Query 038304
Match_columns 214
No_of_seqs 109 out of 511
Neff 7.5
Searched_HMMs 46136
Date Fri Mar 29 09:38:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038304.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038304hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04525 Tub_2: Tubby C 2; In 100.0 3.8E-44 8.3E-49 292.4 17.5 180 24-204 2-187 (187)
2 COG4894 Uncharacterized conser 100.0 4.4E-34 9.5E-39 218.3 8.7 152 37-210 7-158 (159)
3 PF03803 Scramblase: Scramblas 99.7 2E-14 4.3E-19 119.9 20.4 165 37-211 23-220 (221)
4 COG4894 Uncharacterized conser 98.5 3.5E-07 7.6E-12 70.8 6.7 70 31-102 25-94 (159)
5 KOG0621 Phospholipid scramblas 98.2 0.00011 2.4E-09 63.8 15.6 177 28-213 71-282 (292)
6 PF04525 Tub_2: Tubby C 2; In 98.0 5.1E-05 1.1E-09 61.7 10.3 87 58-149 11-99 (187)
7 PF03803 Scramblase: Scramblas 95.9 0.061 1.3E-06 44.6 9.0 64 52-120 78-148 (221)
8 PF09008 Head_binding: Head bi 84.8 3.5 7.6E-05 30.6 5.7 65 16-90 40-104 (114)
9 PF13860 FlgD_ig: FlgD Ig-like 73.8 6.5 0.00014 27.2 4.0 17 51-67 28-44 (81)
10 KOG3950 Gamma/delta sarcoglyca 70.5 6.5 0.00014 33.5 3.9 48 37-84 126-174 (292)
11 PF04790 Sarcoglycan_1: Sarcog 64.7 11 0.00024 32.5 4.4 49 36-84 103-154 (264)
12 KOG0621 Phospholipid scramblas 64.0 27 0.00058 30.6 6.6 47 51-97 189-241 (292)
13 COG4998 Predicted endonuclease 47.0 36 0.00079 27.4 4.2 37 152-195 22-59 (209)
14 PRK15393 NUDIX hydrolase YfcD; 42.9 77 0.0017 25.2 5.7 56 51-106 11-73 (180)
15 PF15529 Toxin_49: Putative to 41.8 23 0.0005 25.4 2.2 19 49-67 29-47 (89)
16 TIGR02150 IPP_isom_1 isopenten 40.6 71 0.0015 24.8 5.1 55 52-106 1-63 (158)
17 PF01167 Tub: Tub family; Int 40.0 1.4E+02 0.0031 25.2 7.2 76 96-174 23-116 (246)
18 COG5436 Predicted integral mem 39.8 65 0.0014 25.7 4.6 33 33-68 77-109 (182)
19 PF02974 Inh: Protease inhibit 38.7 1.5E+02 0.0032 21.3 6.4 31 73-106 61-91 (99)
20 PF04076 BOF: Bacterial OB fol 37.9 40 0.00086 24.8 3.0 21 74-94 50-70 (103)
21 PF09000 Cytotoxic: Cytotoxic; 35.8 96 0.0021 22.1 4.5 36 53-92 34-69 (85)
22 PRK06655 flgD flagellar basal 35.3 80 0.0017 26.5 4.8 16 74-89 128-143 (225)
23 cd03676 Nudix_hydrolase_3 Memb 32.6 1.8E+02 0.004 22.8 6.4 60 47-106 2-72 (180)
24 PF12690 BsuPI: Intracellular 30.9 35 0.00076 23.8 1.7 16 51-66 27-42 (82)
25 smart00634 BID_1 Bacterial Ig- 30.3 1.4E+02 0.003 20.8 4.8 8 111-118 62-69 (92)
26 KOG4037 Photoreceptor synaptic 30.3 1.9E+02 0.004 23.7 5.9 16 76-91 91-107 (240)
27 cd00028 B_lectin Bulb-type man 29.9 1.7E+02 0.0037 21.2 5.4 37 50-87 65-101 (116)
28 PRK12816 flgG flagellar basal 28.1 57 0.0012 28.0 2.9 42 46-88 96-138 (264)
29 smart00108 B_lectin Bulb-type 27.7 2.1E+02 0.0045 20.6 5.6 16 49-64 63-78 (114)
30 PRK12640 flgF flagellar basal 27.2 61 0.0013 27.5 2.9 38 50-88 86-123 (246)
31 TIGR03406 FeS_long_SufT probab 27.1 85 0.0018 25.3 3.5 33 33-71 21-53 (174)
32 TIGR03784 marine_sortase sorta 26.9 99 0.0022 24.8 3.9 22 72-93 111-133 (174)
33 PRK12691 flgG flagellar basal 26.8 86 0.0019 26.7 3.7 42 46-88 96-138 (262)
34 PF05593 RHS_repeat: RHS Repea 26.8 1.4E+02 0.0029 17.3 3.6 29 55-86 1-29 (38)
35 TIGR00156 conserved hypothetic 26.1 2.4E+02 0.0053 21.5 5.7 58 28-94 36-93 (126)
36 PF04170 NlpE: NlpE N-terminal 25.1 2E+02 0.0042 20.1 4.8 11 76-86 73-83 (87)
37 PF07680 DoxA: TQO small subun 25.0 74 0.0016 24.6 2.7 27 71-97 46-72 (133)
38 PRK12634 flgD flagellar basal 25.0 1.5E+02 0.0033 24.7 4.8 16 75-90 125-140 (221)
39 PF00384 Molybdopterin: Molybd 24.7 77 0.0017 28.3 3.2 45 163-210 141-186 (432)
40 PRK12694 flgG flagellar basal 24.4 72 0.0016 27.2 2.8 43 45-88 95-138 (260)
41 PRK10893 lipopolysaccharide ex 24.1 3.9E+02 0.0085 21.6 8.3 43 51-93 49-101 (192)
42 PRK12817 flgG flagellar basal 23.8 85 0.0018 26.8 3.1 38 50-88 97-134 (260)
43 TIGR02488 flgG_G_neg flagellar 23.5 72 0.0016 27.1 2.6 42 46-88 94-136 (259)
44 PRK12813 flgD flagellar basal 23.2 94 0.002 26.1 3.2 14 52-65 128-141 (223)
45 PF11191 DUF2782: Protein of u 22.7 3E+02 0.0066 19.9 7.5 44 57-103 56-103 (105)
46 PRK12818 flgG flagellar basal 22.7 90 0.002 26.6 3.1 38 50-88 101-138 (256)
47 cd05828 Sortase_D_4 Sortase D 22.5 1.2E+02 0.0026 22.6 3.5 17 51-67 67-83 (127)
48 PRK10523 lipoprotein involved 22.4 2.5E+02 0.0054 23.8 5.6 55 31-91 54-114 (234)
49 PF08269 Cache_2: Cache domain 22.4 19 0.00041 25.3 -1.0 37 51-87 58-94 (95)
50 cd06166 Sortase_D_5 Sortase D 22.1 1.3E+02 0.0029 22.3 3.6 19 49-67 68-86 (126)
51 PF13511 DUF4124: Domain of un 21.6 73 0.0016 20.3 1.8 17 51-67 15-31 (60)
52 cd02769 MopB_DMSOR-BSOR-TMAOR 21.5 59 0.0013 31.1 1.9 25 183-207 226-251 (609)
53 PF01947 DUF98: Protein of unk 20.9 1.4E+02 0.003 23.3 3.6 29 144-174 114-142 (149)
54 PF06903 VirK: VirK protein; 20.6 2E+02 0.0044 21.0 4.1 22 44-66 56-77 (100)
55 PRK12693 flgG flagellar basal 20.0 1.1E+02 0.0024 25.9 3.2 42 46-88 96-138 (261)
No 1
>PF04525 Tub_2: Tubby C 2; InterPro: IPR007612 This is a family of plant and bacterial uncharacterised proteins.; PDB: 1ZXU_A 2Q4M_A.
Probab=100.00 E-value=3.8e-44 Score=292.39 Aligned_cols=180 Identities=34% Similarity=0.643 Sum_probs=110.4
Q ss_pred eeecCCCcCCcceEEEEEEeeeeecCCCeEEEcCCCCEEEEEEc-cCCCCCceEEEECCCCCcEEEEEeccccccceeEE
Q 038304 24 PIIGPQYCVPYPVDIAIVRKFMSVTDGTFVVNDIADNLMFKVKE-KLISLHKRRTVLDPYDNPIVTVTKKLISAHEKHYV 102 (214)
Q Consensus 24 ~vV~~~~~~~~~~~l~ik~k~~s~~~~~f~I~D~~G~~vf~V~g-~~~s~~~~~~l~D~~G~~L~~i~~k~~s~~~~w~v 102 (214)
+||+++||++++++|+||+|.+++++++|+|+|++|+++|+|+| +.+++++++.|+|++|+||++|++|.++++++|++
T Consensus 2 ~vv~~~~~~~~~~~l~v~~k~~~~~~~~f~V~D~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~~i~~k~~~l~~~w~i 81 (187)
T PF04525_consen 2 VVVDAQYCSPQPVTLTVKKKSLSFSGDDFTVYDENGNVVFRVDGGKFFSIGKKRTLMDASGNPLFTIRRKLFSLRPTWEI 81 (187)
T ss_dssp -SS-GGGB-SS-EEEEEE----------EEEEETTS-EEEEEE--SCTTBTTEEEEE-TTS-EEEEEE--------EEEE
T ss_pred cEECHHHcCCCceEEEEEEEEeeecCCCEEEEcCCCCEEEEEEEecccCCCCEEEEECCCCCEEEEEEeeecccceEEEE
Confidence 46799999999999999999999988899999999999999999 89999999999999999999999999999999999
Q ss_pred EECCCCCCCceEEEEEeeecccCCceEEEEEccCC-----CCceeeEEEEceeecceEEEEeCCCCcEEEEEEeeeecce
Q 038304 103 FRGNSTDSKDLLFTVGKSKMIQLKTTLNVYLASNN-----KQDVCDFKIKGSWLERSCIFYAGESKAIVAQMQKRITAGS 177 (214)
Q Consensus 103 ~~~~~~~~~~~l~~ikk~~~~~~k~~~~V~~~~~~-----~~~~~~~~v~G~~~~~~~~I~~~~~~~~VA~I~rk~~~~~ 177 (214)
|.+++.+..+++|++++++....++++.+|+.... .+..++|+|+|||++++|+|++. .|+.||+|+||+..+.
T Consensus 82 ~~~~~~~~~~~i~tvkk~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~i~G~~~~~~~~I~~~-~g~~VA~i~rk~~~k~ 160 (187)
T PF04525_consen 82 YRGGGSEGKKPIFTVKKKSMLQNKDSFDVFLPPKSNISIDDSEGPDFEIKGNFWDRSFTIYDS-GGRVVAEISRKYSSKK 160 (187)
T ss_dssp EETT---GGGEEEEEE----------EEEEET--T----------SEEEES-TTTT--EEEEC-C--EEEEEEE------
T ss_pred EECCCCccCceEEEEEEecccCCCcceeEEEecccceeecCCCCceEEEEEEecCcEEEEEEc-CCCEEEEEecccceee
Confidence 99986555578999998866667888999987432 25678999999999999999953 3899999999988888
Q ss_pred eeeecceEEEEEeCCCCHHHHHHHHHh
Q 038304 178 VMLDKDRYTVTVYPNIDYAFVVALIVI 204 (214)
Q Consensus 178 ~~~~~dtY~v~V~pgvD~alv~alvv~ 204 (214)
++.|+|+|.|+|+||+|++|++|||||
T Consensus 161 ~~~~~dty~l~V~pg~D~~lv~alvvi 187 (187)
T PF04525_consen 161 WFSGRDTYTLTVAPGVDQALVVALVVI 187 (187)
T ss_dssp ----B-SEEEEE-TTSBHHHHHHHHHH
T ss_pred EEecCcEEEEEEcCCCCHHHheeEEeC
Confidence 899999999999999999999999986
No 2
>COG4894 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=4.4e-34 Score=218.29 Aligned_cols=152 Identities=21% Similarity=0.333 Sum_probs=138.5
Q ss_pred EEEEEEeeeeecCCCeEEEcCCCCEEEEEEccCCCCCceEEEECCCCCcEEEEEeccccccceeEEEECCCCCCCceEEE
Q 038304 37 DIAIVRKFMSVTDGTFVVNDIADNLMFKVKEKLISLHKRRTVLDPYDNPIVTVTKKLISAHEKHYVFRGNSTDSKDLLFT 116 (214)
Q Consensus 37 ~l~ik~k~~s~~~~~f~I~D~~G~~vf~V~g~~~s~~~~~~l~D~~G~~L~~i~~k~~s~~~~w~v~~~~~~~~~~~l~~ 116 (214)
+|.++||+.++++ +|.|+|.+|+.+|+|+|+.++++..+.+.|++|.+|..|++|+++++++|+|-.|+ + .+|.
