Query 027996
Match_columns 215
No_of_seqs 112 out of 461
Neff 6.9
Searched_HMMs 46136
Date Fri Mar 29 04:40:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027996.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027996hhsearch_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 5.2E-45 1.1E-49 301.6 18.1 177 8-192 2-187 (187)
2 COG4894 Uncharacterized conser 100.0 1.7E-35 3.6E-40 231.3 8.8 154 20-199 6-159 (159)
3 PF03803 Scramblase: Scramblas 99.6 3E-14 6.5E-19 120.3 19.3 180 14-199 17-220 (221)
4 COG4894 Uncharacterized conser 98.4 1E-06 2.3E-11 69.7 6.9 70 16-95 26-95 (159)
5 PF04525 Tub_2: Tubby C 2; In 97.9 0.00016 3.5E-09 59.6 10.6 72 18-97 37-113 (187)
6 KOG0621 Phospholipid scramblas 97.9 0.00054 1.2E-08 60.6 14.3 165 32-202 97-283 (292)
7 PF03803 Scramblase: Scramblas 96.5 0.0087 1.9E-07 50.3 6.9 84 18-114 85-178 (221)
8 PF01167 Tub: Tub family; Int 76.4 21 0.00046 30.8 8.7 72 73-148 10-87 (246)
9 PF09008 Head_binding: Head bi 62.7 20 0.00043 27.3 4.9 57 13-77 49-105 (114)
10 KOG0621 Phospholipid scramblas 60.9 48 0.001 29.6 7.8 45 34-78 188-236 (292)
11 PRK12816 flgG flagellar basal 50.1 23 0.00051 30.8 4.0 40 32-74 98-138 (264)
12 PF13860 FlgD_ig: FlgD Ig-like 49.9 25 0.00055 24.6 3.5 16 61-76 28-43 (81)
13 PF15529 Toxin_49: Putative to 48.9 19 0.00042 26.4 2.8 21 34-54 30-50 (89)
14 PF02974 Inh: Protease inhibit 45.9 1.2E+02 0.0025 22.3 6.7 31 59-98 61-91 (99)
15 PF04790 Sarcoglycan_1: Sarcog 44.9 44 0.00095 29.3 4.9 19 59-77 117-136 (264)
16 PRK12640 flgF flagellar basal 44.2 27 0.00059 30.1 3.5 40 32-74 83-123 (246)
17 KOG3950 Gamma/delta sarcoglyca 43.6 28 0.00061 30.4 3.4 20 59-78 138-157 (292)
18 PRK12691 flgG flagellar basal 43.0 44 0.00096 28.9 4.7 40 32-74 98-138 (262)
19 TIGR02488 flgG_G_neg flagellar 42.6 33 0.00071 29.7 3.8 40 32-74 96-136 (259)
20 smart00634 BID_1 Bacterial Ig- 41.5 74 0.0016 22.6 5.0 40 36-76 24-69 (92)
21 PRK12817 flgG flagellar basal 41.3 39 0.00085 29.3 4.0 40 32-74 94-134 (260)
22 PF09000 Cytotoxic: Cytotoxic; 40.7 81 0.0018 22.9 4.9 59 12-76 7-67 (85)
23 PRK12818 flgG flagellar basal 40.1 41 0.00089 29.1 4.0 40 32-74 98-138 (256)
24 PRK12694 flgG flagellar basal 40.0 38 0.00081 29.4 3.7 40 32-74 98-138 (260)
25 COG4998 Predicted endonuclease 39.4 70 0.0015 26.4 4.9 43 130-183 16-59 (209)
26 TIGR03784 marine_sortase sorta 35.2 54 0.0012 26.8 3.7 22 57-78 110-132 (174)
27 PRK12693 flgG flagellar basal 35.0 57 0.0012 28.2 4.1 40 32-74 98-138 (261)
28 cd06166 Sortase_D_5 Sortase D 34.8 55 0.0012 24.9 3.5 22 57-78 66-87 (126)
29 PF07680 DoxA: TQO small subun 34.2 39 0.00085 26.6 2.6 22 57-78 46-67 (133)
30 PRK15393 NUDIX hydrolase YfcD; 32.2 98 0.0021 25.0 4.8 40 34-74 10-54 (180)
31 cd05828 Sortase_D_4 Sortase D 31.5 60 0.0013 24.7 3.3 22 57-78 63-84 (127)
32 PF08011 DUF1703: Protein of u 30.0 26 0.00057 25.8 1.0 33 180-212 4-36 (105)
33 TIGR02150 IPP_isom_1 isopenten 28.7 85 0.0018 24.7 3.8 56 36-96 1-61 (158)
34 PF05593 RHS_repeat: RHS Repea 28.7 1.3E+02 0.0029 17.7 4.2 30 39-73 1-30 (38)
35 PF12690 BsuPI: Intracellular 28.5 43 0.00094 23.8 1.9 17 35-51 27-43 (82)
36 PRK12692 flgG flagellar basal 27.2 69 0.0015 27.8 3.3 39 32-73 98-137 (262)
37 PRK12641 flgF flagellar basal 25.8 86 0.0019 27.1 3.6 38 32-73 81-119 (252)
38 PRK12643 flgF flagellar basal 25.5 62 0.0013 27.3 2.6 38 32-73 83-121 (209)
39 PF08269 Cache_2: Cache domain 24.5 12 0.00025 26.9 -1.8 41 31-73 53-94 (95)
40 PRK06655 flgD flagellar basal 24.5 1.1E+02 0.0024 26.0 4.0 43 31-76 102-144 (225)
41 PRK12690 flgF flagellar basal 24.1 1E+02 0.0022 26.4 3.7 39 32-74 84-123 (238)
42 PF02402 Lysis_col: Lysis prot 23.7 70 0.0015 20.4 1.9 28 186-213 9-36 (46)
43 PF00384 Molybdopterin: Molybd 21.8 88 0.0019 28.2 3.1 46 150-199 141-187 (432)
44 PRK00122 rimM 16S rRNA-process 21.8 2.4E+02 0.0052 22.6 5.3 13 65-77 111-123 (172)
45 PF13511 DUF4124: Domain of un 21.0 75 0.0016 20.6 1.8 18 34-51 14-31 (60)
46 TIGR02273 16S_RimM 16S rRNA pr 20.9 2.1E+02 0.0045 22.8 4.7 30 62-96 103-132 (165)
47 PRK13828 rimM 16S rRNA-process 20.0 2.6E+02 0.0057 22.2 5.2 11 66-76 92-102 (161)
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=5.2e-45 Score=301.56 Aligned_cols=177 Identities=42% Similarity=0.685 Sum_probs=109.7
Q ss_pred eEeccCccCCcceEEEEEEEeceeeCCCeEEEeCCCCEEEEEEecCCCCCCCCeEEEEcCCCCeEEEEEEeccccccCcc
Q 027996 8 VLVADEYIYKQETHLTVFKTSLFFQNDGFTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLTVRRKVQFQLMRPS 87 (215)
Q Consensus 8 ~~v~~~~~~~~~~~l~v~~k~~~~~~d~f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~i~~k~~~~~~~~s 87 (215)
++|+++||+++|++|+||+|.+++++++|+|+|++|+++|+|+| ++.+++++++.|+|++|+||++|++| +++
T Consensus 2 ~vv~~~~~~~~~~~l~v~~k~~~~~~~~f~V~D~~G~~vf~V~g-~~~~s~~~~~~l~D~~G~~L~~i~~k------~~~ 74 (187)
T PF04525_consen 2 VVVDAQYCSPQPVTLTVKKKSLSFSGDDFTVYDENGNVVFRVDG-GKFFSIGKKRTLMDASGNPLFTIRRK------LFS 74 (187)
T ss_dssp -SS-GGGB-SS-EEEEEE----------EEEEETTS-EEEEEE---SCTTBTTEEEEE-TTS-EEEEEE-----------
T ss_pred cEECHHHcCCCceEEEEEEEEeeecCCCEEEEcCCCCEEEEEEE-ecccCCCCEEEEECCCCCEEEEEEee------ecc
Confidence 57999999999999999999998999999999999999999999 44689999999999999999999999 999
Q ss_pred ccceeEEEEcCCCCCCceEEEEEeecccC-CceEEEEEeC--------CCCccEEEEeeecCceeEEEeCCCcEEEEEEe
Q 027996 88 LHHRWEGYSGERTDGQKPIFSVRRSSIIG-RSSVTVEMYE--------NPGEEYQIEGNFWQRSCTIFNAMKESVAEIRR 158 (215)
Q Consensus 88 ~~~~w~v~~~~~~~~~~~l~~vkk~~~~~-~~~~~V~l~~--------~~~~~~~v~G~~~~~~~~I~~~~g~~VA~V~r 158 (215)
++++|++|.+++.++++++|+||+++.+. ++++.+++.+ .+.++|+|+||||+++|+|++.+|++||+|+|
T Consensus 75 l~~~w~i~~~~~~~~~~~i~tvkk~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~i~G~~~~~~~~I~~~~g~~VA~i~r 154 (187)
T PF04525_consen 75 LRPTWEIYRGGGSEGKKPIFTVKKKSMLQNKDSFDVFLPPKSNISIDDSEGPDFEIKGNFWDRSFTIYDSGGRVVAEISR 154 (187)
T ss_dssp ---EEEEEETT---GGGEEEEEE----------EEEEET--T----------SEEEES-TTTT--EEEECC--EEEEEEE
T ss_pred cceEEEEEECCCCccCceEEEEEEecccCCCcceeEEEecccceeecCCCCceEEEEEEecCcEEEEEEcCCCEEEEEec
