Query 031356
Match_columns 161
No_of_seqs 103 out of 115
Neff 5.1
Searched_HMMs 46136
Date Fri Mar 29 12:56:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031356.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031356hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05753 TRAP_beta: Translocon 100.0 2.8E-52 6E-57 336.4 15.6 151 10-161 2-158 (181)
2 KOG3317 Translocon-associated 100.0 6.7E-50 1.4E-54 319.7 13.8 137 23-160 19-160 (188)
3 PF07705 CARDB: CARDB; InterP 98.1 8.8E-05 1.9E-09 51.7 10.3 77 29-115 2-80 (101)
4 PF01345 DUF11: Domain of unkn 97.9 6.7E-05 1.4E-09 51.6 7.3 56 26-84 21-76 (76)
5 PF10633 NPCBM_assoc: NPCBM-as 97.7 0.00026 5.6E-09 49.0 7.6 72 44-121 3-77 (78)
6 TIGR01451 B_ant_repeat conserv 97.6 0.00025 5.4E-09 46.6 6.1 50 35-87 1-50 (53)
7 PF13473 Cupredoxin_1: Cupredo 97.0 0.0025 5.5E-08 46.1 6.5 62 35-115 30-91 (104)
8 PF13584 BatD: Oxygen toleranc 96.5 0.036 7.9E-07 49.8 11.2 83 29-123 13-98 (484)
9 TIGR02588 conserved hypothetic 96.1 0.2 4.2E-06 38.8 11.4 91 9-105 14-104 (122)
10 COG1721 Uncharacterized conser 95.8 0.072 1.6E-06 47.6 9.4 93 25-126 47-139 (416)
11 COG1361 S-layer domain [Cell e 94.8 0.23 4.9E-06 45.1 9.5 84 39-125 160-247 (500)
12 PF07919 Gryzun: Gryzun, putat 94.8 0.33 7.2E-06 44.0 10.4 86 26-120 468-553 (554)
13 PF00927 Transglut_C: Transglu 93.9 0.094 2E-06 37.9 4.0 69 39-114 8-84 (107)
14 COG1470 Predicted membrane pro 93.3 0.45 9.8E-06 44.3 8.2 95 41-141 392-492 (513)
15 PF12690 BsuPI: Intracellular 92.7 0.54 1.2E-05 33.4 6.3 66 49-115 2-81 (82)
16 PF14874 PapD-like: Flagellar- 92.5 2.7 5.9E-05 29.6 10.1 74 36-116 10-84 (102)
17 TIGR03079 CH4_NH3mon_ox_B meth 92.5 0.7 1.5E-05 41.9 8.0 73 29-105 265-353 (399)
18 PF13584 BatD: Oxygen toleranc 90.9 4.2 9.2E-05 36.6 11.5 94 31-128 273-368 (484)
19 COG1361 S-layer domain [Cell e 90.5 1 2.2E-05 40.9 7.2 82 35-119 36-123 (500)
20 PF12584 TRAPPC10: Trafficking 89.5 4.5 9.8E-05 31.2 9.1 78 41-124 26-115 (147)
21 PF09624 DUF2393: Protein of u 86.4 11 0.00024 28.8 9.6 30 40-70 56-85 (149)
22 PF03896 TRAP_alpha: Transloco 85.7 13 0.00028 32.5 10.6 95 31-130 86-186 (285)
23 PF09478 CBM49: Carbohydrate b 85.2 4.9 0.00011 27.9 6.5 65 40-104 9-79 (80)
24 PRK10378 inactive ferrous ion 85.0 6 0.00013 35.8 8.5 92 5-116 6-103 (375)
25 PF02102 Peptidase_M35: Deuter 84.3 0.31 6.7E-06 43.7 0.0 69 47-116 38-130 (359)
26 PF05506 DUF756: Domain of unk 83.3 8.4 0.00018 27.0 7.1 55 50-115 21-75 (89)
27 PRK02710 plastocyanin; Provisi 83.3 14 0.00031 27.4 8.7 20 91-114 83-102 (119)
28 PF04744 Monooxygenase_B: Mono 82.1 9.7 0.00021 34.6 8.5 72 32-105 249-334 (381)