T Consensus 7 tl~mkQk~~~~gd-~f~I~d~dgE~af~VeGs~f~i~dtlti~Da~G~~l~~i~~kll~l~~~yeI~d~~----g-~~~~ 80 (159)
T COG4894 7 TLFMKQKMFSFGD-AFHIYDRDGEEAFKVEGSFFSIGDTLTITDASGKTLVSIEQKLLSLLPRYEISDGG----G-TVCE 80 (159)
T ss_pred hHhhhhhhhhccc-ceEEECCCCcEEEEEeeeEEeeCceEEEEecCCCChHHHHHHHhhccceeEEEcCC----C-CEEE
Confidence 6889999999986 99999999999999999999999999999999999999999999999999998877 2 3888
Q ss_pred EEeeecccCCceEEEEEccCCCCceeeEEEEceeecceEEEEeCCCCcEEEEEEeeeecceeeeecceEEEEEeCCCCHH
Q 038304 117 VGKSKMIQLKTTLNVYLASNNKQDVCDFKIKGSWLERSCIFYAGESKAIVAQMQKRITAGSVMLDKDRYTVTVYPNIDYA 196 (214)
Q Consensus 117 ikk~~~~~~k~~~~V~~~~~~~~~~~~~~v~G~~~~~~~~I~~~~~~~~VA~I~rk~~~~~~~~~~dtY~v~V~pgvD~a 196 (214)
++|+ ++++++++++.. .+|+++||+|+.+|++.+| ++.+|+|+||| ++|+|||.|+|+|+.|.+
T Consensus 81 vrKK-~tf~Rdk~e~d~--------~~~eihGNi~d~efkl~dg--~~~~aeVsKkw-----f~~rdTY~l~vapde~a~ 144 (159)
T COG4894 81 VRKK-VTFSRDKFEIDG--------LNWEIHGNIWDDEFKLTDG--ENVRAEVSKKW-----FSWRDTYHLQVAPDEDAL 144 (159)
T ss_pred EEEE-EEEEeeeEEEcC--------CCeEEecceeceEEEEecC--Cceehhheeee-----EeccceEEEEEcCchhhH
Confidence 8755 666677777643 3599999999999999999 67999999996 999999999999999999
Q ss_pred HHHHHHHhhhcccc
Q 038304 197 FVVALIVILDEINN 210 (214)
Q Consensus 197 lv~alvv~lD~i~~ 210 (214)
+|+++|||+|++.+
T Consensus 145 lii~i~VaLD~v~~ 158 (159)
T COG4894 145 LIIAIAVALDMVLY 158 (159)
T ss_pred HHHHHHHHHHHHhc
Confidence 99999999999875
No 3
>PF03803 Scramblase: Scramblase ; InterPro: IPR005552 Scramblase is palmitoylated and contains a potential protein kinase C phosphorylation site. Scramblase exhibits Ca2+-activated phospholipid scrambling activity in vitro. There are also possible SH3 and WW binding motifs. Scramblase is involved in the redistribution of phospholipids after cell activation or injury [].
Probab=99.66 E-value=2e-14 Score=119.87 Aligned_cols=165 Identities=13% Similarity=0.232 Sum_probs=129.2
Q ss_pred EEEEEEeeeee-------cCCCeEEEcCCCCEEEEEEccCC---------CCCceEEEECCCCCcEEEEEeccccc----
Q 038304 37 DIAIVRKFMSV-------TDGTFVVNDIADNLMFKVKEKLI---------SLHKRRTVLDPYDNPIVTVTKKLISA---- 96 (214)
Q Consensus 37 ~l~ik~k~~s~-------~~~~f~I~D~~G~~vf~V~g~~~---------s~~~~~~l~D~~G~~L~~i~~k~~s~---- 96 (214)
.++|+|+...+ ..+.|.|+|.+|+.+|.+....- ..+-+..++|..|++++++++..-..
T Consensus 23 ~l~I~Q~~e~~e~~~~~e~~N~Y~I~n~~g~~i~~~~E~s~~~~R~~~~~~R~f~~~i~D~~g~~vl~i~Rp~~c~~C~~ 102 (221)
T PF03803_consen 23 QLLIKQQIEPLEIFTGFETPNRYDIKNPNGQQIYYAVEESDCCSRQCCGSHRPFKMHIYDNYGREVLTIERPFKCCSCCP 102 (221)
T ss_pred EEEEEEEEEEeceecccccCceEEEECCCCCEEEEEEEeCcceeeeecCCCCCEEEEEEecCCCEEEEEEcCCcceeccc
Confidence 67777776532 35799999999999999876521 12355788999999999999876432
Q ss_pred --cceeEEEECCCCCCCceEEEEEeeecccCCceEEEEEccCCCCceeeEEEEce------eecceEEEEeCCCCcEEEE
Q 038304 97 --HEKHYVFRGNSTDSKDLLFTVGKSKMIQLKTTLNVYLASNNKQDVCDFKIKGS------WLERSCIFYAGESKAIVAQ 168 (214)
Q Consensus 97 --~~~w~v~~~~~~~~~~~l~~ikk~~~~~~k~~~~V~~~~~~~~~~~~~~v~G~------~~~~~~~I~~~~~~~~VA~ 168 (214)
..+.+|+.+. ++.|.+|+.+ +..++++++|+-+++ +.-+.|+|. +.+..|.|++.+ |+.||+
T Consensus 103 ~~~~~~~V~~p~----g~~iG~I~q~-~~~~~~~f~I~d~~~----~~~~~I~gp~~~~~~~~~~~F~I~~~~-~~~vg~ 172 (221)
T PF03803_consen 103 CCLQEMEVESPP----GNLIGSIRQP-FSCCRPNFDIFDANG----NPIFTIKGPCCCCSCCCDWEFEIKDPN-GQEVGS 172 (221)
T ss_pred ccceeEEEecCC----CcEEEEEEEc-CcccceEEEEEECCC----ceEEEEeCCcceeccccceeeeeeccc-CcEEEE
Confidence 2566665443 6899999954 676799999987543 467888887 457889999965 799999
Q ss_pred EEeeee--cceeeeecceEEEEEeCCCCH---HHHHHHHHhhhccccC
Q 038304 169 MQKRIT--AGSVMLDKDRYTVTVYPNIDY---AFVVALIVILDEINND 211 (214)
Q Consensus 169 I~rk~~--~~~~~~~~dtY~v~V~pgvD~---alv~alvv~lD~i~~~ 211 (214)
|+|+|+ .++.+...|.|.|+..+..|. |+++|.++.||.+.-+
T Consensus 173 I~k~w~G~~~e~~t~~d~f~i~Fp~~l~~~~Kalll~a~~liD~~~Fe 220 (221)
T PF03803_consen 173 ITKKWSGFCRELFTDADNFVIEFPPDLDVEQKALLLGAAFLIDYMYFE 220 (221)
T ss_pred EEEecCCcchhhccccceEEEEcCCCCCHHHHHHHHHHHHHhhhhhhc
Confidence 999996 356788899999999998885 8999999999988755
No 4
>COG4894 Uncharacterized conserved protein [Function unknown]
Probab=98.50 E-value=3.5e-07 Score=70.76 Aligned_cols=70 Identities=21% Similarity=0.304 Sum_probs=64.3
Q ss_pred cCCcceEEEEEEeeeeecCCCeEEEcCCCCEEEEEEccCCCCCceEEEECCCCCcEEEEEeccccccceeEE
Q 038304 31 CVPYPVDIAIVRKFMSVTDGTFVVNDIADNLMFKVKEKLISLHKRRTVLDPYDNPIVTVTKKLISAHEKHYV 102 (214)
Q Consensus 31 ~~~~~~~l~ik~k~~s~~~~~f~I~D~~G~~vf~V~g~~~s~~~~~~l~D~~G~~L~~i~~k~~s~~~~w~v 102 (214)
-..++..+.|.-+.+++.+ .|+|+|+.|..++.++.+.+++..+..+.|++|+ ++.+++|...++++|++
T Consensus 25 d~dgE~af~VeGs~f~i~d-tlti~Da~G~~l~~i~~kll~l~~~yeI~d~~g~-~~~vrKK~tf~Rdk~e~ 94 (159)
T COG4894 25 DRDGEEAFKVEGSFFSIGD-TLTITDASGKTLVSIEQKLLSLLPRYEISDGGGT-VCEVRKKVTFSRDKFEI 94 (159)
T ss_pred CCCCcEEEEEeeeEEeeCc-eEEEEecCCCChHHHHHHHhhccceeEEEcCCCC-EEEEEEEEEEEeeeEEE
Confidence 3578899999999999987 7999999999999999999999999999999999 88899998767888887
No 5
>KOG0621 consensus Phospholipid scramblase [Cell wall/membrane/envelope biogenesis]
Probab=98.18 E-value=0.00011 Score=63.79 Aligned_cols=177 Identities=12% Similarity=0.196 Sum_probs=114.9
Q ss_pred CCCcCCcceEEEEEEe--e---eee-cCCCeEEEcCCCCEEEEEEccC---------CCCCceEEEECCCCCcEEEEEec
Q 038304 28 PQYCVPYPVDIAIVRK--F---MSV-TDGTFVVNDIADNLMFKVKEKL---------ISLHKRRTVLDPYDNPIVTVTKK 92 (214)
Q Consensus 28 ~~~~~~~~~~l~ik~k--~---~s~-~~~~f~I~D~~G~~vf~V~g~~---------~s~~~~~~l~D~~G~~L~~i~~k 92 (214)
-+|.+..+..++.++. + ..| +.+.|.|.|.+|+.+|.+-... ..-+-...++|.-|+++++++++
T Consensus 71 l~~L~~~~~~~V~q~~E~~ei~tG~et~NRY~v~~~~g~~v~~~~E~S~~~~Rq~~g~~RpF~~~i~D~~g~eVl~~~R~ 150 (292)
T KOG0621|consen 71 LEYLAHLDSLMVVQQIEPLEIFTGFETANRYVVHDMYGQPLYYAMERSNVFARQYLGTHRPFAMRIMDNFGQEVLTCKRP 150 (292)
T ss_pred hheeecCCceEEEEeeeehhhhccCccCcEEEEEcCCcChhHHHHhhchHHHHHhhccCCcceeEeecccCcEEEEEecc
Confidence 3455555544444333 1 244 5789999999999988554421 11235678999999999999998
Q ss_pred cccccc--------eeEEEECCCCCCCceEEEEEeeecccCCceEEEEEccCCCCceeeEEEEce-------eecceEEE
Q 038304 93 LISAHE--------KHYVFRGNSTDSKDLLFTVGKSKMIQLKTTLNVYLASNNKQDVCDFKIKGS-------WLERSCIF 157 (214)
Q Consensus 93 ~~s~~~--------~w~v~~~~~~~~~~~l~~ikk~~~~~~k~~~~V~~~~~~~~~~~~~~v~G~-------~~~~~~~I 157 (214)
..+... ..++- ....-.+.++... .....++++|.-. +....+.|+|- +-+..+.+
T Consensus 151 ~~c~~~~c~~~~~~~~~v~----~p~~~~lG~v~q~-~~~~~~~f~i~~~----~~~~v~~v~gp~~~~~~~~~d~~f~~ 221 (292)
T KOG0621|consen 151 FPCCSSACALCLAQEIEIQ----SPPMGLLGKVLQT-WGCVNPNFHLWDR----DGNLVFLVEGPRCCTFACCDDTVFFP 221 (292)
T ss_pred ccccccccccccccEEEEE----cCCCceEEEEEEe-eccccceEEEEcc----cceeEEEEEcCceeEEEeecCcceeE
Confidence 754432 11111 1123455555532 3234566666432 23345666666 33444555
Q ss_pred EeCCCCcEEEEEEeeee--cceeeeecceEEEEEeCCCCH---HHHHHHHHhhhccccCCC
Q 038304 158 YAGESKAIVAQMQKRIT--AGSVMLDKDRYTVTVYPNIDY---AFVVALIVILDEINNDDD 213 (214)
Q Consensus 158 ~~~~~~~~VA~I~rk~~--~~~~~~~~dtY~v~V~pgvD~---alv~alvv~lD~i~~~~~ 213 (214)
...+.++.|++|.|+|. +++.+.+.|+|.|.-.-..|. |+++|.+.-||.+.-+++
T Consensus 222 ~~~d~~~~vg~I~k~w~g~~rE~fTDad~f~v~FPldLdvk~kavllga~flID~~~Fe~~ 282 (292)
T KOG0621|consen 222 KTTDNGRIVGSISRKWAGLVREAFTDADTFVVHFPLDLDVKLKALLLGSTFLIDYMSFESR 282 (292)
T ss_pred EEcCCCeEEEEEeecccchhhhheeccceeeEecCCcCCHHHHhhhhhheeeEEEEEEecC
Confidence 55555899999999996 568899999999998877775 789999999997766543
No 6
>PF04525 Tub_2: Tubby C 2; InterPro: IPR007612 This is a family of plant and bacterial uncharacterised proteins.; PDB: 1ZXU_A 2Q4M_A.
