Query psy18079
Match_columns 178
No_of_seqs 159 out of 999
Neff 7.3
Searched_HMMs 46136
Date Fri Aug 16 22:05:43 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy18079.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/18079hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 smart00449 SPRY Domain in SPla 99.9 3.5E-23 7.5E-28 151.6 12.9 97 71-171 1-99 (122)
2 KOG2626|consensus 99.9 1.1E-23 2.4E-28 184.7 9.2 143 23-171 277-471 (544)
3 KOG0349|consensus 99.9 7.1E-24 1.5E-28 183.6 6.9 104 57-169 114-218 (725)
4 PF00622 SPRY: SPRY domain; I 99.9 1.1E-21 2.4E-26 143.4 13.0 98 71-171 1-100 (124)
5 KOG3953|consensus 99.9 8.8E-22 1.9E-26 157.8 8.9 127 34-170 41-175 (242)
6 KOG2243|consensus 99.7 2.5E-17 5.3E-22 155.0 10.2 107 57-170 1089-1203(5019)
7 KOG4030|consensus 99.6 3.9E-15 8.4E-20 113.2 9.1 109 59-173 51-160 (197)
8 KOG4367|consensus 99.4 8.9E-13 1.9E-17 114.4 9.8 111 54-169 556-672 (699)
9 KOG2243|consensus 99.2 1.7E-12 3.6E-17 123.2 -1.0 112 59-173 657-792 (5019)
10 KOG1477|consensus 98.7 2.8E-08 6.1E-13 88.7 5.4 100 70-174 77-180 (469)
11 KOG1477|consensus 97.6 4.1E-05 8.9E-10 68.6 2.8 59 113-172 2-60 (469)
12 KOG2242|consensus 96.0 0.0045 9.8E-08 56.7 2.7 47 1-48 498-544 (558)
13 KOG2242|consensus 92.9 0.067 1.4E-06 49.2 2.3 113 50-163 358-474 (558)
14 KOG0349|consensus 86.3 0.38 8.1E-06 43.3 1.5 21 7-28 238-258 (725)
15 KOG4600|consensus 59.3 12 0.00025 28.4 3.0 44 132-175 68-121 (144)
16 PF01052 SpoA: Surface present 55.1 22 0.00047 23.4 3.7 31 134-165 27-57 (77)
17 PF06832 BiPBP_C: Penicillin-B 51.0 32 0.00069 23.2 4.1 34 140-173 32-67 (89)
18 smart00560 LamGL LamG-like jel 44.8 39 0.00084 24.5 4.0 26 140-165 64-89 (133)
19 smart00588 NEUZ domain in neur 44.1 1.3E+02 0.0027 22.1 8.4 21 137-158 103-123 (123)
20 PF15409 PH_8: Pleckstrin homo 39.2 34 0.00074 23.8 2.7 19 144-162 19-37 (89)
21 cd04454 S1_Rrp4_like S1_Rrp4_l 35.3 59 0.0013 21.4 3.4 32 133-164 48-81 (82)
22 PF11966 SSURE: Fibronectin-bi 34.3 26 0.00057 23.8 1.4 15 68-82 15-29 (81)
23 PF07943 PBP5_C: Penicillin-bi 32.8 64 0.0014 21.5 3.3 24 133-164 57-80 (91)
24 PF07177 Neuralized: Neuralize 31.2 65 0.0014 21.2 2.9 37 57-93 27-67 (69)
25 PRK11509 hydrogenase-1 operon 30.6 1.3E+02 0.0029 22.4 4.9 31 134-164 63-106 (132)
26 cd05791 S1_CSL4 S1_CSL4: CSL4, 29.9 74 0.0016 21.9 3.2 32 133-164 58-91 (92)
27 TIGR02480 fliN flagellar motor 28.9 87 0.0019 20.7 3.3 32 134-166 27-58 (77)
28 PF13385 Laminin_G_3: Concanav 28.8 1E+02 0.0022 21.6 4.0 28 141-170 89-116 (157)
29 COG1064 AdhP Zn-dependent alco 28.1 33 0.00071 29.8 1.4 27 135-161 78-105 (339)
30 PF14041 Lipoprotein_21: LppP/ 27.6 53 0.0012 22.5 2.1 18 151-168 26-43 (89)
31 PLN03174 Chalcone-flavanone is 26.2 1.3E+02 0.0028 25.4 4.6 29 135-164 212-240 (278)
32 KOG0643|consensus 24.2 1.1E+02 0.0023 26.2 3.7 15 150-164 33-47 (327)
33 COG3443 Predicted periplasmic 24.0 75 0.0016 25.0 2.5 23 140-164 81-103 (193)
34 PRK11240 penicillin-binding pr 23.7 1.1E+02 0.0023 29.7 4.0 30 142-171 716-745 (772)
35 COG1898 RfbC dTDP-4-dehydrorha 22.6 68 0.0015 25.2 2.1 57 104-163 43-101 (173)
36 COG3212 Predicted membrane pro 22.5 68 0.0015 24.3 2.1 13 71-83 109-121 (144)
37 PRK10437 carbonic anhydrase; P 21.9 97 0.0021 25.2 2.9 23 134-156 166-191 (220)
38 smart00135 LY Low-density lipo 21.3 1.2E+02 0.0025 16.5 2.5 18 141-158 11-28 (43)
39 COG0139 HisI Phosphoribosyl-AM 20.5 1.7E+02 0.0037 21.3 3.6 62 84-158 30-91 (111)
No 1
>smart00449 SPRY Domain in SPla and the RYanodine Receptor. Domain of unknown function. Distant homologues are domains in butyrophilin/marenostrin/pyrin homologues.
Probab=99.90 E-value=3.5e-23 Score=151.64 Aligned_cols=97 Identities=30% Similarity=0.425 Sum_probs=85.5
Q ss_pred ccEEEEEEEEecCCcEEEEEecCCCcCCCCCCCCCCCCCCceEEeCCCceEEeCCCCCCCCCCCCCCC-CCEEEEEEeCC
Q psy18079 71 SGVWYYETKIRSAGVMQIGWATKKSKFLNHEGYGIGDDEYSVAYDGCRQLIWHDAKSEDPPNEGMWHP-GDILGCLLDVE 149 (178)
Q Consensus 71 ~G~~YfEV~v~~~~~~~VG~a~~~~~l~~~~~~~vG~d~~S~g~~g~~~~~~~~~~~~~~~yg~~~~~-GDVIGc~lDl~ 149 (178)
+|+|||||+|...+.++|||++..+++. ....+|.+..||+|+..++.+|++.... .++..+.. ||||||+||++
T Consensus 1 sG~~YwEV~v~~~~~~~vGv~~~~~~r~--~~~~~G~~~~sw~~~~~~g~~~~~~~~~--~~~~~~~~~gd~iGv~lD~~ 76 (122)
T smart00449 1 SGRHYFEVEIFDGGHWRVGVATKSVPRG--YFALLGEDKGSWGYDGDGGKKYHNSTGP--EYGLPLQEPGDVIGCFLDLE 76 (122)
T ss_pred CCcEEEEEEEcCCCeEEEEEEcCccCCC--ccccCCCCCCEEEEEcCCCcEEeCCCCC--ccCccccCCCCEEEEEEECC
Confidence 6999999999999999999999988741 2367999999999999987889887653 68888886 99999999999
Q ss_pred CCEEEEEECCEEe-ecccccCCC
Q psy18079 150 ARESVFYLNGRVV-AVTSHLFNV 171 (178)
Q Consensus 150 ~g~i~F~~NG~~l-G~Af~~~~~ 171 (178)
+++|+|++||+.+ +.||.++..
T Consensus 77 ~g~l~F~~ng~~~~~~~f~~~~~ 99 (122)
T smart00449 77 AGTISFYKNGKYLHGLAFFDVKF 99 (122)
T ss_pred CCEEEEEECCCEeeeEEEeccCC
Confidence 9999999999999 899987753
No 2
>KOG2626|consensus
Probab=99.90 E-value=1.1e-23 Score=184.73 Aligned_cols=143 Identities=20% Similarity=0.371 Sum_probs=123.1
Q ss_pred cccccccCcCCCCccccccCcccccccc-----eeeecCCceeeEEEeCcceeccEEEEEEEEec---CCcEEEEEecCC
Q psy18079 23 EFQCFNEHASLTDEDRIVLPRSHTQAMW-----TQARCDAYSFESVRCTFEVTSGVWYYETKIRS---AGVMQIGWATKK 94 (178)
Q Consensus 23 p~~~~~d~~~l~~e~r~~lPr~~~~~~~-----~~~~~~~~~~~~vrat~~v~~G~~YfEV~v~~---~~~~~VG~a~~~ 94 (178)
|+..+.+.+-+.+.+.+.|+-|..+.++ .....+.++++.|||+++|.+|.|||||+|+. ++++|+||++..