Confidence 99999999998766667999999997653 4577777752 14568999999999999999655999999999
Q ss_pred eeccccceEeeeceEEEEEeCCCCHHHHHHHHHH
Q 027996 159 KVDASTQVLLAKDVFLLSVKPGFDGAFAMGLVLV 192 (215)
Q Consensus 159 k~~~~~~~~~g~dtY~v~V~pgvD~ali~alvv~ 192 (215)
|+. .++++.|+|+|.|+|+||+|++|++|||||
T Consensus 155 k~~-~k~~~~~~dty~l~V~pg~D~~lv~alvvi 187 (187)
T PF04525_consen 155 KYS-SKKWFSGRDTYTLTVAPGVDQALVVALVVI 187 (187)
T ss_dssp -----------B-SEEEEE-TTSBHHHHHHHHHH
T ss_pred ccc-eeeEEecCcEEEEEEcCCCCHHHheeEEeC
Confidence 885 777889999999999999999999999987
No 2
>COG4894 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=1.7e-35 Score=231.32 Aligned_cols=154 Identities=25% Similarity=0.442 Sum_probs=142.2
Q ss_pred eEEEEEEEeceeeCCCeEEEeCCCCEEEEEEecCCCCCCCCeEEEEcCCCCeEEEEEEeccccccCccccceeEEEEcCC
Q 027996 20 THLTVFKTSLFFQNDGFTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLTVRRKVQFQLMRPSLHHRWEGYSGER 99 (215)
Q Consensus 20 ~~l~v~~k~~~~~~d~f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~i~~k~~~~~~~~s~~~~w~v~~~~~ 99 (215)
.+|.+++| +++.||+|.|+|.+|+.+|+|+| ++|++++.+++.|++|.+|.+|++| +++++|+|++..|++
T Consensus 6 ~tl~mkQk-~~~~gd~f~I~d~dgE~af~VeG--s~f~i~dtlti~Da~G~~l~~i~~k------ll~l~~~yeI~d~~g 76 (159)
T COG4894 6 ITLFMKQK-MFSFGDAFHIYDRDGEEAFKVEG--SFFSIGDTLTITDASGKTLVSIEQK------LLSLLPRYEISDGGG 76 (159)
T ss_pred HhHhhhhh-hhhcccceEEECCCCcEEEEEee--eEEeeCceEEEEecCCCChHHHHHH------HhhccceeEEEcCCC
Confidence 36788888 68889999999999999999999 9999999999999999999999999 999999999999873
Q ss_pred CCCCceEEEEEeecccCCceEEEEEeCCCCccEEEEeeecCceeEEEeCCCcEEEEEEeeeccccceEeeeceEEEEEeC
Q 027996 100 TDGQKPIFSVRRSSIIGRSSVTVEMYENPGEEYQIEGNFWQRSCTIFNAMKESVAEIRRKVDASTQVLLAKDVFLLSVKP 179 (215)
Q Consensus 100 ~~~~~~l~~vkk~~~~~~~~~~V~l~~~~~~~~~v~G~~~~~~~~I~~~~g~~VA~V~rk~~~~~~~~~g~dtY~v~V~p 179 (215)
. +|.++|+.+|.|+++++. +.+|+++||+|+.+|++.++ ++++|+|+||| +.|+|||.|+|+|
T Consensus 77 ----~-~~~vrKK~tf~Rdk~e~d-----~~~~eihGNi~d~efkl~dg-~~~~aeVsKkw------f~~rdTY~l~vap 139 (159)
T COG4894 77 ----T-VCEVRKKVTFSRDKFEID-----GLNWEIHGNIWDDEFKLTDG-ENVRAEVSKKW------FSWRDTYHLQVAP 139 (159)
T ss_pred ----C-EEEEEEEEEEEeeeEEEc-----CCCeEEecceeceEEEEecC-Cceehhheeee------EeccceEEEEEcC
Confidence 3 999999999888888863 56699999999999999999 78999999999 5699999999999
Q ss_pred CCCHHHHHHHHHHhcccccC
Q 027996 180 GFDGAFAMGLVLVLDQINGD 199 (215)
Q Consensus 180 gvD~ali~alvv~lD~i~~~ 199 (215)
+.|.++|+++|||||++.++
T Consensus 140 de~a~lii~i~VaLD~v~~~ 159 (159)
T COG4894 140 DEDALLIIAIAVALDMVLYN 159 (159)
T ss_pred chhhHHHHHHHHHHHHHhcC
Confidence 99999999999999998763
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=99.64 E-value=3e-14 Score=120.25 Aligned_cols=180 Identities=17% Similarity=0.206 Sum_probs=131.6
Q ss_pred ccCCcceEEEEEEEecee-------eCCCeEEEeCCCCEEEEEEecCCCC-------CCCCeEEEEcCCCCeEEEEEEec
Q 027996 14 YIYKQETHLTVFKTSLFF-------QNDGFTVYNCRGELVFRVDSYGPDT-------RDKDEHVLMDAHGKCLLTVRRKV 79 (215)
Q Consensus 14 ~~~~~~~~l~v~~k~~~~-------~~d~f~V~D~~G~~vf~V~g~~~~~-------s~~~k~~l~D~~G~~L~~i~~k~ 79 (215)
|.+.-. .+.|+++.... ..+.|.|+|.+|+.+|.+......+ ..+-++.++|+.|+++++++|..
T Consensus 17 ~L~~~~-~l~I~Q~~e~~e~~~~~e~~N~Y~I~n~~g~~i~~~~E~s~~~~R~~~~~~R~f~~~i~D~~g~~vl~i~Rp~ 95 (221)
T PF03803_consen 17 YLAGLD-QLLIKQQIEPLEIFTGFETPNRYDIKNPNGQQIYYAVEESDCCSRQCCGSHRPFKMHIYDNYGREVLTIERPF 95 (221)
T ss_pred HHhCCC-EEEEEEEEEEeceecccccCceEEEECCCCCEEEEEEEeCcceeeeecCCCCCEEEEEEecCCCEEEEEEcCC
Confidence 444444 56777775532 3578999999999999887643111 12445789999999999999983
Q ss_pred cccccCccccceeEEEEcCCCCCCceEEEEEeecccCCceEEEEEeCCCCccEEEEee------ecCceeEEEeCCCcEE
Q 027996 80 QFQLMRPSLHHRWEGYSGERTDGQKPIFSVRRSSIIGRSSVTVEMYENPGEEYQIEGN------FWQRSCTIFNAMKESV 153 (215)
Q Consensus 80 ~~~~~~~s~~~~w~v~~~~~~~~~~~l~~vkk~~~~~~~~~~V~l~~~~~~~~~v~G~------~~~~~~~I~~~~g~~V 153 (215)
++..-......+.+|+.+. | +++.+|++++.+.+++++|+-++ +..-+.|+|. +.+..|.|++.+|+.|
T Consensus 96 ~c~~C~~~~~~~~~V~~p~---g-~~iG~I~q~~~~~~~~f~I~d~~-~~~~~~I~gp~~~~~~~~~~~F~I~~~~~~~v 170 (221)
T PF03803_consen 96 KCCSCCPCCLQEMEVESPP---G-NLIGSIRQPFSCCRPNFDIFDAN-GNPIFTIKGPCCCCSCCCDWEFEIKDPNGQEV 170 (221)
T ss_pred cceecccccceeEEEecCC---C-cEEEEEEEcCcccceEEEEEECC-CceEEEEeCCcceeccccceeeeeecccCcEE
Confidence 2110000113556676654 3 68999999988778899986544 3456888887 4578899999778999
Q ss_pred EEEEeeeccccc-eEeeeceEEEEEeCCCCH---HHHHHHHHHhcccccC
Q 027996 154 AEIRRKVDASTQ-VLLAKDVFLLSVKPGFDG---AFAMGLVLVLDQINGD 199 (215)
Q Consensus 154 A~V~rk~~~~~~-~~~g~dtY~v~V~pgvD~---ali~alvv~lD~i~~~ 199 (215)
|+|+|+|.+... .+...|.|.|+..+..|. |+++|.++.+|.++-+
T Consensus 171 g~I~k~w~G~~~e~~t~~d~f~i~Fp~~l~~~~Kalll~a~~liD~~~Fe 220 (221)
T PF03803_consen 171 GSITKKWSGFCRELFTDADNFVIEFPPDLDVEQKALLLGAAFLIDYMYFE 220 (221)
T ss_pred EEEEEecCCcchhhccccceEEEEcCCCCCHHHHHHHHHHHHHhhhhhhc
Confidence 999999965543 455789999999999886 7999999999998765
No 4
>COG4894 Uncharacterized conserved protein [Function unknown]
Probab=98.38 E-value=1e-06 Score=69.69 Aligned_cols=70 Identities=17% Similarity=0.189 Sum_probs=60.1
Q ss_pred CCcceEEEEEEEeceeeCCCeEEEeCCCCEEEEEEecCCCCCCCCeEEEEcCCCCeEEEEEEeccccccCccccceeEEE
Q 027996 16 YKQETHLTVFKTSLFFQNDGFTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLTVRRKVQFQLMRPSLHHRWEGY 95 (215)
Q Consensus 16 ~~~~~~l~v~~k~~~~~~d~f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~i~~k~~~~~~~~s~~~~w~v~ 95 (215)
...+.++.|.=+ .+..+|.|+|+|+.|.+++.++. +++++..+..|-|++|+ .+.+++| ..-++++|++-
T Consensus 26 ~dgE~af~VeGs-~f~i~dtlti~Da~G~~l~~i~~--kll~l~~~yeI~d~~g~-~~~vrKK------~tf~Rdk~e~d 95 (159)
T COG4894 26 RDGEEAFKVEGS-FFSIGDTLTITDASGKTLVSIEQ--KLLSLLPRYEISDGGGT-VCEVRKK------VTFSRDKFEID 95 (159)
T ss_pred CCCcEEEEEeee-EEeeCceEEEEecCCCChHHHHH--HHhhccceeEEEcCCCC-EEEEEEE------EEEEeeeEEEc
Confidence 345778888866 57789999999999999999999 99999999999999999 8899999 44458888763
No 5
>PF04525 Tub_2: Tubby C 2; InterPro: IPR007612 This is a family of plant and bacterial uncharacterised proteins.; PDB: 1ZXU_A 2Q4M_A.