Probab=98.04 E-value=5.1e-05 Score=61.71 Aligned_cols=87 Identities=22% Similarity=0.316 Sum_probs=51.4
Q ss_pred CCCEEEEEEccCC-CCCceEEEECCCCCcEEEEEe-ccccccceeEEEECCCCCCCceEEEEEeeecccCCceEEEEEcc
Q 038304 58 ADNLMFKVKEKLI-SLHKRRTVLDPYDNPIVTVTK-KLISAHEKHYVFRGNSTDSKDLLFTVGKSKMIQLKTTLNVYLAS 135 (214)
Q Consensus 58 ~G~~vf~V~g~~~-s~~~~~~l~D~~G~~L~~i~~-k~~s~~~~w~v~~~~~~~~~~~l~~ikk~~~~~~k~~~~V~~~~ 135 (214)
.....++|.-+.+ ..+..+.|+|.+|+++|.+.. +.++++.+..++... +++|++++++ .+.+.++|+++..+
T Consensus 11 ~~~~~l~v~~k~~~~~~~~f~V~D~~G~~vf~V~g~~~~s~~~~~~l~D~~----G~~L~~i~~k-~~~l~~~w~i~~~~ 85 (187)
T PF04525_consen 11 PQPVTLTVKKKSLSFSGDDFTVYDENGNVVFRVDGGKFFSIGKKRTLMDAS----GNPLFTIRRK-LFSLRPTWEIYRGG 85 (187)
T ss_dssp SS-EEEEEE----------EEEEETTS-EEEEEE--SCTTBTTEEEEE-TT----S-EEEEEE---------EEEEEETT
T ss_pred CCceEEEEEEEEeeecCCCEEEEcCCCCEEEEEEEecccCCCCEEEEECCC----CCEEEEEEee-ecccceEEEEEECC
Confidence 5677888866554 458999999999999999999 899999999998765 6899999975 55578999999977
Q ss_pred CCCCceeeEEEEce
Q 038304 136 NNKQDVCDFKIKGS 149 (214)
Q Consensus 136 ~~~~~~~~~~v~G~ 149 (214)
...++.+-++++-.
T Consensus 86 ~~~~~~~i~tvkk~ 99 (187)
T PF04525_consen 86 GSEGKKPIFTVKKK 99 (187)
T ss_dssp ---GGGEEEEEE--
T ss_pred CCccCceEEEEEEe
Confidence 53334456777665
No 7
>PF03803 Scramblase: Scramblase ; InterPro: IPR005552 Scramblase is palmitoylated and contains a potential protein kinase C phosphorylation site. Scramblase exhibits Ca2+-activated phospholipid scrambling activity in vitro. There are also possible SH3 and WW binding motifs. Scramblase is involved in the redistribution of phospholipids after cell activation or injury [].
Probab=95.94 E-value=0.061 Score=44.57 Aligned_cols=64 Identities=14% Similarity=0.229 Sum_probs=53.0
Q ss_pred eEEEcCCCCEEEEEEccCCCC-------CceEEEECCCCCcEEEEEeccccccceeEEEECCCCCCCceEEEEEee
Q 038304 52 FVVNDIADNLMFKVKEKLISL-------HKRRTVLDPYDNPIVTVTKKLISAHEKHYVFRGNSTDSKDLLFTVGKS 120 (214)
Q Consensus 52 f~I~D~~G~~vf~V~g~~~s~-------~~~~~l~D~~G~~L~~i~~k~~s~~~~w~v~~~~~~~~~~~l~~ikk~ 120 (214)
..|+|.+|+.|++++-.. .. ..+..+.++.|++|.+|+++...+.++|+|+.++ ++.+++|+.+
T Consensus 78 ~~i~D~~g~~vl~i~Rp~-~c~~C~~~~~~~~~V~~p~g~~iG~I~q~~~~~~~~f~I~d~~----~~~~~~I~gp 148 (221)
T PF03803_consen 78 MHIYDNYGREVLTIERPF-KCCSCCPCCLQEMEVESPPGNLIGSIRQPFSCCRPNFDIFDAN----GNPIFTIKGP 148 (221)
T ss_pred EEEEecCCCEEEEEEcCC-cceecccccceeEEEecCCCcEEEEEEEcCcccceEEEEEECC----CceEEEEeCC
Confidence 468999999999999743 32 3577788999999999999887789999999876 4789999855
No 8
>PF09008 Head_binding: Head binding; InterPro: IPR009093 This entry represents the N-terminal domain of the Bacteriophage P22, Gp9, tailspike protein (TSP). The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. The tailspike protein of Salmonella bacteriophage P22 is a viral adhesion protein that mediates attachment of the viral protein to host cell-surface lipopolysaccharide. The tailspike protein displays both receptor binding and destroying properties, inactivating the receptor by endoglycosidase activity. The N-terminal, head-binding domain mediates the non-covalent attachment of the six homotrimeric tailspike molecules to the DNA injection apparatus []. The N-terminal domain of the P22 tailspike protein shows significant sequence similarity to the N-terminal domain of the Shigella phage Sf6 tailspike protein [].; GO: 0009405 pathogenesis; PDB: 2XC1_C 1LKT_D 2VFQ_A 2VFO_A 2VFN_A 2VFP_A 2VKY_B 2VFM_A 2VNL_A 2VBK_A ....
Probab=84.78 E-value=3.5 Score=30.64 Aligned_cols=65 Identities=14% Similarity=0.121 Sum_probs=35.9
Q ss_pred CCCCCCceeeecCCCcCCcceEEEEEEeeeeecCCCeEEEcCCCCEEEEEEccCCCCCceEEEECCCCCcEEEEE
Q 038304 16 PEIYTRPYPIIGPQYCVPYPVDIAIVRKFMSVTDGTFVVNDIADNLMFKVKEKLISLHKRRTVLDPYDNPIVTVT 90 (214)
Q Consensus 16 ~~~~~~p~~vV~~~~~~~~~~~l~ik~k~~s~~~~~f~I~D~~G~~vf~V~g~~~s~~~~~~l~D~~G~~L~~i~ 90 (214)
|+.+...+.| |..++.-.+..-...+.+..++|.+++ |+...-|... ++...++|++|..+|.+-
T Consensus 40 P~~p~NqI~V----yl~ne~G~~~~i~QPi~iN~gg~~~y~--gq~a~~vt~~----~hSMAv~d~~g~q~Fy~p 104 (114)
T PF09008_consen 40 PTNPGNQIPV----YLENEDGSHVQIAQPIIINKGGFPVYN--GQIAKFVTVP----GHSMAVYDANGQQQFYFP 104 (114)
T ss_dssp TTSGGGB--E----EEE-TTS-EEEE-SSEEE-TTS-EEET--TEE--EEESS----SEEEEEE-TTS-EEEEES
T ss_pred CCCCCCcceE----EEEcCCCCEeeccCCEEEccCCceEEc--cceeEEEEcc----CceEEEEeCCCcEEEeec
Confidence 4455555665 556555455555567788667999995 4455555544 345899999999999863
No 9
>PF13860 FlgD_ig: FlgD Ig-like domain; PDB: 3C12_A 3OSV_A.
Probab=73.75 E-value=6.5 Score=27.25 Aligned_cols=17 Identities=12% Similarity=0.167 Sum_probs=9.5
Q ss_pred CeEEEcCCCCEEEEEEc
Q 038304 51 TFVVNDIADNLMFKVKE 67 (214)
Q Consensus 51 ~f~I~D~~G~~vf~V~g 67 (214)
...|+|++|++|.++.-
T Consensus 28 ~v~I~d~~G~~V~t~~~ 44 (81)
T PF13860_consen 28 TVTIYDSNGQVVRTISL 44 (81)
T ss_dssp EEEEEETTS-EEEEEEE
T ss_pred EEEEEcCCCCEEEEEEc
Confidence 35566666666666554
No 10
>KOG3950 consensus Gamma/delta sarcoglycan [Cytoskeleton]
Probab=70.46 E-value=6.5 Score=33.50 Aligned_cols=48 Identities=21% Similarity=0.308 Sum_probs=30.1
Q ss_pred EEEEEEeeeeecCCCeEEEcCCCCEEEEEEccCCCCC-ceEEEECCCCC
Q 038304 37 DIAIVRKFMSVTDGTFVVNDIADNLMFKVKEKLISLH-KRRTVLDPYDN 84 (214)
Q Consensus 37 ~l~ik~k~~s~~~~~f~I~D~~G~~vf~V~g~~~s~~-~~~~l~D~~G~ 84 (214)
.|.+-.+..--....|.|.|.+|+++|.++..-..++ .++.+..+.|.
T Consensus 126 ~l~lgp~~ve~~~~~Fev~~~dgk~LFsad~dEv~vgae~LRv~g~~Ga 174 (292)
T KOG3950|consen 126 QLILGPKKVEAQCKRFEVNDVDGKLLFSADEDEVVVGAEKLRVLGAEGA 174 (292)
T ss_pred eEEechHHHhhhhceeEEecCCCcEEEEeccceeEeeeeeeEeccCCcc
Confidence 4555444443334488888888888888888655554 45555555553
No 11
>PF04790 Sarcoglycan_1: Sarcoglycan complex subunit protein; InterPro: IPR006875 The dystrophin glycoprotein complex (DGC) is a membrane-spanning complex that links the interior cytoskeleton to the extracellular matrix in muscle. The sarcoglycan complex is a subcomplex within the DGC and is composed of several muscle-specific, transmembrane proteins (alpha-, beta-, gamma-, delta- and zeta-sarcoglycan). The sarcoglycans are asparagine-linked glycosylated proteins with single transmembrane domains. This family contains beta, gamma and delta members [, ].; GO: 0007010 cytoskeleton organization, 0016012 sarcoglycan complex, 0016021 integral to membrane
Probab=64.73 E-value=11 Score=32.48 Aligned_cols=49 Identities=12% Similarity=0.189 Sum_probs=30.9
Q ss_pred eEEEEEEee-eeecCCCeEEEcC-CCCEEEEEEccCCCCC-ceEEEECCCCC
Q 038304 36 VDIAIVRKF-MSVTDGTFVVNDI-ADNLMFKVKEKLISLH-KRRTVLDPYDN 84 (214)
Q Consensus 36 ~~l~ik~k~-~s~~~~~f~I~D~-~G~~vf~V~g~~~s~~-~~~~l~D~~G~ 84 (214)
.+|.+-++. .-...+.|.|+|. +|+++|.++..-..++ .++.+..+.|.