T Consensus 277 ~iP~~~yr~l~~~~~tv~l~~hdrA~ql~Is~drlt~tgeKGy~MvRAshgv~~G~WYFEI~vd~~pd~~a~RlGwsq~~ 356 (544)
T KOG2626|consen 277 PIPGFLYRALLSPMDTVNLSWHDRAEQLKISEDRLTATGEKGYRMVRASHGVLEGAWYFEIKVDEMPDDAAIRLGWSQLY 356 (544)
T ss_pred cCCcchhhhhcCchhhhhhhhhcccccccccccceeeecccceeeeeecccccccceeEEEEeecCCCccceeeeccccc
Confidence 4556667777788888888888776543 11234578999999999999999999999985 789999999999
Q ss_pred CcCCCCCCCCCCCCCCceEEeCCCceEEeCCCCCCCCCCCCCCCCCEEEEEEeCCC------------------------
Q psy18079 95 SKFLNHEGYGIGDDEYSVAYDGCRQLIWHDAKSEDPPNEGMWHPGDILGCLLDVEA------------------------ 150 (178)
Q Consensus 95 ~~l~~~~~~~vG~d~~S~g~~g~~~~~~~~~~~~~~~yg~~~~~GDVIGc~lDl~~------------------------ 150 (178)
++|+ .+||.|.+||+|...++.++|..... .|-..|+.|||||++|+|.+
T Consensus 357 g~Lq----ApvGYdkfsY~wRdk~GtKfh~s~gk--~Y~~gf~qGDvLGf~I~LP~~~~~~~~lp~~~kdk~lI~yK~~l 430 (544)
T KOG2626|consen 357 GNLQ----APVGYDKFSYGWRDKKGTKFHESLGK--HYSDGFGQGDVLGFYINLPKDLSPEKYLPLTHKDKFLIKYKGHL 430 (544)
T ss_pred cccc----cccccccccccccccCCcchhhhhhh--hhhhhccCCceEEEEEecCCcccccccCCccccccceeeeeeee
Confidence 9986 68999999999999999999988765 68899999999999999964
Q ss_pred --------------------CEEEEEECCEEeecccccCCC
Q psy18079 151 --------------------RESVFYLNGRVVAVTSHLFNV 171 (178)
Q Consensus 151 --------------------g~i~F~~NG~~lG~Af~~~~~ 171 (178)
..|.|+|||+.+|+||+||+.
T Consensus 431 yfe~~d~v~k~~k~l~~~pgS~I~f~KNG~~qG~Ay~ni~~ 471 (544)
T KOG2626|consen 431 YFEDPDNVAKIEKTLKIKPGSEIEFFKNGVSQGVAYENIYK 471 (544)
T ss_pred EEEccchhhhhhhccccCCCceEEEeecccchhhhhhhhhc
Confidence 589999999999999999984
No 3
>KOG0349|consensus
Probab=99.89 E-value=7.1e-24 Score=183.62 Aligned_cols=104 Identities=21% Similarity=0.459 Sum_probs=93.3
Q ss_pred CceeeEEEeCccee-ccEEEEEEEEecCCcEEEEEecCCCcCCCCCCCCCCCCCCceEEeCCCceEEeCCCCCCCCCCCC
Q psy18079 57 AYSFESVRCTFEVT-SGVWYYETKIRSAGVMQIGWATKKSKFLNHEGYGIGDDEYSVAYDGCRQLIWHDAKSEDPPNEGM 135 (178)
Q Consensus 57 ~~~~~~vrat~~v~-~G~~YfEV~v~~~~~~~VG~a~~~~~l~~~~~~~vG~d~~S~g~~g~~~~~~~~~~~~~~~yg~~ 135 (178)
.+-|.++|||.|+. .|||||||++.+.|.+||||+|..++| .+|.+..+|||.|.+.+ -|+.+-. +||++
T Consensus 114 ~KeWhGcRaT~Gl~gkGK~YyEvtitd~GLCRVGWsT~qasL------dlGt~~~gFGfGGTGkK-S~nkqFD--dYGe~ 184 (725)
T KOG0349|consen 114 KKEWHGCRATAGLYGKGKYYYEVTITDKGLCRVGWSTLQASL------DLGTGLDGFGFGGTGKK-STNKQFD--DYGEP 184 (725)
T ss_pred HhhhhccccccccccCceEEEEEEeccCceeeechhhccccc------ccCccccccccCccCcc-ccccccc--cccCc
Confidence 46899999999997 999999999999999999999999885 48999999999998654 4444333 79999
Q ss_pred CCCCCEEEEEEeCCCCEEEEEECCEEeecccccC
Q psy18079 136 WHPGDILGCLLDVEARESVFYLNGRVVAVTSHLF 169 (178)
Q Consensus 136 ~~~GDVIGc~lDl~~g~i~F~~NG~~lG~Af~~~ 169 (178)
|...|||||+||+++++|+|+|||+.||.||+.-
T Consensus 185 Ft~~DvIGCyLDld~~~v~fsKNG~~lg~AF~ip 218 (725)
T KOG0349|consen 185 FTLNDVIGCYLDLDSRTVWFSKNGEQLGAAFSIP 218 (725)
T ss_pred ccccceeeEEEeccCceEEEecCccccceeEEcC
Confidence 9999999999999999999999999999999753
No 4
>PF00622 SPRY: SPRY domain; InterPro: IPR003877 The SPRY domain is of unknown function. Distant homologues are domains in butyrophilin/marenostrin/pyrin []. Ca2+-release from the sarcoplasmic or endoplasmic reticulum, the intracellular Ca2+ store, is mediated by the ryanodine receptor (RyR) and/or the inositol trisphosphate receptor (IP3R).; GO: 0005515 protein binding; PDB: 2V24_A 3EK9_A 2AFJ_A 2IWG_E 3EMW_A 2WL1_A 3TOJ_B 2VOK_A 2VOL_B 2FNJ_A ....
Probab=99.88 E-value=1.1e-21 Score=143.36 Aligned_cols=98 Identities=29% Similarity=0.488 Sum_probs=84.0
Q ss_pred ccEEEEEEEEecCCcEEEEEecCCCcCCCCCCCCCCCCCCceEEeCCCceEEeCCCCCCCCCCCCCCC-CCEEEEEEeCC
Q psy18079 71 SGVWYYETKIRSAGVMQIGWATKKSKFLNHEGYGIGDDEYSVAYDGCRQLIWHDAKSEDPPNEGMWHP-GDILGCLLDVE 149 (178)
Q Consensus 71 ~G~~YfEV~v~~~~~~~VG~a~~~~~l~~~~~~~vG~d~~S~g~~g~~~~~~~~~~~~~~~yg~~~~~-GDVIGc~lDl~ 149 (178)
+|+|||||+|...+.+.|||+++..... .....+|.+..||+|++.++++++..... .+...+.. ||||||+||++
T Consensus 1 sG~~YwEV~v~~~~~~~iGv~~~~~~~~-~~~~~~g~~~~s~~~~~~~~~~~~~~~~~--~~~~~~~~~~dvIG~~lD~~ 77 (124)
T PF00622_consen 1 SGKHYWEVEVDSGGSISIGVATSSASVS-GDENLSGYDPFSWGFHGDGGKKYHGGTSE--ETGSPFQEPGDVIGCGLDLD 77 (124)
T ss_dssp SSEEEEEEEETGGCTEEEEEEETTSEES-SSTS-TTSSTTEEEEETTTTTEEESTSSS--ECSCTSSTTTSEEEEEEETT
T ss_pred CcCEEEEEEEecCcCEEEEEeECccccC-CccccCCccccceeeeccccccceeeccc--ccccccccCCcEEEEEEeec
Confidence 6999999999998889999999988211 12357899999999999987788887764 68889998 99999999999
Q ss_pred CCEEEEEECCEEee-cccccCCC
Q psy18079 150 ARESVFYLNGRVVA-VTSHLFNV 171 (178)
Q Consensus 150 ~g~i~F~~NG~~lG-~Af~~~~~ 171 (178)
+++|+|++||+.|+ .+|+.+..