Probab=97.88 E-value=0.00016 Score=59.64 Aligned_cols=72 Identities=13% Similarity=0.147 Sum_probs=41.5
Q ss_pred cceEEEEEE-EeceeeCCCeEEEeCCCCEEEEEEecCCCCCCCCeEEEEcCCCC----eEEEEEEeccccccCcccccee
Q 027996 18 QETHLTVFK-TSLFFQNDGFTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGK----CLLTVRRKVQFQLMRPSLHHRW 92 (215)
Q Consensus 18 ~~~~l~v~~-k~~~~~~d~f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~----~L~~i~~k~~~~~~~~s~~~~w 92 (215)
....|+|.. + .+..++...++|.+|++++++.- +.+++..+..++++++. ++++|+++. .+..++.-
T Consensus 37 G~~vf~V~g~~-~~s~~~~~~l~D~~G~~L~~i~~--k~~~l~~~w~i~~~~~~~~~~~i~tvkk~~-----~~~~~~~~ 108 (187)
T PF04525_consen 37 GNVVFRVDGGK-FFSIGKKRTLMDASGNPLFTIRR--KLFSLRPTWEIYRGGGSEGKKPIFTVKKKS-----MLQNKDSF 108 (187)
T ss_dssp S-EEEEEE--S-CTTBTTEEEEE-TTS-EEEEEE----------EEEEEETT---GGGEEEEEE---------------E
T ss_pred CCEEEEEEEec-ccCCCCEEEEECCCCCEEEEEEe--eecccceEEEEEECCCCccCceEEEEEEec-----ccCCCcce
Confidence 457899998 5 56788899999999999999999 88999999999999998 599999983 34445555
Q ss_pred EEEEc
Q 027996 93 EGYSG 97 (215)
Q Consensus 93 ~v~~~ 97 (215)
.+|.+
T Consensus 109 ~~f~~ 113 (187)
T PF04525_consen 109 DVFLP 113 (187)
T ss_dssp EEEET
T ss_pred eEEEe
Confidence 56664
No 6
>KOG0621 consensus Phospholipid scramblase [Cell wall/membrane/envelope biogenesis]
Probab=97.87 E-value=0.00054 Score=60.65 Aligned_cols=165 Identities=16% Similarity=0.127 Sum_probs=101.4
Q ss_pred eCCCeEEEeCCCCEEEEEEecCC----C---CCCCCeEEEEcCCCCeEEEEEEecccccc--CccccceeEEEEcCCCCC
Q 027996 32 QNDGFTVYNCRGELVFRVDSYGP----D---TRDKDEHVLMDAHGKCLLTVRRKVQFQLM--RPSLHHRWEGYSGERTDG 102 (215)
Q Consensus 32 ~~d~f~V~D~~G~~vf~V~g~~~----~---~s~~~k~~l~D~~G~~L~~i~~k~~~~~~--~~s~~~~w~v~~~~~~~~ 102 (215)
..+.|.|.|.+|+.+|.+--... - ..-+-...++|.-|++++++++++.+..- ........++-.+.
T Consensus 97 t~NRY~v~~~~g~~v~~~~E~S~~~~Rq~~g~~RpF~~~i~D~~g~eVl~~~R~~~c~~~~c~~~~~~~~~v~~p~---- 172 (292)
T KOG0621|consen 97 TANRYVVHDMYGQPLYYAMERSNVFARQYLGTHRPFAMRIMDNFGQEVLTCKRPFPCCSSACALCLAQEIEIQSPP---- 172 (292)
T ss_pred cCcEEEEEcCCcChhHHHHhhchHHHHHhhccCCcceeEeecccCcEEEEEeccccccccccccccccEEEEEcCC----
Confidence 56889999999999995433110 0 12355688999999999999998422210 00001112222221
Q ss_pred CceEEEEEeecccCCceEEEEEeCCCC-ccEEEEee-------ecCceeEEEeC-CCcEEEEEEeeecccc-ceEeeece
Q 027996 103 QKPIFSVRRSSIIGRSSVTVEMYENPG-EEYQIEGN-------FWQRSCTIFNA-MKESVAEIRRKVDAST-QVLLAKDV 172 (215)
Q Consensus 103 ~~~l~~vkk~~~~~~~~~~V~l~~~~~-~~~~v~G~-------~~~~~~~I~~~-~g~~VA~V~rk~~~~~-~~~~g~dt 172 (215)
...+-+|........+++.+- +... ..+.|+|- +-+..|.|... +++.|++|.|+|.... +.+...|+
T Consensus 173 ~~~lG~v~q~~~~~~~~f~i~--~~~~~~v~~v~gp~~~~~~~~~d~~f~~~~~d~~~~vg~I~k~w~g~~rE~fTDad~ 250 (292)
T KOG0621|consen 173 MGLLGKVLQTWGCVNPNFHLW--DRDGNLVFLVEGPRCCTFACCDDTVFFPKTTDNGRIVGSISRKWAGLVREAFTDADT 250 (292)
T ss_pred CceEEEEEEeeccccceEEEE--cccceeEEEEEcCceeEEEeecCcceeEEEcCCCeEEEEEeecccchhhhheeccce
Confidence 123444444443333455442 2211 12445544 44444444443 5889999999996544 45667899
Q ss_pred EEEEEeCCCCH---HHHHHHHHHhcccccCCCC
Q 027996 173 FLLSVKPGFDG---AFAMGLVLVLDQINGDNYV 202 (215)
Q Consensus 173 Y~v~V~pgvD~---ali~alvv~lD~i~~~~~~ 202 (215)
|.|.-.-..|. |+++|.++-||.+..+.+.
T Consensus 251 f~v~FPldLdvk~kavllga~flID~~~Fe~~~ 283 (292)
T KOG0621|consen 251 FVVHFPLDLDVKLKALLLGSTFLIDYMSFESRG 283 (292)
T ss_pred eeEecCCcCCHHHHhhhhhheeeEEEEEEecCC
Confidence 99988877876 7899999999998887764
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=96.51 E-value=0.0087 Score=50.31 Aligned_cols=84 Identities=15% Similarity=0.158 Sum_probs=61.9
Q ss_pred cceEEEEEEEeceee------CCCeEEEeCCCCEEEEEEecCCCCCCCCeEEEEcCCCCeEEEEEEeccccccCcc----
Q 027996 18 QETHLTVFKTSLFFQ------NDGFTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLTVRRKVQFQLMRPS---- 87 (215)
Q Consensus 18 ~~~~l~v~~k~~~~~------~d~f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~i~~k~~~~~~~~s---- 87 (215)
+...+++.+. ..+. ....+|.+..|+++-+|.. +...++.++.|+|++|+++++|+.. ...