29 COG1572 Uncharacterized conser 80.8 5.8 0.00013 38.1 7.0 68 40-117 417-486 (606)
30 KOG2291 Oligosaccharyltransfer 80.7 5 0.00011 38.2 6.5 72 1-75 1-75 (602)
31 KOG4386 Uncharacterized conser 79.6 4 8.8E-05 39.2 5.5 74 42-121 704-777 (809)
32 PF14796 AP3B1_C: Clathrin-ada 76.3 15 0.00032 29.1 7.0 49 47-102 85-136 (145)
33 TIGR02656 cyanin_plasto plasto 72.6 9.3 0.0002 27.3 4.7 54 55-114 29-82 (99)
34 PF11611 DUF4352: Domain of un 72.5 26 0.00055 25.0 7.1 67 43-109 32-105 (123)
35 PF06159 DUF974: Protein of un 71.6 33 0.00071 28.9 8.5 79 44-124 12-94 (249)
36 cd04036 C2_cPLA2 C2 domain pre 69.7 13 0.00028 26.8 5.0 67 41-115 47-114 (119)
37 PF13860 FlgD_ig: FlgD Ig-like 69.0 16 0.00034 25.3 5.1 48 50-114 26-73 (81)
38 PF07919 Gryzun: Gryzun, putat 68.7 92 0.002 28.2 11.6 95 29-126 173-288 (554)
39 PF07610 DUF1573: Protein of u 66.8 23 0.0005 22.0 5.1 41 52-102 1-43 (45)
40 PRK15188 fimbrial chaperone pr 66.3 54 0.0012 27.5 8.7 60 40-104 34-96 (228)
41 TIGR02745 ccoG_rdxA_fixG cytoc 65.9 1.1E+02 0.0024 28.1 11.9 56 44-106 343-399 (434)
42 PF08626 TRAPPC9-Trs120: Trans 65.3 52 0.0011 33.7 9.8 98 25-124 775-898 (1185)
43 PF00127 Copper-bind: Copper b 64.8 15 0.00032 26.2 4.4 52 54-113 28-81 (99)
44 PF04495 GRASP55_65: GRASP55/6 59.8 41 0.00089 26.1 6.4 51 53-109 1-55 (138)
45 PRK15208 long polar fimbrial c 56.0 1.1E+02 0.0023 25.4 8.7 59 41-104 29-90 (228)
46 PRK09918 putative fimbrial cha 55.1 1.2E+02 0.0026 25.1 9.2 56 43-103 34-91 (230)
47 cd08678 C2_C21orf25-like C2 do 55.1 79 0.0017 22.9 7.5 74 41-125 43-123 (126)
48 PRK15098 beta-D-glucoside gluc 55.0 47 0.001 32.5 7.2 84 47-136 667-755 (765)
49 COG1470 Predicted membrane pro 53.6 95 0.0021 29.4 8.6 72 47-120 284-360 (513)
50 PF11797 DUF3324: Protein of u 53.4 44 0.00095 25.6 5.6 53 37-95 50-106 (140)
51 PF00207 A2M: Alpha-2-macroglo 50.6 31 0.00067 24.1 4.0 37 30-68 49-90 (92)
52 PF13473 Cupredoxin_1: Cupredo 50.5 22 0.00047 25.4 3.3 41 63-106 22-63 (104)
53 COG2373 Large extracellular al 47.0 62 0.0013 34.7 7.0 82 37-123 1495-1605(1621)
54 PF03314 DUF273: Protein of un 46.7 12 0.00025 31.8 1.5 48 47-96 168-216 (222)
55 PF08441 Integrin_alpha2: Inte 44.7 54 0.0012 29.1 5.5 46 29-76 168-218 (457)
56 PLN02171 endoglucanase 44.3 1.4E+02 0.003 29.0 8.4 62 44-105 550-615 (629)
57 TIGR03102 halo_cynanin halocya 41.6 92 0.002 23.4 5.6 46 53-114 52-98 (115)
58 PF00630 Filamin: Filamin/ABP2 40.9 1.2E+02 0.0025 20.8 8.2 70 40-121 15-90 (101)
59 cd08379 C2D_MCTP_PRT_plant C2 40.8 1E+02 0.0022 23.1 5.8 46 60-108 61-113 (126)
