Query 037957
Match_columns 841
No_of_seqs 280 out of 545
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 06:07:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037957.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037957hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2143 Uncharacterized conser 100.0 7E-117 1E-121 979.7 39.5 628 204-841 116-803 (854)
2 PF08797 HIRAN: HIRAN domain; 99.7 5.6E-18 1.2E-22 157.8 6.3 93 155-251 2-104 (107)
3 PF08774 VRR_NUC: VRR-NUC doma 96.6 0.0021 4.6E-08 59.1 3.8 50 775-841 5-54 (100)
4 PF13432 TPR_16: Tetratricopep 85.3 1.5 3.2E-05 36.3 4.6 58 569-629 5-63 (65)
5 PF13424 TPR_12: Tetratricopep 82.4 2 4.4E-05 36.7 4.4 64 562-625 6-73 (78)
6 PF12688 TPR_5: Tetratrico pep 82.2 3.3 7.1E-05 39.8 6.1 64 566-629 6-70 (120)
7 PF07498 Rho_N: Rho terminatio 80.6 2.4 5.2E-05 33.3 3.8 35 384-418 2-37 (43)
8 PF03704 BTAD: Bacterial trans 78.5 29 0.00062 33.4 11.5 56 562-620 63-118 (146)
9 PF12688 TPR_5: Tetratrico pep 77.5 7.1 0.00015 37.5 6.7 66 562-627 39-104 (120)
10 PF02037 SAP: SAP domain; Int 77.2 2.7 5.9E-05 31.5 3.0 32 385-417 2-33 (35)
11 PF14559 TPR_19: Tetratricopep 76.8 3.5 7.6E-05 34.1 4.0 54 573-629 3-57 (68)
12 smart00734 ZnF_Rad18 Rad18-lik 75.2 1.6 3.5E-05 30.6 1.2 14 32-45 12-25 (26)
13 PRK15359 type III secretion sy 73.2 11 0.00023 36.9 7.0 60 568-630 65-125 (144)
14 PF13371 TPR_9: Tetratricopept 70.1 10 0.00022 31.8 5.3 56 569-627 3-58 (73)
15 PF13414 TPR_11: TPR repeat; P 69.6 7.6 0.00016 32.2 4.3 56 568-626 10-66 (69)
16 COG2956 Predicted N-acetylgluc 66.3 25 0.00054 39.5 8.4 66 565-630 145-213 (389)
17 PF09976 TPR_21: Tetratricopep 65.7 48 0.001 32.1 9.7 57 569-625 56-112 (145)
18 TIGR02795 tol_pal_ybgF tol-pal 65.2 25 0.00054 31.6 7.2 63 567-630 45-109 (119)
19 TIGR02795 tol_pal_ybgF tol-pal 64.7 22 0.00048 31.9 6.8 65 566-630 7-72 (119)
20 PF12949 HeH: HeH/LEM domain; 64.4 6.2 0.00013 29.9 2.4 30 386-415 3-33 (35)
21 CHL00033 ycf3 photosystem I as 59.6 25 0.00054 34.9 6.6 60 568-627 42-101 (168)
22 smart00513 SAP Putative DNA-bi 59.3 12 0.00027 27.8 3.3 32 385-417 2-33 (35)
23 PRK10941 hypothetical protein; 57.6 53 0.0012 36.0 9.2 95 548-647 168-263 (269)
24 PLN03088 SGT1, suppressor of 56.7 1E+02 0.0022 35.0 11.6 60 568-630 43-103 (356)
25 cd00189 TPR Tetratricopeptide 54.0 35 0.00076 27.6 5.7 55 569-626 8-62 (100)
26 PRK15179 Vi polysaccharide bio 53.8 40 0.00086 41.9 8.3 56 568-626 127-182 (694)
27 PRK02603 photosystem I assembl 53.2 36 0.00078 33.9 6.5 62 568-629 42-104 (172)
28 PRK10803 tol-pal system protei 51.3 41 0.0009 36.6 7.1 64 567-630 186-250 (263)
29 TIGR02552 LcrH_SycD type III s 49.5 63 0.0014 30.1 7.3 59 569-630 25-84 (135)
30 TIGR02552 LcrH_SycD type III s 49.1 96 0.0021 28.9 8.5 61 567-630 57-118 (135)
31 PRK15179 Vi polysaccharide bio 48.8 32 0.00069 42.7 6.3 57 568-627 161-217 (694)
32 KOG2076 RNA polymerase III tra 45.4 36 0.00077 42.6 5.9 58 567-629 455-513 (895)
33 PRK15363 pathogenicity island 45.4 99 0.0022 31.3 8.1 78 561-644 70-148 (157)
34 PF14938 SNAP: Soluble NSF att 44.8 2.2E+02 0.0047 31.0 11.5 68 560-628 113-185 (282)
35 PRK15359 type III secretion sy 44.7 69 0.0015 31.2 6.9 60 568-630 31-91 (144)
36 PF12895 Apc3: Anaphase-promot 43.2 24 0.00051 30.7 3.0 48 575-623 3-50 (84)
37 KOG4226 Adaptor protein NCK/Do 42.4 55 0.0012 35.7 6.0 45 171-221 209-253 (379)
38 PF13176 TPR_7: Tetratricopept 40.3 39 0.00085 24.9 3.4 22 567-588 5-26 (36)
39 TIGR03734 PRTRC_parB PRTRC sys 39.6 26 0.00055 42.2 3.4 41 381-421 493-542 (554)
40 PLN03098 LPA1 LOW PSII ACCUMUL 38.7 57 0.0012 38.3 5.9 62 564-627 79-141 (453)
41 cd00189 TPR Tetratricopeptide 37.9 1.1E+02 0.0024 24.5 6.3 57 567-626 40-96 (100)
42 PF12895 Apc3: Anaphase-promot 37.3 34 0.00073 29.8 3.1 53 568-624 32-84 (84)
43 smart00299 CLH Clathrin heavy 34.3 92 0.002 29.7 5.9 48 566-623 74-121 (140)
44 KOG3785 Uncharacterized conser 34.0 42 0.0009 38.2 3.7 55 573-630 69-123 (557)
45 cd08819 CARD_MDA5_2 Caspase ac 33.2 30 0.00066 31.6 2.1 37 305-342 31-70 (88)
46 PF07653 SH3_2: Variant SH3 do 32.6 34 0.00074 27.7 2.2 37 171-215 17-53 (55)
47 PRK14537 50S ribosomal protein 32.3 42 0.00091 35.6 3.2 36 384-419 191-227 (230)
48 PF12569 NARP1: NMDA receptor- 31.5 1E+02 0.0022 37.1 6.7 58 563-624 196-254 (517)
49 PLN03088 SGT1, suppressor of 31.3 1.4E+02 0.003 33.9 7.5 64 563-630 5-69 (356)
50 PF13174 TPR_6: Tetratricopept 31.3 51 0.0011 22.8 2.7 22 568-589 7-28 (33)
51 TIGR02521 type_IV_pilW type IV 30.7 1.2E+02 0.0026 29.9 6.3 59 568-629 72-130 (234)
52 PRK11788 tetratricopeptide rep 30.2 1.9E+02 0.0041 32.1 8.4 63 567-629 147-212 (389)
53 COG4803 Predicted membrane pro 29.6 24 0.00052 35.2 0.9 46 717-762 65-111 (170)
54 PRK10747 putative protoheme IX 29.2 93 0.002 35.6 5.8 56 567-626 334-389 (398)
55 TIGR03302 OM_YfiO outer membra 29.2 1.3E+02 0.0029 31.0 6.5 66 564-630 37-103 (235)
56 PF07719 TPR_2: Tetratricopept 28.9 64 0.0014 22.5 2.9 26 600-625 3-28 (34)
57 PF09295 ChAPs: ChAPs (Chs5p-A 28.4 97 0.0021 35.9 5.6 60 562-624 235-294 (395)
58 KOG3060 Uncharacterized conser 27.6 2.5E+02 0.0055 30.9 8.1 59 562-623 87-145 (289)
59 COG5432 RAD18 RING-finger-cont 27.5 31 0.00066 37.9 1.3 10 36-45 175-184 (391)
60 TIGR02521 type_IV_pilW type IV 27.1 3.3E+02 0.0072 26.7 8.8 59 568-627 106-164 (234)
61 PF13429 TPR_15: Tetratricopep 26.2 54 0.0012 35.2 3.0 50 570-622 223-272 (280)
62 PRK11189 lipoprotein NlpI; Pro 26.1 1.4E+02 0.0031 32.7 6.3 60 568-630 105-165 (296)
63 TIGR00990 3a0801s09 mitochondr 26.0 1.9E+02 0.0042 35.0 8.0 62 564-630 131-193 (615)
64 KOG0985 Vesicle coat protein c 25.4 2.3E+02 0.005 36.6 8.2 114 493-624 1122-1246(1666)
65 PF14603 hSH3: Helically-exten 25.1 65 0.0014 29.5 2.7 36 171-214 34-69 (89)
66 PRK10049 pgaA outer membrane p 24.7 2.3E+02 0.005 35.6 8.5 66 562-630 360-426 (765)
67 PF00515 TPR_1: Tetratricopept 23.7 85 0.0018 22.2 2.7 25 601-625 4-28 (34)
68 PF12862 Apc5: Anaphase-promot 23.3 1.3E+02 0.0028 27.2 4.4 55 573-627 10-70 (94)
69 PRK11788 tetratricopeptide rep 23.0 2.6E+02 0.0056 31.1 7.8 58 569-626 77-135 (389)
70 PRK15174 Vi polysaccharide exp 22.2 1.6E+02 0.0035 36.2 6.3 61 567-630 324-385 (656)
71 cd08789 CARD_IPS-1_RIG-I Caspa 22.1 42 0.00091 30.3 1.0 43 298-342 21-66 (84)
72 PF13428 TPR_14: Tetratricopep 21.7 1.3E+02 0.0028 23.0 3.5 22 568-589 8-29 (44)
73 cd05804 StaR_like StaR_like; a 21.4 2.2E+02 0.0047 31.2 6.7 58 568-625 155-213 (355)
74 KOG0547 Translocase of outer m 21.0 1.4E+02 0.003 35.6 4.9 68 569-643 123-191 (606)
75 PF14604 SH3_9: Variant SH3 do 21.0 95 0.0021 24.8 2.7 35 171-214 14-48 (49)
76 PRK12370 invasion protein regu 21.0 1.6E+02 0.0035 35.3 6.0 59 569-630 346-405 (553)
77 TIGR03302 OM_YfiO outer membra 21.0 1.9E+02 0.0042 29.8 5.9 59 568-627 173-232 (235)
No 1
>KOG2143 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=6.7e-117 Score=979.74 Aligned_cols=628 Identities=36% Similarity=0.575 Sum_probs=549.5
Q ss_pred ccccccccchhhhcccccccCCCceeEEEeecCCCCCceeEEEEEEEeccCCCCCCchhhh--HHHHHH-----------
Q 037957 204 KVLGYLPKELSEYLSPLMEKYSLSFEGFVISAPKHSLDVVQIKITYHKIESDNENDDDIEV--STCLWK----------- 270 (841)
Q Consensus 204 ~~lGyipr~~a~~la~l~D~g~~~~~g~v~~~~~~~~~~~pi~i~~~~~~s~~~~~~~~~~--~~~~W~----------- 270 (841)
..+||+|+.....+.+.|+......++..+..|+. -.+.+++-|+.+.++...+++.+. --.+|.