T Consensus 103 ~~l~v~~~~~v~~~~~~F~V~d~~~g~~lFsad~~~v~v~~~~lrv~~~~G~ 154 (264)
T PF04790_consen 103 SRLVVGPDGTVEAQSNRFEVKDPRDGKTLFSADRPEVVVGAEKLRVTGPEGA 154 (264)
T ss_pred ceEEECCCccEEEecCeEEEEcCCCCceEEEecCCceEEeeeeEEecCCccE
Confidence 355555554 4445567888887 7888888887543333 45556666665
No 12
>KOG0621 consensus Phospholipid scramblase [Cell wall/membrane/envelope biogenesis]
Probab=64.05 E-value=27 Score=30.63 Aligned_cols=47 Identities=15% Similarity=0.062 Sum_probs=33.8
Q ss_pred CeEEEcCCCCEEEEEEccC------CCCCceEEEECCCCCcEEEEEecccccc
Q 038304 51 TFVVNDIADNLMFKVKEKL------ISLHKRRTVLDPYDNPIVTVTKKLISAH 97 (214)
Q Consensus 51 ~f~I~D~~G~~vf~V~g~~------~s~~~~~~l~D~~G~~L~~i~~k~~s~~ 97 (214)
.|.|.|..++.+|+|+|.. .+......++..+|..+..|.+++..+.
T Consensus 189 ~f~i~~~~~~~v~~v~gp~~~~~~~~~d~~f~~~~~d~~~~vg~I~k~w~g~~ 241 (292)
T KOG0621|consen 189 NFHLWDRDGNLVFLVEGPRCCTFACCDDTVFFPKTTDNGRIVGSISRKWAGLV 241 (292)
T ss_pred eEEEEcccceeEEEEEcCceeEEEeecCcceeEEEcCCCeEEEEEeecccchh
Confidence 7888888888888888872 1233456666777888888888765443
No 13
>COG4998 Predicted endonuclease (RecB family) [DNA replication, recombination, and repair]
Probab=47.00 E-value=36 Score=27.38 Aligned_cols=37 Identities=19% Similarity=0.194 Sum_probs=29.1
Q ss_pred cceEEEEeCCCCcEEEEEEeeeecceeeeecceEEEEEeCCC-CH
Q 038304 152 ERSCIFYAGESKAIVAQMQKRITAGSVMLDKDRYTVTVYPNI-DY 195 (214)
Q Consensus 152 ~~~~~I~~~~~~~~VA~I~rk~~~~~~~~~~dtY~v~V~pgv-D~ 195 (214)
.++|.|.++ |..|++|.--- -.++.+|.|+|..|. |.
T Consensus 22 Arn~~ve~e--gveVgEiDIVA-----ek~GerYavEVKAG~vdi 59 (209)
T COG4998 22 ARNMPVEDE--GVEVGEIDIVA-----EKGGERYAVEVKAGMVDI 59 (209)
T ss_pred eecceeecC--CeEEEEEEEEE-----ecCCcEEEEEEeccccch
Confidence 467778888 89999998762 466899999999884 53
No 14
>PRK15393 NUDIX hydrolase YfcD; Provisional
Probab=42.88 E-value=77 Score=25.24 Aligned_cols=56 Identities=9% Similarity=-0.060 Sum_probs=33.8
Q ss_pred CeEEEcCCCCEEEEEEc------cCCCCCceEEEECCCCCcEEEEEeccc-cccceeEEEECC
Q 038304 51 TFVVNDIADNLMFKVKE------KLISLHKRRTVLDPYDNPIVTVTKKLI-SAHEKHYVFRGN 106 (214)
Q Consensus 51 ~f~I~D~~G~~vf~V~g------~~~s~~~~~~l~D~~G~~L~~i~~k~~-s~~~~w~v~~~~ 106 (214)
=++|+|.+|+.+-.+.- +.....-...|+|.+|+.|+.=|...- .+...|+.+-||
T Consensus 11 ~~~~~d~~~~~~g~~~~~~~~~~~~~h~~~~v~v~~~~g~iLL~~R~~~~~~~pg~~~~~pGG 73 (180)
T PRK15393 11 WVDIVNENNEVIAQASREQMRAQCLRHRATYIVVHDGMGKILVQRRTETKDFLPGMLDATAGG 73 (180)
T ss_pred EEEEECCCCCEeeEEEHHHHhhCCCceEEEEEEEECCCCeEEEEEeCCCCCCCCCcccccCCC
Confidence 48899999999998721 112233456778999988874332221 123446665554
No 15
>PF15529 Toxin_49: Putative toxin 49
Probab=41.78 E-value=23 Score=25.41 Aligned_cols=19 Identities=5% Similarity=0.097 Sum_probs=14.3
Q ss_pred CCCeEEEcCCCCEEEEEEc
Q 038304 49 DGTFVVNDIADNLMFKVKE 67 (214)
Q Consensus 49 ~~~f~I~D~~G~~vf~V~g 67 (214)
..+|++||++|..+-++++
T Consensus 29 vt~Y~tY~~~G~~~kr~r~ 47 (89)
T PF15529_consen 29 VTSYTTYDEDGMIVKRYRG 47 (89)
T ss_pred ccceeEEcCCCcEeEEeec
Confidence 3489999999995555544
No 16
>TIGR02150 IPP_isom_1 isopentenyl-diphosphate delta-isomerase, type 1. This model represents type 1 of two non-homologous families of the enzyme isopentenyl-diphosphate delta-isomerase (IPP isomerase). IPP is an essential building block for many compounds, including enzyme cofactors, sterols, and prenyl groups. This inzyme interconverts isopentenyl diphosphate and dimethylallyl diphosphate.
Probab=40.62 E-value=71 Score=24.76 Aligned_cols=55 Identities=9% Similarity=-0.051 Sum_probs=36.6
Q ss_pred eEEEcCCCCEEEEEEccCCCC-------CceEEEECCCCCcEEEEEecc-ccccceeEEEECC
Q 038304 52 FVVNDIADNLMFKVKEKLISL-------HKRRTVLDPYDNPIVTVTKKL-ISAHEKHYVFRGN 106 (214)
Q Consensus 52 f~I~D~~G~~vf~V~g~~~s~-------~~~~~l~D~~G~~L~~i~~k~-~s~~~~w~v~~~~ 106 (214)
+.|+|++|+.+-++.-..... .--..|.|.+|+.|+.-|... ..+...|++--+|
T Consensus 1 ~~~~d~~~~~~g~~~r~~~~~~~g~~h~~v~v~v~~~~g~vLl~kR~~~k~~~PG~W~~~~gG 63 (158)
T TIGR02150 1 VILVDENDNPIGTASKAEVHLQETPLHRAFSVFLFNEEGQLLLQRRALSKITWPGVWTNSCCS 63 (158)
T ss_pred CEEECCCCCEeeeeeHHHhhhcCCCeEEEEEEEEEcCCCeEEEEeccCCCcCCCCCccccccC
Confidence 368999999999987654332 133677899999888644432 3455778764334
No 17
>PF01167 Tub: Tub family; InterPro: IPR000007 Tubby, an autosomal recessive mutation, mapping to mouse chromosome 7, was recently found to be the result of a splicing defect in a novel gene with unknown function. This mutation maps to the tub gene [, ]. The mouse tubby mutation is the cause of maturity-onset obesity, insulin resistance and sensory deficits. By contrast with the rapid juvenile-onset weight gain seen in diabetes (db) and obese (ob) mice, obesity in tubby mice develops gradually, and strongly resembles the late-onset obesity observed in the human population. Excessive deposition of adipose tissue culminates in a two-fold increase of body weight. Tubby mice also suffer retinal degeneration and neurosensory hearing loss. The tripartite character of the tubby phenotype is highly similar to human obesity syndromes, such as Alstrom and Bardet-Biedl. Although these phenotypes indicate a vital role for tubby proteins, no biochemical function has yet been ascribed to any family member [], although it has been suggested that the phenotypic features of tubby mice may be the result of cellular apoptosis triggered by expression of the mutated tub gene. TUB is the founding-member of the tubby-like proteins, the TULPs. TULPs are found in multicellular organisms from both the plant and animal kingdoms. Ablation of members of this protein family cause disease phenotypes that are indicative of their importance in nervous-system function and development []. Mammalian TUB is a hydrophilic protein of ~500 residues. The N-terminal (IPR005398 from INTERPRO) portion of the protein is conserved neither in length nor sequence, but, in TUB, contains the nuclear localisation signal and may have transcriptional-activation activity. The C-terminal 250 residues are highly conserved. The C-terminal extremity contains a cysteine residue that might play an important role in the normal functioning of these proteins. The crystal structure of the C-terminal core domain from mouse tubby has been determined to 1.9A resolution. This domain is arranged as a 12-stranded, all anti-parallel, closed beta-barrel that surrounds a central alpha helix, (which is at the extreme carboxyl terminus of the protein) that forms most of the hydrophobic core. Structural analyses suggest that TULPs constitute a unique family of bipartite transcription factors [].; PDB: 3C5N_B 2FIM_A 1I7E_A 1C8Z_A 1S31_A.
Probab=39.98 E-value=1.4e+02 Score=25.24 Aligned_cols=76 Identities=12% Similarity=0.152 Sum_probs=44.0
Q ss_pred ccceeEEEECCCCCCCceEEEEEeeecccCCceEEEEEccC-C--CCceeeEEEEceeecceEEEEeCC-----------
Q 038304 96 AHEKHYVFRGNSTDSKDLLFTVGKSKMIQLKTTLNVYLASN-N--KQDVCDFKIKGSWLERSCIFYAGE----------- 161 (214)
Q Consensus 96 ~~~~w~v~~~~~~~~~~~l~~ikk~~~~~~k~~~~V~~~~~-~--~~~~~~~~v~G~~~~~~~~I~~~~----------- 161 (214)
+.+.|..|..+. .++.|...||.+.. ....+.|.+... . .+...-=+|+.||++.+|+||+.+
T Consensus 23 lyp~y~l~l~~~--~~kfLLaArK~~~s-~~s~YiIS~~~~dlsr~s~~yvGKLrsNf~GT~F~iyD~g~~~~~~~~~~~ 99 (246)
T PF01167_consen 23 LYPGYYLYLEGE--NGKFLLAARKRKRS-KTSNYIISLDPDDLSRSSNNYVGKLRSNFLGTEFTIYDNGPNPKKSKSISP 99 (246)
T ss_dssp ---EEEEEEEST--TSEEEEEEEEECSS-SSEEEEEESSHHHHCTT---ESEEEEE-TTSSEEEEEESSB-CCCSTCCTS
T ss_pred cCcEeEeccccC--CCcEEEeeeecccC-CCcceEEecCCCccccCCCceeeeeccccceeEEEEECCCCCCccccccCc
Confidence 467888887632 34788888865322 356788877542 1 122233467899999999999862
Q ss_pred ----CCcEEEEEEeeee
Q 038304 162 ----SKAIVAQMQKRIT 174 (214)
Q Consensus 162 ----~~~~VA~I~rk~~ 174 (214)
....+|.|.-+.+
T Consensus 100 ~~~~~r~eLa~V~Ye~n 116 (246)
T PF01167_consen 100 REPQIRRELAAVSYETN 116 (246)
T ss_dssp CCSSB--EEEEEEEEE-
T ss_pred CcCcCcceEEEEEEEec
Confidence 0137777776654
No 18
>COG5436 Predicted integral membrane protein [Function unknown]
Probab=39.83 E-value=65 Score=25.71 Aligned_cols=33 Identities=18% Similarity=0.249 Sum_probs=18.3
Q ss_pred CcceEEEEEEeeeeecCCCeEEEcCCCCEEEEEEcc
Q 038304 33 PYPVDIAIVRKFMSVTDGTFVVNDIADNLMFKVKEK 68 (214)
Q Consensus 33 ~~~~~l~ik~k~~s~~~~~f~I~D~~G~~vf~V~g~ 68 (214)
..++.+.-+....-|| -.|||++|+-+|.+...
