Query 027614
Match_columns 221
No_of_seqs 109 out of 469
Neff 6.9
Searched_HMMs 46136
Date Fri Mar 29 12:35:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027614.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027614hhsearch_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 7.3E-45 1.6E-49 302.0 18.9 183 22-208 3-187 (187)
2 COG4894 Uncharacterized conser 100.0 1.4E-35 3.1E-40 232.4 9.8 153 33-214 6-158 (159)
3 PF03803 Scramblase: Scramblas 99.6 1.7E-13 3.6E-18 116.2 19.9 165 34-215 23-220 (221)
4 COG4894 Uncharacterized conser 98.2 3.1E-06 6.7E-11 67.3 6.7 70 29-100 26-95 (159)
5 KOG0621 Phospholipid scramblas 97.9 0.00042 9.1E-09 61.5 13.6 157 46-217 98-282 (292)
6 PF04525 Tub_2: Tubby C 2; In 97.7 0.00042 9.1E-09 57.4 9.6 96 29-129 35-142 (187)
7 PF03803 Scramblase: Scramblas 96.7 0.031 6.6E-07 47.2 11.5 64 50-116 79-148 (221)
8 PF02974 Inh: Protease inhibit 72.0 19 0.00041 26.7 6.5 31 70-103 61-91 (99)
9 KOG0621 Phospholipid scramblas 70.3 23 0.0005 31.7 7.6 50 46-95 187-242 (292)
10 PF13860 FlgD_ig: FlgD Ig-like 66.9 14 0.00031 26.1 4.7 17 72-88 28-44 (81)
11 KOG3950 Gamma/delta sarcoglyca 66.7 7 0.00015 34.1 3.5 25 46-70 138-162 (292)
12 PF04790 Sarcoglycan_1: Sarcog 55.8 26 0.00056 30.9 5.2 49 33-81 103-154 (264)
13 COG4998 Predicted endonuclease 49.2 31 0.00066 28.5 4.2 35 157-197 22-56 (209)
14 TIGR03784 marine_sortase sorta 46.4 38 0.00082 27.8 4.5 22 68-89 110-132 (174)
15 PF15529 Toxin_49: Putative to 45.9 21 0.00045 26.3 2.5 19 47-65 30-48 (89)
16 cd06166 Sortase_D_5 Sortase D 45.0 41 0.00088 25.7 4.3 20 46-65 68-87 (126)
17 PRK15393 NUDIX hydrolase YfcD; 44.1 60 0.0013 26.4 5.4 57 47-103 10-73 (180)
18 cd05828 Sortase_D_4 Sortase D 43.4 41 0.00089 25.7 4.1 20 46-65 65-84 (127)
19 PF01167 Tub: Tub family; Int 39.1 1.5E+02 0.0032 25.7 7.3 78 80-165 6-87 (246)
20 PF09008 Head_binding: Head bi 38.7 80 0.0017 24.2 4.8 44 39-88 62-105 (114)
21 PF06413 Neugrin: Neugrin; In 36.4 14 0.00031 31.8 0.5 10 52-61 215-224 (225)
22 PF07680 DoxA: TQO small subun 36.1 35 0.00075 27.0 2.6 28 68-95 46-73 (133)
23 smart00634 BID_1 Bacterial Ig- 34.4 1E+02 0.0022 22.0 4.8 8 50-57 25-32 (92)
24 PF06788 UPF0257: Uncharacteri 33.2 1E+02 0.0022 26.8 5.2 41 50-90 52-94 (236)
25 PF12396 DUF3659: Protein of u 33.0 87 0.0019 21.5 3.9 38 50-87 14-57 (64)
26 PF09000 Cytotoxic: Cytotoxic; 32.8 1.3E+02 0.0029 21.9 5.0 54 32-89 14-69 (85)
27 KOG3503 H/ACA snoRNP complex, 32.6 80 0.0017 21.4 3.5 13 108-120 43-55 (64)
28 TIGR02150 IPP_isom_1 isopenten 32.6 93 0.002 24.5 4.7 53 49-101 1-61 (158)
29 PRK06655 flgD flagellar basal 31.1 68 0.0015 27.5 3.8 44 44-88 102-145 (225)
30 PF12690 BsuPI: Intracellular 28.8 41 0.00088 24.1 1.8 15 48-62 27-41 (82)
31 PRK12813 flgD flagellar basal 28.4 63 0.0014 27.7 3.2 17 71-87 126-142 (223)
32 PF08829 AlphaC_N: Alpha C pro 28.2 20 0.00043 29.7 0.1 31 48-78 92-122 (194)
33 PRK00122 rimM 16S rRNA-process 27.8 1.8E+02 0.0038 23.5 5.6 15 74-88 109-123 (172)
34 PF01167 Tub: Tub family; Int 27.6 1.9E+02 0.0041 25.0 6.1 42 158-207 199-242 (246)
35 PRK10523 lipoprotein involved 27.6 1.2E+02 0.0025 26.4 4.7 50 27-82 53-107 (234)
36 PF08269 Cache_2: Cache domain 27.2 11 0.00024 27.1 -1.4 43 42-84 51-94 (95)
37 PF05593 RHS_repeat: RHS Repea 27.2 1.4E+02 0.0031 17.7 3.9 30 52-84 1-30 (38)
38 COG1021 EntE Peptide arylation 26.7 34 0.00074 32.4 1.3 39 47-85 344-382 (542)
39 PF04170 NlpE: NlpE N-terminal 26.3 1.6E+02 0.0034 21.1 4.6 11 28-38 10-20 (87)
40 cd05830 Sortase_D_5 Sortase D 26.1 1.2E+02 0.0026 23.5 4.2 20 46-65 69-88 (137)
41 TIGR02273 16S_RimM 16S rRNA pr 25.7 1.6E+02 0.0034 23.6 4.9 28 73-100 103-131 (165)
42 PLN02552 isopentenyl-diphospha 24.9 2.2E+02 0.0048 24.7 6.0 58 46-103 22-92 (247)
43 KOG1693 emp24/gp25L/p24 family 24.3 2.1E+02 0.0045 24.3 5.4 46 148-193 50-98 (209)
44 cd06165 Sortase_A_1 Sortase A 24.0 1.4E+02 0.0029 22.7 4.1 20 46-65 67-86 (127)
45 PRK12816 flgG flagellar basal 23.4 90 0.002 27.3 3.3 40 45-85 98-138 (264)
46 PRK13828 rimM 16S rRNA-process 23.2 2.2E+02 0.0048 22.7 5.4 15 74-88 89-103 (161)
47 cd00004 Sortase Sortases are c 22.6 1.6E+02 0.0036 22.1 4.3 19 70-88 68-86 (128)
48 PRK14591 rimM 16S rRNA-process 22.2 2.3E+02 0.005 22.8 5.3 12 76-87 111-122 (169)
49 COG5436 Predicted integral mem 21.4 2.2E+02 0.0047 23.4 4.8 37 51-89 72-109 (182)
50 PF08495 FIST: FIST N domain; 21.2 87 0.0019 25.0 2.6 21 46-66 178-198 (198)
51 COG3111 Periplasmic protein wi 21.0 2.4E+02 0.0052 22.2 4.8 57 26-91 37-93 (128)
52 PF00384 Molybdopterin: Molybd 20.6 90 0.002 28.3 2.9 32 185-216 156-188 (432)
53 PRK12691 flgG flagellar basal 20.5 1.4E+02 0.0031 25.8 4.0 39 46-85 99-138 (262)
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=7.3e-45 Score=301.99 Aligned_cols=183 Identities=36% Similarity=0.539 Sum_probs=109.3
Q ss_pred CCCCCccCCcceEEEEEEeeeeEeCCCeEEEeCCCCEEEEEEe-ecCCccCeEEEECCCCCeEEEEEeecCCCCCcEEEE
Q 027614 22 PAKPQASDANATVLTVWKKSLLFNCNGFTVFDSKGDLVFRVDN-YIQGVKGEIVLMDAAGKSLLTIRRKRLSLGDNWLVY 100 (221)
Q Consensus 22 ~~~~~~~~~~~~~l~v~~K~~~~s~d~ftI~D~~G~~vf~V~g-~~~s~~~~~~l~D~~G~~L~~i~~k~ls~~~~w~v~ 100 (221)
++.++||+++|++|+||+|.+++++++|+|+|++|+++|+|+| +.+++++++.|+|++|+||++|++|.++++++|++|
T Consensus 3 vv~~~~~~~~~~~l~v~~k~~~~~~~~f~V~D~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~~i~~k~~~l~~~w~i~ 82 (187)
T PF04525_consen 3 VVDAQYCSPQPVTLTVKKKSLSFSGDDFTVYDENGNVVFRVDGGKFFSIGKKRTLMDASGNPLFTIRRKLFSLRPTWEIY 82 (187)
T ss_dssp SS-GGGB-SS-EEEEEE----------EEEEETTS-EEEEEE--SCTTBTTEEEEE-TTS-EEEEEE--------EEEEE
T ss_pred EECHHHcCCCceEEEEEEEEeeecCCCEEEEcCCCCEEEEEEEecccCCCCEEEEECCCCCEEEEEEeeecccceEEEEE
Confidence 5689999999999999999999999999999999999999999 889999999999999999999999999999999999
Q ss_pred eCCCCCC-cceEEEEeeecccCCceEEEEEecCCCCCCCCCCCCCCceeEEEEeeecCceeEEEeCCCcEEEEEEeeeee
Q 027614 101 DGEKTDV-NPRFSVKKHVNILTNKCLAHVSCKGGDGSSSSSPTNNKNVLYEIQGSYAQRACAVYDGRRRRVAEIKKKEAV 179 (221)
Q Consensus 101 ~g~~~~~-~~lf~vkk~~s~~~~k~~~~V~~~~~~~~~~~~~~~~~~~~~~v~G~~~~~~~~I~~~~g~~VA~V~rk~~~ 179 (221)
++++.++ +++|+||++ +.+..+..+.+|+.... +.....++.++|+|+|+||+++|+|++.+|++||+|+||+..