T Consensus 116 ~~~~~~pgfs~~a~~~~~pD~sl~nt~ksts~pk~--~kv~~kvvch~~rs~~~~e~e~kgq~~~~~we~~~~~~~~~~s 193 (854)
T KOG2143|consen 116 DIVPEVPGFSGIAKNHEMPDESLDNTEKSTSIPKV--IKVSPKVVCHRRRSSRLLENEQKGQADNANWEDPVKKETATIS 193 (854)
T ss_pred hccccCCCchhhhccCCCCcccccccccccccchh--hhhhHHHHhccccccchhhhhhhccccchhhccccccccccHH
Confidence 68999999999999999999988899998886643 236677778888777632222221 115777
Q ss_pred HHHHHhhhcCCCC----CCcchHHHHHHHHHHHHHhcCC--CCCCHhHHHHHHHHhcCCccchhhheeeccccCceEeec
Q 037957 271 RALHVARSAKGYP----SSMIKYQCNFNLLIQEVLGNSR--HLFKADEIDFLESFSMLSEDSQRLFVRLYMRKGPWFRLS 344 (841)
Q Consensus 271 ~~~~~~~~~~~~~----~~~~YYl~nF~~vL~~V~~~~~--hLL~e~E~~fl~~F~~Ls~~AQ~L~VRL~~RKg~wFR~s 344 (841)
.++++++.....+ ++.+||+.+|..+|.+|++.+. |||+++|+.|++.|.+||.++||||||||+||++|||++
T Consensus 194 ~Vlq~ieh~~q~~~g~~tk~pyYll~f~viLktVL~~e~~~hlFtadEk~f~e~f~~Lsed~q~LfVRLF~RK~~Wfrl~ 273 (854)
T KOG2143|consen 194 EVLQAIEHFEQRVSGPETKWPYYLLIFIVILKTVLSTEKFDHLFTADEKWFYEFFELLSEDAQCLFVRLFIRKPAWFRLE 273 (854)
T ss_pred HHHhhhhhhccccCCCCCCCchHHHHHHHHHHHHHhcCCcccccchhhHHHHHHHHHhccccceeeehhhhccccceeec
Confidence 8999999988887 7889999999999999999887 999999999999999999999999999999999999999
Q ss_pred CCCCCCCC-CHHHHHHHHHhcCCcccCcCcccccccHHHHHhhcCHHHHHHHHHhhhccCCCCchHHHHHHHHhhccC--
Q 037957 345 NISYPEVS-NSREAVRELIDNGYICSSEDTNELHDAIKDICNLLTVSELREISCVLQNCHRGSRKQKVIASLLCFYED-- 421 (841)
Q Consensus 345 kL~Y~EI~-di~~Al~eL~~~g~l~~~~~~~~~~~~~~ell~lLtk~EL~~l~~~~~~~~~~~~K~~Li~~L~~~~~~-- 421 (841)
+|.|+|+. |+.+|+.+|...||+++.+++ .+.+|++++|.++||+.+++.++..+...++..+....+....+
T Consensus 274 kLeype~~~Di~~a~keLt~~gF~~dessl----~~l~E~leils~~ELknvtk~fkl~g~~r~~~s~~~~fl~~~~qrs 349 (854)
T KOG2143|consen 274 KLEYPEPEIDIKEAVKELTKGGFIDDESSL----KTLDEALEILSVVELKNVTKKFKLDGTKRRQESIQSLFLFAQSQRS 349 (854)
T ss_pred cccCccccccHHHHHHHHHhcccccchhhh----hhHHHHHHhhhhHHHHHHHHHhcccCcchhHHHHHHHHHHHHhhhh
Confidence 99999999 999999999999999986531 37889999999999999999999876544555555544433221
Q ss_pred ---C--CCCCh------------HHHHHHhhCceeEecchHHHHHHHHHHhhccc-----CCccchhHHHhhcCceeccc
Q 037957 422 ---G--ICPFL------------PKMILDRTGLCIRVASKAEHLIWRAERLFFLN-----GEQDLSAFLLVDLGIVKYPT 479 (841)
Q Consensus 422 ---~--~~~~~------------~~~il~~~g~cirl~~~~~~L~~Rl~lLFF~n-----~~qdls~fvL~DLG~~~yp~ 479 (841)
+ .++.. .+.+...++.|.++......+++|+.++||.+ .+|+|++++|+++|.++||+
T Consensus 350 icng~~n~~~dg~~ilk~~~~~l~~v~g~~v~lckkp~~i~~~l~~r~~~v~f~~s~~~~gqq~Lss~llv~lg~~~fP~ 429 (854)
T KOG2143|consen 350 ICNGTGNVEKDGLKILKQELGPLVRVRGGFVDLCKKPFTIYCPLTTRSANVIFNPSTTNVGQQLLSSMLLVALGTVQFPA 429 (854)
T ss_pred hhcCCCcccccHHHHhhhhhhHHHHHHhhhccccccHHHHHHHHHHHhhhheecccccccchhHHHHHHHHhcCceecCC
Confidence 1 12222 22234567788888888889999999999997 67899999999999999999
Q ss_pred ccccccccCCCChHHHHHHHHHHHHHHHHHHHhccC--CHHHHHHHHHHHHhhhcccccccccchhhhhccccccccCch
Q 037957 480 YNCIIAEQIFSGLCDLLAYEEAIELAQIMDQSLDEN--NIELVLRCIMIAESRMSSSSCKAVQSITSELANTFHSCFSAS 557 (841)
Q Consensus 480 y~~~~~~~iF~sR~dl~~Y~~A~~l~~~l~~~l~~~--~~~~l~~~~~~a~~r~~~~~~~~~~~~~~~~~~~~l~rF~~~ 557 (841)
|.+++...+|..|.++++|.+|.++++.|..+++++ ++..+..|...++.+.... .-...+++++.|.++|+.+
T Consensus 430 y~~~r~~~iF~nR~~ll~Y~ea~el~~~ivs~m~N~~edaal~lac~~~~eir~~~~----~S~r~~Edl~~f~r~ft~~ 505 (854)
T KOG2143|consen 430 YNPCRIIAIFYNRNMLLDYMEAKELEIAIVSQMSNGNEDAALDLACDAKEEIRQMSD----DSKRYYEDLEIFERKFTSI 505 (854)
T ss_pred CCccchHHhhccHHHHHHHHHHHHHHHHHHHHHhcCCccHHHHHHhHHHHHHhhcCC----chhhhhhhHHHHHHHhhhh
Confidence 999999999999999999999999999999998883 4445556666555554422 1123467778999889999
Q ss_pred HHHHHHHHHHHHHHhhhhchHHHHHHHHHHhcC-----CCCCCccchhHHHHHHhh-hhcCCchHHHHHHHhhhcCcccc
Q 037957 558 WVYSKVVLLGISFLEREQRFNDAINLLRRLLSC-----FTCDSRRGYWTLRLSIDL-EHMGCPSESLSVAEGGLLDSWVR 631 (841)
Q Consensus 558 ~v~~ril~~~~~~LER~k~~~~A~~ll~~Ll~~-----~~~~~rRG~W~~RLal~L-ehl~~~~eAl~l~e~~l~dP~~~ 631 (841)
|||+||+...+.+++|++.|.+|+++++.||+. .||.++||.||+|+++++ +|+|++++++.+|+.||+||+++
T Consensus 506 wV~TRi~~~~veil~r~~~y~raVe~l~~LLst~~~~~~yc~dsRG~WwdR~llnld~hlkrk~e~lk~ie~gL~Dp~vr 585 (854)
T KOG2143|consen 506 WVFTRICGHAVEILERQKKYGRAVEWLKDLLSTNKDIQSYCIDSRGIWWDRMLLNLDSHLKRKKECLKMIEIGLQDPSVR 585 (854)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhccCCCcccchhHhhhhhhHhhhcccchHHHHHHHhccChhhh
Confidence 999999999999999999999999999999984 469999999999988887 79999999999999999999999
Q ss_pred cccHHHHHHHHHHhCCCCCCCCCCCch-hhhhccceEeEEecccccccCCCccccccCCCCc--cCHHHHHHHHHhccCC
Q 037957 632 AGSRVALQRRVLRLGKPPRRWKIPSFS-ESIKRKITEIHVQGRPLNCEIGMKSWFYGEDGEK--CGVEQLALQYYAGEGG 708 (841)
Q Consensus 632 ~~~r~aL~rRl~rL~k~~~r~k~~~~~-~~~~~~~~~~~I~g~~~~~~~g~k~~~~~~~~~~--~sVE~~vl~hY~~~g~ 708 (841)
++++++||||+.||.+.|++++.|.+. .....++++++|+||.+|+..+.|++|++++|+. ||||++|++||..++|
T Consensus 586 ~g~rlsLqrRalRLre~p~~~ktp~l~~nl~~n~i~~vtItgrl~ngr~~~k~vf~~Etgeav~csVEELAlqhY~~~sg 665 (854)
T KOG2143|consen 586 EGERLSLQRRALRLREMPADFKTPILIGNLEKNTITAVTITGRLGNGRINRKMVFDHETGEAVECSVEELALQHYLENSG 665 (854)
T ss_pred hhhHHHHHHHHHHHhcCchhcccchhhhhhhhCCCceEEEeccccCCcccceeEEeecCCccceeeHHHHHHHHHhhccC
Confidence 999999999999999999999888665 6677889999999999999999999999998876 9999999999998888
Q ss_pred CccEEEecchHHHHHHHHHhhhhhccC-CCccccCcccCCCCCCCCcccHHHHHHHHHHHHHHhhccchH---HHHHHHH
Q 037957 709 GWHGVHTESGIWLTIFGLLMWDILFSD-VPDVFRSRFQNAPLDLATDSFYIVRKNLIESQLQKIYDGMAE---EILITSW 784 (841)
Q Consensus 709 ~w~G~H~En~l~~tLFgLLfWDiIF~~-vpgaF~spfQ~~PlDL~t~~Fy~~R~~~Ie~rL~~i~~g~~~---~ll~~~~ 784 (841)
||+|+|.||++|.||||||||||||++ |||||+||||++||||+|++||.+|++.|++||+.|+++.-+ ..|...|
T Consensus 666 fwqGIH~EgStwlTLfgLlfwDIiF~D~VpgVfqs~fQ~aPlDL~TdSFy~sRketie~RLe~i~na~~e~li~~i~yiw 745 (854)
T KOG2143|consen 666 FWQGIHDEGSTWLTLFGLLFWDIIFADDVPGVFQSEFQDAPLDLSTDSFYSSRKETIEDRLEWIENAEQELLIENIRYIW 745 (854)
T ss_pred ccccccCcccHHHHHHHHHHHHHHhccCCchHHhhhhhcCCcccccchhhhhhhHHHHHHHHHHhcchhhHHHHHHHHHH
Confidence 999999999999999999999999987 999999999999999999999999999999999999998443 3356789
Q ss_pred HhhcCcccceeeCCC-CCHHHHHHHHHhhChHHHHHHHHHHHhhhhcCCCCCCCccCC
Q 037957 785 ESHVGTVCRGVNWDR-HSLSELRAAVTCIGGPCLAHLCRHLAQDYGSWSSGMPDLLIW 841 (841)
Q Consensus 785 ~~~~G~~~~~v~W~~-~~~e~L~~i~~clg~~~L~~i~r~L~~Dyr~~rsG~PDLilW 841 (841)
+.++|+.|++|+|++ +++|++.++++||||++|+.|||+|++|||++|||||||+||
T Consensus 746 e~Qrgt~crgvsW~rf~slE~l~~~v~Ciggp~La~icrhLAqDyRnsrsG~PDL~lW 803 (854)
T KOG2143|consen 746 ELQRGTTCRGVSWKRFMSLEDLVSFVQCIGGPALALICRHLAQDYRNSRSGFPDLTLW 803 (854)
T ss_pred HHhcCcchhccchhhhcCHHHHHHHHHhcCccHHHHHHHHHHHHhhhccCCCCceeee
Confidence 999999999999999 699999999999999999999999999999999999999999
No 2
>PF08797 HIRAN: HIRAN domain; InterPro: IPR014905 The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p. HIRAN is found as a standalone protein in several bacteria and prophages, or fused to other catalytic domains, such as a nuclease of the restriction endonuclease fold and TDP1-like DNA phosphoesterases, in the eukaryotes []. It has been predicted that this protein functions as a DNA-binding domain that probably recognises features associated with damaged DNA or stalled replication forks [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides; PDB: 2L1I_A 3K2Y_C.
Probab=99.72 E-value=5.6e-18 Score=157.79 Aligned_cols=93 Identities=38% Similarity=0.718 Sum_probs=73.2
Q ss_pred ceEEEEEeeeeeccCc----ccCCCCeEEEEeCCCCCCCCCceEEEecC------CCccccccccccchhhhcccccccC
Q 037957 155 ATLRTFIVGRRYSDEK----EIKIGAHISLSRDPNNVKDPNAIKVFSAD------SGCCKVLGYLPKELSEYLSPLMEKY 224 (841)
Q Consensus 155 ~~~~~~IvG~~yy~~~----~~~~ge~v~L~REP~N~~D~nAI~V~~~~------g~~~~~lGyipr~~a~~la~l~D~g 224 (841)
|.|.+.|+|++||++. .++.|+.|.|+|||+||||+|||+|.+.. | .+|||||++.|+.|+||||+|
T Consensus 2 G~~~~~v~g~~~~~~~~~~~~l~~g~~v~L~re~~N~~D~nAi~v~~~~~~~~~~~---~~iGylp~~~a~~l~~Lld~~ 78 (107)
T PF08797_consen 2 GSFYFFVAGTRYYDGRAGRGKLKPGDRVVLVREPDNPYDPNAIKVYTIDRFSNSRG---REIGYLPREIAKWLSPLLDSG 78 (107)
T ss_dssp -B--EEEE-CCCSTTHHCCTT--TTSEEEEEEETT-TTHCCCCCEEETT------B---GCCCCCHHHHHHHHHHHCCT-
T ss_pred cEEEEEEEEeecccccccccccCCCCEEEEEEcCCCCCCcccEEEEEeecccccCC---CEEEEecHHHHHHHHHHHhCC
Confidence 8899999999997652 89999999999999999999999999987 6 799999999999999999999
Q ss_pred CCceeEEEeecCCCCCceeEEEEEEEe
Q 037957 225 SLSFEGFVISAPKHSLDVVQIKITYHK 251 (841)
Q Consensus 225 ~~~~~g~v~~~~~~~~~~~pi~i~~~~ 251 (841)
.+.++|.|...+. ....++++|.++.
