro: IPR021375 This family of proteins has no known function.
Probab=26.97 E-value=54 Score=18.84 Aligned_cols=30 Identities=17% Similarity=0.112 Sum_probs=23.0
Q ss_pred EEEEcCCCeEEEEEECCCCCcccceEEEEE
Q 042294 81 ISLFNENGEILEVLEDPRGVVMKLVSEVKE 110 (131)
Q Consensus 81 v~~v~~~G~i~~~l~d~~g~~~~~is~v~~ 110 (131)
-+.+++||+|-+...+-.|.....+|...|
T Consensus 2 ~~~I~~dG~V~~~v~G~~G~~C~~~t~~lE 31 (48)
T PF11211_consen 2 EFTIYPDGRVEEEVEGFKGSSCLEATAALE 31 (48)
T ss_pred EEEECCCcEEEEEEEeccChhHHHHHHHHH
Confidence 367889999999999988887766655433
No 70
>PF09264 Sial-lect-inser: Vibrio cholerae sialidase, lectin insertion; InterPro: IPR015344 This domain is predominantly found in Vibrio cholerae sialidase, and adopt a beta sandwich structure consisting of 12-14 strands arranged in two beta-sheets. It binds to lectins with high affinity helping to target the protein to sialic acid-rich environments, thereby enhancing the catalytic efficiency of the enzyme []. ; PDB: 1W0P_A 1W0O_A 1KIT_A 2W68_B.
Probab=26.63 E-value=95 Score=23.33 Aligned_cols=27 Identities=30% Similarity=0.347 Sum_probs=19.4
Q ss_pred CcceEEEEEEcCCCeEEEEEECCCCCc
Q 042294 75 MKMYTVISLFNENGEILEVLEDPRGVV 101 (131)
Q Consensus 75 ~~~~~~v~~v~~~G~i~~~l~d~~g~~ 101 (131)
.+++-..+++|++|.++..|++..+..
T Consensus 56 ~~r~l~~lsvn~sG~LvA~L~g~ss~~ 82 (198)
T PF09264_consen 56 SKRYLPILSVNESGSLVAELEGQSSNT 82 (198)
T ss_dssp SEEEEEEEEE-TTS-EEEEETTS-S-E
T ss_pred ceEEEEEEEEcCCCCEEEEEecCCCcE
Confidence 467788999999999999999876553
No 71
>PF09910 DUF2139: Uncharacterized protein conserved in archaea (DUF2139); InterPro: IPR016675 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=25.73 E-value=2.8e+02 Score=22.57 Aligned_cols=79 Identities=13% Similarity=0.191 Sum_probs=48.7
Q ss_pred CCCEEEEeecCCchHHHHhhcCHHHHHHHHhcChhhhhhhhhcCCcceEEEEEEc-CCCeEEEEEECCCCCcccceEEEE
Q 042294 31 RGQFWVAIDCCRTAAQEVLSHNPWIRSIYFRLPIRMSFLARVMGMKMYTVISLFN-ENGEILEVLEDPRGVVMKLVSEVK 109 (131)
Q Consensus 31 ~G~~Wval~~~r~~~~~~l~~~P~lRk~~~~lp~~~~~~~~~~~~~~~~~v~~v~-~~G~i~~~l~d~~g~~~~~is~v~ 109 (131)
.|++.+|.++..... ..+.....++.++.-..+ ..| ++++-+. +.-+|+.++- ..|||+.