T Consensus 83 ~~~~~~~~~~i~tvkk~-~~~~~~~~~~~f~~~~~---~~~~~~~~~~~~~i~G~~~~~~~~I~~~~g~~VA~i~rk~~~ 158 (187)
T PF04525_consen 83 RGGGSEGKKPIFTVKKK-SMLQNKDSFDVFLPPKS---NISIDDSEGPDFEIKGNFWDRSFTIYDSGGRVVAEISRKYSS 158 (187)
T ss_dssp ETT---GGGEEEEEE-----------EEEEET--T-------------SEEEES-TTTT--EEEECC--EEEEEEE----
T ss_pred ECCCCccCceEEEEEEe-cccCCCcceeEEEeccc---ceeecCCCCceEEEEEEecCcEEEEEEcCCCEEEEEecccce
Confidence 9986432 689999998 46677888888886411 000113456799999999999999996558999999998886
Q ss_pred CceeeccceEEEEEcCCCCHHHHHHHHHh
Q 027614 180 GGVAFGSDVFRLIVQPEMETAVAMGLVIL 208 (221)
Q Consensus 180 ~~~~~g~dtY~v~V~pgvD~alI~alvvi 208 (221)
.++++|+|+|.|+|+||+|++||+|||||
T Consensus 159 k~~~~~~dty~l~V~pg~D~~lv~alvvi 187 (187)
T PF04525_consen 159 KKWFSGRDTYTLTVAPGVDQALVVALVVI 187 (187)
T ss_dssp ------B-SEEEEE-TTSBHHHHHHHHHH
T ss_pred eeEEecCcEEEEEEcCCCCHHHheeEEeC
Confidence 67888999999999999999999999987
No 2
>COG4894 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=1.4e-35 Score=232.41 Aligned_cols=153 Identities=25% Similarity=0.413 Sum_probs=139.0
Q ss_pred eEEEEEEeeeeEeCCCeEEEeCCCCEEEEEEeecCCccCeEEEECCCCCeEEEEEeecCCCCCcEEEEeCCCCCCcceEE
Q 027614 33 TVLTVWKKSLLFNCNGFTVFDSKGDLVFRVDNYIQGVKGEIVLMDAAGKSLLTIRRKRLSLGDNWLVYDGEKTDVNPRFS 112 (221)
Q Consensus 33 ~~l~v~~K~~~~s~d~ftI~D~~G~~vf~V~g~~~s~~~~~~l~D~~G~~L~~i~~k~ls~~~~w~v~~g~~~~~~~lf~ 112 (221)
.+|.++||..++ ||+|.|+|.+|+.+|+|+|+.+++++.+++.|++|.+|.+|++|+++++|+|++-.|++ -+|.
T Consensus 6 ~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 6 ITLFMKQKMFSF-GDAFHIYDRDGEEAFKVEGSFFSIGDTLTITDASGKTLVSIEQKLLSLLPRYEISDGGG----TVCE 80 (159)
T ss_pred HhHhhhhhhhhc-ccceEEECCCCcEEEEEeeeEEeeCceEEEEecCCCChHHHHHHHhhccceeEEEcCCC----CEEE
Confidence 467788887777 79999999999999999999999999999999999999999999999999999999983 4899
Q ss_pred EEeeecccCCceEEEEEecCCCCCCCCCCCCCCceeEEEEeeecCceeEEEeCCCcEEEEEEeeeeeCceeeccceEEEE
Q 027614 113 VKKHVNILTNKCLAHVSCKGGDGSSSSSPTNNKNVLYEIQGSYAQRACAVYDGRRRRVAEIKKKEAVGGVAFGSDVFRLI 192 (221)
Q Consensus 113 vkk~~s~~~~k~~~~V~~~~~~~~~~~~~~~~~~~~~~v~G~~~~~~~~I~~~~g~~VA~V~rk~~~~~~~~g~dtY~v~ 192 (221)
++|++++++ .++++ ++ .+|+++||+|+.+|++.+| ++++|+|+|||+. |+|||.|+
T Consensus 81 vrKK~tf~R--dk~e~--d~--------------~~~eihGNi~d~efkl~dg-~~~~aeVsKkwf~-----~rdTY~l~ 136 (159)
T COG4894 81 VRKKVTFSR--DKFEI--DG--------------LNWEIHGNIWDDEFKLTDG-ENVRAEVSKKWFS-----WRDTYHLQ 136 (159)
T ss_pred EEEEEEEEe--eeEEE--cC--------------CCeEEecceeceEEEEecC-CceehhheeeeEe-----ccceEEEE
Confidence 999987764 43455 33 4599999999999999998 6799999999999 99999999
Q ss_pred EcCCCCHHHHHHHHHhhhhccC
Q 027614 193 VQPEMETAVAMGLVILLDQMFG 214 (221)
Q Consensus 193 V~pgvD~alI~alvvilD~i~~ 214 (221)
|+|+.|.++|++++|++|++.+
T Consensus 137 vapde~a~lii~i~VaLD~v~~ 158 (159)
T COG4894 137 VAPDEDALLIIAIAVALDMVLY 158 (159)
T ss_pred EcCchhhHHHHHHHHHHHHHhc
Confidence 9999999999999999999875
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=99.60 E-value=1.7e-13 Score=116.24 Aligned_cols=165 Identities=17% Similarity=0.187 Sum_probs=125.1
Q ss_pred EEEEEEeeeeE-------eCCCeEEEeCCCCEEEEEEeecC---------CccCeEEEECCCCCeEEEEEeecCC-----
Q 027614 34 VLTVWKKSLLF-------NCNGFTVFDSKGDLVFRVDNYIQ---------GVKGEIVLMDAAGKSLLTIRRKRLS----- 92 (221)
Q Consensus 34 ~l~v~~K~~~~-------s~d~ftI~D~~G~~vf~V~g~~~---------s~~~~~~l~D~~G~~L~~i~~k~ls----- 92 (221)
.+.|+|+...+ ..+.|.|+|.+|+.+|.+....- ...-++.++|..|+++++|+|..--
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 45566666532 25799999999999999876531 2245678999999999999996421
Q ss_pred -CCCcEEEEeCCCCCCcceEEEEeeecccCCceEEEEEecCCCCCCCCCCCCCCceeEEEEee------ecCceeEEEeC
Q 027614 93 -LGDNWLVYDGEKTDVNPRFSVKKHVNILTNKCLAHVSCKGGDGSSSSSPTNNKNVLYEIQGS------YAQRACAVYDG 165 (221)
Q Consensus 93 -~~~~w~v~~g~~~~~~~lf~vkk~~s~~~~k~~~~V~~~~~~~~~~~~~~~~~~~~~~v~G~------~~~~~~~I~~~ 165 (221)
...+.+|+.+. ++++.+|++++++++++ ++|+.++ +..-+.|+|. +.+.+|.|++.