T Consensus 78 ~g~l~F~~ng~~~~~~~f~~~~~ 100 (124)
T PF00622_consen 78 NGELSFYKNGKFLGIYAFTDIDF 100 (124)
T ss_dssp TTEEEEEETTEEEEEEEEESCTT
T ss_pred ccEEEEEECCccceeEEEECCCC
Confidence 99999999999999 89997655
No 5
>KOG3953|consensus
Probab=99.86 E-value=8.8e-22 Score=157.85 Aligned_cols=127 Identities=18% Similarity=0.196 Sum_probs=107.4
Q ss_pred CCccccccCcccccccceeeecCCceeeEEEeCcceeccEEEEEEEEec---CCcEEEEEecCCCcCCCC-CCCCCCCCC
Q psy18079 34 TDEDRIVLPRSHTQAMWTQARCDAYSFESVRCTFEVTSGVWYYETKIRS---AGVMQIGWATKKSKFLNH-EGYGIGDDE 109 (178)
Q Consensus 34 ~~e~r~~lPr~~~~~~~~~~~~~~~~~~~vrat~~v~~G~~YfEV~v~~---~~~~~VG~a~~~~~l~~~-~~~~vG~d~ 109 (178)
++.++..+.||.+ +++.+.+|++.++..|.++|||.+.. .++..|||+|+.+++++. +..+||++.
T Consensus 41 k~~~~~tfhrhpv----------aqstd~~rGk~g~~~g~h~w~i~w~~r~~GT~avVGIaTk~Aplha~gy~aLlGs~~ 110 (242)
T KOG3953|consen 41 KLPDGLTFHRHPV----------AQSTDGIRGKRGYSRGRHAWEIAWPNRQRGTHAVVGIATKVAPLHAVGYTALLGSNS 110 (242)
T ss_pred ecCCcceEEecCC----------ccccccccceeeeccCceEEEEEecCCccCCcceEEEEcccCchhhhHHHHHhCCCC
Confidence 4444455555555 45688999999999999999999997 679999999999999774 346899999
Q ss_pred CceEEeCCCceEEeCCCCCC----CCCCCCCCCCCEEEEEEeCCCCEEEEEECCEEeecccccCC
Q psy18079 110 YSVAYDGCRQLIWHDAKSED----PPNEGMWHPGDILGCLLDVEARESVFYLNGRVVAVTSHLFN 170 (178)
Q Consensus 110 ~S~g~~g~~~~~~~~~~~~~----~~yg~~~~~GDVIGc~lDl~~g~i~F~~NG~~lG~Af~~~~ 170 (178)
.||||+-.++++||++.... ..-.+.+.++|.|.|+||+++++++|.+||++||+||+++.
T Consensus 111 qswGw~l~~~~l~H~g~~~~~yp~~~~~p~~~vp~ri~viLDm~egtl~F~~~~e~LGvAFRgL~ 175 (242)
T KOG3953|consen 111 QSWGWDLGRNVLYHDGQVAGLYPALNRQPKYNVPDRILVILDMIEGTLSFAADGEYLGVAFRGLK 175 (242)
T ss_pred CccceecccceeeecCccccccccccCCchhcCCceEEEEEeeccceEEEEECCeEEeeeecCCC
Confidence 99999999999999983222 12257899999999999999999999999999999999987
No 6
>KOG2243|consensus
Probab=99.72 E-value=2.5e-17 Score=155.01 Aligned_cols=107 Identities=29% Similarity=0.713 Sum_probs=94.9
Q ss_pred CceeeEEEe--CcceeccEEEEEEEEecCCcEEEEEecCCCcCCCCCCCCCCCCCCceEEeCCCceEEeCCCCCCCCCCC
Q psy18079 57 AYSFESVRC--TFEVTSGVWYYETKIRSAGVMQIGWATKKSKFLNHEGYGIGDDEYSVAYDGCRQLIWHDAKSEDPPNEG 134 (178)
Q Consensus 57 ~~~~~~vra--t~~v~~G~~YfEV~v~~~~~~~VG~a~~~~~l~~~~~~~vG~d~~S~g~~g~~~~~~~~~~~~~~~yg~ 134 (178)
...++-.|+ +++|++|+||||.+..+.|.++|||+++.|. |...+|.|...|+|+|.+++.||.+.. .||.
T Consensus 1089 ~dk~r~fr~eksyavkagkwyfefe~vt~gdmrvgwarpgc~----pd~elgadd~af~fdg~k~qrwhqg~~---~~gr 1161 (5019)
T KOG2243|consen 1089 GDKFRFFRAEKSYAVKAGKWYFEFETVTAGDMRVGWARPGCQ----PDQELGADDQAFAFDGFKAQRWHQGNE---HFGR 1161 (5019)
T ss_pred cceeEEEeeehhheeeccceEEEEEEeeccceeecccCCCCC----cchhhCCccceeeeccchhhhhhcccc---cccc
Confidence 456777777 7889999999999999999999999999987 457899999999999999999999864 6999
Q ss_pred CCCCCCEEEEEEeCCCCEEEEEECCEEee------cccccCC
Q psy18079 135 MWHPGDILGCLLDVEARESVFYLNGRVVA------VTSHLFN 170 (178)
Q Consensus 135 ~~~~GDVIGc~lDl~~g~i~F~~NG~~lG------~Af~~~~ 170 (178)
.|.+||||||.+||++.++-|++||+.|= .||.++.
T Consensus 1162 swq~gdvvgcmi~l~d~sm~ftlngeili~~~gselaf~d~d 1203 (5019)
T KOG2243|consen 1162 SWQAGDVVGCMIDLDDASMIFTLNGEILIDDKGSELAFADFD 1203 (5019)
T ss_pred ccCCCCeEEEEEecccceEEEEEcCeEEEcCCCCeeeecccc
Confidence 99999999999999999999999999884 3565553
No 7
>KOG4030|consensus
Probab=99.61 E-value=3.9e-15 Score=113.20 Aligned_cols=109 Identities=27% Similarity=0.273 Sum_probs=89.6
Q ss_pred eeeEEEeCcceeccEEEEEEEEecCCcEEEEEecCCCcCCCCCCCCCCCCCCceEEeCCCceEEeCCCCCC-CCCCCCCC
Q psy18079 59 SFESVRCTFEVTSGVWYYETKIRSAGVMQIGWATKKSKFLNHEGYGIGDDEYSVAYDGCRQLIWHDAKSED-PPNEGMWH 137 (178)
Q Consensus 59 ~~~~vrat~~v~~G~~YfEV~v~~~~~~~VG~a~~~~~l~~~~~~~vG~d~~S~g~~g~~~~~~~~~~~~~-~~yg~~~~ 137 (178)
+..++.|+.++...|-||||+|..+|.|.||++++..+|++ .+.|.|..||+...++. +.|+..... ++--.--.
T Consensus 51 GtGG~lAtaPlvQnKsYFevkiQ~tG~WgiGlat~q~~l~~---~p~g~d~~sw~~r~dga-~~hnnee~~r~pa~~~p~ 126 (197)
T KOG4030|consen 51 GTGGALATAPLVQNKSYFEVKIQQTGTWGIGLATKQSPLDK---VPGGCDEKSWGIRDDGA-IAHNNEEVARMPATVFPE 126 (197)
T ss_pred ccCceeeeeeeecccceEEEEEeecceeeeeeeeccCcccc---CCCCCcceeEEEccCCc-hhcccHHHhcCccccCCc
Confidence 56678999999999999999999999999999999999976 57899999999988754 667664332 11112237
Q ss_pred CCCEEEEEEeCCCCEEEEEECCEEeecccccCCCCC
Q psy18079 138 PGDILGCLLDVEARESVFYLNGRVVAVTSHLFNVNL 173 (178)
Q Consensus 138 ~GDVIGc~lDl~~g~i~F~~NG~~lG~Af~~~~~~~ 173 (178)
+|||||+++| .-+|.||+||+.+-..++++.-+.