60 PF14263 DUF4354: Domain of un 40.3 83 0.0018 24.4 5.2 92 12-107 10-109 (124)
61 TIGR03096 nitroso_cyanin nitro 39.7 1.8E+02 0.004 22.7 9.4 23 90-114 94-116 (135)
62 PRK12634 flgD flagellar basal 39.4 1.4E+02 0.003 24.9 6.8 39 50-97 123-161 (221)
63 PRK06655 flgD flagellar basal 39.0 1.7E+02 0.0036 24.5 7.3 53 50-111 127-183 (225)
64 cd08547 Type_II_cohesin Type I 38.9 1.5E+02 0.0032 21.5 8.7 39 42-84 12-50 (132)
65 PF07760 DUF1616: Protein of u 38.8 1.6E+02 0.0035 25.1 7.4 67 40-108 185-256 (287)
66 PF14310 Fn3-like: Fibronectin 38.4 28 0.00061 23.3 2.2 25 91-115 28-52 (71)
67 PRK11385 putativi pili assembl 38.3 2.4E+02 0.0052 23.7 11.6 59 40-105 33-102 (236)
68 PF12742 Gryzun-like: Gryzun, 37.4 89 0.0019 21.2 4.4 40 75-116 15-54 (57)
69 PF06030 DUF916: Bacterial pro 37.1 1.8E+02 0.0039 21.9 8.0 64 42-108 23-106 (121)
70 PF10731 Anophelin: Thrombin i 36.5 19 0.00041 24.9 1.0 17 13-29 7-23 (65)
71 PF11906 DUF3426: Protein of u 36.0 1.9E+02 0.004 21.7 10.2 60 45-105 66-135 (149)
72 PRK12633 flgD flagellar basal 35.8 1.6E+02 0.0034 24.7 6.7 37 51-96 131-167 (230)
73 KOG1691 emp24/gp25L/p24 family 35.1 2.8E+02 0.006 23.4 8.1 32 39-71 36-69 (210)
74 PF00394 Cu-oxidase: Multicopp 34.8 1.3E+02 0.0028 23.0 5.6 61 51-117 70-136 (159)
75 cd04458 CSP_CDS Cold-Shock Pro 34.0 84 0.0018 20.3 3.9 40 26-67 21-64 (65)
76 PF06280 DUF1034: Fn3-like dom 33.5 1.8E+02 0.0039 20.8 8.6 79 47-127 8-104 (112)
77 PF00345 PapD_N: Pili and flag 33.5 1.8E+02 0.004 20.9 8.7 71 48-123 15-95 (122)
78 TIGR02231 conserved hypothetic 33.1 3.9E+02 0.0085 24.5 11.2 25 48-74 443-467 (525)
79 PRK13792 lysozyme inhibitor; P 32.9 1.2E+02 0.0026 23.5 5.1 13 47-61 55-67 (127)
80 PF04744 Monooxygenase_B: Mono 32.7 1.6E+02 0.0035 26.9 6.6 69 35-116 19-107 (381)
81 KOG3865 Arrestin [Signal trans 32.5 67 0.0014 29.2 4.1 61 47-108 210-278 (402)
82 PF08626 TRAPPC9-Trs120: Trans 31.5 1.8E+02 0.0038 30.0 7.4 77 39-123 644-722 (1185)
83 PF10976 DUF2790: Protein of u 30.5 72 0.0016 22.7 3.3 24 110-133 46-69 (78)
84 PRK13861 type IV secretion sys 30.4 3.7E+02 0.0079 23.4 9.7 41 62-111 53-94 (292)
85 smart00557 IG_FLMN Filamin-typ 29.5 2E+02 0.0043 20.0 7.1 66 41-123 13-78 (93)
86 PF12389 Peptidase_M73: Camely 29.4 3.4E+02 0.0073 22.7 8.7 19 88-106 57-75 (199)
87 PRK15290 lfpB fimbrial chapero 29.3 3.5E+02 0.0076 22.8 9.0 55 6-66 16-70 (243)
88 PRK15463 cold shock-like prote 28.4 1.2E+02 0.0026 20.7 4.0 42 25-68 24-69 (70)
89 PF12034 DUF3520: Domain of un 27.8 1.3E+02 0.0027 24.8 4.7 40 89-128 46-104 (183)
90 TIGR03079 CH4_NH3mon_ox_B meth 27.8 3.1E+02 0.0067 25.3 7.5 71 36-116 40-127 (399)