T Consensus 103 ~~~~~~~V~~p~---g~~iG~I~q~~~~~~~~--f~I~d~~------------~~~~~~I~gp~~~~~~~~~~~F~I~~~ 165 (221)
T PF03803_consen 103 CCLQEMEVESPP---GNLIGSIRQPFSCCRPN--FDIFDAN------------GNPIFTIKGPCCCCSCCCDWEFEIKDP 165 (221)
T ss_pred ccceeEEEecCC---CcEEEEEEEcCcccceE--EEEEECC------------CceEEEEeCCcceeccccceeeeeecc
Confidence 12455665544 48999999998777644 6887543 2367899997 45788999997
Q ss_pred CCcEEEEEEeeeeeC--ceeeccceEEEEEcCCCCH---HHHHHHHHhhhhccCC
Q 027614 166 RRRRVAEIKKKEAVG--GVAFGSDVFRLIVQPEMET---AVAMGLVILLDQMFGS 215 (221)
Q Consensus 166 ~g~~VA~V~rk~~~~--~~~~g~dtY~v~V~pgvD~---alI~alvvilD~i~~~ 215 (221)
+|+.||+|+|+|..- ...-..|.|.|+..+..|. ++++|.++.||.++=+
T Consensus 166 ~~~~vg~I~k~w~G~~~e~~t~~d~f~i~Fp~~l~~~~Kalll~a~~liD~~~Fe 220 (221)
T PF03803_consen 166 NGQEVGSITKKWSGFCRELFTDADNFVIEFPPDLDVEQKALLLGAAFLIDYMYFE 220 (221)
T ss_pred cCcEEEEEEEecCCcchhhccccceEEEEcCCCCCHHHHHHHHHHHHHhhhhhhc
Confidence 789999999999752 2344689999999999886 6999999999998643
No 4
>COG4894 Uncharacterized conserved protein [Function unknown]
Probab=98.24 E-value=3.1e-06 Score=67.30 Aligned_cols=70 Identities=13% Similarity=0.207 Sum_probs=61.0
Q ss_pred CCcceEEEEEEeeeeEeCCCeEEEeCCCCEEEEEEeecCCccCeEEEECCCCCeEEEEEeecCCCCCcEEEE
Q 027614 29 DANATVLTVWKKSLLFNCNGFTVFDSKGDLVFRVDNYIQGVKGEIVLMDAAGKSLLTIRRKRLSLGDNWLVY 100 (221)
Q Consensus 29 ~~~~~~l~v~~K~~~~s~d~ftI~D~~G~~vf~V~g~~~s~~~~~~l~D~~G~~L~~i~~k~ls~~~~w~v~ 100 (221)
...++.+.|.-+.++. +|.|+|+|+.|.+++.++.+..++..+..|-|++|+ ++.+++|...++++|++-
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 RDGEEAFKVEGSFFSI-GDTLTITDASGKTLVSIEQKLLSLLPRYEISDGGGT-VCEVRKKVTFSRDKFEID 95 (159)
T ss_pred CCCcEEEEEeeeEEee-CceEEEEecCCCChHHHHHHHhhccceeEEEcCCCC-EEEEEEEEEEEeeeEEEc
Confidence 4568889997655555 899999999999999999999999999999999999 899999977678888864
No 5
>KOG0621 consensus Phospholipid scramblase [Cell wall/membrane/envelope biogenesis]
Probab=97.87 E-value=0.00042 Score=61.54 Aligned_cols=157 Identities=17% Similarity=0.157 Sum_probs=101.5
Q ss_pred CCCeEEEeCCCCEEEEEEeecC---------CccCeEEEECCCCCeEEEEEeecCCCCC------cEEEEeCCCCCCcce
Q 027614 46 CNGFTVFDSKGDLVFRVDNYIQ---------GVKGEIVLMDAAGKSLLTIRRKRLSLGD------NWLVYDGEKTDVNPR 110 (221)
Q Consensus 46 ~d~ftI~D~~G~~vf~V~g~~~---------s~~~~~~l~D~~G~~L~~i~~k~ls~~~------~w~v~~g~~~~~~~l 110 (221)
.+.|.|.|.+|+.+|.+-...- ...-...++|.-|+++++++|...-... ..++-. .......+
T Consensus 98 ~NRY~v~~~~g~~v~~~~E~S~~~~Rq~~g~~RpF~~~i~D~~g~eVl~~~R~~~c~~~~c~~~~~~~~~v-~~p~~~~l 176 (292)
T KOG0621|consen 98 ANRYVVHDMYGQPLYYAMERSNVFARQYLGTHRPFAMRIMDNFGQEVLTCKRPFPCCSSACALCLAQEIEI-QSPPMGLL 176 (292)
T ss_pred CcEEEEEcCCcChhHHHHhhchHHHHHhhccCCcceeEeecccCcEEEEEeccccccccccccccccEEEE-EcCCCceE
Confidence 6899999999999885544321 3456789999999999999998532221 011111 11112455
Q ss_pred EEEEeeecccCCceEEEEEecCCCCCCCCCCCCCCceeEEEEee-e------cCceeEEEeC-CCcEEEEEEeeeeeC--
Q 027614 111 FSVKKHVNILTNKCLAHVSCKGGDGSSSSSPTNNKNVLYEIQGS-Y------AQRACAVYDG-RRRRVAEIKKKEAVG-- 180 (221)
Q Consensus 111 f~vkk~~s~~~~k~~~~V~~~~~~~~~~~~~~~~~~~~~~v~G~-~------~~~~~~I~~~-~g~~VA~V~rk~~~~-- 180 (221)
-+|.+.+....++ ++|... .....|.|+|. + -+..|.|... +|++|++|.|+|..-
T Consensus 177 G~v~q~~~~~~~~--f~i~~~------------~~~~v~~v~gp~~~~~~~~~d~~f~~~~~d~~~~vg~I~k~w~g~~r 242 (292)
T KOG0621|consen 177 GKVLQTWGCVNPN--FHLWDR------------DGNLVFLVEGPRCCTFACCDDTVFFPKTTDNGRIVGSISRKWAGLVR 242 (292)
T ss_pred EEEEEeeccccce--EEEEcc------------cceeEEEEEcCceeEEEeecCcceeEEEcCCCeEEEEEeecccchhh
Confidence 5566654444444 344321 12256777775 2 3344444443 488999999999873
Q ss_pred ceeeccceEEEEEcCCCCH---HHHHHHHHhhhhccCCCC
Q 027614 181 GVAFGSDVFRLIVQPEMET---AVAMGLVILLDQMFGSSG 217 (221)
Q Consensus 181 ~~~~g~dtY~v~V~pgvD~---alI~alvvilD~i~~~~~ 217 (221)
..+-..|+|.|.-.-..|. ++++|.+.-||.++=+++
T Consensus 243 E~fTDad~f~v~FPldLdvk~kavllga~flID~~~Fe~~ 282 (292)
T KOG0621|consen 243 EAFTDADTFVVHFPLDLDVKLKALLLGSTFLIDYMSFESR 282 (292)
T ss_pred hheeccceeeEecCCcCCHHHHhhhhhheeeEEEEEEecC
Confidence 3444678999988877775 688999999998766554
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=97.65 E-value=0.00042 Score=57.38 Aligned_cols=96 Identities=18% Similarity=0.299 Sum_probs=49.8
Q ss_pred CCcceEEEEEE-eeeeEeCCCeEEEeCCCCEEEEEEeecCCccCeEEEECCCCCe----EEEEEee-cCCCCCcEEEEeC
Q 027614 29 DANATVLTVWK-KSLLFNCNGFTVFDSKGDLVFRVDNYIQGVKGEIVLMDAAGKS----LLTIRRK-RLSLGDNWLVYDG 102 (221)
Q Consensus 29 ~~~~~~l~v~~-K~~~~s~d~ftI~D~~G~~vf~V~g~~~s~~~~~~l~D~~G~~----L~~i~~k-~ls~~~~w~v~~g 102 (221)
......|+|.. +.+++ ++...++|.+|++++++.-+.+++.++..+++++++. +++|+++ .+..++.-.+|..
T Consensus 35 ~~G~~vf~V~g~~~~s~-~~~~~l~D~~G~~L~~i~~k~~~l~~~w~i~~~~~~~~~~~i~tvkk~~~~~~~~~~~~f~~ 113 (187)
T PF04525_consen 35 ENGNVVFRVDGGKFFSI-GKKRTLMDASGNPLFTIRRKLFSLRPTWEIYRGGGSEGKKPIFTVKKKSMLQNKDSFDVFLP 113 (187)
T ss_dssp TTS-EEEEEE--SCTTB-TTEEEEE-TTS-EEEEEE--------EEEEEETT---GGGEEEEEE----------EEEEET
T ss_pred CCCCEEEEEEEecccCC-CCEEEEECCCCCEEEEEEeeecccceEEEEEECCCCccCceEEEEEEecccCCCcceeEEEe
Confidence 34578899988 56666 6899999999999999999999999999999999985 9999999 4555666667765
Q ss_pred CC------CCCcceEEEEeeecccCCceEEEEE
Q 027614 103 EK------TDVNPRFSVKKHVNILTNKCLAHVS 129 (221)
Q Consensus 103 ~~------~~~~~lf~vkk~~s~~~~k~~~~V~ 129 (221)
.. ..+.+-++|+-. ++... ++|+
T Consensus 114 ~~~~~~~~~~~~~~~~i~G~--~~~~~--~~I~ 142 (187)
T PF04525_consen 114 PKSNISIDDSEGPDFEIKGN--FWDRS--FTIY 142 (187)
T ss_dssp --T----------SEEEES---TTTT----EEE
T ss_pred cccceeecCCCCceEEEEEE--ecCcE--EEEE
Confidence 21 112566777776 33433 3555
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=96.70 E-value=0.031 Score=47.19 Aligned_cols=64 Identities=20% Similarity=0.367 Sum_probs=44.8
Q ss_pred EEEeCCCCEEEEEEeecCC------ccCeEEEECCCCCeEEEEEeecCCCCCcEEEEeCCCCCCcceEEEEee
Q 027614 50 TVFDSKGDLVFRVDNYIQG------VKGEIVLMDAAGKSLLTIRRKRLSLGDNWLVYDGEKTDVNPRFSVKKH 116 (221)
Q Consensus 50 tI~D~~G~~vf~V~g~~~s------~~~~~~l~D~~G~~L~~i~~k~ls~~~~w~v~~g~~~~~~~lf~vkk~ 116 (221)
.|+|..|+.|++++-...- ...+..+.++.|+.|.+|+++.-.+.++++|+..++ +++++|+..
T Consensus 79 ~i~D~~g~~vl~i~Rp~~c~~C~~~~~~~~~V~~p~g~~iG~I~q~~~~~~~~f~I~d~~~---~~~~~I~gp 148 (221)
T PF03803_consen 79 HIYDNYGREVLTIERPFKCCSCCPCCLQEMEVESPPGNLIGSIRQPFSCCRPNFDIFDANG---NPIFTIKGP 148 (221)
T ss_pred EEEecCCCEEEEEEcCCcceecccccceeEEEecCCCcEEEEEEEcCcccceEEEEEECCC---ceEEEEeCC
Confidence 5778888888888764321 135677778888888888877655677888887663 567777765
No 8
>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=72.05 E-value=19 Score=26.66 Aligned_cols=31 Identities=19% Similarity=0.207 Sum_probs=24.3
Q ss_pred cCeEEEECCCCCeEEEEEeecCCCCCcEEEEeCC
Q 027614 70 KGEIVLMDAAGKSLLTIRRKRLSLGDNWLVYDGE 103 (221)
Q Consensus 70 ~~~~~l~D~~G~~L~~i~~k~ls~~~~w~v~~g~ 103 (221)
++.+.|+|++|+.|..+.+.. -+.|+....+
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 578999999999999998875 5578888866
No 9
>KOG0621 consensus Phospholipid scramblase [Cell wall/membrane/envelope biogenesis]
Probab=70.30 E-value=23 Score=31.69 Aligned_cols=50 Identities=24% Similarity=0.245 Sum_probs=38.9
Q ss_pred CCCeEEEeCCCCEEEEEEeec------CCccCeEEEECCCCCeEEEEEeecCCCCC
Q 027614 46 CNGFTVFDSKGDLVFRVDNYI------QGVKGEIVLMDAAGKSLLTIRRKRLSLGD 95 (221)
Q Consensus 46 ~d~ftI~D~~G~~vf~V~g~~------~s~~~~~~l~D~~G~~L~~i~~k~ls~~~ 95 (221)
...|.|.|..++.+|+|+|.. .+......++..+|..+..|-+|+..+..