T Consensus 127 EGDvVGvayD--HVELnfY~NGKn~e~p~~gvRG~v 160 (197)
T KOG4030|consen 127 EGDVVGVAYD--HVELNFYVNGKNVEDPITGVRGPV 160 (197)
T ss_pred cCcEEEEEee--eEEEEEEEcCceecccccccccce
Confidence 8999999998 889999999999998888876543
No 8
>KOG4367|consensus
Probab=99.42 E-value=8.9e-13 Score=114.41 Aligned_cols=111 Identities=19% Similarity=0.276 Sum_probs=90.5
Q ss_pred ecCCceeeEEEeCcceeccEEEEEEEEec---CCcEEEEEecCCCcCCCCCCCCCCCCCCceEE--eCCCceEEeCCCCC
Q psy18079 54 RCDAYSFESVRCTFEVTSGVWYYETKIRS---AGVMQIGWATKKSKFLNHEGYGIGDDEYSVAY--DGCRQLIWHDAKSE 128 (178)
Q Consensus 54 ~~~~~~~~~vrat~~v~~G~~YfEV~v~~---~~~~~VG~a~~~~~l~~~~~~~vG~d~~S~g~--~g~~~~~~~~~~~~ 128 (178)
.+.+..++.|.++.++++|.|||||+|.. .+.+.||++...... ..++|.|.+.|+. ||.+....|+....
T Consensus 556 sgssleyrtilgsiafskgvhywevtidrhdgnsdivigvaqpavnr----nvmlgkdlhgwsmyvdgerswylhnethh 631 (699)
T KOG4367|consen 556 SGSSLEYRTILGSIAFSKGVHYWEVTIDRHDGNSDIVIGVAQPAVNR----NVMLGKDLHGWSMYVDGERSWYLHNETHH 631 (699)
T ss_pred cccccchheeeeecccccceeEEEEEEeccCCCCCceEEecchhhhh----ceeecccccceeEEEcCcceeEEeccccc
Confidence 44567899999999999999999999996 568999999988763 4789999999996 66665555655322
Q ss_pred CCCCCCCCCCCCEEEEEEeCCCCEEEEEECCEEee-cccccC
Q psy18079 129 DPPNEGMWHPGDILGCLLDVEARESVFYLNGRVVA-VTSHLF 169 (178)
Q Consensus 129 ~~~yg~~~~~GDVIGc~lDl~~g~i~F~~NG~~lG-~Af~~~ 169 (178)
. .-......|-|||+.||++.|++.|++|.+.-+ +||+|+
T Consensus 632 n-rvlggvtrgtvigvrldcdrgtmeytvndrqddsmaftnm 672 (699)
T KOG4367|consen 632 N-RVLGGVTRGTVIGVRLDCDRGTMEYTVNDRQDDSMAFTNM 672 (699)
T ss_pred c-ccccccccccEEEEEEeccCCceEEEeccccCCceeeecc
Confidence 1 223467899999999999999999999999777 489886
No 9
>KOG2243|consensus
Probab=99.20 E-value=1.7e-12 Score=123.20 Aligned_cols=112 Identities=29% Similarity=0.612 Sum_probs=88.6
Q ss_pred eeeEEEeCc--ceec-----cEEEEEEEEec--------CCcEEEEEecCCCcCCCCC-------CCCCCCCCCceEEeC
Q psy18079 59 SFESVRCTF--EVTS-----GVWYYETKIRS--------AGVMQIGWATKKSKFLNHE-------GYGIGDDEYSVAYDG 116 (178)
Q Consensus 59 ~~~~vrat~--~v~~-----G~~YfEV~v~~--------~~~~~VG~a~~~~~l~~~~-------~~~vG~d~~S~g~~g 116 (178)
+..++|-+. ||.. -|||||..|.. ..|++|||+..+. +.+.| +.+||+|.+||||||
T Consensus 657 ~vss~rpniflgvaegsaqykkwy~el~id~~dpf~tae~thlrvgwass~g-yap~pggge~wggngvgddl~sygfdg 735 (5019)
T KOG2243|consen 657 DVSSIRPNIFLGVAEGSAQYKKWYFELIIDHTDPFLTAEATHLRVGWASSEG-YAPCPGGGEEWGGNGVGDDLFSYGFDG 735 (5019)
T ss_pred hhhhcCCceeEeeccchHHHHHHHHHHhhhcCCcceecccceeeeeeeccCC-CCCCCCCcccccCCCccchhhhcCCCc
Confidence 556677665 5544 48999999884 5799999998765 22322 457999999999999
Q ss_pred CCceEEeCCCCCCC--CCCCCCCCCCEEEEEEeCCCCEEEEEECCEEeecccccCCCCC
Q psy18079 117 CRQLIWHDAKSEDP--PNEGMWHPGDILGCLLDVEARESVFYLNGRVVAVTSHLFNVNL 173 (178)
Q Consensus 117 ~~~~~~~~~~~~~~--~yg~~~~~GDVIGc~lDl~~g~i~F~~NG~~lG~Af~~~~~~~ 173 (178)
. ++|+......+ ....-....|||.|+||+....|+|-+||+.+...|+|++.+.
T Consensus 736 l--hlwsg~i~r~vas~nqhllrsddvisccldl~~psisfringqpvqgmfenfn~dg 792 (5019)
T KOG2243|consen 736 L--HLWSGCIARAVASPNQHLLRSDDVISCCLDLGAPSISFRINGQPVQGMFENFNIDG 792 (5019)
T ss_pred c--hhhcccchhhhcChhhhhhcccchhhhhhhcCCCceEEEECCccchhHHhcCCCcc
Confidence 7 68987654432 3455778899999999999999999999999999999998764
No 10
>KOG1477|consensus
Probab=98.66 E-value=2.8e-08 Score=88.67 Aligned_cols=100 Identities=23% Similarity=0.367 Sum_probs=82.8
Q ss_pred eccEEEEEEEEec---CCcEEEEEecCCCcCCCCCCCCCCCCCCceEEeCCCceEEe-CCCCCCCCCCCCCCCCCEEEEE
Q psy18079 70 TSGVWYYETKIRS---AGVMQIGWATKKSKFLNHEGYGIGDDEYSVAYDGCRQLIWH-DAKSEDPPNEGMWHPGDILGCL 145 (178)
Q Consensus 70 ~~G~~YfEV~v~~---~~~~~VG~a~~~~~l~~~~~~~vG~d~~S~g~~g~~~~~~~-~~~~~~~~yg~~~~~GDVIGc~ 145 (178)
.-+.+||||.|.+ .+.+.||......+.+ ...|+...||+|.|+.+.+++ ...... .+++++..||.|||.
T Consensus 77 N~~~~~Fe~~i~d~g~~~~i~i~~~~~~~~~~----~~~g~~~~s~~y~g~~g~l~~~~~~~~~-~~~~~~~~~D~ig~~ 151 (469)
T KOG1477|consen 77 NFGIYYFEFDILDYGIEGRIKIGFLIDSFSII----ESEGYTMNSLGYHGNSGLLDNGGAELGE-EFGPTFTTGDEIGCG 151 (469)
T ss_pred ccccceeeeeHHHhhhhhceEEEEEecccccc----cccchhhhhhcccCCchhhhhhhhhhch-hhcCCCCccceeeec
Confidence 3579999999996 5778888888777654 356777779999999998888 333233 789999999999999
Q ss_pred EeCCCCEEEEEECCEEeecccccCCCCCC
Q psy18079 146 LDVEARESVFYLNGRVVAVTSHLFNVNLP 174 (178)
Q Consensus 146 lDl~~g~i~F~~NG~~lG~Af~~~~~~~~ 174 (178)
++....+|+|++||..+|++++.+....-
T Consensus 152 ~~~~~q~i~~t~~g~~~~~~~~~~~~~~~ 180 (469)
T KOG1477|consen 152 INEITQEIFFTKNGTEVGEIIKPLSPDLL 180 (469)
T ss_pred cchhhheeeeccCcccccccccccccccc
Confidence 99999999999999999999988865543
No 11
>KOG1477|consensus
Probab=97.58 E-value=4.1e-05 Score=68.60 Aligned_cols=59 Identities=14% Similarity=0.211 Sum_probs=47.7
Q ss_pred EEeCCCceEEeCCCCCCCCCCCCCCCCCEEEEEEeCCCCEEEEEECCEEeecccccCCCC
Q psy18079 113 AYDGCRQLIWHDAKSEDPPNEGMWHPGDILGCLLDVEARESVFYLNGRVVAVTSHLFNVN 172 (178)
Q Consensus 113 g~~g~~~~~~~~~~~~~~~yg~~~~~GDVIGc~lDl~~g~i~F~~NG~~lG~Af~~~~~~ 172 (178)
+|++.++..+....... .||+.+..||+|+|.+|.-.++.+|++||..+|++|...+..