T Consensus 259 gGGil~~fNa~~~a~---~~~~~e~~~~~~~~tnti--------vgP-svLvYi~Pp~~rIVg~fG-------aRiTS~e 319 (339)
T PF09910_consen 259 GGGILIAFNAHHDAY---YRPTDEEEEVYAKATNTI--------VGP-SVLVYIAPPMVRIVGAFG-------ARITSME 319 (339)
T ss_pred CCeEEEEecccceeE---eccCChhhhHHHHhhccc--------cCC-eEEEEECCCeeeEEeecc-------ceEEEee
Confidence 578999987765432 223333333444332211 113 4455555 5677777664 3589999
Q ss_pred EeCCEEEEecCCCCeEEEe
Q 042294 110 EAQGKLWIGTVAHNHIATL 128 (131)
Q Consensus 110 ~~~g~LylGS~~~~~i~~~ 128 (131)
..+|+|.+|.-..|-.+++
T Consensus 320 ~~~~kili~~nt~pN~g~~ 338 (339)
T PF09910_consen 320 KVGGKILIATNTTPNTGAY 338 (339)
T ss_pred eeCCEEEEEecCCCCccCC
Confidence 9999999998888766654
No 72
>PF01011 PQQ: PQQ enzyme repeat family.; InterPro: IPR002372 Pyrrolo-quinoline quinone (PQQ) is a redox coenzyme, which serves as a cofactor for a number of enzymes (quinoproteins) and particularly for some bacterial dehydrogenases [, ]. A number of bacterial quinoproteins belong to this family. Enzymes in this group have repeats of a beta propeller.; PDB: 1H4I_C 1H4J_E 1W6S_A 2YH3_A 3PRW_A 3P1L_A 3Q7M_A 3Q7O_A 3Q7N_A 1G72_A ....
Probab=25.53 E-value=1.1e+02 Score=15.92 Aligned_cols=23 Identities=9% Similarity=0.099 Sum_probs=17.7
Q ss_pred ceEEEEEEc-CCCeEEEEEECCCC
Q 042294 77 MYTVISLFN-ENGEILEVLEDPRG 99 (131)
Q Consensus 77 ~~~~v~~v~-~~G~i~~~l~d~~g 99 (131)
..+.+.++| .+|+++=.++-...
T Consensus 8 ~~g~l~AlD~~TG~~~W~~~~~~~ 31 (38)
T PF01011_consen 8 PDGYLYALDAKTGKVLWKFQTGPP 31 (38)
T ss_dssp TTSEEEEEETTTTSEEEEEESSSG
T ss_pred CCCEEEEEECCCCCEEEeeeCCCC
Confidence 347789999 57999999886543
No 73
>cd06498 ACD_alphaB-crystallin_HspB5 Alpha-crystallin domain found in the small heat shock protein (sHsp) alphaB-crystallin (HspB5, 20kDa). sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. Alpha crystallin, an abundant protein in the mammalian lens, is a large (700 kDa) heteropolymer composed of HspB4 and HspB5, generally in a molar ratio of HspB4:HspB5 of 3:1. HspB4 does not belong to this group. HspB5 shows increased synthesis in response to stress. HspB5 is also expressed constitutively in other tissues including brain, heart, and type I and type IIa skeletal muscle fibers, and in several cancers including gliomas, renal cell carcinomas, basal-like and metaplastic breast carcinomas, and head and neck cancer. Its functions include effects on the apoptotic pathway and on metastasis. Phosphorylation of HspB5 reduces its oligomerization and anti-apoptotic activ
Probab=24.09 E-value=63 Score=20.46 Aligned_cols=28 Identities=14% Similarity=0.442 Sum_probs=19.5
Q ss_pred eeEeeeCCcC-CCceeecCCCCEEEEeecC
Q 042294 13 VELVANLPGF-PDNVRINERGQFWVAIDCC 41 (131)
Q Consensus 13 ~e~f~~LPG~-PDNI~~~~~G~~Wval~~~ 41 (131)
..+-+++||+ |+.|..+-+|+ .+.+.+.