T Consensus 187 ~~~f~i~~~~~~~v~~v~gp~~~~~~~~~d~~f~~~~~d~~~~vg~I~k~w~g~~r 242 (292)
T KOG0621|consen 187 NPNFHLWDRDGNLVFLVEGPRCCTFACCDDTVFFPKTTDNGRIVGSISRKWAGLVR 242 (292)
T ss_pred cceEEEEcccceeEEEEEcCceeEEEeecCcceeEEEcCCCeEEEEEeecccchhh
Confidence 468999999999999999972 13455677888889999999888766554
No 10
>PF13860 FlgD_ig: FlgD Ig-like domain; PDB: 3C12_A 3OSV_A.
Probab=66.91 E-value=14 Score=26.07 Aligned_cols=17 Identities=24% Similarity=0.430 Sum_probs=9.0
Q ss_pred eEEEECCCCCeEEEEEe
Q 027614 72 EIVLMDAAGKSLLTIRR 88 (221)
Q Consensus 72 ~~~l~D~~G~~L~~i~~ 88 (221)
++.|+|++|+.+.++.-
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 55566666666655543
No 11
>KOG3950 consensus Gamma/delta sarcoglycan [Cytoskeleton]
Probab=66.73 E-value=7 Score=34.14 Aligned_cols=25 Identities=36% Similarity=0.535 Sum_probs=14.6
Q ss_pred CCCeEEEeCCCCEEEEEEeecCCcc
Q 027614 46 CNGFTVFDSKGDLVFRVDNYIQGVK 70 (221)
Q Consensus 46 ~d~ftI~D~~G~~vf~V~g~~~s~~ 70 (221)
++.|.|.|.+|+++|.+|..-..++
T Consensus 138 ~~~Fev~~~dgk~LFsad~dEv~vg 162 (292)
T KOG3950|consen 138 CKRFEVNDVDGKLLFSADEDEVVVG 162 (292)
T ss_pred hceeEEecCCCcEEEEeccceeEee
Confidence 4566666666666666666544443
No 12
>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=55.78 E-value=26 Score=30.88 Aligned_cols=49 Identities=22% Similarity=0.253 Sum_probs=27.3
Q ss_pred eEEEEEEee-eeEeCCCeEEEeC-CCCEEEEEEeecCCc-cCeEEEECCCCC
Q 027614 33 TVLTVWKKS-LLFNCNGFTVFDS-KGDLVFRVDNYIQGV-KGEIVLMDAAGK 81 (221)
Q Consensus 33 ~~l~v~~K~-~~~s~d~ftI~D~-~G~~vf~V~g~~~s~-~~~~~l~D~~G~ 81 (221)
..|.|-... .....+.|.|+|. +|+++|.+|..-..+ .+++.+..+.|-
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 344454444 2334567777776 777777777754333 344445555554
No 13
>COG4998 Predicted endonuclease (RecB family) [DNA replication, recombination, and repair]
Probab=49.19 E-value=31 Score=28.51 Aligned_cols=35 Identities=26% Similarity=0.307 Sum_probs=28.0
Q ss_pred CceeEEEeCCCcEEEEEEeeeeeCceeeccceEEEEEcCCC
Q 027614 157 QRACAVYDGRRRRVAEIKKKEAVGGVAFGSDVFRLIVQPEM 197 (221)
Q Consensus 157 ~~~~~I~~~~g~~VA~V~rk~~~~~~~~g~dtY~v~V~pgv 197 (221)
.++|.|+++ |..|++|.----. +..+|.|+|..|+
T Consensus 22 Arn~~ve~e-gveVgEiDIVAek-----~GerYavEVKAG~ 56 (209)
T COG4998 22 ARNMPVEDE-GVEVGEIDIVAEK-----GGERYAVEVKAGM 56 (209)
T ss_pred eecceeecC-CeEEEEEEEEEec-----CCcEEEEEEeccc
Confidence 478899997 8999999644323 7899999999984
No 14
>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=46.43 E-value=38 Score=27.83 Aligned_cols=22 Identities=14% Similarity=0.069 Sum_probs=12.0
Q ss_pred CccCeEEEECCCCCe-EEEEEee
Q 027614 68 GVKGEIVLMDAAGKS-LLTIRRK 89 (221)
Q Consensus 68 s~~~~~~l~D~~G~~-L~~i~~k 89 (221)
..++++.|.|.+|+. .+.+...
T Consensus 110 ~~GD~I~v~~~~g~~~~Y~V~~~ 132 (174)
T TIGR03784 110 RPGDVIRLQTPDGQWQSYQVTAT 132 (174)
T ss_pred CCCCEEEEEECCCeEEEEEEeEE
Confidence 345666666666654 3555443
No 15
>PF15529 Toxin_49: Putative toxin 49
Probab=45.91 E-value=21 Score=26.34 Aligned_cols=19 Identities=26% Similarity=0.480 Sum_probs=15.5
Q ss_pred CCeEEEeCCCCEEEEEEee
Q 027614 47 NGFTVFDSKGDLVFRVDNY 65 (221)
Q Consensus 47 d~ftI~D~~G~~vf~V~g~ 65 (221)
.+|++||++|.+|-++++.
T Consensus 30 t~Y~tY~~~G~~~kr~r~~ 48 (89)
T PF15529_consen 30 TSYTTYDEDGMIVKRYRGS 48 (89)
T ss_pred cceeEEcCCCcEeEEeecc
Confidence 5899999999977666664
No 16
>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=44.99 E-value=41 Score=25.72 Aligned_cols=20 Identities=10% Similarity=0.311 Sum_probs=12.8
Q ss_pred CCCeEEEeCCCCEEEEEEee
Q 027614 46 CNGFTVFDSKGDLVFRVDNY 65 (221)
Q Consensus 46 ~d~ftI~D~~G~~vf~V~g~ 65 (221)
||.+.|.|..+...|+|.+.
T Consensus 68 Gd~v~v~~~~~~~~Y~V~~~ 87 (126)
T cd06166 68 GDEIKVTTKNGTYKYKITSI 87 (126)
T ss_pred CCEEEEEECCEEEEEEEEEE
Confidence 56666666666666666664
No 17
>PRK15393 NUDIX hydrolase YfcD; Provisional
Probab=44.13 E-value=60 Score=26.39 Aligned_cols=57 Identities=16% Similarity=0.186 Sum_probs=36.1
Q ss_pred CCeEEEeCCCCEEEEEEe------ecCCccCeEEEECCCCCeEEEEEeecC-CCCCcEEEEeCC
Q 027614 47 NGFTVFDSKGDLVFRVDN------YIQGVKGEIVLMDAAGKSLLTIRRKRL-SLGDNWLVYDGE 103 (221)
Q Consensus 47 d~ftI~D~~G~~vf~V~g------~~~s~~~~~~l~D~~G~~L~~i~~k~l-s~~~~w~v~~g~ 103 (221)
.=+.|+|++|+++-.+.- ......-...++|.+|+.|+.=|...- .+.+.|...-|+
T Consensus 10 e~~~~~d~~~~~~g~~~~~~~~~~~~~h~~~~v~v~~~~g~iLL~~R~~~~~~~pg~~~~~pGG 73 (180)
T PRK15393 10 EWVDIVNENNEVIAQASREQMRAQCLRHRATYIVVHDGMGKILVQRRTETKDFLPGMLDATAGG 73 (180)
T ss_pred eEEEEECCCCCEeeEEEHHHHhhCCCceEEEEEEEECCCCeEEEEEeCCCCCCCCCcccccCCC
Confidence 348899999999998721 122344566788999988874333221 234556666554
No 18
>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=43.43 E-value=41 Score=25.75 Aligned_cols=20 Identities=20% Similarity=0.235 Sum_probs=10.1
Q ss_pred CCCeEEEeCCCCEEEEEEee
Q 027614 46 CNGFTVFDSKGDLVFRVDNY 65 (221)
Q Consensus 46 ~d~ftI~D~~G~~vf~V~g~ 65 (221)
||.+.|.+..+...|+|...