T Consensus 85 g~~vl~i~Rp-~~c~~C~~~~~~~~~V~~p~g~~iG~I~q--~~~~~~~~f~I~d~~~~~~~~I~gp------~~~~~~~ 155 (221)
T PF03803_consen 85 GREVLTIERP-FKCCSCCPCCLQEMEVESPPGNLIGSIRQ--PFSCCRPNFDIFDANGNPIFTIKGP------CCCCSCC 155 (221)
T ss_pred CCEEEEEEcC-CcceecccccceeEEEecCCCcEEEEEEE--cCcccceEEEEEECCCceEEEEeCC------cceeccc
Confidence 3456777665 3332 2678899999999999998 7666899999999999999999876 332
Q ss_pred ccceeEEEEcCCCCCCceEEEEEeecc
Q 027996 88 LHHRWEGYSGERTDGQKPIFSVRRSSI 114 (215)
Q Consensus 88 ~~~~w~v~~~~~~~~~~~l~~vkk~~~ 114 (215)
..-.|+++..+ | +.+.+|+|++.
T Consensus 156 ~~~~F~I~~~~---~-~~vg~I~k~w~ 178 (221)
T PF03803_consen 156 CDWEFEIKDPN---G-QEVGSITKKWS 178 (221)
T ss_pred cceeeeeeccc---C-cEEEEEEEecC
Confidence 23346666654 3 56999999874
No 8
>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=76.43 E-value=21 Score=30.83 Aligned_cols=72 Identities=15% Similarity=0.187 Sum_probs=42.9
Q ss_pred EEEEEeccccccCccccceeEEEEcCCCCCCceEEEEEeecccCCceEEEEEeCC----CCcc--EEEEeeecCceeEEE
Q 027996 73 LTVRRKVQFQLMRPSLHHRWEGYSGERTDGQKPIFSVRRSSIIGRSSVTVEMYEN----PGEE--YQIEGNFWQRSCTIF 146 (215)
Q Consensus 73 ~~i~~k~~~~~~~~s~~~~w~v~~~~~~~~~~~l~~vkk~~~~~~~~~~V~l~~~----~~~~--~~v~G~~~~~~~~I~ 146 (215)
+.|+|..+-+ ...+.+.|..|..+. +++.|...||...-..+.+.|++... .... =.|+.||++.+|.||
T Consensus 10 C~I~R~k~g~--~~~lyp~y~l~l~~~--~~kfLLaArK~~~s~~s~YiIS~~~~dlsr~s~~yvGKLrsNf~GT~F~iy 85 (246)
T PF01167_consen 10 CFIRRDKSGL--TRGLYPGYYLYLEGE--NGKFLLAARKRKRSKTSNYIISLDPDDLSRSSNNYVGKLRSNFLGTEFTIY 85 (246)
T ss_dssp EEEEEESTTC--CCT---EEEEEEEST--TSEEEEEEEEECSSSSEEEEEESSHHHHCTT---ESEEEEE-TTSSEEEEE
T ss_pred EEEEEECCCC--CcccCcEeEeccccC--CCcEEEeeeecccCCCcceEEecCCCccccCCCceeeeeccccceeEEEEE
Confidence 7776652111 123678888888642 23678888887544456788877532 1222 357899999999999
Q ss_pred eC
Q 027996 147 NA 148 (215)
Q Consensus 147 ~~ 148 (215)
|.
T Consensus 86 D~ 87 (246)
T PF01167_consen 86 DN 87 (246)
T ss_dssp ES
T ss_pred CC
Confidence 97
No 9
>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=62.73 E-value=20 Score=27.31 Aligned_cols=57 Identities=18% Similarity=0.323 Sum_probs=32.1
Q ss_pred CccCCcceEEEEEEEeceeeCCCeEEEeCCCCEEEEEEecCCCCCCCCeEEEEcCCCCeEEEEEE
Q 027996 13 EYIYKQETHLTVFKTSLFFQNDGFTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLTVRR 77 (215)
Q Consensus 13 ~~~~~~~~~l~v~~k~~~~~~d~f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~i~~ 77 (215)
-|..++--.+..-..++.....+|.++ +|+...-|... ++-+.++|++|..+|.+-.
T Consensus 49 Vyl~ne~G~~~~i~QPi~iN~gg~~~y--~gq~a~~vt~~------~hSMAv~d~~g~q~Fy~pn 105 (114)
T PF09008_consen 49 VYLENEDGSHVQIAQPIIINKGGFPVY--NGQIAKFVTVP------GHSMAVYDANGQQQFYFPN 105 (114)
T ss_dssp EEEE-TTS-EEEE-SSEEE-TTS-EEE--TTEE--EEESS------SEEEEEE-TTS-EEEEESE
T ss_pred EEEEcCCCCEeeccCCEEEccCCceEE--ccceeEEEEcc------CceEEEEeCCCcEEEeecc
Confidence 344444333344445566778899999 55566666662 4568999999999998744
No 10
>KOG0621 consensus Phospholipid scramblase [Cell wall/membrane/envelope biogenesis]
Probab=60.86 E-value=48 Score=29.55 Aligned_cols=45 Identities=22% Similarity=0.315 Sum_probs=31.8
Q ss_pred CCeEEEeCCCCEEEEEEecC-CC---CCCCCeEEEEcCCCCeEEEEEEe
Q 027996 34 DGFTVYNCRGELVFRVDSYG-PD---TRDKDEHVLMDAHGKCLLTVRRK 78 (215)
Q Consensus 34 d~f~V~D~~G~~vf~V~g~~-~~---~s~~~k~~l~D~~G~~L~~i~~k 78 (215)
-.|.|.|..++.+|+|+|-+ -. .+......++..+|..+..|-+|
T Consensus 188 ~~f~i~~~~~~~v~~v~gp~~~~~~~~~d~~f~~~~~d~~~~vg~I~k~ 236 (292)
T KOG0621|consen 188 PNFHLWDRDGNLVFLVEGPRCCTFACCDDTVFFPKTTDNGRIVGSISRK 236 (292)
T ss_pred ceEEEEcccceeEEEEEcCceeEEEeecCcceeEEEcCCCeEEEEEeec
Confidence 56888888888889888831 01 13345567777788888888776
No 11
>PRK12816 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=50.06 E-value=23 Score=30.80 Aligned_cols=40 Identities=20% Similarity=0.370 Sum_probs=32.9
Q ss_pred eCCC-eEEEeCCCCEEEEEEecCCCCCCCCeEEEEcCCCCeEEE
Q 027996 32 QNDG-FTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLT 74 (215)
Q Consensus 32 ~~d~-f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~ 74 (215)
.|++ |.|.+.+|..+|+=+| . |++...-.|.+++|.+|+.
T Consensus 98 ~G~GFF~V~~~~G~~~YTR~G--~-F~~d~~G~Lvt~~G~~vl~ 138 (264)
T PRK12816 98 EGEGFFKILMPDGTYAYTRDG--S-FKIDANGQLVTSNGYRLLP 138 (264)
T ss_pred CCCcEEEEEcCCCCeEEeeCC--C-eeECCCCCEECCCCCEecc
Confidence 5666 6888889988899888 6 5777788899999999985
No 12
>PF13860 FlgD_ig: FlgD Ig-like domain; PDB: 3C12_A 3OSV_A.
Probab=49.88 E-value=25 Score=24.64 Aligned_cols=16 Identities=19% Similarity=0.430 Sum_probs=8.9
Q ss_pred eEEEEcCCCCeEEEEE
Q 027996 61 EHVLMDAHGKCLLTVR 76 (215)
Q Consensus 61 k~~l~D~~G~~L~~i~ 76 (215)
++.|+|++|+.+.++.