T Consensus 2 ~~~~~~~~~~~~~~~~~-~~g~~~~~~d~i~~~~~~~~~~~~~~~~~~~~gi~f~~~~~~ 60 (469)
T KOG1477|consen 2 GYHGDDGNFFLKSGDGQ-LYGPVFTTGDVIPCEVNTINGSDFFTKNGPDMGIAFYTPPAL 60 (469)
T ss_pred CCcccchhhhhhccccc-ccCCcCCccccccceEeccCCceeEEEEcCCcceeeecCccc
Confidence 45566655555443333 799999999999999999999999999999999999776643
No 12
>KOG2242|consensus
Probab=96.00 E-value=0.0045 Score=56.74 Aligned_cols=47 Identities=30% Similarity=0.468 Sum_probs=43.4
Q ss_pred CcceeeeeecCCCCCcccCCCCcccccccCcCCCCccccccCcccccc
Q psy18079 1 MSFQQCRFNFGNKSTFLFPPSREFQCFNEHASLTDEDRIVLPRSHTQA 48 (178)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~p~~p~~~~~d~~~l~~e~r~~lPr~~~~~ 48 (178)
|+||||.++|+.. +|.|||.-.+.++++...+.+..+++++++...+
T Consensus 498 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~n~~~~~~~f~~~ 544 (558)
T KOG2242|consen 498 MSFQQCPPPFQAG-PFQPPPGLKVPPFSYSDALGPPNRIIYAPNFRRP 544 (558)
T ss_pred cccccCccccCCC-CCCCCCcCCCCccccccccCcccchhcccccccC
Confidence 7899999999997 9999999999999999999999999998887643
No 13
>KOG2242|consensus
Probab=92.88 E-value=0.067 Score=49.21 Aligned_cols=113 Identities=20% Similarity=0.131 Sum_probs=90.4
Q ss_pred ceeeecCCceeeEEEeCcceecc----EEEEEEEEecCCcEEEEEecCCCcCCCCCCCCCCCCCCceEEeCCCceEEeCC
Q psy18079 50 WTQARCDAYSFESVRCTFEVTSG----VWYYETKIRSAGVMQIGWATKKSKFLNHEGYGIGDDEYSVAYDGCRQLIWHDA 125 (178)
Q Consensus 50 ~~~~~~~~~~~~~vrat~~v~~G----~~YfEV~v~~~~~~~VG~a~~~~~l~~~~~~~vG~d~~S~g~~g~~~~~~~~~ 125 (178)
.+++..+..+...+|++..+... +||++.++...++..+++.+....+.......++++..+..+.+.+..+|-+.
T Consensus 358 ~~~~~~d~~s~~~v~~~~~~~d~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~ 437 (558)
T KOG2242|consen 358 VCPAFEDLKSRTIVRTEVEGKDVGETAVLEMNANFTLPGVMDYMDETGDSELLKEEAYGIGDQYSEEARKALPPQKKPND 437 (558)
T ss_pred cCCchhhhccccceEeeeecccCCcceEEEEeeeeccCchhhhhhhccccccchhhcccccccHhHHhhhccCccccccc
Confidence 34555666788888998888755 89999999999999999988877776666678899999998888776666655
Q ss_pred CCCCCCCCCCCCCCCEEEEEEeCCCCEEEEEECCEEee
Q psy18079 126 KSEDPPNEGMWHPGDILGCLLDVEARESVFYLNGRVVA 163 (178)
Q Consensus 126 ~~~~~~yg~~~~~GDVIGc~lDl~~g~i~F~~NG~~lG 163 (178)
.... .-.+.++.+|++|..++..++...|..||-.+|
T Consensus 438 r~~~-~~~~~~~~~~~~g~~~~~~q~~~~~~~~~~~~~ 474 (558)
T KOG2242|consen 438 RRKS-NINETDTQQQRRGGTANGSQKRGGFNMSGGQLG 474 (558)
T ss_pred cccc-CcCcccchhhhccccccCCccceeeecccCCCC
Confidence 3222 456899999999999999999999999998766
No 14
>KOG0349|consensus
Probab=86.33 E-value=0.38 Score=43.31 Aligned_cols=21 Identities=43% Similarity=0.963 Sum_probs=16.4
Q ss_pred eeecCCCCCcccCCCCcccccc
Q psy18079 7 RFNFGNKSTFLFPPSREFQCFN 28 (178)
Q Consensus 7 ~~~~~~~~~~~~~p~~p~~~~~ 28 (178)
-||||++ +|||||..-|-...
T Consensus 238 ~fNFG~~-~FKfpPgngFva~s 258 (725)
T KOG0349|consen 238 SFNFGSQ-PFKFPPGNGFVAVS 258 (725)
T ss_pred EEecCCC-ccccCCCCceEEee
Confidence 4899998 99999976655443
No 15
>KOG4600|consensus
Probab=59.33 E-value=12 Score=28.37 Aligned_cols=44 Identities=25% Similarity=0.271 Sum_probs=33.1
Q ss_pred CCCCCCCCCEEEEEEe-----CCCCEEEEEECC-----EEeecccccCCCCCCC
Q psy18079 132 NEGMWHPGDILGCLLD-----VEARESVFYLNG-----RVVAVTSHLFNVNLPP 175 (178)
Q Consensus 132 yg~~~~~GDVIGc~lD-----l~~g~i~F~~NG-----~~lG~Af~~~~~~~~~ 175 (178)
-|..|-+||-||++=| |++|.+.|++-. +++++++...-...+|
T Consensus 68 RgtkfHPG~nVGiGKDhtifaL~eG~Vrf~k~~~~~~Rk~i~V~~~~~~~l~~~ 121 (144)
T KOG4600|consen 68 RGTKFHPGDNVGIGKDHTIFALEEGRVRFEKSKITPPRKWIGVDPRGGLPLPPP 121 (144)
T ss_pred cccccCCCcccccCCcceEEEeeccEEEEEEccCCCCcceEEEeecCCccCCCc
Confidence 4779999999997554 889999999875 6778888665443333
No 16
>PF01052 SpoA: Surface presentation of antigens (SPOA); InterPro: IPR001543 Proteins in this group are involved in a secretory pathway responsible for the surface presentation of invasion plasmid antigen needed for the entry of Salmonella and other species into mammalian cells [, ].They could play a role in preserving the translocation competence of the IPA antigens and are required for secretion of the three IPA proteins []. The C-terminal region of flagellar motor switch proteins FliN and FliM is also included in this entry. ; PDB: 3UEP_A 1O9Y_B 1YAB_A.
Probab=55.13 E-value=22 Score=23.37 Aligned_cols=31 Identities=13% Similarity=0.060 Sum_probs=22.3
Q ss_pred CCCCCCCEEEEEEeCCCCEEEEEECCEEeecc
Q psy18079 134 GMWHPGDILGCLLDVEARESVFYLNGRVVAVT 165 (178)
Q Consensus 134 ~~~~~GDVIGc~lDl~~g~i~F~~NG~~lG~A 165 (178)
..+++||||-+-... +..+..++||+.++.+
T Consensus 27 ~~L~~Gdvi~l~~~~-~~~v~l~v~g~~~~~g 57 (77)
T PF01052_consen 27 LNLKVGDVIPLDKPA-DEPVELRVNGQPIFRG 57 (77)
T ss_dssp HC--TT-EEEECCES-STEEEEEETTEEEEEE
T ss_pred hcCCCCCEEEeCCCC-CCCEEEEECCEEEEEE
Confidence 368999999887773 4678888999998765
No 17
>PF06832 BiPBP_C: Penicillin-Binding Protein C-terminus Family; InterPro: IPR009647 This conserved region of approximately 90 residues is found in a sub-group of bacterial Penicillin-Binding Proteins (PBPs). A variable length loop region separates this region from the transpeptidase unit (IPR001460 from INTERPRO). It is predicted to be a beta fold.