T Consensus 79 ~~~~~~~v~~~~~-~~~~~~~~i~l~~ 104 (107)
T PF08797_consen 79 GVKFEGTVVFVPD-KRLRIGIEIYLFL 104 (107)
T ss_dssp TEEEEEEEECCCT-TT-----EEEEEE
T ss_pred CcEEEEEEEECCc-cccccCeEEEEEE
Confidence 9999999998775 5788999888875
No 3
>PF08774 VRR_NUC: VRR-NUC domain; InterPro: IPR014883 This entry contains proteins with the VRR-NUC domain. It is associated with members of the PD-(D/E)XK nuclease superfamily, which include the type III restriction modification enzymes, for example StyLTI: (P40815 from SWISSPROT).; GO: 0016788 hydrolase activity, acting on ester bonds
Probab=96.57 E-value=0.0021 Score=59.10 Aligned_cols=50 Identities=28% Similarity=0.525 Sum_probs=42.4
Q ss_pred chHHHHHHHHHhhcCcccceeeCCCCCHHHHHHHHHhhChHHHHHHHHHHHhhhhcCCCCCCCccCC
Q 037957 775 MAEEILITSWESHVGTVCRGVNWDRHSLSELRAAVTCIGGPCLAHLCRHLAQDYGSWSSGMPDLLIW 841 (841)
Q Consensus 775 ~~~~ll~~~~~~~~G~~~~~v~W~~~~~e~L~~i~~clg~~~L~~i~r~L~~Dyr~~rsG~PDLilW 841 (841)
+.+..|.+.+. ++|..++..+|..+ +++..++.+++. ++.++|+|||++|
T Consensus 5 ~iq~~i~~~~~-~~~~~~~~~n~~~~-----------~~~~~~~~~~~~-----~g~~~G~PDl~~~ 54 (100)
T PF08774_consen 5 DIQVAIVRWLR-KHGIVFHVKNWGKF-----------RGPKALAKIKRR-----RGVRSGFPDLILW 54 (100)
T ss_pred HHHHHHHHHHH-HhCCeEEEEeCCcc-----------cCHHHHHHHHHh-----cCCCCCCCcEEEE
Confidence 34556777777 77888899999977 889999999998 8899999999987
No 4
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=85.30 E-value=1.5 Score=36.29 Aligned_cols=58 Identities=24% Similarity=0.137 Sum_probs=42.3
Q ss_pred HHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhh-cCcc
Q 037957 569 SFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGL-LDSW 629 (841)
Q Consensus 569 ~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l-~dP~ 629 (841)
..+-+.|+|++|+..|+.++... +.. ..-|..++..+.++|++++|....++++ .+|.
T Consensus 5 ~~~~~~g~~~~A~~~~~~~l~~~-P~~--~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~ 63 (65)
T PF13432_consen 5 RALYQQGDYDEAIAAFEQALKQD-PDN--PEAWYLLGRILYQQGRYDEALAYYERALELDPD 63 (65)
T ss_dssp HHHHHCTHHHHHHHHHHHHHCCS-TTH--HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred HHHHHcCCHHHHHHHHHHHHHHC-CCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence 56677899999999999998744 221 2224556666789999999999988885 4454
No 5
>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H ....
Probab=82.39 E-value=2 Score=36.75 Aligned_cols=64 Identities=14% Similarity=0.078 Sum_probs=45.0
Q ss_pred HHHHHHHHHHhhhhchHHHHHHHHHHhcC--CCCCCc--cchhHHHHHHhhhhcCCchHHHHHHHhhh
Q 037957 562 KVVLLGISFLEREQRFNDAINLLRRLLSC--FTCDSR--RGYWTLRLSIDLEHMGCPSESLSVAEGGL 625 (841)
Q Consensus 562 ril~~~~~~LER~k~~~~A~~ll~~Ll~~--~~~~~r--RG~W~~RLal~Lehl~~~~eAl~l~e~~l 625 (841)
.+....+.++.+.++|++|+..|+..+.- ...... -+..+..++..+..+|++++|++..++++
T Consensus 6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al 73 (78)
T PF13424_consen 6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL 73 (78)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 34455557888999999999999887752 222211 24556677777788999999999888765
No 6
>PF12688 TPR_5: Tetratrico peptide repeat
Probab=82.21 E-value=3.3 Score=39.82 Aligned_cols=64 Identities=23% Similarity=0.174 Sum_probs=42.0
Q ss_pred HHHHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhhcC-cc
Q 037957 566 LGISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLLD-SW 629 (841)
Q Consensus 566 ~~~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~d-P~ 629 (841)
..+..+.-.|+.++|+.+|+.-+........|-.=+..++..+.++|++++|+.+.++++.+ |.
T Consensus 6 ~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~ 70 (120)
T PF12688_consen 6 ELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPD 70 (120)
T ss_pred HHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC
Confidence 34466777888888888888877632222211112445666677888888888888888765 54
No 7
>PF07498 Rho_N: Rho termination factor, N-terminal domain; InterPro: IPR011112 The Rho termination factor disengages newly transcribed RNA from its DNA template at certain, specific transcripts. It is thought that two copies of Rho bind to RNA and that Rho functions as a hexamer of protomers []. This domain is found to the N terminus of the RNA binding domain (IPR011113 from INTERPRO).; GO: 0006353 transcription termination, DNA-dependent; PDB: 1A8V_B 1PVO_A 1PV4_D 3ICE_A 1XPU_C 1XPO_D 1XPR_F 2A8V_B 2HT1_B 1A63_A ....
Probab=80.60 E-value=2.4 Score=33.29 Aligned_cols=35 Identities=37% Similarity=0.318 Sum_probs=26.3
Q ss_pred HhhcCHHHHHHHHHhhhcc-CCCCchHHHHHHHHhh
Q 037957 384 CNLLTVSELREISCVLQNC-HRGSRKQKVIASLLCF 418 (841)
Q Consensus 384 l~lLtk~EL~~l~~~~~~~-~~~~~K~~Li~~L~~~ 418 (841)
|.-+|..||+++|+++.+. ..+.+|++||..|+..
T Consensus 2 L~~~~~~eL~~iAk~lgI~~~~~~~K~eLI~~Il~~ 37 (43)
T PF07498_consen 2 LKSMTLSELREIAKELGIEGYSKMRKQELIFAILKA 37 (43)
T ss_dssp HHCS-HHHHHHHHHCTT-TTGCCS-HHHHHHHHHHH
T ss_pred cccCCHHHHHHHHHHcCCCCCCcCCHHHHHHHHHHH
Confidence 4567999999999999864 3577899999998864
No 8
>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production. It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.
Probab=78.48 E-value=29 Score=33.43 Aligned_cols=56 Identities=23% Similarity=0.207 Sum_probs=36.5
Q ss_pred HHHHHHHHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHH
Q 037957 562 KVVLLGISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSV 620 (841)
Q Consensus 562 ril~~~~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l 620 (841)
.++...+..+...++++.|+.+++.++...+..++ . |..+...+..+|++.+|+..
T Consensus 63 ~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~-~--~~~lm~~~~~~g~~~~A~~~ 118 (146)
T PF03704_consen 63 DALERLAEALLEAGDYEEALRLLQRALALDPYDEE-A--YRLLMRALAAQGRRAEALRV 118 (146)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HH-H--HHHHHHHHHHTT-HHHHHHH
T ss_pred HHHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHH-H--HHHHHHHHHHCcCHHHHHHH
Confidence 33455667777899999999999999873333322 1 44444456788999988765
No 9
>PF12688 TPR_5: Tetratrico peptide repeat
Probab=77.51 E-value=7.1 Score=37.51 Aligned_cols=66 Identities=24% Similarity=0.331 Sum_probs=47.4
Q ss_pred HHHHHHHHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhhcC
Q 037957 562 KVVLLGISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLLD 627 (841)
Q Consensus 562 ril~~~~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~d 627 (841)
+.+-..+..+-..|++++|+.+++..+...+-..-.+..+.=+++.|.++|++++|+..+..++.+
T Consensus 39 ~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~~gr~~eAl~~~l~~la~ 104 (120)
T PF12688_consen 39 RALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALYNLGRPKEALEWLLEALAE 104 (120)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence 333344578888999999999999887643322222333444567789999999999999888765
No 10
>PF02037 SAP: SAP domain; InterPro: IPR003034 The SAP (after SAF-A/B, Acinus and PIAS) motif is a putative DNA binding domain found in diverse nuclear proteins involved in chromosomal organisation [], including in apoptosis []. In yeast, SAP is found in the most distal N-terminal region of E3 SUMO-protein ligase SIZ1, where it is involved in nuclear localization [].; GO: 0003676 nucleic acid binding; PDB: 2RNN_A 1JEQ_A 2KW9_A 2KVU_A 2DO1_A 1ZBU_B 1ZBH_A 2DO5_A 2RNO_A 1H1J_S ....
Probab=77.15 E-value=2.7 Score=31.51 Aligned_cols=32 Identities=28% Similarity=0.210 Sum_probs=25.7
Q ss_pred hhcCHHHHHHHHHhhhccCCCCchHHHHHHHHh
Q 037957 385 NLLTVSELREISCVLQNCHRGSRKQKVIASLLC 417 (841)
Q Consensus 385 ~lLtk~EL~~l~~~~~~~~~~~~K~~Li~~L~~ 417 (841)
+.++++||++.++....+. +.+|++|++.+..
T Consensus 2 ~~l~v~eLk~~l~~~gL~~-~G~K~~Li~Rl~~ 33 (35)
T PF02037_consen 2 SKLTVAELKEELKERGLST-SGKKAELIERLKE 33 (35)
T ss_dssp TTSHHHHHHHHHHHTTS-S-TSSHHHHHHHHHH
T ss_pred CcCcHHHHHHHHHHCCCCC-CCCHHHHHHHHHH
Confidence 4689999999999987664 4579999998864
No 11
>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A ....
Probab=76.83 E-value=3.5 Score=34.13 Aligned_cols=54 Identities=20% Similarity=0.121 Sum_probs=40.0
Q ss_pred hhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhhcC-cc
Q 037957 573 REQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLLD-SW 629 (841)
Q Consensus 573 R~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~d-P~ 629 (841)
..|+|++|+++|+..+...+-. ...+..++..+-+.|+.++|..+++.++.. |.
T Consensus 3 ~~~~~~~A~~~~~~~l~~~p~~---~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~ 57 (68)
T PF14559_consen 3 KQGDYDEAIELLEKALQRNPDN---PEARLLLAQCYLKQGQYDEAEELLERLLKQDPD 57 (68)
T ss_dssp HTTHHHHHHHHHHHHHHHTTTS---HHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTT
T ss_pred hccCHHHHHHHHHHHHHHCCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence 4689999999999987632222 224566777788999999999999998755 44
No 12
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=75.19 E-value=1.6 Score=30.64 Aligned_cols=14 Identities=36% Similarity=0.427 Sum_probs=11.8
Q ss_pred HHHHHhhhhhHHhh
Q 037957 32 VTLLNELLLDACLA 45 (841)
Q Consensus 32 ~~~~~~~~~~~~~~ 45 (841)
....+|.|||.||.
T Consensus 12 ~~~~in~HLD~CL~ 25 (26)
T smart00734 12 PENLINSHLDSCLX 25 (26)
T ss_pred cHHHHHHHHHHhcc
Confidence 56788999999984
No 13
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=73.22 E-value=11 Score=36.89 Aligned_cols=60 Identities=13% Similarity=0.030 Sum_probs=46.7
Q ss_pred HHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhhc-Cccc
Q 037957 568 ISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLL-DSWV 630 (841)
Q Consensus 568 ~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~-dP~~ 630 (841)
+.++.+.++|++|+..|+..+.-.+.. ..++.+++..+..+|++++|...+++++. +|..
T Consensus 65 g~~~~~~g~~~~A~~~y~~Al~l~p~~---~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~ 125 (144)
T PRK15359 65 AGTWMMLKEYTTAINFYGHALMLDASH---PEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYAD 125 (144)
T ss_pred HHHHHHHhhHHHHHHHHHHHHhcCCCC---cHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence 368888999999999999987632222 34678888888999999999999998875 3443
No 14
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=70.10 E-value=10 Score=31.79 Aligned_cols=56 Identities=21% Similarity=0.186 Sum_probs=41.1
Q ss_pred HHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhhcC
Q 037957 569 SFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLLD 627 (841)
Q Consensus 569 ~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~d 627 (841)
.++-+.++|+.|++.++..+...+.. - . .|.-.+..+.++|++++|...+++++.-
T Consensus 3 ~~~~~~~~~~~A~~~~~~~l~~~p~~-~-~-~~~~~a~~~~~~g~~~~A~~~l~~~l~~ 58 (73)
T PF13371_consen 3 QIYLQQEDYEEALEVLERALELDPDD-P-E-LWLQRARCLFQLGRYEEALEDLERALEL 58 (73)
T ss_pred HHHHhCCCHHHHHHHHHHHHHhCccc-c-h-hhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence 45667899999999999988632221 1 1 2344566678999999999999998743
No 15
>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A ....