T Consensus 65 Gd~i~v~~~~~~~~Y~V~~~ 84 (127)
T cd05828 65 GDIITLQTLGGTYTYRVTST 84 (127)
T ss_pred CCEEEEEECCEEEEEEEeeE
Confidence 44555555544455555544
No 19
>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=39.10 E-value=1.5e+02 Score=25.69 Aligned_cols=78 Identities=18% Similarity=0.252 Sum_probs=42.6
Q ss_pred CCeEEEEEeec--C--CCCCcEEEEeCCCCCCcceEEEEeeecccCCceEEEEEecCCCCCCCCCCCCCCceeEEEEeee
Q 027614 80 GKSLLTIRRKR--L--SLGDNWLVYDGEKTDVNPRFSVKKHVNILTNKCLAHVSCKGGDGSSSSSPTNNKNVLYEIQGSY 155 (221)
Q Consensus 80 G~~L~~i~~k~--l--s~~~~w~v~~g~~~~~~~lf~vkk~~s~~~~k~~~~V~~~~~~~~~~~~~~~~~~~~~~v~G~~ 155 (221)
|-.-+.|+|.. + .+.+.|..|..+.. ++.|...||.-. .....+-|.+...+-+ . .+...-=+|+.||
T Consensus 6 ~~vqC~I~R~k~g~~~~lyp~y~l~l~~~~-~kfLLaArK~~~--s~~s~YiIS~~~~dls-r----~s~~yvGKLrsNf 77 (246)
T PF01167_consen 6 GPVQCFIRRDKSGLTRGLYPGYYLYLEGEN-GKFLLAARKRKR--SKTSNYIISLDPDDLS-R----SSNNYVGKLRSNF 77 (246)
T ss_dssp -EEEEEEEEESTTCCCT---EEEEEEESTT-SEEEEEEEEECS--SSSEEEEEESSHHHHC-T----T---ESEEEEE-T
T ss_pred cEEEEEEEEECCCCCcccCcEeEeccccCC-CcEEEeeeeccc--CCCcceEEecCCCccc-c----CCCceeeeecccc
Confidence 34467787653 2 35778888875322 277888887521 2234556666442110 1 1122344678999
Q ss_pred cCceeEEEeC
Q 027614 156 AQRACAVYDG 165 (221)
Q Consensus 156 ~~~~~~I~~~ 165 (221)
++-+|.||+.
T Consensus 78 ~GT~F~iyD~ 87 (246)
T PF01167_consen 78 LGTEFTIYDN 87 (246)
T ss_dssp TSSEEEEEES
T ss_pred ceeEEEEECC
Confidence 9999999997
No 20
>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=38.68 E-value=80 Score=24.18 Aligned_cols=44 Identities=20% Similarity=0.357 Sum_probs=27.2
Q ss_pred EeeeeEeCCCeEEEeCCCCEEEEEEeecCCccCeEEEECCCCCeEEEEEe
Q 027614 39 KKSLLFNCNGFTVFDSKGDLVFRVDNYIQGVKGEIVLMDAAGKSLLTIRR 88 (221)
Q Consensus 39 ~K~~~~s~d~ftI~D~~G~~vf~V~g~~~s~~~~~~l~D~~G~~L~~i~~ 88 (221)
...+.+...+|.++ +|+...-|.... +.+.++|++|..+|.+-.
T Consensus 62 ~QPi~iN~gg~~~y--~gq~a~~vt~~~----hSMAv~d~~g~q~Fy~pn 105 (114)
T PF09008_consen 62 AQPIIINKGGFPVY--NGQIAKFVTVPG----HSMAVYDANGQQQFYFPN 105 (114)
T ss_dssp -SSEEE-TTS-EEE--TTEE--EEESSS----EEEEEE-TTS-EEEEESE
T ss_pred cCCEEEccCCceEE--ccceeEEEEccC----ceEEEEeCCCcEEEeecc
Confidence 45667777899999 555666666543 556999999999998743
No 21
>PF06413 Neugrin: Neugrin; InterPro: IPR010487 This family contains mouse and human neugrin proteins. Neugrin and m-neugrin are mainly expressed in neurons in the nervous system, and are thought to play an important role in the process of neuronal differentiation []. Homologues of neugrin are found in fungi suggesting they have a alternative role or more than one function.
Probab=36.41 E-value=14 Score=31.76 Aligned_cols=10 Identities=50% Similarity=1.225 Sum_probs=4.8
Q ss_pred EeCCCCEEEE
Q 027614 52 FDSKGDLVFR 61 (221)
Q Consensus 52 ~D~~G~~vf~ 61 (221)
||++|+.+||
T Consensus 215 fDsdGnFLYR 224 (225)
T PF06413_consen 215 FDSDGNFLYR 224 (225)
T ss_pred CCCCCCeecc
Confidence 4444444444
No 22
>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=36.14 E-value=35 Score=27.01 Aligned_cols=28 Identities=25% Similarity=0.233 Sum_probs=22.6
Q ss_pred CccCeEEEECCCCCeEEEEEeecCCCCC
Q 027614 68 GVKGEIVLMDAAGKSLLTIRRKRLSLGD 95 (221)
Q Consensus 68 s~~~~~~l~D~~G~~L~~i~~k~ls~~~ 95 (221)
+.--...|+|.+|+.+++..++.++-.|
T Consensus 46 sfl~~i~l~d~~g~vv~~~~~~~L~~lP 73 (133)
T PF07680_consen 46 SFLIGIQLKDSTGHVVLNWDQEKLSSLP 73 (133)
T ss_pred ceeeEEEEECCCCCEEEEeCHHHhhhCC
Confidence 5567889999999999999887765443
No 23
>smart00634 BID_1 Bacterial Ig-like domain (group 1).
Probab=34.36 E-value=1e+02 Score=21.95 Aligned_cols=8 Identities=50% Similarity=0.796 Sum_probs=3.9
Q ss_pred EEEeCCCC
Q 027614 50 TVFDSKGD 57 (221)
Q Consensus 50 tI~D~~G~ 57 (221)
+|.|.+|+
T Consensus 25 ~v~D~~Gn 32 (92)
T smart00634 25 TVTDANGN 32 (92)
T ss_pred EEECCCCC
Confidence 34455554
No 24
>PF06788 UPF0257: Uncharacterised protein family (UPF0257); InterPro: IPR010646 This is a group of proteins of unknown function.; GO: 0005886 plasma membrane
Probab=33.24 E-value=1e+02 Score=26.80 Aligned_cols=41 Identities=24% Similarity=0.427 Sum_probs=32.5
Q ss_pred EEEeCCCCEEEEEEeecC--CccCeEEEECCCCCeEEEEEeec
Q 027614 50 TVFDSKGDLVFRVDNYIQ--GVKGEIVLMDAAGKSLLTIRRKR 90 (221)
Q Consensus 50 tI~D~~G~~vf~V~g~~~--s~~~~~~l~D~~G~~L~~i~~k~ 90 (221)
+++|++|++.++|.++.- +.-..+.+.|..-+.-+.|.++.
T Consensus 52 t~~de~g~v~~~v~~~l~~eGCfd~l~~~~~~~n~~~~Lv~d~ 94 (236)
T PF06788_consen 52 TLYDEDGEVTKRVSLTLSREGCFDTLELYDKENNTHLALVRDA 94 (236)
T ss_pred EEEcCCCcEEEEEEEEECCccceeeeeecccccccceEEEEec
Confidence 589999999999999864 45577888888777777776653
No 25
>PF12396 DUF3659: Protein of unknown function (DUF3659) ; InterPro: IPR022124 This domain family is found in bacteria and eukaryotes, and is approximately 70 amino acids in length.
Probab=33.01 E-value=87 Score=21.51 Aligned_cols=38 Identities=24% Similarity=0.328 Sum_probs=26.9
Q ss_pred EEEeCCCCEEEE-EEeecC-----CccCeEEEECCCCCeEEEEE
Q 027614 50 TVFDSKGDLVFR-VDNYIQ-----GVKGEIVLMDAAGKSLLTIR 87 (221)
Q Consensus 50 tI~D~~G~~vf~-V~g~~~-----s~~~~~~l~D~~G~~L~~i~ 87 (221)
.|.|.+|++|-+ |+|... .+-.+=.|.|.+|+.|-...
T Consensus 14 ~V~d~~G~~vG~vveGd~k~L~G~~vd~~G~I~d~~G~viGkae 57 (64)
T PF12396_consen 14 NVVDDDGNVVGRVVEGDPKKLVGKKVDEDGDILDKDGNVIGKAE 57 (64)
T ss_pred eEECCCCCEEEEEecCCHHHhcCCcCCCCCCEECCCCCEEEEEE
Confidence 488999999999 455332 34455578888888887654
No 26
>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=32.76 E-value=1.3e+02 Score=21.91 Aligned_cols=54 Identities=20% Similarity=0.220 Sum_probs=31.4
Q ss_pred ceEEEEEEeeeeEeC--CCeEEEeCCCCEEEEEEeecCCccCeEEEECCCCCeEEEEEee
Q 027614 32 ATVLTVWKKSLLFNC--NGFTVFDSKGDLVFRVDNYIQGVKGEIVLMDAAGKSLLTIRRK 89 (221)
Q Consensus 32 ~~~l~v~~K~~~~s~--d~ftI~D~~G~~vf~V~g~~~s~~~~~~l~D~~G~~L~~i~~k 89 (221)
+-.-..+.|.-...+ ..--=+|..|..+|.-|. .+.++.++|..|+.|-++-..