Probab=50.98 E-value=32 Score=23.25 Aligned_cols=34 Identities=9% Similarity=0.055 Sum_probs=21.5
Q ss_pred CEEEEEEeCCCCEEEEEECCEEeec--ccccCCCCC
Q psy18079 140 DILGCLLDVEARESVFYLNGRVVAV--TSHLFNVNL 173 (178)
Q Consensus 140 DVIGc~lDl~~g~i~F~~NG~~lG~--Af~~~~~~~ 173 (178)
..|-+-+.-..+.++|++||+++|. +.+.+....
T Consensus 32 ~~l~l~a~~~~~~~~W~vdg~~~g~~~~~~~~~~~~ 67 (89)
T PF06832_consen 32 QPLVLKAAGGRGPVYWFVDGEPLGTTQPGHQLFWQP 67 (89)
T ss_pred ceEEEEEeCCCCcEEEEECCEEcccCCCCCeEEeCC
Confidence 3444444444569999999999965 444443333
No 18
>smart00560 LamGL LamG-like jellyroll fold domain.
Probab=44.79 E-value=39 Score=24.53 Aligned_cols=26 Identities=31% Similarity=0.318 Sum_probs=21.7
Q ss_pred CEEEEEEeCCCCEEEEEECCEEeecc
Q psy18079 140 DILGCLLDVEARESVFYLNGRVVAVT 165 (178)
Q Consensus 140 DVIGc~lDl~~g~i~F~~NG~~lG~A 165 (178)
--|-+.+|-..++|.+|+||+..+.+
T Consensus 64 ~hva~v~d~~~g~~~lYvnG~~~~~~ 89 (133)
T smart00560 64 VHLAGVYDGGAGKLSLYVNGVEVATS 89 (133)
T ss_pred EEEEEEEECCCCeEEEEECCEEcccc
Confidence 46777888888999999999988754
No 19
>smart00588 NEUZ domain in neuralized proteins.
Probab=44.07 E-value=1.3e+02 Score=22.06 Aligned_cols=21 Identities=33% Similarity=0.305 Sum_probs=15.9
Q ss_pred CCCCEEEEEEeCCCCEEEEEEC
Q psy18079 137 HPGDILGCLLDVEARESVFYLN 158 (178)
Q Consensus 137 ~~GDVIGc~lDl~~g~i~F~~N 158 (178)
..||++...++ .+|.+.|.+|
T Consensus 103 ~~g~~l~f~~~-~~G~v~~~vn 123 (123)
T smart00588 103 EQGGILGLDVL-AEGEVVGVIN 123 (123)
T ss_pred cCCCEEEEEEC-CCceEEEEeC
Confidence 67888887776 4588888876
No 20
>PF15409 PH_8: Pleckstrin homology domain
Probab=39.19 E-value=34 Score=23.84 Aligned_cols=19 Identities=26% Similarity=0.322 Sum_probs=16.1
Q ss_pred EEEeCCCCEEEEEECCEEe
Q psy18079 144 CLLDVEARESVFYLNGRVV 162 (178)
Q Consensus 144 c~lDl~~g~i~F~~NG~~l 162 (178)
+.||++.|+|+|++|-...
T Consensus 19 FvL~~~~G~LsYy~~~~~~ 37 (89)
T PF15409_consen 19 FVLDFEKGTLSYYRNQNSG 37 (89)
T ss_pred EEEEcCCcEEEEEecCCCC
Confidence 6899999999999976654
No 21
>cd04454 S1_Rrp4_like S1_Rrp4_like: Rrp4-like, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein, and Rrp40 and Csl4 proteins, also represented in this group, are subunits of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA, rRNA and a number of small RNA species. In Saccharomyces cerevisiae, the exosome includes nine core components, six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4, Rrp40, and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure".
Probab=35.34 E-value=59 Score=21.40 Aligned_cols=32 Identities=13% Similarity=0.237 Sum_probs=25.3
Q ss_pred CCCCCCCCEEEEEE-eCCC-CEEEEEECCEEeec
Q psy18079 133 EGMWHPGDILGCLL-DVEA-RESVFYLNGRVVAV 164 (178)
Q Consensus 133 g~~~~~GDVIGc~l-Dl~~-g~i~F~~NG~~lG~ 164 (178)
...+++||.|=|-+ .+++ +.+..++.|..+|+
T Consensus 48 ~~~~~~GD~i~~~V~~~~~~~~i~LS~~~~~~Gv 81 (82)
T cd04454 48 RKSLQPGDLILAKVISLGDDMNVLLTTADNELGV 81 (82)
T ss_pred HhcCCCCCEEEEEEEEeCCCCCEEEEECCCCCcc
Confidence 45689999999965 3443 78999999988875
No 22
>PF11966 SSURE: Fibronectin-binding repeat; InterPro: IPR021021 Streptococcal surface repeat domain - SSURE - is a protein fragment found to bind to extracellular matrix protein fibronectin but not to collagen or submaxillary mucin in Streptococci. Anti-SSURE antibodies recognised the corresponding protein on the surface of streptococcal cells. The full-length proteins are thus fibronectin-binding surface adhesins []. The proteins are further characterised by having an N-terminal motif resembling [YF]SIRKxxxGxxS[VIA] IPR005877 from INTERPRO and a C-terminal LPXTG motif-containing region which is a characteristic of many surface proteins of Streptococcus and Streptomyces species. Cleavage between the Thr and Gly by sortase or a related enzyme leads to covalent anchoring at the new C-terminal Thr to the cell wall (see IPR019931 from INTERPRO).
Probab=34.27 E-value=26 Score=23.76 Aligned_cols=15 Identities=20% Similarity=0.694 Sum_probs=12.7
Q ss_pred ceeccEEEEEEEEec
Q psy18079 68 EVTSGVWYYETKIRS 82 (178)
Q Consensus 68 ~v~~G~~YfEV~v~~ 82 (178)
++.+|+|+|||.+..
T Consensus 15 ~l~kGkYFYqV~L~G 29 (81)
T PF11966_consen 15 GLTKGKYFYQVDLNG 29 (81)
T ss_pred ccCCccEEEEEecCC
Confidence 467899999999874
No 23
>PF07943 PBP5_C: Penicillin-binding protein 5, C-terminal domain; InterPro: IPR012907 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This entry contains proteins that are annotated as penicillin-binding protein 5 and 6. These belong to MEROPS peptidase family S11 (D-Ala-D-Ala carboxypeptidase A family, clan SE). Penicillin-binding protein 5 expressed by Escherichia coli functions as a D-alanyl-D-alanine carboxypeptidase. It is composed of two domains that are oriented at approximately right angles to each other. The N-terminal domain (IPR001967 from INTERPRO) is the catalytic domain. The C-terminal domain, this entry, is organised into a sandwich of two anti-parallel beta-sheets, and has a relatively hydrophobic surface as compared to the N-terminal domain. Its precise function is unknown; it may mediate interactions with other cell wall-synthesising enzymes, thus allowing the protein to be recruited to areas of active cell wall synthesis. It may also function as a linker domain that positions the active site in the catalytic domain closer to the peptidoglycan layer, to allow it to interact with cell wall peptides []. ; GO: 0009002 serine-type D-Ala-D-Ala carboxypeptidase activity, 0006508 proteolysis; PDB: 3A3J_A 3MFD_B 1XP4_D 3MZD_A 1NZU_A 1NJ4_A 1Z6F_A 3MZF_A 1NZO_A 3MZE_A ....
Probab=32.85 E-value=64 Score=21.48 Aligned_cols=24 Identities=21% Similarity=0.567 Sum_probs=18.8
Q ss_pred CCCCCCCCEEEEEEeCCCCEEEEEECCEEeec
Q psy18079 133 EGMWHPGDILGCLLDVEARESVFYLNGRVVAV 164 (178)
Q Consensus 133 g~~~~~GDVIGc~lDl~~g~i~F~~NG~~lG~ 164 (178)
-.++..|++||- |.+++||+.++.
T Consensus 57 ~aPi~kG~~vG~--------~~v~~~~~~i~~ 80 (91)
T PF07943_consen 57 KAPIKKGQVVGT--------LTVYLDGKLIGE 80 (91)
T ss_dssp ESGBGTTSEEEE--------EEEEETTEEEEE
T ss_pred CCcccCCCEEEE--------EEEEECCEEEEE
Confidence 368999999974 567888888775
No 24
>PF07177 Neuralized: Neuralized; InterPro: IPR006573 NEUZ is a domain of unknown function found in neuralized proteins, i.e. proteins involved in the specification of the neuroblast during cellular differentiation. ; PDB: 2YUE_A 2E63_A.