Probab=69.59 E-value=7.6 Score=32.23 Aligned_cols=56 Identities=13% Similarity=0.126 Sum_probs=41.0
Q ss_pred HHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcC-CchHHHHHHHhhhc
Q 037957 568 ISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMG-CPSESLSVAEGGLL 626 (841)
Q Consensus 568 ~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~-~~~eAl~l~e~~l~ 626 (841)
+..+-+.++|++|+..|...+... +.. ..-+.+++..+..+| ++++|+..++++++
T Consensus 10 g~~~~~~~~~~~A~~~~~~ai~~~--p~~-~~~~~~~g~~~~~~~~~~~~A~~~~~~al~ 66 (69)
T PF13414_consen 10 GQIYFQQGDYEEAIEYFEKAIELD--PNN-AEAYYNLGLAYMKLGKDYEEAIEDFEKALK 66 (69)
T ss_dssp HHHHHHTTHHHHHHHHHHHHHHHS--TTH-HHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred HHHHHHcCCHHHHHHHHHHHHHcC--CCC-HHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence 356777999999999999887621 222 223566677778888 79999999888763
No 16
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=66.31 E-value=25 Score=39.48 Aligned_cols=66 Identities=12% Similarity=0.090 Sum_probs=40.9
Q ss_pred HHHHHHHhhhhchHHHHHHHHHHhc-C-CCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhh-cCccc
Q 037957 565 LLGISFLEREQRFNDAINLLRRLLS-C-FTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGL-LDSWV 630 (841)
Q Consensus 565 ~~~~~~LER~k~~~~A~~ll~~Ll~-~-~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l-~dP~~ 630 (841)
.....+++..++|+.||+.-+.|.. . ..-.-.=...|..||.-...-.+.+.|..+.++|+ .||.+
T Consensus 145 qqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~c 213 (389)
T COG2956 145 QQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQADKKC 213 (389)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCccc
Confidence 3445688999999999999887754 1 11111112346666654444456677888887776 45554
No 17
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=65.68 E-value=48 Score=32.05 Aligned_cols=57 Identities=18% Similarity=0.090 Sum_probs=41.1
Q ss_pred HHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhh
Q 037957 569 SFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGL 625 (841)
Q Consensus 569 ~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l 625 (841)
..+-..+++++|++.|+..+....-+.-+-.=+.||+..+...|++++|+.+++..-
T Consensus 56 ~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~ 112 (145)
T PF09976_consen 56 KAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQIP 112 (145)
T ss_pred HHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhcc
Confidence 455567999999999999887432221122235667877889999999999997643
No 18
>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF. Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.
Probab=65.24 E-value=25 Score=31.63 Aligned_cols=63 Identities=10% Similarity=0.080 Sum_probs=43.5
Q ss_pred HHHHHhhhhchHHHHHHHHHHhcCCCC-CCccchhHHHHHHhhhhcCCchHHHHHHHhhhcC-ccc
Q 037957 567 GISFLEREQRFNDAINLLRRLLSCFTC-DSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLLD-SWV 630 (841)
Q Consensus 567 ~~~~LER~k~~~~A~~ll~~Ll~~~~~-~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~d-P~~ 630 (841)
.+..+.+.++++.|+..|+.++...+- +.... =+..++..+.++|+.++|....++++.. |..
T Consensus 45 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~-~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~ 109 (119)
T TIGR02795 45 LGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPD-ALLKLGMSLQELGDKEKAKATLQQVIKRYPGS 109 (119)
T ss_pred HHHHHHhhccHHHHHHHHHHHHHHCCCCCcccH-HHHHHHHHHHHhCChHHHHHHHHHHHHHCcCC
Confidence 346788899999999999988752211 11111 1455566678899999999998888754 543
No 19
>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF. Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.
Probab=64.73 E-value=22 Score=31.94 Aligned_cols=65 Identities=9% Similarity=-0.010 Sum_probs=44.0
Q ss_pred HHHHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhhc-Cccc
Q 037957 566 LGISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLL-DSWV 630 (841)
Q Consensus 566 ~~~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~-dP~~ 630 (841)
..+..+.+.++|++|+..|..++...........=+..++..+...|++++|....+.++. +|..
T Consensus 7 ~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~ 72 (119)
T TIGR02795 7 DAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKS 72 (119)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCC
Confidence 3445777799999999999988753221110011133456667888999999999999875 5553
No 20
>PF12949 HeH: HeH/LEM domain; PDB: 2OUT_A.
Probab=64.42 E-value=6.2 Score=29.88 Aligned_cols=30 Identities=23% Similarity=0.225 Sum_probs=19.3
Q ss_pred hcCHHHHHHHHHhhhcc-CCCCchHHHHHHH
Q 037957 386 LLTVSELREISCVLQNC-HRGSRKQKVIASL 415 (841)
Q Consensus 386 lLtk~EL~~l~~~~~~~-~~~~~K~~Li~~L 415 (841)
-||++||+.++.+..+. +++.+|++||+.+
T Consensus 3 sltV~~Lk~iL~~~~I~~ps~AkKaeLv~L~ 33 (35)
T PF12949_consen 3 SLTVAQLKRILDEHGIEFPSNAKKAELVALF 33 (35)
T ss_dssp T--SHHHHHHHHHHT---SSS--SHHHHHH-
T ss_pred cCcHHHHHHHHHHcCCCCCCCCCHHHHHHHH
Confidence 47999999999887743 3568899999865
No 21
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=59.57 E-value=25 Score=34.86 Aligned_cols=60 Identities=12% Similarity=0.027 Sum_probs=44.6
Q ss_pred HHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhhcC
Q 037957 568 ISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLLD 627 (841)
Q Consensus 568 ~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~d 627 (841)
+..+...++|++|+..|+..+.....+...+..+..++..+.++|++++|+..+++++.-
T Consensus 42 g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~ 101 (168)
T CHL00033 42 GMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER 101 (168)
T ss_pred HHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 345666799999999999886532222223345777888889999999999999998864
No 22
>smart00513 SAP Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation.
Probab=59.31 E-value=12 Score=27.77 Aligned_cols=32 Identities=25% Similarity=0.198 Sum_probs=26.0
Q ss_pred hhcCHHHHHHHHHhhhccCCCCchHHHHHHHHh
Q 037957 385 NLLTVSELREISCVLQNCHRGSRKQKVIASLLC 417 (841)
Q Consensus 385 ~lLtk~EL~~l~~~~~~~~~~~~K~~Li~~L~~ 417 (841)
..+|+.||++.++....+. +.+|++|++.+..
T Consensus 2 ~~l~~~~Lk~~l~~~gl~~-~G~K~~Lv~Rl~~ 33 (35)
T smart00513 2 AKLKVSELKDELKKRGLST-SGTKAELVDRLLE 33 (35)
T ss_pred CcCcHHHHHHHHHHcCCCC-CCCHHHHHHHHHH
Confidence 3579999999999988664 4579999998864
No 23
>PRK10941 hypothetical protein; Provisional
Probab=57.64 E-value=53 Score=36.01 Aligned_cols=95 Identities=13% Similarity=-0.061 Sum_probs=66.0
Q ss_pred cccccccCchHHHHHHHHHHHHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhh-c
Q 037957 548 NTFHSCFSASWVYSKVVLLGISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGL-L 626 (841)
Q Consensus 548 ~~~l~rF~~~~v~~ril~~~~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l-~ 626 (841)
+.|+..-+|.-+..|++......+.+.++|+.|+.....++. ..|..-..|++|= +.+.++|++..|+.=.+.-+ .
T Consensus 168 ~~~L~~a~~~~il~Rml~nLK~~~~~~~~~~~AL~~~e~ll~--l~P~dp~e~RDRG-ll~~qL~c~~~A~~DL~~fl~~ 244 (269)
T PRK10941 168 NEDLDEADNIEVIRKLLDTLKAALMEEKQMELALRASEALLQ--FDPEDPYEIRDRG-LIYAQLDCEHVALSDLSYFVEQ 244 (269)
T ss_pred HHHcCCCCHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHH--hCCCCHHHHHHHH-HHHHHcCCcHHHHHHHHHHHHh
Confidence 566777788888999999888899999999999999998875 2233334466763 34689999999987555544 3
Q ss_pred CcccccccHHHHHHHHHHhCC
Q 037957 627 DSWVRAGSRVALQRRVLRLGK 647 (841)
Q Consensus 627 dP~~~~~~r~aL~rRl~rL~k 647 (841)
.|.-. ....++.++..|..
T Consensus 245 ~P~dp--~a~~ik~ql~~l~~ 263 (269)
T PRK10941 245 CPEDP--ISEMIRAQIHSIEQ 263 (269)
T ss_pred CCCch--hHHHHHHHHHHHhh
Confidence 34321 22345566655543
No 24
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=56.73 E-value=1e+02 Score=35.01 Aligned_cols=60 Identities=12% Similarity=-0.042 Sum_probs=45.7
Q ss_pred HHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhh-cCccc
Q 037957 568 ISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGL-LDSWV 630 (841)
Q Consensus 568 ~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l-~dP~~ 630 (841)
+..+.+.++|++|+..++..+...... +.-|.|++..+.++|++++|+..+++++ .+|..
T Consensus 43 a~~~~~~g~~~eAl~~~~~Al~l~P~~---~~a~~~lg~~~~~lg~~~eA~~~~~~al~l~P~~ 103 (356)
T PLN03088 43 AQANIKLGNFTEAVADANKAIELDPSL---AKAYLRKGTACMKLEEYQTAKAALEKGASLAPGD 103 (356)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHhCcCC---HHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCC
Confidence 356777899999999999887632211 2347788888899999999999999887 45554
No 25
>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C
Probab=54.00 E-value=35 Score=27.61 Aligned_cols=55 Identities=15% Similarity=0.124 Sum_probs=38.2
Q ss_pred HHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhhc
Q 037957 569 SFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLL 626 (841)
Q Consensus 569 ~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~ 626 (841)
..+.+.+++++|+.+++..+...... ..++..++..+.+.|+.++|...++.++.
T Consensus 8 ~~~~~~~~~~~A~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~a~~~~~~~~~ 62 (100)
T cd00189 8 NLYYKLGDYDEALEYYEKALELDPDN---ADAYYNLAAAYYKLGKYEEALEDYEKALE 62 (100)
T ss_pred HHHHHHhcHHHHHHHHHHHHhcCCcc---HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45556788999999998876532211 23456666667777888999888887764
No 26
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=53.84 E-value=40 Score=41.88 Aligned_cols=56 Identities=11% Similarity=-0.002 Sum_probs=32.7
Q ss_pred HHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhhc
Q 037957 568 ISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLL 626 (841)
Q Consensus 568 ~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~ 626 (841)
+.+|.|.+++++|+..+++++..-+-.. .-..-+|..|.++|++++|.++-++++.
T Consensus 127 a~~L~~~~~~eeA~~~~~~~l~~~p~~~---~~~~~~a~~l~~~g~~~~A~~~y~~~~~ 182 (694)
T PRK15179 127 LRGVKRQQGIEAGRAEIELYFSGGSSSA---REILLEAKSWDEIGQSEQADACFERLSR 182 (694)
T ss_pred HHHHHHhccHHHHHHHHHHHhhcCCCCH---HHHHHHHHHHHHhcchHHHHHHHHHHHh
Confidence 3566667777777777766665221111 1134455556677777777777776663
No 27
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=53.18 E-value=36 Score=33.95 Aligned_cols=62 Identities=13% Similarity=0.090 Sum_probs=44.8
Q ss_pred HHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhhc-Ccc
Q 037957 568 ISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLL-DSW 629 (841)
Q Consensus 568 ~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~-dP~ 629 (841)
+..+.+.+++++|+..|+..+.....+...+.-+..++..+.++|++++|....++++. +|.
T Consensus 42 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~ 104 (172)
T PRK02603 42 GMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPK 104 (172)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence 35778889999999999988752211111223356677778899999999999988876 444
No 28
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=51.32 E-value=41 Score=36.63 Aligned_cols=64 Identities=6% Similarity=0.046 Sum_probs=49.0
Q ss_pred HHHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhhcC-ccc
Q 037957 567 GISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLLD-SWV 630 (841)
Q Consensus 567 ~~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~d-P~~ 630 (841)
.+..+...|+|+.|+..|+.++...+-..++..=+.+++..+..+|++++|..+.++.+.. |..
T Consensus 186 LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~~~A~~~~~~vi~~yP~s 250 (263)
T PRK10803 186 LGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDTAKAKAVYQQVIKKYPGT 250 (263)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCC
Confidence 3467778999999999999988654444444444566677778899999999999988855 654
No 29
>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD. ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.
Probab=49.50 E-value=63 Score=30.12 Aligned_cols=59 Identities=17% Similarity=0.120 Sum_probs=39.7
Q ss_pred HHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhh-cCccc
Q 037957 569 SFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGL-LDSWV 630 (841)
Q Consensus 569 ~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l-~dP~~ 630 (841)
..+-+.+++++|++.++.++.... . -..+|.+++..+.++|++++|...+++++ .+|..
T Consensus 25 ~~~~~~~~~~~A~~~~~~~~~~~p-~--~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~ 84 (135)
T TIGR02552 25 YNLYQQGRYDEALKLFQLLAAYDP-Y--NSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDD 84 (135)
T ss_pred HHHHHcccHHHHHHHHHHHHHhCC-C--cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCC
Confidence 345567888888888887765221 1 13466777777778888888888777775 34443
No 30
>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD. ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.