T Consensus 14 ~~l~~~k~ktp~~gg~~~r~rw~~~kG~kiYewDs----qHG~lEvy~~~GkHLGe~Dp~ 69 (85)
T PF09000_consen 14 PDLKKAKPKTPVQGGGGKRKRWKDKKGRKIYEWDS----QHGELEVYNKRGKHLGEFDPK 69 (85)
T ss_dssp SSEEEE---SB-SSSSSB--EEEETTTTEEEEEET----TTTEEEEEETT-BEEEEE-TT
T ss_pred hhhhhccccCccccCCccccceEcCCCCEEEEEcC----CCCeEEEEcCCCcCcccccCC
Confidence 333445555444432 122236788999999884 568899999999988877543
No 27
>KOG3503 consensus H/ACA snoRNP complex, subunit NOP10 [RNA processing and modification]
Probab=32.65 E-value=80 Score=21.43 Aligned_cols=13 Identities=31% Similarity=0.600 Sum_probs=8.8
Q ss_pred cceEEEEeeeccc
Q 027614 108 NPRFSVKKHVNIL 120 (221)
Q Consensus 108 ~~lf~vkk~~s~~ 120 (221)
....++||+|.++
T Consensus 43 rqR~tlKKRFgll 55 (64)
T KOG3503|consen 43 RQRITLKKRFGLL 55 (64)
T ss_pred ceeeeehhhhccc
Confidence 4567788887544
No 28
>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=32.58 E-value=93 Score=24.55 Aligned_cols=53 Identities=13% Similarity=0.152 Sum_probs=36.7
Q ss_pred eEEEeCCCCEEEEEEeecCC-------ccCeEEEECCCCCeEEEEEee-cCCCCCcEEEEe
Q 027614 49 FTVFDSKGDLVFRVDNYIQG-------VKGEIVLMDAAGKSLLTIRRK-RLSLGDNWLVYD 101 (221)
Q Consensus 49 ftI~D~~G~~vf~V~g~~~s-------~~~~~~l~D~~G~~L~~i~~k-~ls~~~~w~v~~ 101 (221)
+.|+|++|+.+-++...... ..--..|+|.+|+.|+.-|.. ...+.+.|.+--
T Consensus 1 ~~~~d~~~~~~g~~~r~~~~~~~g~~h~~v~v~v~~~~g~vLl~kR~~~k~~~PG~W~~~~ 61 (158)
T TIGR02150 1 VILVDENDNPIGTASKAEVHLQETPLHRAFSVFLFNEEGQLLLQRRALSKITWPGVWTNSC 61 (158)
T ss_pred CEEECCCCCEeeeeeHHHhhhcCCCeEEEEEEEEEcCCCeEEEEeccCCCcCCCCCccccc
Confidence 35899999999988765432 223467899999988864443 235678888643
No 29
>PRK06655 flgD flagellar basal body rod modification protein; Reviewed
Probab=31.15 E-value=68 Score=27.48 Aligned_cols=44 Identities=20% Similarity=0.160 Sum_probs=25.5
Q ss_pred EeCCCeEEEeCCCCEEEEEEeecCCccCeEEEECCCCCeEEEEEe
Q 027614 44 FNCNGFTVFDSKGDLVFRVDNYIQGVKGEIVLMDAAGKSLLTIRR 88 (221)
Q Consensus 44 ~s~d~ftI~D~~G~~vf~V~g~~~s~~~~~~l~D~~G~~L~~i~~ 88 (221)
+.++.+.+.+ .+..-++++=..-.-.-.+.|+|++|+.+.++.-
T Consensus 102 ~~~~~~~~~~-~~~~~~~~~l~~~a~~vti~I~D~~G~~Vrt~~l 145 (225)
T PRK06655 102 VPGDTVLVGT-GGTTPFGVELPSAADNVTVTITDSAGQVVRTIDL 145 (225)
T ss_pred EecceEEecC-CCceEEEEEcCCCCcEEEEEEEcCCCCEEEEEec
Confidence 3455555433 3455555552222334568889999998877754
No 30
>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=28.79 E-value=41 Score=24.07 Aligned_cols=15 Identities=40% Similarity=0.592 Sum_probs=8.6
Q ss_pred CeEEEeCCCCEEEEE
Q 027614 48 GFTVFDSKGDLVFRV 62 (221)
Q Consensus 48 ~ftI~D~~G~~vf~V 62 (221)
+|.|+|.+|+.||+=
T Consensus 27 D~~v~d~~g~~vwrw 41 (82)
T PF12690_consen 27 DFVVKDKEGKEVWRW 41 (82)
T ss_dssp EEEEE-TT--EEEET
T ss_pred EEEEECCCCCEEEEe
Confidence 677778888877763
No 31
>PRK12813 flgD flagellar basal body rod modification protein; Reviewed
Probab=28.40 E-value=63 Score=27.70 Aligned_cols=17 Identities=35% Similarity=0.468 Sum_probs=11.0
Q ss_pred CeEEEECCCCCeEEEEE
Q 027614 71 GEIVLMDAAGKSLLTIR 87 (221)
Q Consensus 71 ~~~~l~D~~G~~L~~i~ 87 (221)
-.+.|+|++|+.+-++.
T Consensus 126 v~v~I~D~~G~vV~t~~ 142 (223)
T PRK12813 126 AELVVRDAAGAEVARET 142 (223)
T ss_pred EEEEEEcCCCCEEEEEe
Confidence 35667777777776654
No 32
>PF08829 AlphaC_N: Alpha C protein N terminal; InterPro: IPR014933 The alpha C protein (ACP) is found in Streptococcus and acts as an invasin which plays a role in the internalisation and translocation of the organism across human epithelial surfaces. Group B Streptococcus is the leading cause of diseases including bacterial pneumonia, sepsis and meningitis. The N-terminal of ACP is associated with virulence and forms a beta sandwich and a three helix bundle [, , ]. ; PDB: 1YWM_A 2O0I_1.
Probab=28.22 E-value=20 Score=29.65 Aligned_cols=31 Identities=16% Similarity=0.385 Sum_probs=21.1
Q ss_pred CeEEEeCCCCEEEEEEeecCCccCeEEEECC
Q 027614 48 GFTVFDSKGDLVFRVDNYIQGVKGEIVLMDA 78 (221)
Q Consensus 48 ~ftI~D~~G~~vf~V~g~~~s~~~~~~l~D~ 78 (221)
.|+|.|++|++++.-||+.-...-.++++|+
T Consensus 92 tY~ild~~G~P~~k~DGQvdIvsvnlt~Yds 122 (194)
T PF08829_consen 92 TYNILDEDGNPHVKSDGQVDIVSVNLTFYDS 122 (194)
T ss_dssp EEEEEETTSSB-B-TTSSB-EEEEEEEEE--
T ss_pred EEEeecCCCCcccCCCCcEEEEEEEEEEeCc
Confidence 5889999999999988887656666777776
No 33
>PRK00122 rimM 16S rRNA-processing protein RimM; Provisional
Probab=27.78 E-value=1.8e+02 Score=23.48 Aligned_cols=15 Identities=20% Similarity=0.361 Sum_probs=7.7
Q ss_pred EEECCCCCeEEEEEe
Q 027614 74 VLMDAAGKSLLTIRR 88 (221)
Q Consensus 74 ~l~D~~G~~L~~i~~ 88 (221)
.+.|.+|+.|-+|..
T Consensus 109 ~V~d~~g~~lG~V~~ 123 (172)
T PRK00122 109 EVVDEDGEELGKVTD 123 (172)
T ss_pred EEEeCCCcEEEEEEE
Confidence 344555555555544
No 34
>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=27.62 E-value=1.9e+02 Score=25.02 Aligned_cols=42 Identities=19% Similarity=0.297 Sum_probs=25.8
Q ss_pred ceeEEEeCC--CcEEEEEEeeeeeCceeeccceEEEEEcCCCCHHHHHHHHH
Q 027614 158 RACAVYDGR--RRRVAEIKKKEAVGGVAFGSDVFRLIVQPEMETAVAMGLVI 207 (221)
Q Consensus 158 ~~~~I~~~~--g~~VA~V~rk~~~~~~~~g~dtY~v~V~pgvD~alI~alvv 207 (221)
.+|.++..+ +++|.+.-|- ++|+|.+++.--.-..-..|+|+
T Consensus 199 KNFql~~~~~~~~~~lqfGk~--------~~~~f~~d~~~Pls~~qAF~i~l 242 (246)
T PF01167_consen 199 KNFQLVHPSDPDRIVLQFGKV--------GKDVFTMDFRYPLSPLQAFAIAL 242 (246)
T ss_dssp TEEEEEBTTBTTSESEEEEEE--------ETTEEEEEEETT-BHHHHHHHHH
T ss_pred ceeEEEccCCCCeEEEEEEEe--------cCCEEEEEecCCCCHHHHHHHHH
Confidence 457776653 4555555443 68999999997666544444444
No 35
>PRK10523 lipoprotein involved with copper homeostasis and adhesion; Provisional
Probab=27.55 E-value=1.2e+02 Score=26.37 Aligned_cols=50 Identities=16% Similarity=0.158 Sum_probs=28.5
Q ss_pred ccCCcceEEEEEEeeeeEeCCCeEEEe-----CCCCEEEEEEeecCCccCeEEEECCCCCe
Q 027614 27 ASDANATVLTVWKKSLLFNCNGFTVFD-----SKGDLVFRVDNYIQGVKGEIVLMDAAGKS 82 (221)
Q Consensus 27 ~~~~~~~~l~v~~K~~~~s~d~ftI~D-----~~G~~vf~V~g~~~s~~~~~~l~D~~G~~ 82 (221)
-|....++|++.. .+.|+..- .+++..|.-.|+....++.++|.|.+|..