T Consensus 77 egpvri~a~~nvpyWS---vsiyds~~nn~fS~ND~ 109 (182)
T COG5436 77 EGPVRIEAKGNVPYWS---VSIYDSNGNNFFSINDR 109 (182)
T ss_pred CCcEEEEecCCCceEE---EEEEcCCCCceEEeccc
Confidence 4555555555444442 35666666666666543
No 19
>PF02974 Inh: Protease inhibitor Inh; InterPro: IPR021140 This entry represents the metalloprotease inhibitor I38, as well as the outer membrane lipoprotein Omp19. Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. This family of proteins represent monomeric serralysin inhibitors of about 125 residues, which interact with specific metalloprotease which are synthesised by serralysin secretors and characterised by being plant, insect and animal pathogens. It is probable that the serralysin inhibitors protect the host from proteolysis during export of the protease. The members of this family belong to MEROPS proteinase inhibitor family I38, clan IK. X-ray crystallography of a complex between the Serratia marcescens protease, SmaPI, and the inhibitor of Erwinia chrysanthemi, Inh, reveals that Inh is folded into an eight-stranded b-barrel with an N-terminal trunk of 10 residues. Residues 1-5 occupy part of the extended active site of the proteinase, thereby preventing access of the substrate. Residues 6-10 form a linker that connects the N-terminal proteinase-binding peptide to the body of the b-barrel. The backbone carbonyl of Ser-1 interacts with the catalytic zinc; the Ser-2 side chain occupies the S1'-binding site and also forms a hydrogen bond to the carboxyl end of the catalytic Glu, whereas Leu-3 occupies the S2' recognition site. Penetration of the trunk region further than 5 residues into the substrate binding cleft appears to be prevented by the b-barrel, which itself interacts with the proteinase near its Met turn (19). Peptide mimetics of the trunk at concentrations up to about 100 mM do not inhibit the protease, demonstrating that the barrel is essential for inhibitory activity [, ]. Structurally and functionally these inhibitors are closely related to the lipocalins, fatty acid-binding proteins, avidins and the enigmatic triabin. Together these five protein families constitute the calycin superfamily []. The proteins are characterised by their high specificity for small hydrophobic molecules and by their ability to form complexes with soluble macromolecules either through intramolecular disulphides or protein-protein interactions []. ; PDB: 1JIW_I 2RN4_A 1SMP_I.
Probab=38.73 E-value=1.5e+02 Score=21.33 Aligned_cols=31 Identities=3% Similarity=-0.111 Sum_probs=22.2
Q ss_pred CceEEEECCCCCcEEEEEeccccccceeEEEECC
Q 038304 73 HKRRTVLDPYDNPIVTVTKKLISAHEKHYVFRGN 106 (214)
Q Consensus 73 ~~~~~l~D~~G~~L~~i~~k~~s~~~~w~v~~~~ 106 (214)
++.+.|+|.+|+.|.++.+.. -..|+...++
T Consensus 61 gd~l~L~d~~G~~v~~f~~~~---~g~~~g~~~~ 91 (99)
T PF02974_consen 61 GDGLVLTDADGSVVAFFYRSG---DGRFEGQTPD 91 (99)
T ss_dssp TTEEEEE-TTS-EEEEEEEEC---TTEEEEEECC
T ss_pred CCEEEEECCCCCEEEEEEccC---CeeEEeEcCC
Confidence 367999999999999987764 3467777755
No 20
>PF04076 BOF: Bacterial OB fold (BOF) protein; InterPro: IPR005220 Proteins in this entry have an OB-fold fold (oligonucleotide/oligosaccharide binding motif). Analysis of the predicted nucleotide-binding site of the OB-fold suggests that they lack nucleic acid-binding properties. They contain an predicted N-terminal signal peptide which indicates that they localise to the periplasm where they may function to bind proteins, small molecules, or other typical OB-fold ligands. As hypothesised for the distantly related OB-fold containing bacterial enterotoxins, the loss of nucleotide-binding function and the rapid evolution of the OB-fold ligand-binding site may be associated with the presence of members in mobile genetic elements and their potential role in bacterial pathogenicity [].; PDB: 1NNX_A.
Probab=37.87 E-value=40 Score=24.79 Aligned_cols=21 Identities=10% Similarity=0.069 Sum_probs=11.9
Q ss_pred ceEEEECCCCCcEEEEEeccc
Q 038304 74 KRRTVLDPYDNPIVTVTKKLI 94 (214)
Q Consensus 74 ~~~~l~D~~G~~L~~i~~k~~ 94 (214)
.++.+.|.+|...+.|.++.|
T Consensus 50 d~Y~F~D~TG~I~VeId~~~w 70 (103)
T PF04076_consen 50 DKYLFRDATGEIEVEIDDDVW 70 (103)
T ss_dssp TEEEEEETTEEEEEE--GGGS
T ss_pred CEEEEECCCCcEEEEEChhhc
Confidence 456666666766666666654
No 21
>PF09000 Cytotoxic: Cytotoxic; InterPro: IPR009105 Colicins are plasmid-encoded protein antibiotics, or bacteriocins, produced by strains of Escherichia coli that kill closely related bacteria. Colicins are classified according to the cell-surface receptor they bind to, colicin E3 binding to the BtuB receptor involved in vitamin B12 uptake. The lethal action of colicin E3 arises from its ability to inactivate the ribosome by site-specific RNase cleavage of the 16S ribosomal RNA, which is carried out by the catalytic, or ribonuclease domain. Colicin E3 is comprised of three domains, each domain being involved in a different stage of infection: receptor binding, translocation and cytotoxicity. Colicin E3 is a Y-shaped molecule with the receptor-binding middle domain forming the stalk, the N-terminal translocation domain forming the two globular heads (IPR003058 from INTERPRO), and the C-terminal catalytic domain forming the two globular arms. To neutralise the toxic effects of colicin E3, the host cell produces an immunity protein, which binds to the C-terminal end of the ribonuclease domain and effectively suppresses its activity. This entry represents the ribonuclease domain (also called catalytic or cytotoxic domain) found in various colicins. This domain confers cytotoxic activity to proteins, enabling the formation of nucleolytic breaks in 16S ribosomal RNA. The structure of the domain reveals a highly twisted central beta-sheet elaborated with a short N-terminal alpha-helix [, ]. ; GO: 0003723 RNA binding, 0016788 hydrolase activity, acting on ester bonds, 0043022 ribosome binding, 0009405 pathogenesis; PDB: 2B5U_C 1JCH_A 1E44_B 2XFZ_Y.
Probab=35.77 E-value=96 Score=22.06 Aligned_cols=36 Identities=11% Similarity=0.124 Sum_probs=25.2
Q ss_pred EEEcCCCCEEEEEEccCCCCCceEEEECCCCCcEEEEEec
Q 038304 53 VVNDIADNLMFKVKEKLISLHKRRTVLDPYDNPIVTVTKK 92 (214)
Q Consensus 53 ~I~D~~G~~vf~V~g~~~s~~~~~~l~D~~G~~L~~i~~k 92 (214)
.=+|..|..+|.-|.. +..++++|..|+.|-.+...
T Consensus 34 rw~~~kG~kiYewDsq----HG~lEvy~~~GkHLGe~Dp~ 69 (85)
T PF09000_consen 34 RWKDKKGRKIYEWDSQ----HGELEVYNKRGKHLGEFDPK 69 (85)
T ss_dssp EEEETTTTEEEEEETT----TTEEEEEETT-BEEEEE-TT
T ss_pred ceEcCCCCEEEEEcCC----CCeEEEEcCCCcCcccccCC
Confidence 3466788888888764 56888888888888776543
No 22
>PRK06655 flgD flagellar basal body rod modification protein; Reviewed
Probab=35.30 E-value=80 Score=26.48 Aligned_cols=16 Identities=19% Similarity=0.189 Sum_probs=8.9
Q ss_pred ceEEEECCCCCcEEEE
Q 038304 74 KRRTVLDPYDNPIVTV 89 (214)
Q Consensus 74 ~~~~l~D~~G~~L~~i 89 (214)
-.+.|+|++|+.+.++
T Consensus 128 vti~I~D~~G~~Vrt~ 143 (225)
T PRK06655 128 VTVTITDSAGQVVRTI 143 (225)
T ss_pred EEEEEEcCCCCEEEEE
Confidence 3455566666655544
No 23
>cd03676 Nudix_hydrolase_3 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belong to this superfamily requires a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate spe
Probab=32.61 E-value=1.8e+02 Score=22.79 Aligned_cols=60 Identities=8% Similarity=-0.057 Sum_probs=34.6
Q ss_pred ecCCCeEEEcCCCCEEEEEEccCC---CCC-ceEE----EECCC--CCcEEEEEecc-ccccceeEEEECC
Q 038304 47 VTDGTFVVNDIADNLMFKVKEKLI---SLH-KRRT----VLDPY--DNPIVTVTKKL-ISAHEKHYVFRGN 106 (214)
Q Consensus 47 ~~~~~f~I~D~~G~~vf~V~g~~~---s~~-~~~~----l~D~~--G~~L~~i~~k~-~s~~~~w~v~~~~ 106 (214)
|.++-|.|+|++|++++++.-... ++. .-.. +.|.+ |..+++-|... .++...|+..-++
T Consensus 2 ~~~E~~~v~d~~~~~~~~~~r~~~~~~g~~h~~v~~~~~~~~~~~~~~l~lqrRs~~K~~~Pg~wd~~~~G 72 (180)
T cd03676 2 WRNELYAVYGPFGEPLFEIERAASRLFGLVTYGVHLNGYVRDEDGGLRIWIPRRSPTKATWPGMLDNLVAG 72 (180)
T ss_pred CcCcceeeECCCCCEeEEEEecccccCCceEEEEEEEEEEEcCCCCeEEEEEeccCCCCCCCCceeeeccc
Confidence 556789999999999987764332 222 2223 34665 55554443332 2345667666554
No 24
>PF12690 BsuPI: Intracellular proteinase inhibitor; InterPro: IPR020481 BsuPI is a intracellular proteinase inhibitor that directly regulates the major intracellular proteinase (ISP-1) activity in vivo. It inhibits ISP-1 in the early stages of sporulation and then may be inactivated by a membrane-bound proteinase [].; PDB: 3ISY_A.
Probab=30.94 E-value=35 Score=23.83 Aligned_cols=16 Identities=25% Similarity=0.432 Sum_probs=9.3
Q ss_pred CeEEEcCCCCEEEEEE
Q 038304 51 TFVVNDIADNLMFKVK 66 (214)
Q Consensus 51 ~f~I~D~~G~~vf~V~ 66 (214)
+|.|+|.+|+.||+--
T Consensus 27 D~~v~d~~g~~vwrwS 42 (82)
T PF12690_consen 27 DFVVKDKEGKEVWRWS 42 (82)
T ss_dssp EEEEE-TT--EEEETT
T ss_pred EEEEECCCCCEEEEec
Confidence 5777888888887753
No 25
>smart00634 BID_1 Bacterial Ig-like domain (group 1).
Probab=30.33 E-value=1.4e+02 Score=20.81 Aligned_cols=8 Identities=13% Similarity=-0.168 Sum_probs=3.8
Q ss_pred CceEEEEE
Q 038304 111 KDLLFTVG 118 (214)
Q Consensus 111 ~~~l~~ik 118 (214)
+..++.++
T Consensus 62 G~a~~~l~ 69 (92)
T smart00634 62 GIATVTLT 69 (92)
T ss_pred CEEEEEEE
Confidence 44454544
No 26
>KOG4037 consensus Photoreceptor synaptic vesicle protein HRG4/UNC-119 [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]
Probab=30.31 E-value=1.9e+02 Score=23.71 Aligned_cols=16 Identities=13% Similarity=0.125 Sum_probs=7.2
Q ss_pred EEEECCC-CCcEEEEEe
Q 038304 76 RTVLDPY-DNPIVTVTK 91 (214)
Q Consensus 76 ~~l~D~~-G~~L~~i~~ 91 (214)
+.|+|.+ |.+||.|.+
T Consensus 91 FkIRDldsg~VLFEIaK 107 (240)
T KOG4037|consen 91 FKIRDLDSGTVLFEIAK 107 (240)
T ss_pred EEEeeccCCcEEEEecC
Confidence 3444443 444444444
No 27
>cd00028 B_lectin Bulb-type mannose-specific lectin. The domain contains a three-fold internal repeat (beta-prism architecture). The consensus sequence motif QXDXNXVXY is involved in alpha-D-mannose recognition. Lectins are carbohydrate-binding proteins which specifically recognize diverse carbohydrates and mediate a wide variety of biological processes, such as cell-cell and host-pathogen interactions, serum glycoprotein turnover, and innate immune responses.