Probab=49.15 E-value=96 Score=28.87 Aligned_cols=61 Identities=13% Similarity=0.017 Sum_probs=42.8
Q ss_pred HHHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhhc-Cccc
Q 037957 567 GISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLL-DSWV 630 (841)
Q Consensus 567 ~~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~-dP~~ 630 (841)
.+..+-+.+++++|+.+|+..+... +..-. -+..++..+...|++++|+...++++. +|..
T Consensus 57 la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~--~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~ 118 (135)
T TIGR02552 57 LAACCQMLKEYEEAIDAYALAAALD-PDDPR--PYFHAAECLLALGEPESALKALDLAIEICGEN 118 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcC-CCChH--HHHHHHHHHHHcCCHHHHHHHHHHHHHhcccc
Confidence 3467777899999999999876532 22111 134456667789999999999988875 4543
No 31
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=48.79 E-value=32 Score=42.70 Aligned_cols=57 Identities=16% Similarity=0.068 Sum_probs=44.1
Q ss_pred HHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhhcC
Q 037957 568 ISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLLD 627 (841)
Q Consensus 568 ~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~d 627 (841)
+..|.+.++|++|+++|+.++.+.+-... + +..++..|+.+|+.++|.+..+++++-
T Consensus 161 a~~l~~~g~~~~A~~~y~~~~~~~p~~~~-~--~~~~a~~l~~~G~~~~A~~~~~~a~~~ 217 (694)
T PRK15179 161 AKSWDEIGQSEQADACFERLSRQHPEFEN-G--YVGWAQSLTRRGALWRARDVLQAGLDA 217 (694)
T ss_pred HHHHHHhcchHHHHHHHHHHHhcCCCcHH-H--HHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 36899999999999999999873322122 2 556677789999999999999988654
No 32
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=45.44 E-value=36 Score=42.64 Aligned_cols=58 Identities=12% Similarity=0.115 Sum_probs=45.4
Q ss_pred HHHHHhhhhchHHHHHHHHHHhc-CCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhhcCcc
Q 037957 567 GISFLEREQRFNDAINLLRRLLS-CFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLLDSW 629 (841)
Q Consensus 567 ~~~~LER~k~~~~A~~ll~~Ll~-~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~dP~ 629 (841)
.++.+--+++|++|++.|..-+. .+.+..- +.+|+..++.+|++++|+++++++. +|+
T Consensus 455 ~a~c~~~l~e~e~A~e~y~kvl~~~p~~~D~----Ri~Lasl~~~~g~~EkalEtL~~~~-~~D 513 (895)
T KOG2076|consen 455 LARCYMELGEYEEAIEFYEKVLILAPDNLDA----RITLASLYQQLGNHEKALETLEQII-NPD 513 (895)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHhcCCCchhh----hhhHHHHHHhcCCHHHHHHHHhccc-CCC
Confidence 33555568999999999988776 5666555 3788888899999999999999875 444
No 33
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=45.42 E-value=99 Score=31.30 Aligned_cols=78 Identities=9% Similarity=-0.005 Sum_probs=49.1
Q ss_pred HHHHHHHHHHHhhhhchHHHHHHHHHHhc-CCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhhcCcccccccHHHHH
Q 037957 561 SKVVLLGISFLEREQRFNDAINLLRRLLS-CFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLLDSWVRAGSRVALQ 639 (841)
Q Consensus 561 ~ril~~~~~~LER~k~~~~A~~ll~~Ll~-~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~dP~~~~~~r~aL~ 639 (841)
.-...+|+ .+.+.|+|++|+..|..-+. .+-.+ |- +..++..+-.+|+.++|.+.-+.++.--... .+...|+
T Consensus 70 ~y~~gLG~-~~Q~~g~~~~AI~aY~~A~~L~~ddp--~~--~~~ag~c~L~lG~~~~A~~aF~~Ai~~~~~~-~~~~~l~ 143 (157)
T PRK15363 70 DYWFRLGE-CCQAQKHWGEAIYAYGRAAQIKIDAP--QA--PWAAAECYLACDNVCYAIKALKAVVRICGEV-SEHQILR 143 (157)
T ss_pred HHHHHHHH-HHHHHhhHHHHHHHHHHHHhcCCCCc--hH--HHHHHHHHHHcCCHHHHHHHHHHHHHHhccC-hhHHHHH
Confidence 33445664 78889999999999987765 22222 22 5556666778899988876666554432211 2334677
Q ss_pred HHHHH
Q 037957 640 RRVLR 644 (841)
Q Consensus 640 rRl~r 644 (841)
+|+.+
T Consensus 144 ~~A~~ 148 (157)
T PRK15363 144 QRAEK 148 (157)
T ss_pred HHHHH
Confidence 77765
No 34
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=44.79 E-value=2.2e+02 Score=30.97 Aligned_cols=68 Identities=12% Similarity=0.085 Sum_probs=42.0
Q ss_pred HHHHHHHHHHHHhhh-hchHHHHHHHHHHhcCCCCCCcc----chhHHHHHHhhhhcCCchHHHHHHHhhhcCc
Q 037957 560 YSKVVLLGISFLERE-QRFNDAINLLRRLLSCFTCDSRR----GYWTLRLSIDLEHMGCPSESLSVAEGGLLDS 628 (841)
Q Consensus 560 ~~ril~~~~~~LER~-k~~~~A~~ll~~Ll~~~~~~~rR----G~W~~RLal~Lehl~~~~eAl~l~e~~l~dP 628 (841)
..+++..++.++|.. ++++.|++.|+.=+. .+....+ ..=...++..+-.+|++++|..+.++.....
T Consensus 113 aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~-~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~ 185 (282)
T PF14938_consen 113 AAKCLKELAEIYEEQLGDYEKAIEYYQKAAE-LYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKC 185 (282)
T ss_dssp HHHHHHHHHHHHCCTT--HHHHHHHHHHHHH-HHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTC
T ss_pred HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-HHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHh
Confidence 356777788899998 999999998876543 1111111 1112334444567899999999988876654
No 35
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=44.66 E-value=69 Score=31.23 Aligned_cols=60 Identities=10% Similarity=-0.051 Sum_probs=44.2
Q ss_pred HHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhhc-Cccc
Q 037957 568 ISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLL-DSWV 630 (841)
Q Consensus 568 ~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~-dP~~ 630 (841)
+..+...|++++|+..|+.++...+... .-|..++..+..+|++++|....++++. +|..
T Consensus 31 g~~~~~~g~~~~A~~~~~~al~~~P~~~---~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~ 91 (144)
T PRK15359 31 GYASWQEGDYSRAVIDFSWLVMAQPWSW---RAHIALAGTWMMLKEYTTAINFYGHALMLDASH 91 (144)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHcCCCcH---HHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCC
Confidence 3567778999999999999876322221 1256677778899999999999998874 5543
No 36
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=43.18 E-value=24 Score=30.75 Aligned_cols=48 Identities=15% Similarity=0.209 Sum_probs=23.1
Q ss_pred hchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHh
Q 037957 575 QRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEG 623 (841)
Q Consensus 575 k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~ 623 (841)
++|+.|+.++..++....... ...++..+|..+.++|++++|+.++++
T Consensus 3 ~~y~~Ai~~~~k~~~~~~~~~-~~~~~~~la~~~~~~~~y~~A~~~~~~ 50 (84)
T PF12895_consen 3 GNYENAIKYYEKLLELDPTNP-NSAYLYNLAQCYFQQGKYEEAIELLQK 50 (84)
T ss_dssp T-HHHHHHHHHHHHHHHCGTH-HHHHHHHHHHHHHHTTHHHHHHHHHHC
T ss_pred ccHHHHHHHHHHHHHHCCCCh-hHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence 455666666655554211100 122334455555566666666666655
No 37
>KOG4226 consensus Adaptor protein NCK/Dock, contains SH2 and SH3 domains [Signal transduction mechanisms]
Probab=42.45 E-value=55 Score=35.73 Aligned_cols=45 Identities=24% Similarity=0.386 Sum_probs=36.6
Q ss_pred ccCCCCeEEEEeCCCCCCCCCceEEEecCCCccccccccccchhhhccccc
Q 037957 171 EIKIGAHISLSRDPNNVKDPNAIKVFSADSGCCKVLGYLPKELSEYLSPLM 221 (841)
Q Consensus 171 ~~~~ge~v~L~REP~N~~D~nAI~V~~~~g~~~~~lGyipr~~a~~la~l~ 221 (841)
....||.+.++-.|.| ||.=-+.-|+.| ++|.|||.+..++..-.
T Consensus 209 sFeKGerleivd~Pe~--DPdWwkarn~~G----~vGLVPrNYv~vl~d~~ 253 (379)
T KOG4226|consen 209 SFEKGERLEIVDKPEN--DPDWWKARNARG----QVGLVPRNYVVVLSDGP 253 (379)
T ss_pred ccccCceeEeccCCCC--CchHHhhcccCC----ccceeecceEEEeccCc
Confidence 5778999999999987 666666668888 99999999988776433
No 38
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=40.33 E-value=39 Score=24.90 Aligned_cols=22 Identities=14% Similarity=0.194 Sum_probs=16.9
Q ss_pred HHHHHhhhhchHHHHHHHHHHh
Q 037957 567 GISFLEREQRFNDAINLLRRLL 588 (841)
Q Consensus 567 ~~~~LER~k~~~~A~~ll~~Ll 588 (841)
.+.++.+.++|++|+++|++.|
T Consensus 5 Lg~~~~~~g~~~~Ai~~y~~aL 26 (36)
T PF13176_consen 5 LGRIYRQQGDYEKAIEYYEQAL 26 (36)
T ss_dssp HHHHHHHCT-HHHHHHHHHHHH
T ss_pred HHHHHHHcCCHHHHHHHHHHHH
Confidence 4478888999999999998754
No 39
>TIGR03734 PRTRC_parB PRTRC system ParB family protein. A novel genetic system characterized by six major proteins, included a ParB homolog and a ThiF homolog, is designated PRTRC, or ParB-Related,ThiF-Related Cassette. It is often found on plasmids. This protein family the member related to ParB, and is designated PRTRC system ParB family protein.
Probab=39.61 E-value=26 Score=42.20 Aligned_cols=41 Identities=27% Similarity=0.264 Sum_probs=32.0
Q ss_pred HHHHhhcCHHHHHHHHHhhhcc---------CCCCchHHHHHHHHhhccC
Q 037957 381 KDICNLLTVSELREISCVLQNC---------HRGSRKQKVIASLLCFYED 421 (841)
Q Consensus 381 ~ell~lLtk~EL~~l~~~~~~~---------~~~~~K~~Li~~L~~~~~~ 421 (841)
++.|++|||+|+..++++.... -.+.+|.|+|.+|++...+
T Consensus 493 ~~~l~~lTk~e~~~~~~e~G~~~~~g~~f~k~~~gkk~e~ik~ll~~~~f 542 (554)
T TIGR03734 493 KEFLELLTKSEIDALADEIGLKAAMGKEFKKLRAGKKGDFIKALLAVPGF 542 (554)
T ss_pred HHHHHHhhHHHHHHHHHHhCHHHHhhhHHHHHHcCCcHHHHHHHhcCCCc
Confidence 4789999999999999886521 1256899999999986543
No 40
>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional
Probab=38.70 E-value=57 Score=38.30 Aligned_cols=62 Identities=18% Similarity=0.112 Sum_probs=43.2
Q ss_pred HHHHHHHHhhhhchHHHHHHHHHHhcC-CCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhhcC
Q 037957 564 VLLGISFLEREQRFNDAINLLRRLLSC-FTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLLD 627 (841)
Q Consensus 564 l~~~~~~LER~k~~~~A~~ll~~Ll~~-~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~d 627 (841)
.++|. .|-+.++|++|+..|+.-|.- +....-+-.||.+ +..+.++|+.++|++..++++..
T Consensus 79 ~NLG~-AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNL-Acaya~LGr~dEAla~LrrALel 141 (453)
T PLN03098 79 VNLGL-SLFSKGRVKDALAQFETALELNPNPDEAQAAYYNK-ACCHAYREEGKKAADCLRTALRD 141 (453)
T ss_pred HHHHH-HHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHH-HHHHHHcCCHHHHHHHHHHHHHh
Confidence 35554 667789999999999886652 2211111236665 44578999999999998888763
No 41
>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C
Probab=37.88 E-value=1.1e+02 Score=24.47 Aligned_cols=57 Identities=14% Similarity=0.091 Sum_probs=38.5
Q ss_pred HHHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhhc
Q 037957 567 GISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLL 626 (841)
Q Consensus 567 ~~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~ 626 (841)
.+..+-+.++++.|+..++..+...... ...+..++..+...|+.++|....++++.