91 PF00963 Cohesin: Cohesin doma 27.6 1.5E+02 0.0032 22.0 4.8 43 37-83 5-48 (141)
92 PF13598 DUF4139: Domain of un 27.5 3.7E+02 0.0081 22.6 8.7 32 47-80 242-274 (317)
93 PF05984 Cytomega_UL20A: Cytom 27.2 1.8E+02 0.0038 21.5 4.9 21 10-30 7-28 (100)
94 COG2372 CopC Uncharacterized p 26.9 3.1E+02 0.0066 21.4 7.6 21 100-120 87-110 (127)
95 PRK12812 flgD flagellar basal 26.3 3.4E+02 0.0074 23.3 7.3 38 51-97 143-180 (259)
96 PLN02191 L-ascorbate oxidase 26.0 3.5E+02 0.0075 25.6 7.9 71 50-125 235-324 (574)
97 PF10989 DUF2808: Protein of u 25.1 76 0.0017 24.4 2.8 39 85-126 91-132 (146)
98 PRK15211 fimbrial chaperone pr 25.1 4.1E+02 0.0088 22.2 8.8 59 40-105 29-92 (229)
99 PLN03080 Probable beta-xylosid 24.5 2.3E+02 0.005 28.0 6.6 64 48-114 685-753 (779)
100 PRK15299 fimbrial chaperone pr 24.2 4.1E+02 0.0088 21.9 9.3 24 40-63 29-52 (227)
101 COG1572 Uncharacterized conser 23.6 3.4E+02 0.0074 26.4 7.3 85 28-126 290-376 (606)
102 TIGR02657 amicyanin amicyanin. 23.5 2.2E+02 0.0048 19.4 4.7 46 55-114 23-68 (83)
103 cd04016 C2_Tollip C2 domain pr 23.4 2.5E+02 0.0053 20.9 5.3 66 41-114 46-117 (121)
104 PF00313 CSD: 'Cold-shock' DNA 23.3 2.2E+02 0.0047 18.4 4.9 42 25-68 20-65 (66)
105 PF10528 PA14_2: GLEYA domain; 22.7 2.1E+02 0.0046 21.3 4.8 32 39-71 63-94 (113)
106 PF04202 Mfp-3: Foot protein 3 22.7 67 0.0015 22.6 1.8 18 10-27 6-23 (71)
107 PRK15295 fimbrial assembly cha 22.6 4.5E+02 0.0097 21.8 7.9 59 40-104 26-89 (226)
108 PRK01001 putative inner membra 22.3 4.1E+02 0.009 26.7 7.7 44 46-93 357-404 (795)
109 PF07495 Y_Y_Y: Y_Y_Y domain; 22.3 2.1E+02 0.0047 18.0 4.4 35 86-126 18-52 (66)
110 TIGR02781 VirB9 P-type conjuga 22.1 3.5E+02 0.0076 22.6 6.5 21 86-110 69-89 (243)
111 PRK10893 lipopolysaccharide ex 21.8 3.2E+02 0.0069 22.1 6.0 36 38-78 40-76 (192)
112 cd08546 cohesin_like Cohesin d 21.7 3.1E+02 0.0066 19.5 10.1 37 43-83 12-48 (135)
113 PF00635 Motile_Sperm: MSP (Ma 21.3 2.9E+02 0.0062 19.1 8.0 51 47-106 18-69 (109)
114 PRK15218 fimbrial chaperone pr 21.1 1.6E+02 0.0035 24.6 4.2 25 40-64 25-49 (226)
115 PRK15254 fimbrial chaperone pr 20.8 4.9E+02 0.011 21.9 7.1 60 40-104 23-85 (239)
116 cd04049 C2_putative_Elicitor-r 20.7 2.9E+02 0.0063 19.6 5.1 76 41-123 46-122 (124)
117 PF07550 DUF1533: Protein of u 20.4 1.5E+02 0.0032 19.7 3.2 38 74-114 24-63 (65)
118 PF08441 Integrin_alpha2: Inte 20.2 1E+02 0.0023 27.4 3.1 31 44-76 341-371 (457)
No 1