Probab=29.86 E-value=1.7e+02 Score=21.22 Aligned_cols=37 Identities=16% Similarity=0.160 Sum_probs=15.6
Q ss_pred CCeEEEcCCCCEEEEEEccCCCCCceEEEECCCCCcEE
Q 038304 50 GTFVVNDIADNLMFKVKEKLISLHKRRTVLDPYDNPIV 87 (214)
Q Consensus 50 ~~f~I~D~~G~~vf~V~g~~~s~~~~~~l~D~~G~~L~ 87 (214)
|++.++|.+|.++..-.... +....+..+..+|+.++
T Consensus 65 GnLvl~~~~g~~vW~S~~~~-~~~~~~~~L~ddGnlvl 101 (116)
T cd00028 65 GNLVIYDGSGTVVWSSNTTR-VNGNYVLVLLDDGNLVL 101 (116)
T ss_pred CCeEEEcCCCcEEEEecccC-CCCceEEEEeCCCCEEE
Confidence 35555555555444322221 12233344444554443
No 28
>PRK12816 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=28.12 E-value=57 Score=27.97 Aligned_cols=42 Identities=2% Similarity=0.097 Sum_probs=30.7
Q ss_pred eecCC-CeEEEcCCCCEEEEEEccCCCCCceEEEECCCCCcEEE
Q 038304 46 SVTDG-TFVVNDIADNLMFKVKEKLISLHKRRTVLDPYDNPIVT 88 (214)
Q Consensus 46 s~~~~-~f~I~D~~G~~vf~V~g~~~s~~~~~~l~D~~G~~L~~ 88 (214)
.+.++ =|.|.+.+|..+|+=+|. |.+...-.|.+++|.+|+.
T Consensus 96 AI~G~GFF~V~~~~G~~~YTR~G~-F~~d~~G~Lvt~~G~~vl~ 138 (264)
T PRK12816 96 AIEGEGFFKILMPDGTYAYTRDGS-FKIDANGQLVTSNGYRLLP 138 (264)
T ss_pred EECCCcEEEEEcCCCCeEEeeCCC-eeECCCCCEECCCCCEecc
Confidence 44433 457878899888997776 5555566799999999984
No 29
>smart00108 B_lectin Bulb-type mannose-specific lectin.
Probab=27.74 E-value=2.1e+02 Score=20.63 Aligned_cols=16 Identities=25% Similarity=0.522 Sum_probs=7.8
Q ss_pred CCCeEEEcCCCCEEEE
Q 038304 49 DGTFVVNDIADNLMFK 64 (214)
Q Consensus 49 ~~~f~I~D~~G~~vf~ 64 (214)
+|.+.|+|.+|.++..
T Consensus 63 dGnLvl~~~~g~~vW~ 78 (114)
T smart00108 63 DGNLVLYDGDGRVVWS 78 (114)
T ss_pred CCCEEEEeCCCCEEEE
Confidence 3455555555554443
No 30
>PRK12640 flgF flagellar basal body rod protein FlgF; Reviewed
Probab=27.16 E-value=61 Score=27.52 Aligned_cols=38 Identities=8% Similarity=0.160 Sum_probs=27.3
Q ss_pred CCeEEEcCCCCEEEEEEccCCCCCceEEEECCCCCcEEE
Q 038304 50 GTFVVNDIADNLMFKVKEKLISLHKRRTVLDPYDNPIVT 88 (214)
Q Consensus 50 ~~f~I~D~~G~~vf~V~g~~~s~~~~~~l~D~~G~~L~~ 88 (214)
+=|.|.+.+|+..|+=+|. |.+-..-.|.+++|.+|+.
T Consensus 86 GFF~V~~~~G~~~yTR~G~-F~~d~~G~Lvt~~G~~vlg 123 (246)
T PRK12640 86 GWLAVQAPDGSEAYTRNGS-LQVDANGQLRTANGLPVLG 123 (246)
T ss_pred cEEEEEcCCCCEEEEeCCC-eeECCCCCEEcCCCCCccC
Confidence 3467777888888987775 4455555688888888774
No 31
>TIGR03406 FeS_long_SufT probable FeS assembly SUF system protein SufT. The function is unknown for this protein family, but members are found almost always in operons for the the SUF system of iron-sulfur cluster biosynthesis. The SUF system is present elsewhere on the chromosome for those few species where SUF genes are not adjacent. This family shares this property of association with the SUF system with a related family, TIGR02945. TIGR02945 consists largely of a DUF59 domain (see Pfam family pfam01883), while this protein is about double the length, with a unique N-terminal domain and DUF59 C-terminal domain. A location immediately downstream of the cysteine desulfurase gene sufS in many contexts suggests the gene symbol sufT. Note that some other homologs of this family and of TIGR02945, but no actual members of this family, are found in operons associated with phenylacetic acid (or other ring-hydroxylating) degradation pathways.
Probab=27.06 E-value=85 Score=25.27 Aligned_cols=33 Identities=24% Similarity=0.467 Sum_probs=23.3
Q ss_pred CcceEEEEEEeeeeecCCCeEEEcCCCCEEEEEEccCCC
Q 038304 33 PYPVDIAIVRKFMSVTDGTFVVNDIADNLMFKVKEKLIS 71 (214)
Q Consensus 33 ~~~~~l~ik~k~~s~~~~~f~I~D~~G~~vf~V~g~~~s 71 (214)
+..+..+|.|.. +|+|+|. .+|+ +||++|+...
T Consensus 21 ~~~~~~~~~q~l----gg~~t~~-~~g~-~~r~~~~~~d 53 (174)
T TIGR03406 21 PAGTEVTITQAL----GGNFTVV-VEGN-MARIDGKDAD 53 (174)
T ss_pred CCCCEEEEEEcc----CCeEEEE-EcCe-EEEecCcChh
Confidence 334456677753 5699996 5687 8999998643
No 32
>TIGR03784 marine_sortase sortase, marine proteobacterial type. Members of this protein family are sortase enzymes, cysteine transpeptidases involved in protein sorting activities. Members of this family tend to be found in proteobacteria, rather than in Gram-positive bacteria where sortases attach proteins to the Gram-positive cell wall or participate in pilin cross-linking. Many species with this sortase appear to contain a signal target sequence, a protein with a Vault protein inter-alpha-trypsin domain (pfam08487) and a von Willebrand factor type A domain (pfam00092), encoded by an adjacent gene. These sortases are designated subfamily 6 according to Comfort and Clubb (2004).
Probab=26.91 E-value=99 Score=24.80 Aligned_cols=22 Identities=14% Similarity=-0.097 Sum_probs=15.3
Q ss_pred CCceEEEECCCCCcE-EEEEecc
Q 038304 72 LHKRRTVLDPYDNPI-VTVTKKL 93 (214)
Q Consensus 72 ~~~~~~l~D~~G~~L-~~i~~k~ 93 (214)
.+++..|.+.+|+.. +.+....
T Consensus 111 ~GD~I~v~~~~g~~~~Y~V~~~~ 133 (174)
T TIGR03784 111 PGDVIRLQTPDGQWQSYQVTATR 133 (174)
T ss_pred CCCEEEEEECCCeEEEEEEeEEE
Confidence 467888888888764 6666554
No 33
>PRK12691 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=26.80 E-value=86 Score=26.69 Aligned_cols=42 Identities=5% Similarity=0.109 Sum_probs=30.3
Q ss_pred eecCCC-eEEEcCCCCEEEEEEccCCCCCceEEEECCCCCcEEE
Q 038304 46 SVTDGT-FVVNDIADNLMFKVKEKLISLHKRRTVLDPYDNPIVT 88 (214)
Q Consensus 46 s~~~~~-f~I~D~~G~~vf~V~g~~~s~~~~~~l~D~~G~~L~~ 88 (214)
.+.+++ |.|.+.+|..+|+=+|. |.+...-.|.+++|.+|+.
T Consensus 96 AI~G~GfF~V~~~~G~~~yTR~G~-F~~d~~G~Lvt~~G~~vl~ 138 (262)
T PRK12691 96 AIQGRGYFQIQLPDGETAYTRAGA-FNRSADGQIVTSDGYPVQP 138 (262)
T ss_pred EEcCCcEEEEEcCCCCEEEeeCCC-eeECCCCCEECCCCCEeEe
Confidence 444333 57777889888997776 4555556799999999985
No 34
>PF05593 RHS_repeat: RHS Repeat; InterPro: IPR006530 These sequences contain two tandem copies of a 21-residue extracellular repeat that is found in Gram-negative, Gram-positive, and animal proteins. The repeat is named for a YD dipeptide, the most strongly conserved motif of the repeat. These repeats appear in general to be involved in binding carbohydrate; the chicken teneurin-1 YD-repeat region has been shown to bind heparin [, , ].
Probab=26.79 E-value=1.4e+02 Score=17.29 Aligned_cols=29 Identities=14% Similarity=0.016 Sum_probs=14.5
Q ss_pred EcCCCCEEEEEEccCCCCCceEEEECCCCCcE
Q 038304 55 NDIADNLMFKVKEKLISLHKRRTVLDPYDNPI 86 (214)
Q Consensus 55 ~D~~G~~vf~V~g~~~s~~~~~~l~D~~G~~L 86 (214)
+|+.|+++=.++... .....-+|+.|+++
T Consensus 1 YD~~G~l~~~~d~~G---~~~~y~YD~~g~l~ 29 (38)
T PF05593_consen 1 YDANGRLTSVTDPDG---RTTRYTYDAAGRLT 29 (38)
T ss_pred CCCCCCEEEEEcCCC---CEEEEEECCCCCEE
Confidence 456666666554432 12234456666544
No 35
>TIGR00156 conserved hypothetical protein TIGR00156. As of the last revision, this family consists only of two proteins from Escherichia coli and one from the related species Haemophilus influenzae.
Probab=26.11 E-value=2.4e+02 Score=21.49 Aligned_cols=58 Identities=14% Similarity=0.109 Sum_probs=34.7
Q ss_pred CCCcCCcceEEEEEEeeeeecCCCeEEEcCCCCEEEEEEccCCCCCceEEEECCCCCcEEEEEeccc
Q 038304 28 PQYCVPYPVDIAIVRKFMSVTDGTFVVNDIADNLMFKVKEKLISLHKRRTVLDPYDNPIVTVTKKLI 94 (214)
Q Consensus 28 ~~~~~~~~~~l~ik~k~~s~~~~~f~I~D~~G~~vf~V~g~~~s~~~~~~l~D~~G~~L~~i~~k~~ 94 (214)
.+|..+....-+|++ .....++.+.+. .|+++=++.+ .++.+.|.+|...+.|.++.|
T Consensus 36 ggf~gp~~~~~tV~~-a~~~~Ddt~V~L--~G~Iv~~l~~------d~Y~F~D~TG~I~VeId~~~w 93 (126)
T TIGR00156 36 GGFQGTDAKKMTVDF-AKSMHDGASVTL--RGNIISHIGD------DRYVFRDKSGEINVVIPAAVW 93 (126)
T ss_pred ccccCCccceEeHHH-HhhCCCCCEEEE--EEEEEEEeCC------ceEEEECCCCCEEEEECHHHc
Confidence 344443333445544 455555555443 5555555532 468888999998888887765
No 36
>PF04170 NlpE: NlpE N-terminal domain; InterPro: IPR007298 This family represents a bacterial outer membrane lipoprotein that is necessary for signalling by the Cpx pathway []. This pathway responds to cell envelope disturbances and increases the expression of periplasmic protein folding and degradation factors. While the molecular function of the NlpE protein is unknown, it may be involved in detecting bacterial adhesion to abiotic surfaces. NlpE from Escherichia coli and Salmonella typhi is also known to confer copper tolerance in copper-sensitive strains of E. coli, and may be involved in copper efflux and delivery of copper to copper-dependent enzymes [].; PDB: 3LHN_A 2Z4I_B 2Z4H_A.