T Consensus 40 ~~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~a~~~~~~~~~ 96 (100)
T cd00189 40 LAAAYYKLGKYEEALEDYEKALELDPDN---AKAYYNLGLAYYKLGKYEEALEAYEKALE 96 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCcc---hhHHHHHHHHHHHHHhHHHHHHHHHHHHc
Confidence 3456666799999999999876532211 12355666666677888888887776653
No 42
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=37.33 E-value=34 Score=29.75 Aligned_cols=53 Identities=21% Similarity=0.294 Sum_probs=34.6
Q ss_pred HHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhh
Q 037957 568 ISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGG 624 (841)
Q Consensus 568 ~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~ 624 (841)
+..+=+.++|++|+.+++. +. ..... ....+. ++..+..+|++++|+.+.+++
T Consensus 32 a~~~~~~~~y~~A~~~~~~-~~-~~~~~-~~~~~l-~a~~~~~l~~y~eAi~~l~~~ 84 (84)
T PF12895_consen 32 AQCYFQQGKYEEAIELLQK-LK-LDPSN-PDIHYL-LARCLLKLGKYEEAIKALEKA 84 (84)
T ss_dssp HHHHHHTTHHHHHHHHHHC-HT-HHHCH-HHHHHH-HHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHCCCHHHHHHHHHH-hC-CCCCC-HHHHHH-HHHHHHHhCCHHHHHHHHhcC
Confidence 4677779999999999976 22 11111 111222 266788999999999988754
No 43
>smart00299 CLH Clathrin heavy chain repeat homology.
Probab=34.30 E-value=92 Score=29.75 Aligned_cols=48 Identities=15% Similarity=0.240 Sum_probs=32.9
Q ss_pred HHHHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHh
Q 037957 566 LGISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEG 623 (841)
Q Consensus 566 ~~~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~ 623 (841)
++++.+++.+.|++|+.+|... |.|..=+.+.++++++++.|.+.|.+
T Consensus 74 ~~~~~c~~~~l~~~~~~l~~k~----------~~~~~Al~~~l~~~~d~~~a~~~~~~ 121 (140)
T smart00299 74 KVGKLCEKAKLYEEAVELYKKD----------GNFKDAIVTLIEHLGNYEKAIEYFVK 121 (140)
T ss_pred HHHHHHHHcCcHHHHHHHHHhh----------cCHHHHHHHHHHcccCHHHHHHHHHh
Confidence 3556777788888888888764 33444344445677888888888776
No 44
>KOG3785 consensus Uncharacterized conserved protein [Function unknown]
Probab=34.05 E-value=42 Score=38.16 Aligned_cols=55 Identities=16% Similarity=0.111 Sum_probs=45.3
Q ss_pred hhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhhcCccc
Q 037957 573 REQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLLDSWV 630 (841)
Q Consensus 573 R~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~dP~~ 630 (841)
++++|++|+..|..+..+..|+++ -++-||.....+|.+.+|-++++++-..|..
T Consensus 69 hLgdY~~Al~~Y~~~~~~~~~~~e---l~vnLAcc~FyLg~Y~eA~~~~~ka~k~pL~ 123 (557)
T KOG3785|consen 69 HLGDYEEALNVYTFLMNKDDAPAE---LGVNLACCKFYLGQYIEAKSIAEKAPKTPLC 123 (557)
T ss_pred hhccHHHHHHHHHHHhccCCCCcc---cchhHHHHHHHHHHHHHHHHHHhhCCCChHH
Confidence 478999999999988877777755 4788888888899999999998887666643
No 45
>cd08819 CARD_MDA5_2 Caspase activation and recruitment domain found in MDA5, second repeat. Caspase activation and recruitment domain (CARD) found in MDA5 (melanoma-differentiation-associated gene 5), second repeat. MDA5, also known as IFIH1, contains two N-terminal CARD domains and a C-terminal RNA helicase domain. MDA5 is a cytoplasmic DEAD box RNA helicase that plays an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. Although very similar in sequence, MDA5 recognizes different sets of viruses compared to RIG-I, a related RNA helicase. MDA5 associates with IPS-1 through a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protei
Probab=33.17 E-value=30 Score=31.60 Aligned_cols=37 Identities=19% Similarity=0.392 Sum_probs=32.9
Q ss_pred CCCCCHhHHHHHHH---HhcCCccchhhheeeccccCceEe
Q 037957 305 RHLFKADEIDFLES---FSMLSEDSQRLFVRLYMRKGPWFR 342 (841)
Q Consensus 305 ~hLL~e~E~~fl~~---F~~Ls~~AQ~L~VRL~~RKg~wFR 342 (841)
..+|+++.++-|++ =.+-...++.|+.||- |+..||.
T Consensus 31 ~~ilT~~d~e~I~aa~~~~g~~~~ar~LL~~L~-rg~~aF~ 70 (88)
T cd08819 31 QGLLTEEDRNRIEAATENHGNESGARELLKRIV-QKEGWFS 70 (88)
T ss_pred cCCCCHHHHHHHHHhccccCcHHHHHHHHHHhc-cCCcHHH
Confidence 46999999999999 5677889999999999 9999985
No 46
>PF07653 SH3_2: Variant SH3 domain; InterPro: IPR011511 SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues [, ]. They are found in a great variety of intracellular or membrane-associated proteins [, , ] for example, in a variety of proteins with enzymatic activity, in adaptor proteins that lack catalytic sequences and in cytoskeletal proteins, such as fodrin and yeast actin binding protein ABP-1. The SH3 domain has a characteristic fold which consists of five or six beta-strands arranged as two tightly packed anti-parallel beta sheets. The linker regions may contain short helices []. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes []. This entry represents a variant of the SH3 domain.; PDB: 1I1J_B 1K0X_A 1HJD_A 2KEA_A 1KJW_A 1JXM_A 1JXO_B 2EBP_A 2DL3_A 2EYX_A ....
Probab=32.63 E-value=34 Score=27.71 Aligned_cols=37 Identities=16% Similarity=0.194 Sum_probs=25.9
Q ss_pred ccCCCCeEEEEeCCCCCCCCCceEEEecCCCccccccccccchhh
Q 037957 171 EIKIGAHISLSRDPNNVKDPNAIKVFSADSGCCKVLGYLPKELSE 215 (841)
Q Consensus 171 ~~~~ge~v~L~REP~N~~D~nAI~V~~~~g~~~~~lGyipr~~a~ 215 (841)
.++.||.|.+.++.++. +=..+.+ +| +.|++|+...+
T Consensus 17 s~~~Gd~i~v~~~~~~~---~ww~~~~-~g----~~G~~P~~~v~ 53 (55)
T PF07653_consen 17 SFKKGDVIEVLGEKDDD---GWWLGEN-NG----RRGWFPSSYVE 53 (55)
T ss_dssp EB-TTEEEEEEEEECST---SEEEEEE-TT----EEEEEEGGGEE
T ss_pred EEecCCEEEEEEeecCC---CEEEEEE-CC----cEEEEcHHHEE
Confidence 68899999999333332 4477766 55 88999998654
No 47
>PRK14537 50S ribosomal protein L20/unknown domain fusion protein; Provisional
Probab=32.31 E-value=42 Score=35.62 Aligned_cols=36 Identities=14% Similarity=0.142 Sum_probs=29.6
Q ss_pred HhhcCHHHHHHHHHhhhccC-CCCchHHHHHHHHhhc
Q 037957 384 CNLLTVSELREISCVLQNCH-RGSRKQKVIASLLCFY 419 (841)
Q Consensus 384 l~lLtk~EL~~l~~~~~~~~-~~~~K~~Li~~L~~~~ 419 (841)
++-+-++||++|+++..+.+ ...+|.+||++|.++.
T Consensus 191 l~~m~~~elk~lak~~~i~~~~~~kk~e~i~al~~~~ 227 (230)
T PRK14537 191 LSKMLLKELKKLAKEHKIPNFNKLKKTEIIKALKKAL 227 (230)
T ss_pred HHHhhHHHHHHHHHHhCCcchhhhhHHHHHHHHHHHH
Confidence 56678999999999988544 5688999999998654
No 48
>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala. N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].
Probab=31.47 E-value=1e+02 Score=37.09 Aligned_cols=58 Identities=10% Similarity=0.112 Sum_probs=45.5
Q ss_pred HHHHHHHHHhhhhchHHHHHHHHHHhc-CCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhh
Q 037957 563 VVLLGISFLEREQRFNDAINLLRRLLS-CFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGG 624 (841)
Q Consensus 563 il~~~~~~LER~k~~~~A~~ll~~Ll~-~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~ 624 (841)
++...++++.+.|+|+.|++....-+. .+...+ -|.-.|.+|.|.|+..+|.+..+.|
T Consensus 196 ~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt~~e----ly~~KarilKh~G~~~~Aa~~~~~A 254 (517)
T PF12569_consen 196 TLYFLAQHYDYLGDYEKALEYIDKAIEHTPTLVE----LYMTKARILKHAGDLKEAAEAMDEA 254 (517)
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCcHH----HHHHHHHHHHHCCCHHHHHHHHHHH
Confidence 335567899999999999999987766 444433 3777777899999999999887766
No 49
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=31.30 E-value=1.4e+02 Score=33.90 Aligned_cols=64 Identities=13% Similarity=0.049 Sum_probs=43.7
Q ss_pred HHHHHHHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhh-cCccc
Q 037957 563 VVLLGISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGL-LDSWV 630 (841)
Q Consensus 563 il~~~~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l-~dP~~ 630 (841)
+...| ..+-+.++|+.|++.|+..+....-. -.. |.-++..+.++|++++|+..+++++ .+|..
T Consensus 5 l~~~a-~~a~~~~~~~~Ai~~~~~Al~~~P~~--~~a-~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~ 69 (356)
T PLN03088 5 LEDKA-KEAFVDDDFALAVDLYTQAIDLDPNN--AEL-YADRAQANIKLGNFTEAVADANKAIELDPSL 69 (356)
T ss_pred HHHHH-HHHHHcCCHHHHHHHHHHHHHhCCCC--HHH-HHHHHHHHHHcCCHHHHHHHHHHHHHhCcCC
Confidence 33444 34455799999999999988632211 122 4445566788999999999999886 45654
No 50
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=31.25 E-value=51 Score=22.84 Aligned_cols=22 Identities=18% Similarity=0.403 Sum_probs=17.9
Q ss_pred HHHHhhhhchHHHHHHHHHHhc
Q 037957 568 ISFLEREQRFNDAINLLRRLLS 589 (841)
Q Consensus 568 ~~~LER~k~~~~A~~ll~~Ll~ 589 (841)
+..+.+.|++++|++.|+.++.
T Consensus 7 a~~~~~~g~~~~A~~~~~~~~~ 28 (33)
T PF13174_consen 7 ARCYYKLGDYDEAIEYFQRLIK 28 (33)
T ss_dssp HHHHHHHCHHHHHHHHHHHHHH
T ss_pred HHHHHHccCHHHHHHHHHHHHH
Confidence 3566778999999999998875
No 51
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=30.66 E-value=1.2e+02 Score=29.87 Aligned_cols=59 Identities=15% Similarity=0.120 Sum_probs=41.2
Q ss_pred HHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhhcCcc
Q 037957 568 ISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLLDSW 629 (841)
Q Consensus 568 ~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~dP~ 629 (841)
+..+.+.++++.|++.|+..+...... +.-+..++..+...|++++|....++++..+.
T Consensus 72 a~~~~~~~~~~~A~~~~~~al~~~~~~---~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~ 130 (234)
T TIGR02521 72 ALYYQQLGELEKAEDSFRRALTLNPNN---GDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPL 130 (234)
T ss_pred HHHHHHcCCHHHHHHHHHHHHhhCCCC---HHHHHHHHHHHHHcccHHHHHHHHHHHHhccc
Confidence 456777889999999998776522111 12345556566788999999999988887653
No 52
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=30.15 E-value=1.9e+02 Score=32.12 Aligned_cols=63 Identities=16% Similarity=0.120 Sum_probs=42.7
Q ss_pred HHHHHhhhhchHHHHHHHHHHhcCCCCCCc--cchhHHHHHHhhhhcCCchHHHHHHHhhhc-Ccc
Q 037957 567 GISFLEREQRFNDAINLLRRLLSCFTCDSR--RGYWTLRLSIDLEHMGCPSESLSVAEGGLL-DSW 629 (841)
Q Consensus 567 ~~~~LER~k~~~~A~~ll~~Ll~~~~~~~r--RG~W~~RLal~Lehl~~~~eAl~l~e~~l~-dP~ 629 (841)
.+.++.+.+++++|++.++.++........ .+..+..++..+...|+.++|...+++++. +|.