Probab=31.20 E-value=65 Score=21.15 Aligned_cols=37 Identities=14% Similarity=0.165 Sum_probs=18.7
Q ss_pred CceeeEEEeCcceecc-EEEEEEEEec---CCcEEEEEecC
Q psy18079 57 AYSFESVRCTFEVTSG-VWYYETKIRS---AGVMQIGWATK 93 (178)
Q Consensus 57 ~~~~~~vrat~~v~~G-~~YfEV~v~~---~~~~~VG~a~~ 93 (178)
...-.-|-++.++..| ++..||.-.. .|.++||+.+.
T Consensus 27 sf~~giVFS~rPl~~~E~~~v~I~~~~~~wsG~L~~GvT~~ 67 (69)
T PF07177_consen 27 SFNNGIVFSSRPLRIGEKFEVRIDEVEPSWSGSLRIGVTSC 67 (69)
T ss_dssp -SSS-EEEESS-B-TT-EEEEEEEEE-SSSSS--EEEEESS
T ss_pred cCCceEEEecCCccCCCEEEEEEEecCCCceeEEEEeeEcc
Confidence 3344456677787755 4555553332 68999999863
No 25
>PRK11509 hydrogenase-1 operon protein HyaE; Provisional
Probab=30.62 E-value=1.3e+02 Score=22.44 Aligned_cols=31 Identities=13% Similarity=0.158 Sum_probs=24.2
Q ss_pred CCCCCCCEEEEEEeCCC-------------CEEEEEECCEEeec
Q psy18079 134 GMWHPGDILGCLLDVEA-------------RESVFYLNGRVVAV 164 (178)
Q Consensus 134 ~~~~~GDVIGc~lDl~~-------------g~i~F~~NG~~lG~ 164 (178)
..|..+++.-+-+|.|+ .++-|++||+.++.
T Consensus 63 ~e~~~~~v~~akVDiD~~~~LA~~fgV~siPTLl~FkdGk~v~~ 106 (132)
T PRK11509 63 REFPDYTWQVAIADLEQSEAIGDRFGVFRFPATLVFTGGNYRGV 106 (132)
T ss_pred HHhcCCceEEEEEECCCCHHHHHHcCCccCCEEEEEECCEEEEE
Confidence 34544568888888886 69999999999975
No 26
>cd05791 S1_CSL4 S1_CSL4: CSL4, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. ScCSL4 protein is a subunit of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA, rRNA and a number of small RNA species. In S. cerevisiae, the exosome includes nine core components, six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4, Rrp40, and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure".
Probab=29.90 E-value=74 Score=21.92 Aligned_cols=32 Identities=19% Similarity=0.273 Sum_probs=24.7
Q ss_pred CCCCCCCCEEEEEE-eCC-CCEEEEEECCEEeec
Q psy18079 133 EGMWHPGDILGCLL-DVE-ARESVFYLNGRVVAV 164 (178)
Q Consensus 133 g~~~~~GDVIGc~l-Dl~-~g~i~F~~NG~~lG~ 164 (178)
..-|.+||+|-+-+ ++. ...+..+..|..||+
T Consensus 58 ~~~f~~GDiV~AkVis~~~~~~~~Lst~~~~lGV 91 (92)
T cd05791 58 YKCFRPGDIVRAKVISLGDASSYYLSTAENELGV 91 (92)
T ss_pred HhhcCCCCEEEEEEEEcCCCCCcEEEecCCCCcc
Confidence 35789999998854 454 367888899999886
No 27
>TIGR02480 fliN flagellar motor switch protein FliN. Proteins that consist largely of the domain described by this model can be designated flagellar motor switch protein FliN. Longer proteins in which this region is a C-terminal domain typically are designated FliY. More distantly related sequences, outside the scope of this family, are associated with type III secretion and include the surface presentation of antigens protein SpaO required or invasion of host cells by Salmonella enterica.
Probab=28.89 E-value=87 Score=20.74 Aligned_cols=32 Identities=16% Similarity=0.093 Sum_probs=24.0
Q ss_pred CCCCCCCEEEEEEeCCCCEEEEEECCEEeeccc
Q psy18079 134 GMWHPGDILGCLLDVEARESVFYLNGRVVAVTS 166 (178)
Q Consensus 134 ~~~~~GDVIGc~lDl~~g~i~F~~NG~~lG~Af 166 (178)
..+++||||=+--..+ ..+..++||+..+.+-
T Consensus 27 l~L~~Gdvi~L~~~~~-~~v~l~v~g~~~~~g~ 58 (77)
T TIGR02480 27 LKLGEGSVIELDKLAG-EPLDILVNGRLIARGE 58 (77)
T ss_pred hcCCCCCEEEcCCCCC-CcEEEEECCEEEEEEE
Confidence 4789999987644444 4699999999887653
No 28
>PF13385 Laminin_G_3: Concanavalin A-like lectin/glucanases superfamily; PDB: 4DQA_A 1N1Y_A 1MZ6_A 1MZ5_A 1N1S_A 2A75_A 1WCS_A 1N1T_A 1N1V_A 2FHR_A ....
Probab=28.76 E-value=1e+02 Score=21.62 Aligned_cols=28 Identities=25% Similarity=0.358 Sum_probs=21.3
Q ss_pred EEEEEEeCCCCEEEEEECCEEeecccccCC
Q psy18079 141 ILGCLLDVEARESVFYLNGRVVAVTSHLFN 170 (178)
Q Consensus 141 VIGc~lDl~~g~i~F~~NG~~lG~Af~~~~ 170 (178)
-|.+.+| .+++.+|+||+..+..-....
T Consensus 89 ~l~~~~~--~~~~~lyvnG~~~~~~~~~~~ 116 (157)
T PF13385_consen 89 HLALTYD--GSTVTLYVNGELVGSSTIPSN 116 (157)
T ss_dssp EEEEEEE--TTEEEEEETTEEETTCTEESS
T ss_pred EEEEEEE--CCeEEEEECCEEEEeEeccCC
Confidence 5666666 788999999999998654443
No 29
>COG1064 AdhP Zn-dependent alcohol dehydrogenases [General function prediction only]
Probab=28.13 E-value=33 Score=29.83 Aligned_cols=27 Identities=22% Similarity=0.313 Sum_probs=22.4
Q ss_pred CCCCCCEEEE-EEeCCCCEEEEEECCEE
Q psy18079 135 MWHPGDILGC-LLDVEARESVFYLNGRV 161 (178)
Q Consensus 135 ~~~~GDVIGc-~lDl~~g~i~F~~NG~~ 161 (178)
.|++||+||+ .+-..-+++.+.+.|+.
T Consensus 78 ~~k~GDrVgV~~~~~~Cg~C~~C~~G~E 105 (339)
T COG1064 78 GLKVGDRVGVGWLVISCGECEYCRSGNE 105 (339)
T ss_pred cCCCCCEEEecCccCCCCCCccccCccc
Confidence 6999999999 77777788888888754
No 30
>PF14041 Lipoprotein_21: LppP/LprE lipoprotein
Probab=27.56 E-value=53 Score=22.51 Aligned_cols=18 Identities=11% Similarity=0.447 Sum_probs=15.2
Q ss_pred CEEEEEECCEEeeccccc
Q psy18079 151 RESVFYLNGRVVAVTSHL 168 (178)
Q Consensus 151 g~i~F~~NG~~lG~Af~~ 168 (178)
-.+.|+.+|++||++-..