T Consensus 28 ~v~I~d~~G~~V~t~~ 43 (81)
T PF13860_consen 28 TVTIYDSNGQVVRTIS 43 (81)
T ss_dssp EEEEEETTS-EEEEEE
T ss_pred EEEEEcCCCCEEEEEE
Confidence 5666666666665554
No 13
>PF15529 Toxin_49: Putative toxin 49
Probab=48.87 E-value=19 Score=26.39 Aligned_cols=21 Identities=29% Similarity=0.477 Sum_probs=16.6
Q ss_pred CCeEEEeCCCCEEEEEEecCC
Q 027996 34 DGFTVYNCRGELVFRVDSYGP 54 (215)
Q Consensus 34 d~f~V~D~~G~~vf~V~g~~~ 54 (215)
.+|+++|++|.++-++++.|+
T Consensus 30 t~Y~tY~~~G~~~kr~r~~Gk 50 (89)
T PF15529_consen 30 TSYTTYDEDGMIVKRYRGSGK 50 (89)
T ss_pred cceeEEcCCCcEeEEeeccCC
Confidence 469999999997777777443
No 14
>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=45.91 E-value=1.2e+02 Score=22.29 Aligned_cols=31 Identities=32% Similarity=0.403 Sum_probs=22.8
Q ss_pred CCeEEEEcCCCCeEEEEEEeccccccCccccceeEEEEcC
Q 027996 59 KDEHVLMDAHGKCLLTVRRKVQFQLMRPSLHHRWEGYSGE 98 (215)
Q Consensus 59 ~~k~~l~D~~G~~L~~i~~k~~~~~~~~s~~~~w~v~~~~ 98 (215)
++.+.|+|++|+.|..+.+. =-..|+....+
T Consensus 61 gd~l~L~d~~G~~v~~f~~~---------~~g~~~g~~~~ 91 (99)
T PF02974_consen 61 GDGLVLTDADGSVVAFFYRS---------GDGRFEGQTPD 91 (99)
T ss_dssp TTEEEEE-TTS-EEEEEEEE---------CTTEEEEEECC
T ss_pred CCEEEEECCCCCEEEEEEcc---------CCeeEEeEcCC
Confidence 56799999999999998776 13578888865
No 15
>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=44.85 E-value=44 Score=29.31 Aligned_cols=19 Identities=26% Similarity=0.489 Sum_probs=9.3
Q ss_pred CCeEEEEcC-CCCeEEEEEE
Q 027996 59 KDEHVLMDA-HGKCLLTVRR 77 (215)
Q Consensus 59 ~~k~~l~D~-~G~~L~~i~~ 77 (215)
.+.+.+.|+ +|++||+-.+
T Consensus 117 ~~~F~V~d~~~g~~lFsad~ 136 (264)
T PF04790_consen 117 SNRFEVKDPRDGKTLFSADR 136 (264)
T ss_pred cCeEEEEcCCCCceEEEecC
Confidence 444555555 5555555433
No 16
>PRK12640 flgF flagellar basal body rod protein FlgF; Reviewed
Probab=44.20 E-value=27 Score=30.12 Aligned_cols=40 Identities=23% Similarity=0.272 Sum_probs=31.2
Q ss_pred eCCC-eEEEeCCCCEEEEEEecCCCCCCCCeEEEEcCCCCeEEE
Q 027996 32 QNDG-FTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLT 74 (215)
Q Consensus 32 ~~d~-f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~ 74 (215)
.|++ |.|.+.+|+..|+=+| . |.+...-.|.+++|.+|+.
T Consensus 83 ~G~GFF~V~~~~G~~~yTR~G--~-F~~d~~G~Lvt~~G~~vlg 123 (246)
T PRK12640 83 QGDGWLAVQAPDGSEAYTRNG--S-LQVDANGQLRTANGLPVLG 123 (246)
T ss_pred CCCcEEEEEcCCCCEEEEeCC--C-eeECCCCCEEcCCCCCccC
Confidence 4556 7788888988899888 6 4777777788889988874
No 17
>KOG3950 consensus Gamma/delta sarcoglycan [Cytoskeleton]
Probab=43.60 E-value=28 Score=30.37 Aligned_cols=20 Identities=20% Similarity=0.292 Sum_probs=13.1
Q ss_pred CCeEEEEcCCCCeEEEEEEe
Q 027996 59 KDEHVLMDAHGKCLLTVRRK 78 (215)
Q Consensus 59 ~~k~~l~D~~G~~L~~i~~k 78 (215)
.+++.+.|.+|++||+.-++
T Consensus 138 ~~~Fev~~~dgk~LFsad~d 157 (292)
T KOG3950|consen 138 CKRFEVNDVDGKLLFSADED 157 (292)
T ss_pred hceeEEecCCCcEEEEeccc
Confidence 56667777777777766543
No 18
>PRK12691 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=43.05 E-value=44 Score=28.90 Aligned_cols=40 Identities=15% Similarity=0.241 Sum_probs=32.4
Q ss_pred eCCC-eEEEeCCCCEEEEEEecCCCCCCCCeEEEEcCCCCeEEE
Q 027996 32 QNDG-FTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLT 74 (215)
Q Consensus 32 ~~d~-f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~ 74 (215)
.|++ |.|.+.+|+..|+=+| . |.+...-.|.+++|.+|+.
T Consensus 98 ~G~GfF~V~~~~G~~~yTR~G--~-F~~d~~G~Lvt~~G~~vl~ 138 (262)
T PRK12691 98 QGRGYFQIQLPDGETAYTRAG--A-FNRSADGQIVTSDGYPVQP 138 (262)
T ss_pred cCCcEEEEEcCCCCEEEeeCC--C-eeECCCCCEECCCCCEeEe
Confidence 4666 6777788988899888 6 5777778899999999985
No 19
>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=42.59 E-value=33 Score=29.66 Aligned_cols=40 Identities=23% Similarity=0.331 Sum_probs=32.2
Q ss_pred eCCC-eEEEeCCCCEEEEEEecCCCCCCCCeEEEEcCCCCeEEE
Q 027996 32 QNDG-FTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLT 74 (215)
Q Consensus 32 ~~d~-f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~ 74 (215)
.|++ |.|.+.+|+..|+=+| . |++...-.|.+++|.+|+.
T Consensus 96 ~G~GfF~V~~~~g~~~yTR~G--~-F~~d~~G~Lvt~~G~~Vl~ 136 (259)
T TIGR02488 96 EGEGFFQVLMPDGTTAYTRDG--A-FKINAEGQLVTSNGYPLQP 136 (259)
T ss_pred cCCcEEEEEcCCCCeEEeeCC--c-eEECCCCCEECCCCCEecC
Confidence 4666 6788888988899888 6 5777778899999999884
No 20
>smart00634 BID_1 Bacterial Ig-like domain (group 1).
Probab=41.47 E-value=74 Score=22.63 Aligned_cols=40 Identities=25% Similarity=0.257 Sum_probs=17.2
Q ss_pred eEEEeCCCCE------EEEEEecCCCCCCCCeEEEEcCCCCeEEEEE
Q 027996 36 FTVYNCRGEL------VFRVDSYGPDTRDKDEHVLMDAHGKCLLTVR 76 (215)
Q Consensus 36 f~V~D~~G~~------vf~V~g~~~~~s~~~k~~l~D~~G~~L~~i~ 76 (215)
.+|.|.+|++ -|.+.|.+ .+.+...-...|.+|+-++.++
T Consensus 24 v~v~D~~Gnpv~~~~V~f~~~~~~-~~~~~~~~~~Td~~G~a~~~l~ 69 (92)
T smart00634 24 ATVTDANGNPVAGQEVTFTTPSGG-ALTLSKGTATTDANGIATVTLT 69 (92)
T ss_pred EEEECCCCCCcCCCEEEEEECCCc-eeeccCCeeeeCCCCEEEEEEE
Confidence 4455666553 34444422 1122223334455555555443
No 21
>PRK12817 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=41.26 E-value=39 Score=29.26 Aligned_cols=40 Identities=20% Similarity=0.336 Sum_probs=31.6
Q ss_pred eCCC-eEEEeCCCCEEEEEEecCCCCCCCCeEEEEcCCCCeEEE
Q 027996 32 QNDG-FTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLT 74 (215)
Q Consensus 32 ~~d~-f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~ 74 (215)
.|++ |.|.+.+|..+|+=+| . |.+...-.|.+++|.+|+.