T Consensus 147 la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~ 212 (389)
T PRK11788 147 LLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAADPQ 212 (389)
T ss_pred HHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcC
Confidence 346777889999999999988753221111 222344556556678999999999998875 454
No 53
>COG4803 Predicted membrane protein [Function unknown]
Probab=29.58 E-value=24 Score=35.22 Aligned_cols=46 Identities=17% Similarity=0.302 Sum_probs=28.4
Q ss_pred chHHHHHHHHHhhhhhccCCCccccCcccCCCCCCC-CcccHHHHHH
Q 037957 717 SGIWLTIFGLLMWDILFSDVPDVFRSRFQNAPLDLA-TDSFYIVRKN 762 (841)
Q Consensus 717 n~l~~tLFgLLfWDiIF~~vpgaF~spfQ~~PlDL~-t~~Fy~~R~~ 762 (841)
|++|-+|+||+||.-++.-.-||=.-..-.+=.|.. .|+|...-.+
T Consensus 65 GafWG~LiGllFl~Pl~G~avGAa~GAl~g~l~DvGIdDdFik~l~~ 111 (170)
T COG4803 65 GAFWGMLIGLLFLNPLLGMAVGAASGALSGSLTDVGIDDDFIKELGE 111 (170)
T ss_pred ccHHHHHHHHHHHhHHHHHHHHHhhhhhccceeecCcCHHHHHHHHh
Confidence 999999999999999875322222111222235665 6777654443
No 54
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=29.25 E-value=93 Score=35.64 Aligned_cols=56 Identities=20% Similarity=0.200 Sum_probs=43.5
Q ss_pred HHHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhhc
Q 037957 567 GISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLL 626 (841)
Q Consensus 567 ~~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~ 626 (841)
.++++-+.++|++|.+.|+..+...+.. ..+..++..++++|++++|.++-.+++.
T Consensus 334 lgrl~~~~~~~~~A~~~le~al~~~P~~----~~~~~La~~~~~~g~~~~A~~~~~~~l~ 389 (398)
T PRK10747 334 LGQLLMKHGEWQEASLAFRAALKQRPDA----YDYAWLADALDRLHKPEEAAAMRRDGLM 389 (398)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHhcCCCH----HHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 3477888999999999999988643222 1256778778999999999988887754
No 55
>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO. Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).
Probab=29.17 E-value=1.3e+02 Score=31.03 Aligned_cols=66 Identities=14% Similarity=0.048 Sum_probs=44.9
Q ss_pred HHHHHHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhhc-Cccc
Q 037957 564 VLLGISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLL-DSWV 630 (841)
Q Consensus 564 l~~~~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~-dP~~ 630 (841)
+.+| ..+-+.++|+.|+..|+.++...+........+..++..+..+|++++|....++++. +|..
T Consensus 37 ~~~g-~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~ 103 (235)
T TIGR03302 37 YEEA-KEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNH 103 (235)
T ss_pred HHHH-HHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCC
Confidence 3444 4566689999999999988763221111111245566667889999999999999875 4543
No 56
>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....
Probab=28.92 E-value=64 Score=22.53 Aligned_cols=26 Identities=19% Similarity=0.102 Sum_probs=14.0
Q ss_pred hHHHHHHhhhhcCCchHHHHHHHhhh
Q 037957 600 WTLRLSIDLEHMGCPSESLSVAEGGL 625 (841)
Q Consensus 600 W~~RLal~Lehl~~~~eAl~l~e~~l 625 (841)
+|..++..+.++|+.++|...+++++
T Consensus 3 ~~~~lg~~~~~~~~~~~A~~~~~~al 28 (34)
T PF07719_consen 3 AWYYLGQAYYQLGNYEEAIEYFEKAL 28 (34)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence 34445555556666666666665554
No 57
>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi. They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].
Probab=28.40 E-value=97 Score=35.93 Aligned_cols=60 Identities=12% Similarity=0.144 Sum_probs=45.0
Q ss_pred HHHHHHHHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhh
Q 037957 562 KVVLLGISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGG 624 (841)
Q Consensus 562 ril~~~~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~ 624 (841)
-++..-+++|-+.++|+.|+.+.+..... .|... .. |..||..+-++|++++|+.++..+
T Consensus 235 ~LL~~Qa~fLl~k~~~~lAL~iAk~av~l-sP~~f-~~-W~~La~~Yi~~~d~e~ALlaLNs~ 294 (395)
T PF09295_consen 235 ELLNLQAEFLLSKKKYELALEIAKKAVEL-SPSEF-ET-WYQLAECYIQLGDFENALLALNSC 294 (395)
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHHHh-CchhH-HH-HHHHHHHHHhcCCHHHHHHHHhcC
Confidence 35555668888899999999999987642 22222 23 556998888999999999887754
No 58
>KOG3060 consensus Uncharacterized conserved protein [Function unknown]
Probab=27.58 E-value=2.5e+02 Score=30.88 Aligned_cols=59 Identities=22% Similarity=0.180 Sum_probs=39.0
Q ss_pred HHHHHHHHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHh
Q 037957 562 KVVLLGISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEG 623 (841)
Q Consensus 562 ril~~~~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~ 623 (841)
|+..+-+-.||-.+.|++|+++|..+|+..+-.- .-|.|....+..+|+.-+|+.-+.+
T Consensus 87 RV~~lkam~lEa~~~~~~A~e~y~~lL~ddpt~~---v~~KRKlAilka~GK~l~aIk~ln~ 145 (289)
T KOG3060|consen 87 RVGKLKAMLLEATGNYKEAIEYYESLLEDDPTDT---VIRKRKLAILKAQGKNLEAIKELNE 145 (289)
T ss_pred hHHHHHHHHHHHhhchhhHHHHHHHHhccCcchh---HHHHHHHHHHHHcCCcHHHHHHHHH
Confidence 5665555689999999999999999998432110 1134544446778888777654443
No 59
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=27.49 E-value=31 Score=37.87 Aligned_cols=10 Identities=40% Similarity=0.654 Sum_probs=8.3
Q ss_pred HhhhhhHHhh
Q 037957 36 NELLLDACLA 45 (841)
Q Consensus 36 ~~~~~~~~~~ 45 (841)
+|+|||.||+
T Consensus 175 i~~HLD~CL~ 184 (391)
T COG5432 175 INQHLDSCLN 184 (391)
T ss_pred HHHHHHHHhc
Confidence 4799999995
No 60
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=27.11 E-value=3.3e+02 Score=26.67 Aligned_cols=59 Identities=8% Similarity=-0.009 Sum_probs=38.7
Q ss_pred HHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhhcC
Q 037957 568 ISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLLD 627 (841)
Q Consensus 568 ~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~d 627 (841)
+..+...+++++|+..++..+.....+. ....+..++..+...|++++|...+++++..
T Consensus 106 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~ 164 (234)
T TIGR02521 106 GTFLCQQGKYEQAMQQFEQAIEDPLYPQ-PARSLENAGLCALKAGDFDKAEKYLTRALQI 164 (234)
T ss_pred HHHHHHcccHHHHHHHHHHHHhcccccc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 3456677889999988888765321111 1223444565667788888888888887753
No 61
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=26.15 E-value=54 Score=35.16 Aligned_cols=50 Identities=24% Similarity=0.357 Sum_probs=13.7
Q ss_pred HHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHH
Q 037957 570 FLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAE 622 (841)
Q Consensus 570 ~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e 622 (841)
.+.+.+++++|+.+|+..+...+-. -.|..-+|-.|+..|+.++|..+-.
T Consensus 223 ~~~~lg~~~~Al~~~~~~~~~~p~d---~~~~~~~a~~l~~~g~~~~A~~~~~ 272 (280)
T PF13429_consen 223 AYLQLGRYEEALEYLEKALKLNPDD---PLWLLAYADALEQAGRKDEALRLRR 272 (280)
T ss_dssp HHHHHT-HHHHHHHHHHHHHHSTT----HHHHHHHHHHHT-------------
T ss_pred Hhccccccccccccccccccccccc---ccccccccccccccccccccccccc
Confidence 3334445555555555443211100 1233334444444555555544433
No 62
>PRK11189 lipoprotein NlpI; Provisional
Probab=26.11 E-value=1.4e+02 Score=32.67 Aligned_cols=60 Identities=17% Similarity=-0.004 Sum_probs=43.7
Q ss_pred HHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhhc-Cccc
Q 037957 568 ISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLL-DSWV 630 (841)
Q Consensus 568 ~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~-dP~~ 630 (841)
+..+.+.++++.|++.|+..+.-. +.. ...|..++..+...|++++|++.+++++. +|..
T Consensus 105 g~~~~~~g~~~~A~~~~~~Al~l~-P~~--~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P~~ 165 (296)
T PRK11189 105 GIYLTQAGNFDAAYEAFDSVLELD-PTY--NYAYLNRGIALYYGGRYELAQDDLLAFYQDDPND 165 (296)
T ss_pred HHHHHHCCCHHHHHHHHHHHHHhC-CCC--HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence 357888999999999999887522 211 12345566677889999999999998875 4543
No 63
>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70).
Probab=26.00 E-value=1.9e+02 Score=34.99 Aligned_cols=62 Identities=21% Similarity=0.221 Sum_probs=42.9
Q ss_pred HHHHHHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhh-cCccc
Q 037957 564 VLLGISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGL-LDSWV 630 (841)
Q Consensus 564 l~~~~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l-~dP~~ 630 (841)
..+| ..+-+.++|++|+..|...+...+ . . ..|..++..+..+|++++|+..|++++ .+|..
T Consensus 131 k~~G-~~~~~~~~~~~Ai~~y~~al~~~p-~--~-~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p~~ 193 (615)
T TIGR00990 131 KEKG-NKAYRNKDFNKAIKLYSKAIECKP-D--P-VYYSNRAACHNALGDWEKVVEDTTAALELDPDY 193 (615)
T ss_pred HHHH-HHHHHcCCHHHHHHHHHHHHhcCC-c--h-HHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCC
Confidence 3445 455668899999999988775221 1 1 245666667778899999999888887 44554
No 64
>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=25.36 E-value=2.3e+02 Score=36.64 Aligned_cols=114 Identities=17% Similarity=0.190 Sum_probs=63.8
Q ss_pred HHHHHHHHHH---HHHHHHHHHhccCCHHHHHHHHHHHHhhhcccccccccchhhhhccc--------cccccCchHHHH
Q 037957 493 CDLLAYEEAI---ELAQIMDQSLDENNIELVLRCIMIAESRMSSSSCKAVQSITSELANT--------FHSCFSASWVYS 561 (841)
Q Consensus 493 ~dl~~Y~~A~---~l~~~l~~~l~~~~~~~l~~~~~~a~~r~~~~~~~~~~~~~~~~~~~--------~l~rF~~~~v~~ 561 (841)
+.+++|.+|- ...+.++.+-+.+.++++.+.+..|...+.. +..+ .+.+.. -+..|-.|.--.
T Consensus 1122 dAieSyikadDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E---~~id---~eLi~AyAkt~rl~elE~fi~gpN~A 1195 (1666)
T KOG0985|consen 1122 DAIESYIKADDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVRE---PYID---SELIFAYAKTNRLTELEEFIAGPNVA 1195 (1666)
T ss_pred HHHHHHHhcCCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcC---ccch---HHHHHHHHHhchHHHHHHHhcCCCch
Confidence 4455666652 3333444555567777777766544332221 1111 010000 011222232223
Q ss_pred HHHHHHHHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhh
Q 037957 562 KVVLLGISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGG 624 (841)
Q Consensus 562 ril~~~~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~ 624 (841)
.+-+.|-+.+| .|.|+.|--+|....+ |.|||.-|-|+|.+..|.+.+.+|
T Consensus 1196 ~i~~vGdrcf~-~~~y~aAkl~y~~vSN-----------~a~La~TLV~LgeyQ~AVD~aRKA 1246 (1666)
T KOG0985|consen 1196 NIQQVGDRCFE-EKMYEAAKLLYSNVSN-----------FAKLASTLVYLGEYQGAVDAARKA 1246 (1666)
T ss_pred hHHHHhHHHhh-hhhhHHHHHHHHHhhh-----------HHHHHHHHHHHHHHHHHHHHhhhc
Confidence 33344544455 7889999888886533 899999899999999998877765
No 65
>PF14603 hSH3: Helically-extended SH3 domain; PDB: 1RI9_A.
Probab=25.10 E-value=65 Score=29.46 Aligned_cols=36 Identities=17% Similarity=0.256 Sum_probs=26.5
Q ss_pred ccCCCCeEEEEeCCCCCCCCCceEEEecCCCccccccccccchh
Q 037957 171 EIKIGAHISLSRDPNNVKDPNAIKVFSADSGCCKVLGYLPKELS 214 (841)
Q Consensus 171 ~~~~ge~v~L~REP~N~~D~nAI~V~~~~g~~~~~lGyipr~~a 214 (841)
-+++||.|.++...+ .|.+-.-|..| +-||||++.-
T Consensus 34 pi~~GE~LeVI~~t~----~~kvlCRN~~G----KYGYV~~~~L 69 (89)
T PF14603_consen 34 PIKPGEILEVIQFTD----DNKVLCRNSEG----KYGYVLRSHL 69 (89)
T ss_dssp ---TT-B-EEEEESS----SSEEEEEETTT----EEEEEEGGGS
T ss_pred CcCCCCEEEEEEeCC----CCeEEEeCCCC----ceeEEEHHHc
Confidence 588999999999654 78888889998 9999998754
No 66
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=24.70 E-value=2.3e+02 Score=35.56 Aligned_cols=66 Identities=12% Similarity=0.023 Sum_probs=47.0
Q ss_pred HHHHHHHHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhhc-Cccc
Q 037957 562 KVVLLGISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLL-DSWV 630 (841)
Q Consensus 562 ril~~~~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~-dP~~ 630 (841)
......+.++.+.+++++|++.++.++... |. .-+ -+..++..+...|++++|++.+++++. +|..