T Consensus 9 ~~v~~dlpG~~~edi~V~v~~~-~L~I~g~ 37 (84)
T cd06498 9 FSVNLDVKHFSPEELKVKVLGD-FIEIHGK 37 (84)
T ss_pred EEEEEECCCCCHHHeEEEEECC-EEEEEEE
Confidence 3444599998 99999987776 3445543
No 74
>PF01731 Arylesterase: Arylesterase; InterPro: IPR002640 The serum paraoxonases/arylesterases are enzymes that catalyse the hydrolysis of the toxic metabolites of a variety of organophosphorus insecticides. The enzymes hydrolyse a broad spectrum of organophosphate substrates, including paraoxon and a number of aromatic carboxylic acid esters (e.g., phenyl acetate), and hence confer resistance to organophosphate toxicity []. Mammals have 3 distinct paraoxonase types, termed PON1-3 [, ]. In mice and humans, the PON genes are found on the same chromosome in close proximity. PON activity has been found in variety of tissues, with highest levels in liver and serum - the source of serum PON is thought to be the liver. Unlike mammals, fish and avian species lack paraoxonase activity. Human and rabbit PONs appear to have two distinct Ca2+ binding sites, one required for stability and one required for catalytic activity. The Ca2+ dependency of PONs suggests a mechanism of hydrolysis where Ca2+ acts as the electrophillic catalyst, like that proposed for phospholipase A2. The paraoxonase enzymes, PON1 and PON3, are high density lipoprotein (HDL)- associated proteins capable of preventing oxidative modification of low density lipoproteins (LPL) []. Although PON2 has oxidative properties, the enzyme does not associate with HDL. Within a given species, PON1, PON2 and PON3 share ~60% amino acid sequence identity, whereas between mammalian species particular PONs (1,2 or 3) share 79-90% identity at the amino acid level. Human PON1 and PON3 share numerous conserved phosphorylation and N-glycosylation sites; however, it is not known whether the PON proteins are modified at these sites, or whether modification at these sites is required for activity in vivo []. This family consists of arylesterases (Also known as serum paraoxonase) 3.1.1.2 from EC. These enzymes hydrolyse organophosphorus esters such as paraoxon and are found in the liver and blood. They confer resistance to organophosphate toxicity []. Human arylesterase (PON1) P27169 from SWISSPROT is associated with HDL and may protect against LDL oxidation [].; GO: 0004064 arylesterase activity
Probab=23.41 E-value=1.5e+02 Score=19.03 Aligned_cols=29 Identities=24% Similarity=0.477 Sum_probs=21.1
Q ss_pred ceeEee-eCCcCCCceeecCCCC-EEEEeecC
Q 042294 12 TVELVA-NLPGFPDNVRINERGQ-FWVAIDCC 41 (131)
Q Consensus 12 ~~e~f~-~LPG~PDNI~~~~~G~-~Wval~~~ 41 (131)
+..+.+ .++ +|.+|..++++. ++||-...
T Consensus 45 ~~~~va~g~~-~aNGI~~s~~~k~lyVa~~~~ 75 (86)
T PF01731_consen 45 EVKVVASGFS-FANGIAISPDKKYLYVASSLA 75 (86)
T ss_pred EeEEeeccCC-CCceEEEcCCCCEEEEEeccC
Confidence 355566 676 799999999875 68876543
No 75
>PF06089 Asparaginase_II: L-asparaginase II; InterPro: IPR010349 This family consists of several bacterial L-asparaginase II proteins. L-asparaginase (3.5.1.1 from EC) catalyses the hydrolysis of L-asparagine to L-aspartate and ammonium. Rhizobium etli possesses two asparaginases: asparaginase I, which is thermostable and constitutive, and asparaginase II, which is thermolabile, induced by asparagine and repressed by the carbon source [].
Probab=23.31 E-value=1e+02 Score=24.98 Aligned_cols=28 Identities=14% Similarity=0.215 Sum_probs=23.0
Q ss_pred cceEEEEEEcCCCeEEEEEECCCCCccc
Q 042294 76 KMYTVISLFNENGEILEVLEDPRGVVMK 103 (131)
Q Consensus 76 ~~~~~v~~v~~~G~i~~~l~d~~g~~~~ 103 (131)
.-++.++.+|.+|+++.++-|++-..++
T Consensus 13 ~H~G~~vVvd~~G~v~~~~Gd~~~~~f~ 40 (324)
T PF06089_consen 13 VHRGHAVVVDADGRVLASAGDPDRPTFP 40 (324)
T ss_pred eEEEEEEEECCCCCEEEEecCCCCceeh
Confidence 3468899999999999999999855443
No 76
>PF05935 Arylsulfotrans: Arylsulfotransferase (ASST); InterPro: IPR010262 This family consists of several bacterial arylsulphotransferase proteins. Arylsulphotransferase (ASST) transfers a sulphate group from phenolic sulphate esters to a phenolic acceptor substrate [].; PDB: 3ETT_B 3ELQ_A 3ETS_A.