T Consensus 94 ~G~GfF~V~~~~G~~~yTR~G--~-F~~d~~G~Lvt~~G~~vl~ 134 (260)
T PRK12817 94 DGEGFFRVIMADGTYAYTRAG--N-FNIDSNGMLVDDNGNRLEI 134 (260)
T ss_pred CCCcEEEEEcCCCCeEEEeCC--c-eeECCCCCEEcCCCCEEEe
Confidence 4666 7788888988899888 6 4676777788999998884
No 22
>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=40.66 E-value=81 Score=22.95 Aligned_cols=59 Identities=17% Similarity=0.102 Sum_probs=34.1
Q ss_pred cCccCCcceEEEEEEEeceeeCCC--eEEEeCCCCEEEEEEecCCCCCCCCeEEEEcCCCCeEEEEE
Q 027996 12 DEYIYKQETHLTVFKTSLFFQNDG--FTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLTVR 76 (215)
Q Consensus 12 ~~~~~~~~~~l~v~~k~~~~~~d~--f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~i~ 76 (215)
++++..-+-.-..+.|.-...+.+ --=+|..|..+|.-|. .+.+++++|..|+.|-.+-
T Consensus 7 ~~~i~g~~~l~~~k~ktp~~gg~~~r~rw~~~kG~kiYewDs------qHG~lEvy~~~GkHLGe~D 67 (85)
T PF09000_consen 7 TEDIPGFPDLKKAKPKTPVQGGGGKRKRWKDKKGRKIYEWDS------QHGELEVYNKRGKHLGEFD 67 (85)
T ss_dssp GGG--SSSSEEEE---SB-SSSSSB--EEEETTTTEEEEEET------TTTEEEEEETT-BEEEEE-
T ss_pred cccccCchhhhhccccCccccCCccccceEcCCCCEEEEEcC------CCCeEEEEcCCCcCccccc
Confidence 334444443445555543333222 3456889999999996 4789999999999987653
No 23
>PRK12818 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=40.12 E-value=41 Score=29.10 Aligned_cols=40 Identities=25% Similarity=0.326 Sum_probs=30.5
Q ss_pred eCCC-eEEEeCCCCEEEEEEecCCCCCCCCeEEEEcCCCCeEEE
Q 027996 32 QNDG-FTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLT 74 (215)
Q Consensus 32 ~~d~-f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~ 74 (215)
.|++ |.|.+.+|+..|+=+| . |.+...-.|.+++|.+|+-
T Consensus 98 ~G~GFF~V~~~~G~~~YTR~G--~-F~~d~~G~Lvt~~G~~vlg 138 (256)
T PRK12818 98 QGRGFFTVERNAGNNYYTRDG--H-FHVDTQGYLVNDSGYYVLG 138 (256)
T ss_pred CCCceEEEEcCCCCeEEeeCC--C-eeECCCCCEEcCCCCEEec
Confidence 4666 7788888887899888 6 4666667788888888874
No 24
>PRK12694 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=39.98 E-value=38 Score=29.37 Aligned_cols=40 Identities=20% Similarity=0.302 Sum_probs=32.3
Q ss_pred eCCC-eEEEeCCCCEEEEEEecCCCCCCCCeEEEEcCCCCeEEE
Q 027996 32 QNDG-FTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLT 74 (215)
Q Consensus 32 ~~d~-f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~ 74 (215)
.|++ |.|.+.+|...|+=+| . |.+...-.|.+++|.+|+.
T Consensus 98 ~G~GfF~V~~~~G~~~yTR~G--~-F~~d~~G~Lvt~~G~~Vl~ 138 (260)
T PRK12694 98 NGQGFFQVLMPDGTTAYTRDG--S-FQTNAQGQLVTSSGYPLQP 138 (260)
T ss_pred cCCcEEEEEcCCCCeEEeeCC--C-ceECCCCCEECCCCCEecc
Confidence 5666 6788888988899888 6 5777778899999999885
No 25
>COG4998 Predicted endonuclease (RecB family) [DNA replication, recombination, and repair]
Probab=39.39 E-value=70 Score=26.37 Aligned_cols=43 Identities=21% Similarity=0.276 Sum_probs=31.9
Q ss_pred ccEEEEeeecCceeEEEeCCCcEEEEEEeeeccccceEeeeceEEEEEeCC-CCH
Q 027996 130 EEYQIEGNFWQRSCTIFNAMKESVAEIRRKVDASTQVLLAKDVFLLSVKPG-FDG 183 (215)
Q Consensus 130 ~~~~v~G~~~~~~~~I~~~~g~~VA~V~rk~~~~~~~~~g~dtY~v~V~pg-vD~ 183 (215)
..|++ -.++|.|+++ |..|+||.--- -.+..+|.|+|..| +|.
T Consensus 16 eGfev----vArn~~ve~e-gveVgEiDIVA------ek~GerYavEVKAG~vdi 59 (209)
T COG4998 16 EGFEV----VARNMPVEDE-GVEVGEIDIVA------EKGGERYAVEVKAGMVDI 59 (209)
T ss_pred cCcEE----EeecceeecC-CeEEEEEEEEE------ecCCcEEEEEEeccccch
Confidence 34555 3468999997 89999997432 23689999999998 453
No 26
>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=35.22 E-value=54 Score=26.79 Aligned_cols=22 Identities=23% Similarity=0.205 Sum_probs=12.5
Q ss_pred CCCCeEEEEcCCCCeE-EEEEEe
Q 027996 57 RDKDEHVLMDAHGKCL-LTVRRK 78 (215)
Q Consensus 57 s~~~k~~l~D~~G~~L-~~i~~k 78 (215)
+.++++.|.+.+|+.. +.+...
T Consensus 110 ~~GD~I~v~~~~g~~~~Y~V~~~ 132 (174)
T TIGR03784 110 RPGDVIRLQTPDGQWQSYQVTAT 132 (174)
T ss_pred CCCCEEEEEECCCeEEEEEEeEE
Confidence 4466666666666543 555444
No 27
>PRK12693 flgG flagellar basal body rod protein FlgG; Provisional
Probab=35.03 E-value=57 Score=28.15 Aligned_cols=40 Identities=20% Similarity=0.306 Sum_probs=31.9
Q ss_pred eCCC-eEEEeCCCCEEEEEEecCCCCCCCCeEEEEcCCCCeEEE
Q 027996 32 QNDG-FTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLT 74 (215)
Q Consensus 32 ~~d~-f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~ 74 (215)
.|++ |.|.+.+|...|+=+| . |.+...-.|.+++|.+|+.
T Consensus 98 ~G~GfF~v~~~~G~~~yTR~G--~-F~~d~~G~Lvt~~G~~vl~ 138 (261)
T PRK12693 98 EGQGFFQVQLPDGTIAYTRDG--S-FKLDQDGQLVTSGGYPLQP 138 (261)
T ss_pred CCCcEEEEEcCCCCeEEeeCC--C-eeECCCCCEECCCCCEEee
Confidence 4666 5787788988899888 6 5777777899999999885
No 28
>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=34.78 E-value=55 Score=24.89 Aligned_cols=22 Identities=14% Similarity=0.169 Sum_probs=12.7
Q ss_pred CCCCeEEEEcCCCCeEEEEEEe
Q 027996 57 RDKDEHVLMDAHGKCLLTVRRK 78 (215)
Q Consensus 57 s~~~k~~l~D~~G~~L~~i~~k 78 (215)
..++++.+.|..+.--+++...
T Consensus 66 ~~Gd~v~v~~~~~~~~Y~V~~~ 87 (126)
T cd06166 66 EKGDEIKVTTKNGTYKYKITSI 87 (126)
T ss_pred CCCCEEEEEECCEEEEEEEEEE
Confidence 3466666666655555555443
No 29
>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=34.16 E-value=39 Score=26.63 Aligned_cols=22 Identities=18% Similarity=0.098 Sum_probs=19.2
Q ss_pred CCCCeEEEEcCCCCeEEEEEEe
Q 027996 57 RDKDEHVLMDAHGKCLLTVRRK 78 (215)
Q Consensus 57 s~~~k~~l~D~~G~~L~~i~~k 78 (215)
|+--+..|+|++|+.+++...+
T Consensus 46 sfl~~i~l~d~~g~vv~~~~~~ 67 (133)
T PF07680_consen 46 SFLIGIQLKDSTGHVVLNWDQE 67 (133)
T ss_pred ceeeEEEEECCCCCEEEEeCHH
Confidence 5667799999999999998876
No 30
>PRK15393 NUDIX hydrolase YfcD; Provisional
Probab=32.22 E-value=98 Score=24.98 Aligned_cols=40 Identities=18% Similarity=0.169 Sum_probs=28.9
Q ss_pred CCeEEEeCCCCEEEEEE-----ecCCCCCCCCeEEEEcCCCCeEEE
Q 027996 34 DGFTVYNCRGELVFRVD-----SYGPDTRDKDEHVLMDAHGKCLLT 74 (215)
Q Consensus 34 d~f~V~D~~G~~vf~V~-----g~~~~~s~~~k~~l~D~~G~~L~~ 74 (215)
.=+.|+|++|+++-.+. .. .++...--..++|.+|+.|+.
T Consensus 10 e~~~~~d~~~~~~g~~~~~~~~~~-~~~h~~~~v~v~~~~g~iLL~ 54 (180)
T PRK15393 10 EWVDIVNENNEVIAQASREQMRAQ-CLRHRATYIVVHDGMGKILVQ 54 (180)
T ss_pred eEEEEECCCCCEeeEEEHHHHhhC-CCceEEEEEEEECCCCeEEEE
Confidence 34899999999999872 11 334455567788999988874
No 31
>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=31.50 E-value=60 Score=24.69 Aligned_cols=22 Identities=18% Similarity=0.102 Sum_probs=14.3
Q ss_pred CCCCeEEEEcCCCCeEEEEEEe
Q 027996 57 RDKDEHVLMDAHGKCLLTVRRK 78 (215)
Q Consensus 57 s~~~k~~l~D~~G~~L~~i~~k 78 (215)
..++++.+.+..+.-.+.+.++
T Consensus 63 ~~Gd~i~v~~~~~~~~Y~V~~~ 84 (127)
T cd05828 63 EPGDIITLQTLGGTYTYRVTST 84 (127)
T ss_pred CCCCEEEEEECCEEEEEEEeeE
Confidence 4577777777755555666554
No 32
>PF08011 DUF1703: Protein of unknown function (DUF1703); InterPro: IPR012547 This family contains many hypothetical bacterial proteins.