T Consensus 53 DC~GI~ttLtL~~------DgTY~L~~~Ylg~k~~~~~f~~~G~w~~~~~~i~L~~~~g~~ 107 (234)
T PRK10523 53 DCEGIETSLFLEK------DGTWVMNERYLGAREEPSSFASYGTWARTADKLVLTDSKGEK 107 (234)
T ss_pred CCCCceEEEEEcC------CCCEEEEEEEcCCCCCCCceEeeEEEEecCCEEEEecCCCCE
Confidence 3677778887743 23444333 12355677777543345566666777665
No 36
>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=27.23 E-value=11 Score=27.08 Aligned_cols=43 Identities=26% Similarity=0.259 Sum_probs=19.7
Q ss_pred eeEeC-CCeEEEeCCCCEEEEEEeecCCccCeEEEECCCCCeEE
Q 027614 42 LLFNC-NGFTVFDSKGDLVFRVDNYIQGVKGEIVLMDAAGKSLL 84 (221)
Q Consensus 42 ~~~s~-d~ftI~D~~G~~vf~V~g~~~s~~~~~~l~D~~G~~L~ 84 (221)
+.|.+ +-|-|+|.+|..+..-....+--..-..+.|++|.+++
T Consensus 51 ~r~~~~gY~fi~d~~g~~l~hp~~p~~~G~n~~~~~D~~G~~~i 94 (95)
T PF08269_consen 51 LRYGGDGYFFIYDMDGVVLAHPSNPELEGKNLSDLKDPNGKYLI 94 (95)
T ss_dssp --SBTTB--EEE-TTSBEEEESS-GGGTT-B-TT-B-TT--BHH
T ss_pred cccCCCCeEEEEeCCCeEEEcCCCcccCCcccccCCCCCCCEEe
Confidence 34443 45789999998877744322333444568899998764
No 37
>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=27.18 E-value=1.4e+02 Score=17.66 Aligned_cols=30 Identities=27% Similarity=0.249 Sum_probs=16.3
Q ss_pred EeCCCCEEEEEEeecCCccCeEEEECCCCCeEE
Q 027614 52 FDSKGDLVFRVDNYIQGVKGEIVLMDAAGKSLL 84 (221)
Q Consensus 52 ~D~~G~~vf~V~g~~~s~~~~~~l~D~~G~~L~ 84 (221)
||+.|+++=.++.... ....-+|+.|+++-
T Consensus 1 YD~~G~l~~~~d~~G~---~~~y~YD~~g~l~~ 30 (38)
T PF05593_consen 1 YDANGRLTSVTDPDGR---TTRYTYDAAGRLTS 30 (38)
T ss_pred CCCCCCEEEEEcCCCC---EEEEEECCCCCEEE
Confidence 4666777666654322 22355666666543
No 38
>COG1021 EntE Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=26.72 E-value=34 Score=32.41 Aligned_cols=39 Identities=15% Similarity=0.317 Sum_probs=36.0
Q ss_pred CCeEEEeCCCCEEEEEEeecCCccCeEEEECCCCCeEEE
Q 027614 47 NGFTVFDSKGDLVFRVDNYIQGVKGEIVLMDAAGKSLLT 85 (221)
Q Consensus 47 d~ftI~D~~G~~vf~V~g~~~s~~~~~~l~D~~G~~L~~ 85 (221)
-+||=.|.--.+|++-+|+.+|-.+++.+.|++|||+..
T Consensus 344 vnyTRLDDp~E~i~~TQGrPlsP~DEvrvvD~dg~pv~p 382 (542)
T COG1021 344 VNYTRLDDPPEIIIHTQGRPLSPDDEVRVVDADGNPVAP 382 (542)
T ss_pred hcccccCCchHheeecCCCcCCCcceeEEecCCCCCCCC
Confidence 379989988999999999999999999999999999864
No 39
>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=26.29 E-value=1.6e+02 Score=21.07 Aligned_cols=11 Identities=27% Similarity=0.120 Sum_probs=5.7
Q ss_pred cCCcceEEEEE
Q 027614 28 SDANATVLTVW 38 (221)
Q Consensus 28 ~~~~~~~l~v~ 38 (221)
|..-.++|+++
T Consensus 10 C~GI~t~L~L~ 20 (87)
T PF04170_consen 10 CPGIKTTLTLN 20 (87)
T ss_dssp SSEEEEEEEE-
T ss_pred CCCeEEEEEEC
Confidence 55555666653
No 40
>cd05830 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 Streptomyces avermitilis SAV4337. 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=26.06 E-value=1.2e+02 Score=23.47 Aligned_cols=20 Identities=15% Similarity=0.132 Sum_probs=12.3
Q ss_pred CCCeEEEeCCCCEEEEEEee
Q 027614 46 CNGFTVFDSKGDLVFRVDNY 65 (221)
Q Consensus 46 ~d~ftI~D~~G~~vf~V~g~ 65 (221)
||.+.|+|.+|...|+|...
T Consensus 69 Gd~i~v~~~~~~~~Y~V~~~ 88 (137)
T cd05830 69 GDKIVVETADGWYTYVVRSS 88 (137)
T ss_pred CCEEEEEECCeEEEEEEeEE
Confidence 55666666666666666654
No 41
>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=25.73 E-value=1.6e+02 Score=23.59 Aligned_cols=28 Identities=14% Similarity=0.184 Sum_probs=13.9
Q ss_pred EEEECCCCCeEEEEEee-cCCCCCcEEEE
Q 027614 73 IVLMDAAGKSLLTIRRK-RLSLGDNWLVY 100 (221)
Q Consensus 73 ~~l~D~~G~~L~~i~~k-~ls~~~~w~v~ 100 (221)
+.++|.+|+.|-+|..= ....++-|++-
T Consensus 103 ~~V~d~~~~~lG~V~~v~~~~a~dll~V~ 131 (165)
T TIGR02273 103 LEVVTEEGEELGKVVEILETGANDVLVVR 131 (165)
T ss_pred cEEEcCCCcEEEEEEEEecCCCccEEEEE
Confidence 34556666666665552 12334444444
No 42
>PLN02552 isopentenyl-diphosphate delta-isomerase
Probab=24.92 E-value=2.2e+02 Score=24.72 Aligned_cols=58 Identities=14% Similarity=0.123 Sum_probs=41.0
Q ss_pred CCCeEEEeCCCCEEEEEEeec------------CCccCeEEEECCCCCeEEEEEee-cCCCCCcEEEEeCC
Q 027614 46 CNGFTVFDSKGDLVFRVDNYI------------QGVKGEIVLMDAAGKSLLTIRRK-RLSLGDNWLVYDGE 103 (221)
Q Consensus 46 ~d~ftI~D~~G~~vf~V~g~~------------~s~~~~~~l~D~~G~~L~~i~~k-~ls~~~~w~v~~g~ 103 (221)
.+.+.|+|++++++-++.-.. +...=...|+|.+|+.|++-|.. ...+-..|..--++
T Consensus 22 ~e~v~lvDe~d~~~G~~~r~~~H~~~~~~~~gl~Hra~~v~i~n~~g~lLLQkRs~~K~~~Pg~Wd~s~~G 92 (247)
T PLN02552 22 EDECILVDENDNVVGHDSKYNCHLFEKIEPRGLLHRAFSVFLFNSKYELLLQQRAATKVTFPLVWTNTCCS 92 (247)
T ss_pred cCeEEEEcCCCCEEeeeEHhhhhccccccCCCceEEEEEEEEEcCCCeEEEEEecCCCCCCCcceecccCC
Confidence 478999999999998886432 12233457889999999988875 34566788665443
No 43
>KOG1693 consensus emp24/gp25L/p24 family of membrane trafficking proteins [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.33 E-value=2.1e+02 Score=24.35 Aligned_cols=46 Identities=15% Similarity=0.104 Sum_probs=33.0
Q ss_pred eEEEE-eeecCceeEEEeCCCcEEEEEEeeeeeCc--eeeccceEEEEE
Q 027614 148 LYEIQ-GSYAQRACAVYDGRRRRVAEIKKKEAVGG--VAFGSDVFRLIV 193 (221)
Q Consensus 148 ~~~v~-G~~~~~~~~I~~~~g~~VA~V~rk~~~~~--~~~g~dtY~v~V 193 (221)
.|+|. |.-++-+|.|.+++|.+|.+=++|.-..- ...++.+|+...
T Consensus 50 ~fqV~tGG~fDVD~~I~aPdgkvI~~~~kk~~~~~~f~ae~~G~Y~fCF 98 (209)
T KOG1693|consen 50 EFQVQTGGHFDVDYDIEAPDGKVIYSEKKKRYDSFLFKAEGKGEYTFCF 98 (209)
T ss_pred EEEEEeCCceeeEEEEECCCCCEEeeccccccccEEEEEecceEEEEEe
Confidence 57765 77788999999999999998888765541 223556666544
No 44
>cd06165 Sortase_A_1 Sortase A (SrtA) or subfamily-1 sortases are cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is cleaved at a conserved cell wall sorting signal (usually a pentapeptide motif), 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. This group contains a subset of Class A (subfamily-1) sortases, excluding SrtA from Staphylococcus aureus. Sortase A cleaves between threonine and glycine of the LPXTG motif in a wide range of protein substrates. It affects the ability of a pathogen to establish successful infection. Sortase A contains an N-terminal region that functions as both a signal peptide for secretion and a stop-tra
Probab=23.99 E-value=1.4e+02 Score=22.68 Aligned_cols=20 Identities=10% Similarity=0.147 Sum_probs=10.0
Q ss_pred CCCeEEEeCCCCEEEEEEee
Q 027614 46 CNGFTVFDSKGDLVFRVDNY 65 (221)
Q Consensus 46 ~d~ftI~D~~G~~vf~V~g~ 65 (221)
||.+.|.+.++...|+|.+.