Probab=25.15 E-value=2e+02 Score=20.10 Aligned_cols=11 Identities=45% Similarity=0.622 Sum_probs=3.8
Q ss_pred EEEECCCCCcE
Q 038304 76 RTVLDPYDNPI 86 (214)
Q Consensus 76 ~~l~D~~G~~L 86 (214)
+.++|.+|+++
T Consensus 73 L~~Ld~~G~~i 83 (87)
T PF04170_consen 73 LEMLDQDGNPI 83 (87)
T ss_dssp EEEE-TTS-B-
T ss_pred EEEECCCCCcC
Confidence 44444444443
No 37
>PF07680 DoxA: TQO small subunit DoxA; InterPro: IPR011636 Thiosulphate:quinone oxidoreductase (TQO) catalyses one of the early steps in elemental sulphur oxidation. A novel TQO enzyme was purified from the thermo-acidophilic archaeon Acidianus ambivalens and shown to consist of a large subunit (DoxD) and a smaller subunit (DoxA). The DoxD- and DoxA-like two subunits are fused together in a single polypeptide in Q8AAF0 from SWISSPROT.
Probab=25.05 E-value=74 Score=24.58 Aligned_cols=27 Identities=11% Similarity=0.086 Sum_probs=21.1
Q ss_pred CCCceEEEECCCCCcEEEEEecccccc
Q 038304 71 SLHKRRTVLDPYDNPIVTVTKKLISAH 97 (214)
Q Consensus 71 s~~~~~~l~D~~G~~L~~i~~k~~s~~ 97 (214)
|.--...|+|.+|+.+++-....++-.
T Consensus 46 sfl~~i~l~d~~g~vv~~~~~~~L~~l 72 (133)
T PF07680_consen 46 SFLIGIQLKDSTGHVVLNWDQEKLSSL 72 (133)
T ss_pred ceeeEEEEECCCCCEEEEeCHHHhhhC
Confidence 445678999999999999888766533
No 38
>PRK12634 flgD flagellar basal body rod modification protein; Reviewed
Probab=24.98 E-value=1.5e+02 Score=24.71 Aligned_cols=16 Identities=6% Similarity=0.094 Sum_probs=9.3
Q ss_pred eEEEECCCCCcEEEEE
Q 038304 75 RRTVLDPYDNPIVTVT 90 (214)
Q Consensus 75 ~~~l~D~~G~~L~~i~ 90 (214)
.+.|+|++|+.+-++.
T Consensus 125 ~i~I~d~~G~~V~t~~ 140 (221)
T PRK12634 125 NFEITDANGAFVKQIS 140 (221)
T ss_pred EEEEEcCCCCEEEEEe
Confidence 4556666666665543
No 39
>PF00384 Molybdopterin: Molybdopterin oxidoreductase; InterPro: IPR006656 This domain is found in a number of molybdopterin-containing oxidoreductases, tungsten formylmethanofuran dehydrogenase subunit d (FwdD) and molybdenum formylmethanofuran dehydrogenase subunit (FmdD); where a single domain constitutes almost the entire subunit. The formylmethanofuran dehydrogenase catalyses the first step in methane formation from CO2 in methanogenic archaea and has a molybdopterin dinucleotide cofactor []. ; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1TI2_G 1VLE_M 1VLD_U 1VLF_O 1TI4_I 1TI6_E 3DMR_A 4DMR_A 1H5N_C 1E5V_A ....
Probab=24.66 E-value=77 Score=28.26 Aligned_cols=45 Identities=27% Similarity=0.265 Sum_probs=29.4
Q ss_pred CcEEEEEEeeeecceeeeecceEEEEEeCCCCHHHHHHHH-Hhhhcccc
Q 038304 163 KAIVAQMQKRITAGSVMLDKDRYTVTVYPNIDYAFVVALI-VILDEINN 210 (214)
Q Consensus 163 ~~~VA~I~rk~~~~~~~~~~dtY~v~V~pgvD~alv~alv-v~lD~i~~ 210 (214)
|..+..|.-..+. ....-.+.|.|.||-|.+|++|++ .++++...
T Consensus 141 g~k~v~vdP~~t~---~a~~ad~~i~i~PGtD~al~~a~~~~ii~~~~~ 186 (432)
T PF00384_consen 141 GAKLVVVDPRRTP---TAAKADEWIPIRPGTDAALALAMAHVIIDEGLY 186 (432)
T ss_dssp TSEEEEEESSB-H---HGGGTSEEEEE-TTTHHHHHHHHHHHHHHTTTS
T ss_pred CcceEEEEeccch---hhhhccccccccccccHHhhcccccceeecccc
Confidence 4555555555421 233567889999999999999877 66665544
No 40
>PRK12694 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=24.39 E-value=72 Score=27.19 Aligned_cols=43 Identities=7% Similarity=0.133 Sum_probs=30.6
Q ss_pred eeecCCC-eEEEcCCCCEEEEEEccCCCCCceEEEECCCCCcEEE
Q 038304 45 MSVTDGT-FVVNDIADNLMFKVKEKLISLHKRRTVLDPYDNPIVT 88 (214)
Q Consensus 45 ~s~~~~~-f~I~D~~G~~vf~V~g~~~s~~~~~~l~D~~G~~L~~ 88 (214)
+.+.+++ |.|.+.+|..+|+=+|. |.+...-.|.+++|.+|+.
T Consensus 95 ~AI~G~GfF~V~~~~G~~~yTR~G~-F~~d~~G~Lvt~~G~~Vl~ 138 (260)
T PRK12694 95 VAINGQGFFQVLMPDGTTAYTRDGS-FQTNAQGQLVTSSGYPLQP 138 (260)
T ss_pred EEEcCCcEEEEEcCCCCeEEeeCCC-ceECCCCCEECCCCCEecc
Confidence 3444434 57877889888987775 5555556688999999885
No 41
>PRK10893 lipopolysaccharide exporter periplasmic protein; Provisional
Probab=24.06 E-value=3.9e+02 Score=21.65 Aligned_cols=43 Identities=21% Similarity=0.205 Sum_probs=30.0
Q ss_pred CeEEEcCCCCEEEEEEccCC---C-------CCceEEEECCCCCcEEEEEecc
Q 038304 51 TFVVNDIADNLMFKVKEKLI---S-------LHKRRTVLDPYDNPIVTVTKKL 93 (214)
Q Consensus 51 ~f~I~D~~G~~vf~V~g~~~---s-------~~~~~~l~D~~G~~L~~i~~k~ 93 (214)
..+++|++|.+-|++.+..+ . -...+.+++.+|.+..+++.+.
T Consensus 49 ~~~~yd~~G~l~y~l~a~~~~Hy~~~~~t~f~~P~l~~y~~~~~~~W~v~A~~ 101 (192)
T PRK10893 49 DTVVYNPEGALSYKLVAQHVEYYSDQAVSWFTQPVLTTFDKNKVPTWSVRADK 101 (192)
T ss_pred EEEEECCCCCEEEEEEecceEEcCCCCCEEEeCCeEEEECCCCcceEEEEeCe
Confidence 45799999999999999642 1 1355666777776666665543
No 42
>PRK12817 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=23.76 E-value=85 Score=26.76 Aligned_cols=38 Identities=13% Similarity=0.195 Sum_probs=27.5
Q ss_pred CCeEEEcCCCCEEEEEEccCCCCCceEEEECCCCCcEEE
Q 038304 50 GTFVVNDIADNLMFKVKEKLISLHKRRTVLDPYDNPIVT 88 (214)
Q Consensus 50 ~~f~I~D~~G~~vf~V~g~~~s~~~~~~l~D~~G~~L~~ 88 (214)
+=|.|.+.+|..+|+=+|. |.+-..-.|.+++|.+|+.
T Consensus 97 GfF~V~~~~G~~~yTR~G~-F~~d~~G~Lvt~~G~~vl~ 134 (260)
T PRK12817 97 GFFRVIMADGTYAYTRAGN-FNIDSNGMLVDDNGNRLEI 134 (260)
T ss_pred cEEEEEcCCCCeEEEeCCc-eeECCCCCEEcCCCCEEEe
Confidence 3567778889888997776 4444455688888988874
No 43
>TIGR02488 flgG_G_neg flagellar basal-body rod protein FlgG, Gram-negative bacteria. This family consists of the FlgG protein of the flagellar apparatus in the Proteobacteria and spirochetes.
Probab=23.50 E-value=72 Score=27.14 Aligned_cols=42 Identities=7% Similarity=0.143 Sum_probs=29.8
Q ss_pred eecCCC-eEEEcCCCCEEEEEEccCCCCCceEEEECCCCCcEEE
Q 038304 46 SVTDGT-FVVNDIADNLMFKVKEKLISLHKRRTVLDPYDNPIVT 88 (214)
Q Consensus 46 s~~~~~-f~I~D~~G~~vf~V~g~~~s~~~~~~l~D~~G~~L~~ 88 (214)
.+.+++ |.|.+.+|..+|+=+|. |.+...-.|.+++|.+|+.
T Consensus 94 AI~G~GfF~V~~~~g~~~yTR~G~-F~~d~~G~Lvt~~G~~Vl~ 136 (259)
T TIGR02488 94 AIEGEGFFQVLMPDGTTAYTRDGA-FKINAEGQLVTSNGYPLQP 136 (259)
T ss_pred EEcCCcEEEEEcCCCCeEEeeCCc-eEECCCCCEECCCCCEecC
Confidence 444333 57777888888887775 5555566688999999884
No 44
>PRK12813 flgD flagellar basal body rod modification protein; Reviewed
Probab=23.21 E-value=94 Score=26.09 Aligned_cols=14 Identities=29% Similarity=0.299 Sum_probs=7.1
Q ss_pred eEEEcCCCCEEEEE
Q 038304 52 FVVNDIADNLMFKV 65 (214)
Q Consensus 52 f~I~D~~G~~vf~V 65 (214)
..|+|++|++|.++
T Consensus 128 v~I~D~~G~vV~t~ 141 (223)
T PRK12813 128 LVVRDAAGAEVARE 141 (223)
T ss_pred EEEEcCCCCEEEEE
Confidence 44555555555444
No 45
>PF11191 DUF2782: Protein of unknown function (DUF2782); InterPro: IPR021357 This is a bacterial family of proteins whose function is unknown.
Probab=22.73 E-value=3e+02 Score=19.86 Aligned_cols=44 Identities=16% Similarity=0.203 Sum_probs=25.0
Q ss_pred CCCCEEE-EEEccCCCCCceEEEECCCCCcEEEEEec---cccccceeEEE
Q 038304 57 IADNLMF-KVKEKLISLHKRRTVLDPYDNPIVTVTKK---LISAHEKHYVF 103 (214)
Q Consensus 57 ~~G~~vf-~V~g~~~s~~~~~~l~D~~G~~L~~i~~k---~~s~~~~w~v~ 103 (214)
.+|++-- +|.-+ .+.-..++|.+|.--+.=+.. .-..-+.|.+|
T Consensus 56 v~G~l~~IkV~P~---~G~~Yyl~d~dg~g~~~~~~~~~~~~~~~p~W~i~ 103 (105)
T PF11191_consen 56 VNGQLYMIKVQPK---AGPPYYLVDPDGDGNFSRSDANSDSDVSPPQWVIF 103 (105)
T ss_pred ECCeEeeEEEEeC---CCCCEEEECCCCCCcccccccccCCCCCCcEEEEe
Confidence 3665544 55543 247889999988655543333 11234667776
No 46
>PRK12818 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=22.69 E-value=90 Score=26.57 Aligned_cols=38 Identities=13% Similarity=0.208 Sum_probs=26.2
Q ss_pred CCeEEEcCCCCEEEEEEccCCCCCceEEEECCCCCcEEE
Q 038304 50 GTFVVNDIADNLMFKVKEKLISLHKRRTVLDPYDNPIVT 88 (214)
Q Consensus 50 ~~f~I~D~~G~~vf~V~g~~~s~~~~~~l~D~~G~~L~~ 88 (214)
+=|.|.+.+|+..|+=+|. |.+...-.|.+++|.+|+-
T Consensus 101 GFF~V~~~~G~~~YTR~G~-F~~d~~G~Lvt~~G~~vlg 138 (256)
T PRK12818 101 GFFTVERNAGNNYYTRDGH-FHVDTQGYLVNDSGYYVLG 138 (256)
T ss_pred ceEEEEcCCCCeEEeeCCC-eeECCCCCEEcCCCCEEec
Confidence 3467777788877887776 4444444577888888763
No 47
>cd05828 Sortase_D_4 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved at the cell wall sorting signal and covalently linked to peptidoglycan for display on the bacterial surface. Sortases are grouped into different classes and subfamilies based on sequence, membrane topology, genomic positioning, and cleavage site preference. Class D sortases are further classified into subfamilies 4 and 5. This group contains a subset of Class D sortases belonging to subfamily-4. These sortases recognize a unique sorting signal (LPXTA) and they constitute a specialized sorting pathway found in bacilli. Their substrates are predicted to be predominantly enzymes such as 5'-nucleotidases, glycosyl hydrolase, and subtilase.