Probab=29.97 E-value=26 Score=25.82 Aligned_cols=33 Identities=27% Similarity=0.357 Sum_probs=23.9
Q ss_pred CCCHHHHHHHHHHhcccccCCCCCCCCcccCCC
Q 027996 180 GFDGAFAMGLVLVLDQINGDNYVESNGGRVDPV 212 (215)
Q Consensus 180 gvD~ali~alvv~lD~i~~~~~~~~~~~~~~~~ 212 (215)
+.-+.++.+++.......-....+++.||+|-+
T Consensus 4 ~~y~~~~~~~l~~~~~y~v~sE~e~~~Gr~Dl~ 36 (105)
T PF08011_consen 4 KFYHGFLLGYLSLSSGYEVKSERESGKGRIDLV 36 (105)
T ss_pred chHHHHHHHHHHHcCCcEEEEEecCCCCeEEEE
Confidence 344677888777556666677788999999843
No 33
>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=28.71 E-value=85 Score=24.66 Aligned_cols=56 Identities=11% Similarity=0.100 Sum_probs=35.4
Q ss_pred eEEEeCCCCEEEEEEecC-----CCCCCCCeEEEEcCCCCeEEEEEEeccccccCccccceeEEEE
Q 027996 36 FTVYNCRGELVFRVDSYG-----PDTRDKDEHVLMDAHGKCLLTVRRKVQFQLMRPSLHHRWEGYS 96 (215)
Q Consensus 36 f~V~D~~G~~vf~V~g~~-----~~~s~~~k~~l~D~~G~~L~~i~~k~~~~~~~~s~~~~w~v~~ 96 (215)
+.|+|++|+++-++.-.+ .++...--..|.|.+|+.|+.-|... ...+-..|..--
T Consensus 1 ~~~~d~~~~~~g~~~r~~~~~~~g~~h~~v~v~v~~~~g~vLl~kR~~~-----k~~~PG~W~~~~ 61 (158)
T TIGR02150 1 VILVDENDNPIGTASKAEVHLQETPLHRAFSVFLFNEEGQLLLQRRALS-----KITWPGVWTNSC 61 (158)
T ss_pred CEEECCCCCEeeeeeHHHhhhcCCCeEEEEEEEEEcCCCeEEEEeccCC-----CcCCCCCccccc
Confidence 368999999999877632 01112223678999999888644331 334567787543
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=28.70 E-value=1.3e+02 Score=17.75 Aligned_cols=30 Identities=27% Similarity=0.414 Sum_probs=16.7
Q ss_pred EeCCCCEEEEEEecCCCCCCCCeEEEEcCCCCeEE
Q 027996 39 YNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLL 73 (215)
Q Consensus 39 ~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~ 73 (215)
+|+.|+++=.++..| .....-+|+.|+++-
T Consensus 1 YD~~G~l~~~~d~~G-----~~~~y~YD~~g~l~~ 30 (38)
T PF05593_consen 1 YDANGRLTSVTDPDG-----RTTRYTYDAAGRLTS 30 (38)
T ss_pred CCCCCCEEEEEcCCC-----CEEEEEECCCCCEEE
Confidence 366677666665522 223456666666543
No 35
>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=28.55 E-value=43 Score=23.83 Aligned_cols=17 Identities=29% Similarity=0.458 Sum_probs=11.1
Q ss_pred CeEEEeCCCCEEEEEEe
Q 027996 35 GFTVYNCRGELVFRVDS 51 (215)
Q Consensus 35 ~f~V~D~~G~~vf~V~g 51 (215)
+|.|+|.+|+.|++=..
T Consensus 27 D~~v~d~~g~~vwrwS~ 43 (82)
T PF12690_consen 27 DFVVKDKEGKEVWRWSD 43 (82)
T ss_dssp EEEEE-TT--EEEETTT
T ss_pred EEEEECCCCCEEEEecC
Confidence 48889999999998654
No 36
>PRK12692 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=27.20 E-value=69 Score=27.82 Aligned_cols=39 Identities=18% Similarity=0.285 Sum_probs=30.8
Q ss_pred eCCC-eEEEeCCCCEEEEEEecCCCCCCCCeEEEEcCCCCeEE
Q 027996 32 QNDG-FTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLL 73 (215)
Q Consensus 32 ~~d~-f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~ 73 (215)
.|++ |.|.+.+|...|+=+| . |.+...-.|.+++|.+|+
T Consensus 98 ~G~GFF~V~~~~G~~~yTR~G--~-F~~d~~G~Lvt~~G~~Vl 137 (262)
T PRK12692 98 NGRGYFQVTSPNGEIQYTRAG--S-FNKNAAGQLVTMEGYAVD 137 (262)
T ss_pred cCCceEEEECCCCCeEEEeCC--C-ceECCCCCEEcCCCCCcc
Confidence 4666 7787888988899888 6 467777779999998886
No 37
>PRK12641 flgF flagellar basal body rod protein FlgF; Reviewed
Probab=25.76 E-value=86 Score=27.09 Aligned_cols=38 Identities=11% Similarity=0.324 Sum_probs=24.9
Q ss_pred eCCC-eEEEeCCCCEEEEEEecCCCCCCCCeEEEEcCCCCeEE
Q 027996 32 QNDG-FTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLL 73 (215)
Q Consensus 32 ~~d~-f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~ 73 (215)
.|++ |.|.+.+|...|+=+| . |++...-.|. ++|.+|+
T Consensus 81 ~G~GFF~V~~~~G~~~YTR~G--~-F~~d~~G~L~-~~G~~Vl 119 (252)
T PRK12641 81 KDNGWLTIKDTNGQEAYTKNG--H-LKINSKRKLT-VQNNEVI 119 (252)
T ss_pred cCCcEEEEEcCCCCeEEeeCC--C-eeECCCCCEE-eCCcEec
Confidence 3555 7788888888888777 5 3544444454 6677666
No 38
>PRK12643 flgF flagellar basal body rod protein FlgF; Reviewed
Probab=25.48 E-value=62 Score=27.33 Aligned_cols=38 Identities=18% Similarity=0.252 Sum_probs=22.3
Q ss_pred eCCC-eEEEeCCCCEEEEEEecCCCCCCCCeEEEEcCCCCeEE
Q 027996 32 QNDG-FTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLL 73 (215)
Q Consensus 32 ~~d~-f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~ 73 (215)
.|++ |.|.+.+|+..|+=+| . |.+...-.| +++|.+|+
T Consensus 83 ~G~GFF~V~~~~G~~~YTR~G--~-F~~d~~G~L-t~~G~~Vl 121 (209)
T PRK12643 83 QQDGYLAVQLPDGSEAYTRNG--N-IQISANGQM-TVQGYPLM 121 (209)
T ss_pred CCCcEEEEEcCCCCeEEeeCC--C-ceECCCCCC-cCCCcCcc
Confidence 4455 5666667766677666 5 344444445 66666555
No 39
>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=24.52 E-value=12 Score=26.90 Aligned_cols=41 Identities=29% Similarity=0.591 Sum_probs=20.2
Q ss_pred eeCCC-eEEEeCCCCEEEEEEecCCCCCCCCeEEEEcCCCCeEE
Q 027996 31 FQNDG-FTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLL 73 (215)
Q Consensus 31 ~~~d~-f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~ 73 (215)
+.+++ |-|+|.+|..+..-.. +-+-..+-..+.|++|++++
T Consensus 53 ~~~~gY~fi~d~~g~~l~hp~~--p~~~G~n~~~~~D~~G~~~i 94 (95)
T PF08269_consen 53 YGGDGYFFIYDMDGVVLAHPSN--PELEGKNLSDLKDPNGKYLI 94 (95)
T ss_dssp SBTTB--EEE-TTSBEEEESS---GGGTT-B-TT-B-TT--BHH
T ss_pred cCCCCeEEEEeCCCeEEEcCCC--cccCCcccccCCCCCCCEEe
Confidence 34444 8899999987776432 22334555668899998865
No 40
>PRK06655 flgD flagellar basal body rod modification protein; Reviewed
Probab=24.50 E-value=1.1e+02 Score=26.01 Aligned_cols=43 Identities=23% Similarity=0.341 Sum_probs=22.3
Q ss_pred eeCCCeEEEeCCCCEEEEEEecCCCCCCCCeEEEEcCCCCeEEEEE
Q 027996 31 FQNDGFTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLTVR 76 (215)
Q Consensus 31 ~~~d~f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~i~ 76 (215)
..++.+.+.+ .+..-++++= .--.-.-.+.|+|++|+.+.++.