T Consensus 67 Gd~I~l~~~~~~~~Y~V~~~ 86 (127)
T cd06165 67 GDKIYLTDKDNVYEYKVTSK 86 (127)
T ss_pred CCEEEEEECCEEEEEEEeeE
Confidence 44555555445555555543
No 45
>PRK12816 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=23.39 E-value=90 Score=27.26 Aligned_cols=40 Identities=20% Similarity=0.393 Sum_probs=30.9
Q ss_pred eCCC-eEEEeCCCCEEEEEEeecCCccCeEEEECCCCCeEEE
Q 027614 45 NCNG-FTVFDSKGDLVFRVDNYIQGVKGEIVLMDAAGKSLLT 85 (221)
Q Consensus 45 s~d~-ftI~D~~G~~vf~V~g~~~s~~~~~~l~D~~G~~L~~ 85 (221)
.|++ |.|.+.+|..+|+=+|.+ .+...-.|.+++|.+|+.
T Consensus 98 ~G~GFF~V~~~~G~~~YTR~G~F-~~d~~G~Lvt~~G~~vl~ 138 (264)
T PRK12816 98 EGEGFFKILMPDGTYAYTRDGSF-KIDANGQLVTSNGYRLLP 138 (264)
T ss_pred CCCcEEEEEcCCCCeEEeeCCCe-eECCCCCEECCCCCEecc
Confidence 3554 477778898889988864 566677899999999985
No 46
>PRK13828 rimM 16S rRNA-processing protein RimM; Provisional
Probab=23.17 E-value=2.2e+02 Score=22.75 Aligned_cols=15 Identities=20% Similarity=0.335 Sum_probs=8.0
Q ss_pred EEECCCCCeEEEEEe
Q 027614 74 VLMDAAGKSLLTIRR 88 (221)
Q Consensus 74 ~l~D~~G~~L~~i~~ 88 (221)
.+.|.+|+.|-+|..
T Consensus 89 ~V~d~~g~~lG~V~~ 103 (161)
T PRK13828 89 AAVDTGGALLGRVKA 103 (161)
T ss_pred EEEeCCCCEEEEEEE
Confidence 444555555555544
No 47
>cd00004 Sortase Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is cleaved at a conserved 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. The different classes are called Sortase A or SrtA (subfamily 1), B or SrtB (subfamily 2), C or SrtC (subfamily3), D or SrtD (subfamilies 4 and 5), and E or SrtE. In two different sortase subfamilies, the N-terminus either functions as both a signal peptide for secretion and a stop-transfer signal for membrane anchoring, or it contains a signal peptide only and the C-terminus serves as a membrane anchor. Most gram-positive bacteria contain more than one s
Probab=22.60 E-value=1.6e+02 Score=22.12 Aligned_cols=19 Identities=16% Similarity=0.246 Sum_probs=10.0
Q ss_pred cCeEEEECCCCCeEEEEEe
Q 027614 70 KGEIVLMDAAGKSLLTIRR 88 (221)
Q Consensus 70 ~~~~~l~D~~G~~L~~i~~ 88 (221)
++.+.|.|..+.-.+++-.
T Consensus 68 Gd~v~v~~~~~~~~Y~V~~ 86 (128)
T cd00004 68 GDKIYLTDGGKTYVYKVTS 86 (128)
T ss_pred CCEEEEEECCEEEEEEEEE
Confidence 5555666554444555444
No 48
>PRK14591 rimM 16S rRNA-processing protein RimM; Provisional
Probab=22.16 E-value=2.3e+02 Score=22.84 Aligned_cols=12 Identities=8% Similarity=0.044 Sum_probs=5.4
Q ss_pred ECCCCCeEEEEE
Q 027614 76 MDAAGKSLLTIR 87 (221)
Q Consensus 76 ~D~~G~~L~~i~ 87 (221)
.|.+|++|-++.
T Consensus 111 ~d~~g~~lG~V~ 122 (169)
T PRK14591 111 KNINNDSFGVVV 122 (169)
T ss_pred EeCCCCEEEEEE
Confidence 444444444443
No 49
>COG5436 Predicted integral membrane protein [Function unknown]
Probab=21.43 E-value=2.2e+02 Score=23.38 Aligned_cols=37 Identities=19% Similarity=0.415 Sum_probs=19.2
Q ss_pred EEe-CCCCEEEEEEeecCCccCeEEEECCCCCeEEEEEee
Q 027614 51 VFD-SKGDLVFRVDNYIQGVKGEIVLMDAAGKSLLTIRRK 89 (221)
Q Consensus 51 I~D-~~G~~vf~V~g~~~s~~~~~~l~D~~G~~L~~i~~k 89 (221)
.+| ++|-+.+.-+|.. --+.+.++|.+|+.+++|..+
T Consensus 72 ~fdvsegpvri~a~~nv--pyWSvsiyds~~nn~fS~ND~ 109 (182)
T COG5436 72 RFDVSEGPVRIEAKGNV--PYWSVSIYDSNGNNFFSINDR 109 (182)
T ss_pred EeeccCCcEEEEecCCC--ceEEEEEEcCCCCceEEeccc
Confidence 445 4555544444421 123346666666666666554
No 50
>PF08495 FIST: FIST N domain; InterPro: IPR013702 The FIST N domain is a novel sensory domain, which is present in signal transduction proteins from Bacteria, Archaea and Eukarya. Chromosomal proximity of FIST-encoding genes to those coding for proteins involved in amino acid metabolism and transport suggest that FIST domains bind small ligands, such as amino acids [].
Probab=21.21 E-value=87 Score=25.03 Aligned_cols=21 Identities=19% Similarity=0.446 Sum_probs=18.3
Q ss_pred CCCeEEEeCCCCEEEEEEeec
Q 027614 46 CNGFTVFDSKGDLVFRVDNYI 66 (221)
Q Consensus 46 ~d~ftI~D~~G~~vf~V~g~~ 66 (221)
+..++|+.+.||.||..|+++
T Consensus 178 g~~~~VT~a~~~~I~eld~~P 198 (198)
T PF08495_consen 178 GKPMTVTKAEGNIIYELDGRP 198 (198)
T ss_pred CCCEEEEEecCCEEEEECCcC
Confidence 778999999999999998863
No 51
>COG3111 Periplasmic protein with OB-fold [Function unknown]
Probab=20.98 E-value=2.4e+02 Score=22.15 Aligned_cols=57 Identities=25% Similarity=0.260 Sum_probs=39.2
Q ss_pred CccCCcceEEEEEEeeeeEeCCCeEEEeCCCCEEEEEEeecCCccCeEEEECCCCCeEEEEEeecC
Q 027614 26 QASDANATVLTVWKKSLLFNCNGFTVFDSKGDLVFRVDNYIQGVKGEIVLMDAAGKSLLTIRRKRL 91 (221)
Q Consensus 26 ~~~~~~~~~l~v~~K~~~~s~d~ftI~D~~G~~vf~V~g~~~s~~~~~~l~D~~G~~L~~i~~k~l 91 (221)
.|..+.+...+|.+ ..+.. |+=.|. -.||+|=++.+ ++..++|.+|..-..|..+.+
T Consensus 37 Gf~Gp~~~~~TV~~-Ak~~~-Dda~V~-l~GnIv~qi~~------D~y~FrD~sGeI~VeIdd~~w 93 (128)
T COG3111 37 GFQGPNAKVTTVDQ-AKTLH-DDAWVS-LEGNIVRQIGD------DRYVFRDASGEINVDIDDKVW 93 (128)
T ss_pred cccCCCcceeEHHH-hhccc-cCCeEE-EEeeEEEeeCC------ceEEEEcCCccEEEEeccccc
Confidence 36667788888843 34443 344444 46777777765 677999999988888887753
No 52
>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=20.63 E-value=90 Score=28.27 Aligned_cols=32 Identities=13% Similarity=0.306 Sum_probs=24.1
Q ss_pred ccceEEEEEcCCCCHHHHHHHH-HhhhhccCCC
Q 027614 185 GSDVFRLIVQPEMETAVAMGLV-ILLDQMFGSS 216 (221)
Q Consensus 185 g~dtY~v~V~pgvD~alI~alv-vilD~i~~~~ 216 (221)
..-.+.|.|.||-|.+|++|++ +++++...+.
T Consensus 156 ~~ad~~i~i~PGtD~al~~a~~~~ii~~~~~d~ 188 (432)
T PF00384_consen 156 AKADEWIPIRPGTDAALALAMAHVIIDEGLYDK 188 (432)
T ss_dssp GGTSEEEEE-TTTHHHHHHHHHHHHHHTTTSTH
T ss_pred hhccccccccccccHHhhcccccceeecccccc
Confidence 3466779999999999999988 6667665544
No 53
>PRK12691 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=20.55 E-value=1.4e+02 Score=25.85 Aligned_cols=39 Identities=10% Similarity=0.218 Sum_probs=30.1
Q ss_pred CCC-eEEEeCCCCEEEEEEeecCCccCeEEEECCCCCeEEE
Q 027614 46 CNG-FTVFDSKGDLVFRVDNYIQGVKGEIVLMDAAGKSLLT 85 (221)
Q Consensus 46 ~d~-ftI~D~~G~~vf~V~g~~~s~~~~~~l~D~~G~~L~~ 85 (221)
|++ |.|.+.+|...|+=+|.+ .+...-.|.+++|.+|+.
T Consensus 99 G~GfF~V~~~~G~~~yTR~G~F-~~d~~G~Lvt~~G~~vl~ 138 (262)
T PRK12691 99 GRGYFQIQLPDGETAYTRAGAF-NRSADGQIVTSDGYPVQP 138 (262)
T ss_pred CCcEEEEEcCCCCEEEeeCCCe-eECCCCCEECCCCCEeEe
Confidence 444 477778898889988864 566667799999999985
Done!