Probab=22.24 E-value=4.4e+02 Score=22.11 Aligned_cols=39 Identities=13% Similarity=0.204 Sum_probs=17.7
Q ss_pred EEEEEEcCCCeEEEEEECCCCC-cccceEEEEE--eCCEEEEec
Q 042294 79 TVISLFNENGEILEVLEDPRGV-VMKLVSEVKE--AQGKLWIGT 119 (131)
Q Consensus 79 ~~v~~v~~~G~i~~~l~d~~g~-~~~~is~v~~--~~g~LylGS 119 (131)
..+.++|..|+++..+.-+.+. .+.+ ++.+ .|..|.+++
T Consensus 167 ~~~~e~D~~G~v~~~~~l~~~~~~~HH--D~~~l~nGn~L~l~~ 208 (477)
T PF05935_consen 167 NRLYEIDLLGKVIWEYDLPGGYYDFHH--DIDELPNGNLLILAS 208 (477)
T ss_dssp TEEEEE-TT--EEEEEE--TTEE-B-S---EEE-TTS-EEEEEE
T ss_pred CceEEEcCCCCEEEeeecCCccccccc--ccEECCCCCEEEEEe
Confidence 3477888888888887776543 1111 2223 345566665
No 77
>cd08032 LARP_7 La RNA-binding domain of La-related protein 7. LARP7 is a component of the 7SK snRNP, a key factor in the regulation of RNA polymerase II transcription. 7SK functionality is dependent on the presence of LARP7, which is thought to stabilize the 7SK RNA by interacting with its 3' end. The release of 7SK RNA from P-TEFb/HEXIM/7SK complexes activates the cyclin-dependent kinase P-TEFb, which in turn phosphorylates the C-terminal domain of RNA pol II and mediates a transition into productive transcription elongation.
Probab=22.21 E-value=47 Score=21.36 Aligned_cols=47 Identities=11% Similarity=0.142 Sum_probs=25.4
Q ss_pred cCCCCEEEEeecCCchHHHHhhcCHHHHHHHHhcChhhhhhhhhcCCcceEEEEEEcCCCeEEE
Q 042294 29 NERGQFWVAIDCCRTAAQEVLSHNPWIRSIYFRLPIRMSFLARVMGMKMYTVISLFNENGEILE 92 (131)
Q Consensus 29 ~~~G~~Wval~~~r~~~~~~l~~~P~lRk~~~~lp~~~~~~~~~~~~~~~~~v~~v~~~G~i~~ 92 (131)
+++| ||.+. .++....+|++..-...-.. .-..+-.++++++|+-++
T Consensus 35 ~~dG--~Vpl~--------~i~~F~rmk~lt~d~~~i~~-------Al~~S~~lev~ed~~~VR 81 (82)
T cd08032 35 SRDG--YIDIS--------LLVSFNKMKKLTTDGKLIAR-------ALKNSSVVELNLEGTRIR 81 (82)
T ss_pred CCCC--CEeHH--------HHhcchHHHHHcCCHHHHHH-------HHhcCCEEEEcCCCCccC
Confidence 3566 77654 45666677766542210000 011234899999987653
No 78
>smart00564 PQQ beta-propeller repeat. Beta-propeller repeat occurring in enzymes with pyrrolo-quinoline quinone (PQQ) as cofactor, in Ire1p-like Ser/Thr kinases, and in prokaryotic dehydrogenases.
Probab=21.05 E-value=1.2e+02 Score=14.71 Aligned_cols=12 Identities=17% Similarity=0.631 Sum_probs=7.2
Q ss_pred EeCCEEEEecCC
Q 042294 110 EAQGKLWIGTVA 121 (131)
Q Consensus 110 ~~~g~LylGS~~ 121 (131)
..++.+|+++..
T Consensus 4 ~~~~~v~~~~~~ 15 (33)
T smart00564 4 LSDGTVYVGSTD 15 (33)
T ss_pred EECCEEEEEcCC
Confidence 345667776654
No 79
>COG3490 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.38 E-value=1.4e+02 Score=24.24 Aligned_cols=19 Identities=21% Similarity=0.476 Sum_probs=13.2
Q ss_pred eeecCCCCEEEEee--cCCch
Q 042294 26 VRINERGQFWVAID--CCRTA 44 (131)
Q Consensus 26 I~~~~~G~~Wval~--~~r~~ 44 (131)
+..+.||++|.++- ++|+.
T Consensus 231 ld~g~dgtvwfgcQy~G~~~d 251 (366)
T COG3490 231 LDIGRDGTVWFGCQYRGPRND 251 (366)
T ss_pred eeeCCCCcEEEEEEeeCCCcc
Confidence 34578999999984 34443
Done!