T Consensus 102 ~~~~~~~~~~-~~~~~~~~~l--~~~a~~vti~I~D~~G~~Vrt~~ 144 (225)
T PRK06655 102 VPGDTVLVGT-GGTTPFGVEL--PSAADNVTVTITDSAGQVVRTID 144 (225)
T ss_pred EecceEEecC-CCceEEEEEc--CCCCcEEEEEEEcCCCCEEEEEe
Confidence 3444444433 2345555542 10123456777787777776653
No 41
>PRK12690 flgF flagellar basal body rod protein FlgF; Reviewed
Probab=24.08 E-value=1e+02 Score=26.41 Aligned_cols=39 Identities=28% Similarity=0.410 Sum_probs=27.8
Q ss_pred eCCC-eEEEeCCCCEEEEEEecCCCCCCCCeEEEEcCCCCeEEE
Q 027996 32 QNDG-FTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLT 74 (215)
Q Consensus 32 ~~d~-f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~ 74 (215)
.|++ |.|.+.+|. .|+=+| . |.+...-.|.+++|.+|+-
T Consensus 84 ~G~GFF~V~~~~G~-~yTR~G--~-F~~d~~G~Lvt~~G~~vlg 123 (238)
T PRK12690 84 EGEGFFMVETPQGE-RLTRAG--S-FTPNAEGELVDPDGNRLLD 123 (238)
T ss_pred CCCcEEEEEcCCCC-EEeeCC--C-eEECCCCCEEcCCCCEeEC
Confidence 4556 678787884 488777 5 4666666788888888774
No 42
>PF02402 Lysis_col: Lysis protein; InterPro: IPR003059 The DNA sequence of the entire colicin E2 operon has been determined []. The operon comprises the colicin activity gene (ceaB), the colicin immunity gene (ceiB) and the lysis gene (celB), which is essential for colicin release from producing cells []. A putative LexA binding site is located upstream from ceaB, and a rho-independent terminator structure is located downstream from celB []. Comparison of the amino acid sequences of colicin E2 and cloacin DF13 reveal extensive similarity. These colicins have different modes of action and recognise different cell surface receptors; the two major regions of heterology at the C terminus, and in the C-terminal end of the central region are thought to correspond to the catalytic and receptor-recognition domains, respectively []. Sequence similarities between colicins E2, A and E1 [] are less striking. The colicin E2 (pyocin) immunity protein does not share similarity with either the colicin E3 or cloacin DF13 [] immunity proteins. By contrast, the lysis proteins of the ColE2, ColE1 and CloDF13 plasmids are almost identical except in the N-terminal regions, which themselves are similar to lipoprotein signal peptides []. Processing of the ColE2 prolysis protein to the mature form is prevented by globomycin, a specific inhibitor of the lipoprotein signal peptidase []. The mature ColE2 lysis protein is located in the cell envelope [].; GO: 0009405 pathogenesis, 0019835 cytolysis, 0019867 outer membrane
Probab=23.68 E-value=70 Score=20.42 Aligned_cols=28 Identities=21% Similarity=0.398 Sum_probs=21.9
Q ss_pred HHHHHHHhcccccCCCCCCCCcccCCCC
Q 027996 186 AMGLVLVLDQINGDNYVESNGGRVDPVT 213 (215)
Q Consensus 186 i~alvv~lD~i~~~~~~~~~~~~~~~~~ 213 (215)
|+.+.+++-..+.+.-+|-.||.|-|-.
T Consensus 9 i~~~~~~L~aCQaN~iRDvqGGtVaPSS 36 (46)
T PF02402_consen 9 IFLLTMLLAACQANYIRDVQGGTVAPSS 36 (46)
T ss_pred HHHHHHHHHHhhhcceecCCCceECCCc
Confidence 3444467778888889999999999854
No 43
>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=21.84 E-value=88 Score=28.18 Aligned_cols=46 Identities=20% Similarity=0.318 Sum_probs=29.3
Q ss_pred CcEEEEEEeeeccccceEeeeceEEEEEeCCCCHHHHHHHH-HHhcccccC
Q 027996 150 KESVAEIRRKVDASTQVLLAKDVFLLSVKPGFDGAFAMGLV-LVLDQINGD 199 (215)
Q Consensus 150 g~~VA~V~rk~~~~~~~~~g~dtY~v~V~pgvD~ali~alv-v~lD~i~~~ 199 (215)
|..+.-|.-.... ......+.|.|.||-|.+|++|++ .++++...+
T Consensus 141 g~k~v~vdP~~t~----~a~~ad~~i~i~PGtD~al~~a~~~~ii~~~~~d 187 (432)
T PF00384_consen 141 GAKLVVVDPRRTP----TAAKADEWIPIRPGTDAALALAMAHVIIDEGLYD 187 (432)
T ss_dssp TSEEEEEESSB-H----HGGGTSEEEEE-TTTHHHHHHHHHHHHHHTTTST
T ss_pred CcceEEEEeccch----hhhhccccccccccccHHhhcccccceeeccccc
Confidence 3445555544421 224567889999999999999987 666665543
No 44
>PRK00122 rimM 16S rRNA-processing protein RimM; Provisional
Probab=21.75 E-value=2.4e+02 Score=22.59 Aligned_cols=13 Identities=31% Similarity=0.363 Sum_probs=6.1
Q ss_pred EcCCCCeEEEEEE
Q 027996 65 MDAHGKCLLTVRR 77 (215)
Q Consensus 65 ~D~~G~~L~~i~~ 77 (215)
+|.+|+.|-+|..
T Consensus 111 ~d~~g~~lG~V~~ 123 (172)
T PRK00122 111 VDEDGEELGKVTD 123 (172)
T ss_pred EeCCCcEEEEEEE
Confidence 4444444444444
No 45
>PF13511 DUF4124: Domain of unknown function (DUF4124)
Probab=21.00 E-value=75 Score=20.60 Aligned_cols=18 Identities=6% Similarity=0.137 Sum_probs=13.7
Q ss_pred CCeEEEeCCCCEEEEEEe
Q 027996 34 DGFTVYNCRGELVFRVDS 51 (215)
Q Consensus 34 d~f~V~D~~G~~vf~V~g 51 (215)
+=|.=.|++|+++|.=.-
T Consensus 14 ~vYk~~D~~G~v~ysd~P 31 (60)
T PF13511_consen 14 EVYKWVDENGVVHYSDTP 31 (60)
T ss_pred cEEEEECCCCCEEECccC
Confidence 347778999999997554
No 46
>TIGR02273 16S_RimM 16S rRNA processing protein RimM. This family consists of the bacterial protein RimM (YfjA, 21K), a 30S ribosomal subunit-binding protein implicated in 16S ribsomal RNA processing. It has been partially characterized in Escherichia coli, is found with other translation-associated genes such as trmD. It is broadly distributed among bacteria, including some minimal genomes such the aphid endosymbiont Buchnera aphidicola. The protein contains a PRC-barrel domain that it shares with other protein families (pfam05239) and a unique domain (pfam01782). This model describes the full-length protein. A member from Arabidopsis (plant) has additional N-terminal sequence likely to represent a chloroplast transit peptide.
Probab=20.86 E-value=2.1e+02 Score=22.77 Aligned_cols=30 Identities=13% Similarity=0.000 Sum_probs=15.3
Q ss_pred EEEEcCCCCeEEEEEEeccccccCccccceeEEEE
Q 027996 62 HVLMDAHGKCLLTVRRKVQFQLMRPSLHHRWEGYS 96 (215)
Q Consensus 62 ~~l~D~~G~~L~~i~~k~~~~~~~~s~~~~w~v~~ 96 (215)
+.++|.+|+.|-+|..=. -..-++-|.+-.
T Consensus 103 ~~V~d~~~~~lG~V~~v~-----~~~a~dll~V~~ 132 (165)
T TIGR02273 103 LEVVTEEGEELGKVVEIL-----ETGANDVLVVRS 132 (165)
T ss_pred cEEEcCCCcEEEEEEEEe-----cCCCccEEEEEE
Confidence 345556666666665531 223355555554
No 47
>PRK13828 rimM 16S rRNA-processing protein RimM; Provisional
Probab=20.03 E-value=2.6e+02 Score=22.20 Aligned_cols=11 Identities=36% Similarity=0.428 Sum_probs=4.4
Q ss_pred cCCCCeEEEEE
Q 027996 66 DAHGKCLLTVR 76 (215)
Q Consensus 66 D~~G~~L~~i~ 76 (215)
|.+|+.|-+|.
T Consensus 92 d~~g~~lG~V~ 102 (161)
T PRK13828 92 DTGGALLGRVK 102 (161)
T ss_pred eCCCCEEEEEE
Confidence 33444444433
Done!