Probab=22.48 E-value=1.2e+02 Score=22.60 Aligned_cols=17 Identities=6% Similarity=0.348 Sum_probs=8.5
Q ss_pred CeEEEcCCCCEEEEEEc
Q 038304 51 TFVVNDIADNLMFKVKE 67 (214)
Q Consensus 51 ~f~I~D~~G~~vf~V~g 67 (214)
.+.|.+..+...|+|..
T Consensus 67 ~i~v~~~~~~~~Y~V~~ 83 (127)
T cd05828 67 IITLQTLGGTYTYRVTS 83 (127)
T ss_pred EEEEEECCEEEEEEEee
Confidence 44444454455555544
No 48
>PRK10523 lipoprotein involved with copper homeostasis and adhesion; Provisional
Probab=22.40 E-value=2.5e+02 Score=23.80 Aligned_cols=55 Identities=15% Similarity=0.212 Sum_probs=31.0
Q ss_pred cCCcceEEEEEEeeeeecCCCeEEEcC-----CCCEEEEEEccCCCCCceEEEECCCCCc-EEEEEe
Q 038304 31 CVPYPVDIAIVRKFMSVTDGTFVVNDI-----ADNLMFKVKEKLISLHKRRTVLDPYDNP-IVTVTK 91 (214)
Q Consensus 31 ~~~~~~~l~ik~k~~s~~~~~f~I~D~-----~G~~vf~V~g~~~s~~~~~~l~D~~G~~-L~~i~~ 91 (214)
|..-.++|++. .|+.|..... +++..|.-.|+.-.....++|.|.+|.. .|.+..
T Consensus 54 C~GI~ttLtL~------~DgTY~L~~~Ylg~k~~~~~f~~~G~w~~~~~~i~L~~~~g~~~yF~v~e 114 (234)
T PRK10523 54 CEGIETSLFLE------KDGTWVMNERYLGAREEPSSFASYGTWARTADKLVLTDSKGEKSYYRAKG 114 (234)
T ss_pred CCCceEEEEEc------CCCCEEEEEEEcCCCCCCCceEeeEEEEecCCEEEEecCCCCEeEEEECC
Confidence 44555677774 2456655442 2456777777533234567777777765 444433
No 49
>PF08269 Cache_2: Cache domain; InterPro: IPR013163 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins, including the animal dihydropyridine-sensitive voltage-gated Ca2+ channel; alpha-2delta subunit, and various bacterial chemotaxis receptors. The name Cache comes from CAlcium channels and CHEmotaxis receptors. This domain consists of an N-terminal part with three predicted strands and an alpha-helix, and a C-terminal part with a strand dyad followed by a relatively unstructured region. The N-terminal portion of the (unpermuted) Cache domain contains three predicted strands that could form a sheet analogous to that present in the core of the PAS domain structure. Cache domains are particularly widespread in bacteria, with Vibrio cholerae. The animal calcium channel alpha-2delta subunits might have acquired a part of their extracellular domains from a bacterial source []. The Cache domain appears to have arisen from the GAF-PAS fold despite their divergent functions []. This entry is composed of the type 2 Cache domain.; PDB: 2QHK_A 4EXO_A.
Probab=22.38 E-value=19 Score=25.32 Aligned_cols=37 Identities=11% Similarity=0.203 Sum_probs=16.0
Q ss_pred CeEEEcCCCCEEEEEEccCCCCCceEEEECCCCCcEE
Q 038304 51 TFVVNDIADNLMFKVKEKLISLHKRRTVLDPYDNPIV 87 (214)
Q Consensus 51 ~f~I~D~~G~~vf~V~g~~~s~~~~~~l~D~~G~~L~ 87 (214)
=|-|+|.+|..+..-...-+--.....+.|++|.+++
T Consensus 58 Y~fi~d~~g~~l~hp~~p~~~G~n~~~~~D~~G~~~i 94 (95)
T PF08269_consen 58 YFFIYDMDGVVLAHPSNPELEGKNLSDLKDPNGKYLI 94 (95)
T ss_dssp --EEE-TTSBEEEESS-GGGTT-B-TT-B-TT--BHH
T ss_pred eEEEEeCCCeEEEcCCCcccCCcccccCCCCCCCEEe
Confidence 4678888887665533222222344567788887764
No 50
>cd06166 Sortase_D_5 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved at the cell wall sorting signal and covalently linked to peptidoglycan for display on the bacterial surface. Sortases are grouped into different classes and subfamilies based on sequence, membrane topology, genomic positioning, and cleavage site preference. Class D sortases are further classified into subfamilies 4 and 5. This group contains a subset of Class D sortases belonging to subfamily-5, represented by Clostridium perfringens CPE2315. Subfamily-5 sortases recognize a nonstandard sorting signal (LAXTG) and have replaced Sortase A in some gram-postive bacteria. They may play a housekeeping role in the cell.
Probab=22.11 E-value=1.3e+02 Score=22.33 Aligned_cols=19 Identities=11% Similarity=0.209 Sum_probs=11.7
Q ss_pred CCCeEEEcCCCCEEEEEEc
Q 038304 49 DGTFVVNDIADNLMFKVKE 67 (214)
Q Consensus 49 ~~~f~I~D~~G~~vf~V~g 67 (214)
++.+.|.+..+...|+|.+
T Consensus 68 Gd~v~v~~~~~~~~Y~V~~ 86 (126)
T cd06166 68 GDEIKVTTKNGTYKYKITS 86 (126)
T ss_pred CCEEEEEECCEEEEEEEEE
Confidence 3456666666666666665
No 51
>PF13511 DUF4124: Domain of unknown function (DUF4124)
Probab=21.57 E-value=73 Score=20.26 Aligned_cols=17 Identities=6% Similarity=0.014 Sum_probs=12.2
Q ss_pred CeEEEcCCCCEEEEEEc
Q 038304 51 TFVVNDIADNLMFKVKE 67 (214)
Q Consensus 51 ~f~I~D~~G~~vf~V~g 67 (214)
=|.=.|++|++.|.=.-
T Consensus 15 vYk~~D~~G~v~ysd~P 31 (60)
T PF13511_consen 15 VYKWVDENGVVHYSDTP 31 (60)
T ss_pred EEEEECCCCCEEECccC
Confidence 46667888888887553
No 52
>cd02769 MopB_DMSOR-BSOR-TMAOR The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its cellular location and oligomerization state are organism-dependent. For example, in Rhodobacter sphaeriodes and Rhodobacter capsulatus, it is an 82-kDa monomeric soluble protein found in the periplasmic space; in E. coli, it is membrane-bound and exists as a heterotrimer. BSOR catalyzes the reduction of biotin sulfixode to biotin, and is unique among Mo enzymes because no additional auxiliary proteins or cofactors are required. TMAOR is similar to DMSOR, but its only natural substrate is TMAO. Members of this CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=21.50 E-value=59 Score=31.14 Aligned_cols=25 Identities=24% Similarity=0.413 Sum_probs=20.4
Q ss_pred ceEEEEEeCCCCHHHHHHHH-Hhhhc
Q 038304 183 DRYTVTVYPNIDYAFVVALI-VILDE 207 (214)
Q Consensus 183 dtY~v~V~pgvD~alv~alv-v~lD~ 207 (214)
|...|.|.||-|.||++||+ ++|++
T Consensus 226 dd~~l~irPGTD~ALalam~~~ii~e 251 (609)
T cd02769 226 GAEWIAIRPGTDVALMLALAHTLVTE 251 (609)
T ss_pred cCcEeccCCCcHHHHHHHHHHHHHHc
Confidence 55779999999999999988 55544
No 53
>PF01947 DUF98: Protein of unknown function (DUF98); InterPro: IPR002800 This entry represents a group of proteins with no known function.; PDB: 2NWI_A.
Probab=20.93 E-value=1.4e+02 Score=23.27 Aligned_cols=29 Identities=10% Similarity=0.204 Sum_probs=24.3
Q ss_pred EEEEceeecceEEEEeCCCCcEEEEEEeeee
Q 038304 144 FKIKGSWLERSCIFYAGESKAIVAQMQKRIT 174 (214)
Q Consensus 144 ~~v~G~~~~~~~~I~~~~~~~~VA~I~rk~~ 174 (214)
|...|.+|.|.|.|+.+ |+.+.-|...++
T Consensus 114 f~~~~~~~~R~Y~i~~~--~~pl~~I~E~F~ 142 (149)
T PF01947_consen 114 FGCEGPFWSRTYRIIHN--GKPLMVITEVFP 142 (149)
T ss_dssp HTSS-EEEEEEEEEEET--TEEEEEEEEEEE
T ss_pred hCCCCCcCccEEEEEEC--CEEEEEEEEECC
Confidence 33568899999999999 899999999875
No 54
>PF06903 VirK: VirK protein; InterPro: IPR010694 This family consists of several bacterial VirK proteins of around 145 residues in length. The function of this family is unknown [].
Probab=20.62 E-value=2e+02 Score=21.03 Aligned_cols=22 Identities=14% Similarity=0.238 Sum_probs=13.6
Q ss_pred eeeecCCCeEEEcCCCCEEEEEE
Q 038304 44 FMSVTDGTFVVNDIADNLMFKVK 66 (214)
Q Consensus 44 ~~s~~~~~f~I~D~~G~~vf~V~ 66 (214)
.++|++.+|+|-+. |++++++-
T Consensus 56 tlaFSd~HfTv~~~-g~Pi~qf~ 77 (100)
T PF06903_consen 56 TLAFSDTHFTVDND-GKPIQQFI 77 (100)
T ss_pred eEEEecceEEECCC-CCceEeEE
Confidence 56666666666544 66666553
No 55
>PRK12693 flgG flagellar basal body rod protein FlgG; Provisional
Probab=20.02 E-value=1.1e+02 Score=25.90 Aligned_cols=42 Identities=10% Similarity=0.192 Sum_probs=29.6
Q ss_pred eecCCC-eEEEcCCCCEEEEEEccCCCCCceEEEECCCCCcEEE
Q 038304 46 SVTDGT-FVVNDIADNLMFKVKEKLISLHKRRTVLDPYDNPIVT 88 (214)
Q Consensus 46 s~~~~~-f~I~D~~G~~vf~V~g~~~s~~~~~~l~D~~G~~L~~ 88 (214)
.+.+++ |.|.+.+|...|+=+|. |.+-..-.|.+++|.+|+.
T Consensus 96 Ai~G~GfF~v~~~~G~~~yTR~G~-F~~d~~G~Lvt~~G~~vl~ 138 (261)
T PRK12693 96 AIEGQGFFQVQLPDGTIAYTRDGS-FKLDQDGQLVTSGGYPLQP 138 (261)
T ss_pred EECCCcEEEEEcCCCCeEEeeCCC-eeECCCCCEECCCCCEEee
Confidence 444444 46777888888887775 4455555688999999885
Done!