T Consensus 360 ~a~~~~a~~l~~~g~~~eA~~~l~~al~~~-P~-n~~-l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~ 426 (765)
T PRK10049 360 QGQSLLSQVAKYSNDLPQAEMRARELAYNA-PG-NQG-LRIDYASVLQARGWPRAAENELKKAEVLEPRN 426 (765)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CC-CHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCC
Confidence 344455578888999999999999887532 22 112 245556667788999999999998875 5765
No 67
>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....
Probab=23.70 E-value=85 Score=22.17 Aligned_cols=25 Identities=20% Similarity=0.150 Sum_probs=16.2
Q ss_pred HHHHHHhhhhcCCchHHHHHHHhhh
Q 037957 601 TLRLSIDLEHMGCPSESLSVAEGGL 625 (841)
Q Consensus 601 ~~RLal~Lehl~~~~eAl~l~e~~l 625 (841)
|.+++..+.++|++++|+..+++++
T Consensus 4 ~~~~g~~~~~~~~~~~A~~~~~~al 28 (34)
T PF00515_consen 4 YYNLGNAYFQLGDYEEALEYYQRAL 28 (34)
T ss_dssp HHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHhCCchHHHHHHHHHH
Confidence 3445555667788888888777775
No 68
>PF12862 Apc5: Anaphase-promoting complex subunit 5
Probab=23.26 E-value=1.3e+02 Score=27.22 Aligned_cols=55 Identities=20% Similarity=0.274 Sum_probs=33.2
Q ss_pred hhhchHHHHHHHHHHhc-CCCCCCcc---chhH--HHHHHhhhhcCCchHHHHHHHhhhcC
Q 037957 573 REQRFNDAINLLRRLLS-CFTCDSRR---GYWT--LRLSIDLEHMGCPSESLSVAEGGLLD 627 (841)
Q Consensus 573 R~k~~~~A~~ll~~Ll~-~~~~~~rR---G~W~--~RLal~Lehl~~~~eAl~l~e~~l~d 627 (841)
|.++|..|++-+....+ ........ +.=+ ..+|.....+|++++|+..+++++.=
T Consensus 10 ~~~dy~~A~d~L~~~fD~~~~~~~~~~~~~~~~all~lA~~~~~~G~~~~A~~~l~eAi~~ 70 (94)
T PF12862_consen 10 RSGDYSEALDALHRYFDYAKQSNNSSSNSGLAYALLNLAELHRRFGHYEEALQALEEAIRL 70 (94)
T ss_pred HcCCHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence 46889999888887766 21111111 1111 12333335789999999998887643
No 69
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=22.98 E-value=2.6e+02 Score=31.07 Aligned_cols=58 Identities=17% Similarity=0.095 Sum_probs=29.8
Q ss_pred HHHhhhhchHHHHHHHHHHhcCCC-CCCccchhHHHHHHhhhhcCCchHHHHHHHhhhc
Q 037957 569 SFLEREQRFNDAINLLRRLLSCFT-CDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLL 626 (841)
Q Consensus 569 ~~LER~k~~~~A~~ll~~Ll~~~~-~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~ 626 (841)
..+-+.+++++|+.+++.++.... ....+..-+..++..+.+.|++++|+...++++.
T Consensus 77 ~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~ 135 (389)
T PRK11788 77 NLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRAEELFLQLVD 135 (389)
T ss_pred HHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHc
Confidence 444556666666666666554211 1111112234445445566666666666666654
No 70
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=22.16 E-value=1.6e+02 Score=36.24 Aligned_cols=61 Identities=18% Similarity=0.077 Sum_probs=44.6
Q ss_pred HHHHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhhcC-ccc
Q 037957 567 GISFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLLD-SWV 630 (841)
Q Consensus 567 ~~~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~d-P~~ 630 (841)
.+..+.+.+++++|+..|+..+...+ .. ..|+.+++..+..+|++++|.+..++++.. |..
T Consensus 324 La~~l~~~G~~~eA~~~l~~al~~~P--~~-~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~~ 385 (656)
T PRK15174 324 YARALRQVGQYTAASDEFVQLAREKG--VT-SKWNRYAAAALLQAGKTSEAESVFEHYIQARASH 385 (656)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHhCc--cc-hHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChhh
Confidence 34678889999999999998875322 11 235666666678899999999998888744 553
No 71
>cd08789 CARD_IPS-1_RIG-I Caspase activation and recruitment domains (CARDs) found in IPS-1 and RIG-I-like RNA helicases. Caspase activation and recruitment domains (CARDs) found in IPS-1 (Interferon beta promoter stimulator protein 1) and Retinoic acid Inducible Gene I (RIG-I)-like DEAD box helicases. RIG-I-like helicases and IPS-1 play important roles in the induction of interferons in response to viral infection. They are crucial in triggering innate immunity and in developing adaptive immunity against viral pathogens. RIG-I-like helicases, including MDA5 and RIG-I, contain two N-terminal CARD domains and a C-terminal DEAD box RNA helicase domain. They are cytoplasmic RNA helicases that play an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. MDA5 and RIG-I associate with IPS-1 through a CARD-CAR
Probab=22.10 E-value=42 Score=30.26 Aligned_cols=43 Identities=21% Similarity=0.294 Sum_probs=35.6
Q ss_pred HHHHhcCCCCCCHhHHHHHHH---HhcCCccchhhheeeccccCceEe
Q 037957 298 QEVLGNSRHLFKADEIDFLES---FSMLSEDSQRLFVRLYMRKGPWFR 342 (841)
Q Consensus 298 ~~V~~~~~hLL~e~E~~fl~~---F~~Ls~~AQ~L~VRL~~RKg~wFR 342 (841)
..|+.+-. .|++++.+-|++ -++-...|+.|+-+|. |+..||+
T Consensus 21 ~~il~~L~-~Lt~~d~e~I~a~~~~~G~~~aa~~Ll~~L~-r~~~Wf~ 66 (84)
T cd08789 21 EEVLPYLT-CLTAEDKERIQAAENNSGNIKAAWTLLDTLV-RRDNWLE 66 (84)
T ss_pred HHHHhhCC-cCCHHHHHHHHHHHhcCChHHHHHHHHHHHh-ccCChHH
Confidence 44555444 999999999999 6788889999999999 9999986
No 72
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=21.71 E-value=1.3e+02 Score=23.03 Aligned_cols=22 Identities=32% Similarity=0.333 Sum_probs=14.1
Q ss_pred HHHHhhhhchHHHHHHHHHHhc
Q 037957 568 ISFLEREQRFNDAINLLRRLLS 589 (841)
Q Consensus 568 ~~~LER~k~~~~A~~ll~~Ll~ 589 (841)
++.+.+.|++++|+.+|+..+.
T Consensus 8 a~~~~~~G~~~~A~~~~~~~l~ 29 (44)
T PF13428_consen 8 ARAYRRLGQPDEAERLLRRALA 29 (44)
T ss_pred HHHHHHcCCHHHHHHHHHHHHH
Confidence 4566666667777666666554
No 73
>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.
Probab=21.45 E-value=2.2e+02 Score=31.25 Aligned_cols=58 Identities=17% Similarity=0.229 Sum_probs=33.4
Q ss_pred HHHHhhhhchHHHHHHHHHHhcCCC-CCCccchhHHHHHHhhhhcCCchHHHHHHHhhh
Q 037957 568 ISFLEREQRFNDAINLLRRLLSCFT-CDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGL 625 (841)
Q Consensus 568 ~~~LER~k~~~~A~~ll~~Ll~~~~-~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l 625 (841)
+.++...+++++|+.+++..+.... .+.-+...|..++..+...|++++|+.+.++++
T Consensus 155 a~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~ 213 (355)
T cd05804 155 AHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHI 213 (355)
T ss_pred HHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence 3566667777888877776654211 122222233344444556777777777776653
No 74
>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.03 E-value=1.4e+02 Score=35.59 Aligned_cols=68 Identities=16% Similarity=0.199 Sum_probs=43.5
Q ss_pred HHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhhc-CcccccccHHHHHHHHH
Q 037957 569 SFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLL-DSWVRAGSRVALQRRVL 643 (841)
Q Consensus 569 ~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~-dP~~~~~~r~aL~rRl~ 643 (841)
-.+=|.|.|++||..|.+-+. .|+..- -.|.-.|-..+.+|+.++..+-|.++|+ +|... -+|.||..
T Consensus 123 N~~f~~kkY~eAIkyY~~AI~--l~p~ep-iFYsNraAcY~~lgd~~~Vied~TkALEl~P~Y~----KAl~RRA~ 191 (606)
T KOG0547|consen 123 NKFFRNKKYDEAIKYYTQAIE--LCPDEP-IFYSNRAACYESLGDWEKVIEDCTKALELNPDYV----KALLRRAS 191 (606)
T ss_pred hhhhhcccHHHHHHHHHHHHh--cCCCCc-hhhhhHHHHHHHHhhHHHHHHHHHHHhhcCcHHH----HHHHHHHH
Confidence 345578999999999998776 222221 1233334456778888888888888773 45432 25666664
No 75
>PF14604 SH3_9: Variant SH3 domain; PDB: 2CRE_A 2E5K_A 2CT3_A 2DE0_X 2D8H_A 2DA9_A 2X3X_E 2X3W_D 2KRN_A 2ED0_A ....
Probab=20.99 E-value=95 Score=24.78 Aligned_cols=35 Identities=17% Similarity=0.166 Sum_probs=25.3
Q ss_pred ccCCCCeEEEEeCCCCCCCCCceEEEecCCCccccccccccchh
Q 037957 171 EIKIGAHISLSRDPNNVKDPNAIKVFSADSGCCKVLGYLPKELS 214 (841)
Q Consensus 171 ~~~~ge~v~L~REP~N~~D~nAI~V~~~~g~~~~~lGyipr~~a 214 (841)
.++.||.|.+.+.. +.+=..+.+ +| +.|++|....
T Consensus 14 s~~~Gd~i~v~~~~----~~~W~~g~~-~g----~~G~~P~~yV 48 (49)
T PF14604_consen 14 SFKKGDVITVLEKS----DDGWWYGRN-TG----RTGLFPANYV 48 (49)
T ss_dssp EB-TTEEEEEEEES----STSEEEEEE-TT----EEEEEEGGGE
T ss_pred eEcCCCEEEEEEeC----CCCEEEEEE-CC----EEEEECHHhC
Confidence 68899999999773 344455555 55 9999998764
No 76
>PRK12370 invasion protein regulator; Provisional
Probab=20.99 E-value=1.6e+02 Score=35.29 Aligned_cols=59 Identities=14% Similarity=0.015 Sum_probs=35.9
Q ss_pred HHHhhhhchHHHHHHHHHHhcCCCCCCccchhHHHHHHhhhhcCCchHHHHHHHhhh-cCccc
Q 037957 569 SFLEREQRFNDAINLLRRLLSCFTCDSRRGYWTLRLSIDLEHMGCPSESLSVAEGGL-LDSWV 630 (841)
Q Consensus 569 ~~LER~k~~~~A~~ll~~Ll~~~~~~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l-~dP~~ 630 (841)
.++...+++++|+..|+..+...+-.. .. +..++..+.++|++++|+..+++++ .+|..
T Consensus 346 ~~~~~~g~~~~A~~~~~~Al~l~P~~~--~a-~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~~ 405 (553)
T PRK12370 346 LINTIHSEYIVGSLLFKQANLLSPISA--DI-KYYYGWNLFMAGQLEEALQTINECLKLDPTR 405 (553)
T ss_pred HHHHHccCHHHHHHHHHHHHHhCCCCH--HH-HHHHHHHHHHCCCHHHHHHHHHHHHhcCCCC
Confidence 355566778888888877665221111 11 3444555677788888888877775 34553
No 77
>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO. Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).
Probab=20.95 E-value=1.9e+02 Score=29.78 Aligned_cols=59 Identities=14% Similarity=0.090 Sum_probs=40.0
Q ss_pred HHHHhhhhchHHHHHHHHHHhcCCCC-CCccchhHHHHHHhhhhcCCchHHHHHHHhhhcC
Q 037957 568 ISFLEREQRFNDAINLLRRLLSCFTC-DSRRGYWTLRLSIDLEHMGCPSESLSVAEGGLLD 627 (841)
Q Consensus 568 ~~~LER~k~~~~A~~ll~~Ll~~~~~-~~rRG~W~~RLal~Lehl~~~~eAl~l~e~~l~d 627 (841)
+..+.+.++++.|+..|+..+....- +..... +.+++..+.++|++++|....+....+
T Consensus 173 a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a-~~~l~~~~~~lg~~~~A~~~~~~l~~~ 232 (235)
T TIGR03302 173 ARFYLKRGAYVAAINRFETVVENYPDTPATEEA-LARLVEAYLKLGLKDLAQDAAAVLGAN 232 (235)
T ss_pred HHHHHHcCChHHHHHHHHHHHHHCCCCcchHHH-HHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence 35677889999999999998863221 111112 345556678999999999876655433
Done!