>PF05753 TRAP_beta: Translocon-associated protein beta (TRAPB); InterPro: IPR008856 This family consists of several eukaryotic translocon-associated protein beta (TRAPB) or signal sequence receptor beta subunit (SSR-beta) proteins. The normal translocation of nascent polypeptides into the lumen of the endoplasmic reticulum (ER) is thought to be aided in part by a translocon-associated protein (TRAP) complex consisting of 4 protein subunits. The association of mature proteins with the ER and Golgi, or other intracellular locales, such as lysosomes, depends on the initial targeting of the nascent polypeptide to the ER membrane. A similar scenario must also exist for proteins destined for secretion [].; GO: 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=100.00 E-value=2.8e-52 Score=336.40 Aligned_cols=151 Identities=36% Similarity=0.567 Sum_probs=142.3
Q ss_pred HHHHHHHHHhhhcccCCCCceEEEEeeecccccccCceeEEEEEEEEecCCcceeeEEEecCCCCCCCceEecCceeeEE
Q 031356 10 ISVLIALFLISSSFASSDVPFIVAHKKASLKRLKSGAERISVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVISGNISQSW 89 (161)
Q Consensus 10 ~~~llal~~v~~~~~~~~~a~LlvsK~i~~~~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~~s~~~ 89 (161)
++++++++++++++++++.|+|+++|+++++++++| +|++|+|+|||+|+++|+||+|+||+||+++|++++|+++++|
T Consensus 2 ~~~~~~~l~~~~~~~~~~~a~llv~K~il~~~~v~g-~~v~V~~~iyN~G~~~A~dV~l~D~~fp~~~F~lvsG~~s~~~ 80 (181)
T PF05753_consen 2 ALFLLALLALASVAQEDSPARLLVSKQILNKYLVEG-EDVTVTYTIYNVGSSAAYDVKLTDDSFPPEDFELVSGSLSASW 80 (181)
T ss_pred hhhhHHHHHHHHhccCCCCcEEEEEEeeccccccCC-cEEEEEEEEEECCCCeEEEEEEECCCCCccccEeccCceEEEE
Confidence 455666666666788899999999999999999999 9999999999999999999999999999999999999999999
Q ss_pred EeecCCCceEEEEEEEEceeeeEEeecEEEEEEcCCC-cceeEEeecCCCceeeeecCCcccee-----eeEEEEecC
Q 031356 90 ERLDAGGILSHSFELDAKVKGMFHGSPALITFRIPTK-AALQEAYSTPMLPLDVLAEKPTENKL-----ELVCYFSLC 161 (161)
Q Consensus 90 ~ri~pg~nvsH~vvv~p~~~G~f~~t~A~VtY~~~~~-~~~q~a~Ss~~g~~~I~~~~~~~rk~-----dW~~F~~l~ 161 (161)
+||+||+|++|+|+|+|++.|+|++++|+|+|+++++ .++|+++||+||++.|+++|+||||| ||++|++|+
T Consensus 81 ~~i~pg~~vsh~~vv~p~~~G~f~~~~a~VtY~~~~~~~~~~~a~Ss~~~~~~I~~~~~~~k~f~~~~~~w~~f~~~~ 158 (181)
T PF05753_consen 81 ERIPPGENVSHSYVVRPKKSGYFNFTPAVVTYRDSEGAKELQVAYSSPPGEGDILAERDYDKKFSSHVMDWGAFAIMT 158 (181)
T ss_pred EEECCCCeEEEEEEEeeeeeEEEEccCEEEEEECCCCCceeEEEEecCCCcceEEeccccchhhhhhHHHHHhHHHHH
Confidence 9999999999999999999999999999999999999 67999999999999999999999997 999998874
No 2
>KOG3317 consensus Translocon-associated complex TRAP, beta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=6.7e-50 Score=319.66 Aligned_cols=137 Identities=37% Similarity=0.658 Sum_probs=131.4
Q ss_pred ccCCCCceEEEEeeecccccccCceeEEEEEEEEecCCcceeeEEEecCCCCCCCceEecCceeeEEEeecCCCceEEEE