T Consensus 26 ~~vl~Fh~G~fiGt~t~~ 43 (89)
T PF14041_consen 26 QQVLFFHDGEFIGTATPD 43 (89)
T ss_pred eEEEEEECCEEcccCCcc
Confidence 578999999999998653
No 31
>PLN03174 Chalcone-flavanone isomerase-related; Provisional
Probab=26.16 E-value=1.3e+02 Score=25.40 Aligned_cols=29 Identities=10% Similarity=0.127 Sum_probs=23.2
Q ss_pred CCCCCCEEEEEEeCCCCEEEEEECCEEeec
Q psy18079 135 MWHPGDILGCLLDVEARESVFYLNGRVVAV 164 (178)
Q Consensus 135 ~~~~GDVIGc~lDl~~g~i~F~~NG~~lG~ 164 (178)
.+.+||+|=+... ..+.+.+++||+..|+
T Consensus 212 ~l~kGdvI~~~~~-Pg~gl~vsi~Gk~~g~ 240 (278)
T PLN03174 212 KIPKGSVIDLSRE-PGHVLRTTIDGKEVGS 240 (278)
T ss_pred cCCCCCEEEEEEc-CCCeEEEEECCEEeeE
Confidence 3569999966654 5688889999999985
No 32
>KOG0643|consensus
Probab=24.20 E-value=1.1e+02 Score=26.16 Aligned_cols=15 Identities=20% Similarity=0.319 Sum_probs=12.9
Q ss_pred CCEEEEEECCEEeec
Q psy18079 150 ARESVFYLNGRVVAV 164 (178)
Q Consensus 150 ~g~i~F~~NG~~lG~ 164 (178)
.-+++|.+||+.||+
T Consensus 33 ~~~vw~s~nGerlGt 47 (327)
T KOG0643|consen 33 TPTVWYSLNGERLGT 47 (327)
T ss_pred CceEEEecCCceeee
Confidence 478999999999985
No 33
>COG3443 Predicted periplasmic or secreted protein [General function prediction only]
Probab=23.96 E-value=75 Score=25.04 Aligned_cols=23 Identities=22% Similarity=0.352 Sum_probs=16.9
Q ss_pred CEEEEEEeCCCCEEEEEECCEEeec
Q psy18079 140 DILGCLLDVEARESVFYLNGRVVAV 164 (178)
Q Consensus 140 DVIGc~lDl~~g~i~F~~NG~~lG~ 164 (178)
||=-+.|+ .++|.|.+||+..--
T Consensus 81 dv~~I~I~--~~tvtF~k~g~~~s~ 103 (193)
T COG3443 81 DVERIGID--GDTVTFFKNGKPTSG 103 (193)
T ss_pred ceeEEEEc--CCEEEEEECCceeeE
Confidence 55555555 779999999987653
No 34
>PRK11240 penicillin-binding protein 1C; Provisional
Probab=23.66 E-value=1.1e+02 Score=29.70 Aligned_cols=30 Identities=17% Similarity=0.172 Sum_probs=21.3
Q ss_pred EEEEEeCCCCEEEEEECCEEeecccccCCC
Q psy18079 142 LGCLLDVEARESVFYLNGRVVAVTSHLFNV 171 (178)
Q Consensus 142 IGc~lDl~~g~i~F~~NG~~lG~Af~~~~~ 171 (178)
+-+..+-..+++++++||+++|..++.+..
T Consensus 716 l~~~~~~~~~~~~W~~d~~~~~~~~~~~~~ 745 (772)
T PRK11240 716 LPLSTSGGAGRRWWFLNGEPLTERGRNVTL 745 (772)
T ss_pred EEEEccCCCceEEEEECCEEccCCCcceee
Confidence 444444456899999999999966555443
No 35
>COG1898 RfbC dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]
Probab=22.61 E-value=68 Score=25.17 Aligned_cols=57 Identities=18% Similarity=0.288 Sum_probs=35.2
Q ss_pred CCCCCCCceEEeCC-CceEEeCCCCCCCCCCCCCCCCCEEEEEEeCCCCEEEE-EECCEEee
Q psy18079 104 GIGDDEYSVAYDGC-RQLIWHDAKSEDPPNEGMWHPGDILGCLLDVEARESVF-YLNGRVVA 163 (178)
Q Consensus 104 ~vG~d~~S~g~~g~-~~~~~~~~~~~~~~yg~~~~~GDVIGc~lDl~~g~i~F-~~NG~~lG 163 (178)
..+.+..|+++-|. +|.-||... + .--..+..|.|..|++|+.+++-+| ..++..|+
T Consensus 43 ~~~Q~n~S~S~~GvlRGlHyq~~~-q--~klv~~v~G~v~dv~vDlR~~SpTyg~~~~~~ls 101 (173)
T COG1898 43 DFVQDNHSFSYPGVLRGLHYQHKP-Q--GKLVRVVSGKVFDVAVDLRKDSPTYGKWVGVVLS 101 (173)
T ss_pred ccccceEEEecCCeeEEEEcccCC-C--CeEEEEecCeEEEEEEEccCCCCCcceEEEEEec
Confidence 45667777777543 444444433 1 1123566899999999999987665 34444444
No 36
>COG3212 Predicted membrane protein [Function unknown]
Probab=22.54 E-value=68 Score=24.32 Aligned_cols=13 Identities=31% Similarity=0.465 Sum_probs=11.2
Q ss_pred ccEEEEEEEEecC
Q psy18079 71 SGVWYYETKIRSA 83 (178)
Q Consensus 71 ~G~~YfEV~v~~~ 83 (178)
-|+|+|||+|...
T Consensus 109 ~g~~vYevei~~~ 121 (144)
T COG3212 109 NGRLVYEVEIVKD 121 (144)
T ss_pred CCEEEEEEEEEeC
Confidence 4999999999863
No 37
>PRK10437 carbonic anhydrase; Provisional
Probab=21.90 E-value=97 Score=25.20 Aligned_cols=23 Identities=17% Similarity=0.270 Sum_probs=20.0
Q ss_pred CCCCCCC---EEEEEEeCCCCEEEEE
Q psy18079 134 GMWHPGD---ILGCLLDVEARESVFY 156 (178)
Q Consensus 134 ~~~~~GD---VIGc~lDl~~g~i~F~ 156 (178)
+.+..|+ |+|..+|+.+|.|.++
T Consensus 166 ~~~~~g~~l~IhG~~Ydl~tG~v~~l 191 (220)
T PRK10437 166 SAWKRGQKVTIHGWAYGIHDGLLRDL 191 (220)
T ss_pred HHHHCCCceEEEEEEEECCCcEEEEe
Confidence 4667787 9999999999999875
No 38
>smart00135 LY Low-density lipoprotein-receptor YWTD domain. Type "B" repeats in low-density lipoprotein (LDL) receptor that plays a central role in mammalian cholesterol metabolism. Also present in a variety of molecules similar to gp300/megalin.
Probab=21.30 E-value=1.2e+02 Score=16.53 Aligned_cols=18 Identities=11% Similarity=-0.186 Sum_probs=14.0
Q ss_pred EEEEEEeCCCCEEEEEEC
Q psy18079 141 ILGCLLDVEARESVFYLN 158 (178)
Q Consensus 141 VIGc~lDl~~g~i~F~~N 158 (178)
.-|+++|..++.|.|+=-
T Consensus 11 ~~~la~d~~~~~lYw~D~ 28 (43)
T smart00135 11 PNGLAVDWIEGRLYWTDW 28 (43)
T ss_pred cCEEEEeecCCEEEEEeC
Confidence 457899999998888633
No 39
>COG0139 HisI Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]
Probab=20.55 E-value=1.7e+02 Score=21.33 Aligned_cols=62 Identities=11% Similarity=0.291 Sum_probs=42.1
Q ss_pred CcEEEEEecCCCcCCCCCCCCCCCCCCceEEeCCCceEEeCCCCCCCCCCCCCCCCCEEEEEEeCCCCEEEEEEC
Q psy18079 84 GVMQIGWATKKSKFLNHEGYGIGDDEYSVAYDGCRQLIWHDAKSEDPPNEGMWHPGDILGCLLDVEARESVFYLN 158 (178)
Q Consensus 84 ~~~~VG~a~~~~~l~~~~~~~vG~d~~S~g~~g~~~~~~~~~~~~~~~yg~~~~~GDVIGc~lDl~~g~i~F~~N 158 (178)
-.+.+++..+.+- .. -=+....|-|.-.++++|+.+.+.. -.+ -|+.+-+|.|+-+|-|.++
T Consensus 30 eVLMlaymN~eAl-~k-----TleTg~~~y~SRSR~~lW~KGetSG--~~q-----~v~~i~~DCD~Dall~~V~ 91 (111)
T COG0139 30 EVLMLAYMNEEAL-AK-----TLETGEAHYYSRSRQELWTKGETSG--HTQ-----KVVEIRLDCDGDALLLLVE 91 (111)
T ss_pred cEEEEEecCHHHH-HH-----HHhcCeEEEEEcchhhheccccccC--ceE-----EEEEEEcCCCCCEEEEEEE
Confidence 3677888877653 11 1133455667777888999875431 112 3999999999999998875
Done!