Q 031356 23 FASSDVPFIVAHKKASLKRLKSGAERISVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVISGNISQSWERLDAGGILSHSF 102 (161)
Q Consensus 23 ~~~~~~a~LlvsK~i~~~~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~~s~~~~ri~pg~nvsH~v 102 (161)
+++...++||.+|+.+|+|.|++ +|++++|+|||+|+++|+||+|+|+|||++.||||+|+++++|||||||+|++|++
T Consensus 19 ~~at~~a~ll~kk~~lnry~v~~-rd~~leY~IyNvGsspAldVtLsD~Sfpt~~FeIvkG~~~~swerIpags~vsHsi 97 (188)
T KOG3317|consen 19 SFATSEAMLLAKKATLNRYAVEA-RDVSLEYDIYNVGSSPALDVTLSDNSFPTKTFEIVKGNLSVSWERIPAGSNVSHSI 97 (188)
T ss_pred hhcccceEEEeeccchhhccccc-eeeEEEEeeEEcCCCcceeEEecCCCCCccceeeeccccccceeecCCCCceEEEE
Confidence 56666699999999999999999 99999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEceeeeEEeecEEEEEEcCCCcceeEEeecCCCceeeeecCCcccee-----eeEEEEec
Q 031356 103 ELDAKVKGMFHGSPALITFRIPTKAALQEAYSTPMLPLDVLAEKPTENKL-----ELVCYFSL 160 (161)
Q Consensus 103 vv~p~~~G~f~~t~A~VtY~~~~~~~~q~a~Ss~~g~~~I~~~~~~~rk~-----dW~~F~~l 160 (161)
+|||++.|.||+++|+|||+.+|+...|++++|+||+|+|+++|||||+| +|..|+++
T Consensus 98 vl~prv~g~f~~t~atVty~~~e~g~~~~~~ts~~~~gyila~re~~rr~~~~~l~flgfgvi 160 (188)
T KOG3317|consen 98 VLRPRVKGVFNGTPATVTYRIPEKGALQEAYTSPPGPGYILAQREPDRRFDPRLLAFLGFGVI 160 (188)
T ss_pred EEeecccceeccCceEEEEEcCCCCceeEEeecCCCCcceeeecCcccccChhHHHHHhhhhh
Confidence 99999999999999999999999988899999999999999999999996 89988765
No 3
>PF07705 CARDB: CARDB; InterPro: IPR011635 The APHP (acidic peptide-dependent hydrolases/peptidase) domain is found in a variety of different proteins.; PDB: 2KUT_A 2L0D_A 3IDU_A 2KL6_A.
Probab=98.05 E-value=8.8e-05 Score=51.70 Aligned_cols=77 Identities=19% Similarity=0.351 Sum_probs=55.2
Q ss_pred ceEEEEeeecccccccCceeEEEEEEEEecCCcceeeEEEecCCCCCCCceEecCce--eeEEEeecCCCceEEEEEEEE
Q 031356 29 PFIVAHKKASLKRLKSGAERISVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVISGNI--SQSWERLDAGGILSHSFELDA 106 (161)
Q Consensus 29 a~LlvsK~i~~~~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~~--s~~~~ri~pg~nvsH~vvv~p 106 (161)
|.|.+.-......+..| ++++|+++|.|.|..+|.++.+. | .+.|.. +.....|+||+..+..+.+.+
T Consensus 2 pDL~v~~~~~~~~~~~g-~~~~i~~~V~N~G~~~~~~~~v~--------~-~~~~~~~~~~~i~~L~~g~~~~v~~~~~~ 71 (101)
T PF07705_consen 2 PDLTVSITVSPSNVVPG-EPVTITVTVKNNGTADAENVTVR--------L-YLDGNSVSTVTIPSLAPGESETVTFTWTP 71 (101)
T ss_dssp --EEE-EEEC-SEEETT-SEEEEEEEEEE-SSS-BEEEEEE--------E-EETTEEEEEEEESEB-TTEEEEEEEEEE-
T ss_pred CCEEEEEeeCCCcccCC-CEEEEEEEEEECCCCCCCCEEEE--------E-EECCceeccEEECCcCCCcEEEEEEEEEe
Confidence 55677566667788888 99999999999999999888877 2 344444 445579999999999999999
Q ss_pred ceeeeEEee
Q 031356 107 KVKGMFHGS 115 (161)
Q Consensus 107 ~~~G~f~~t 115 (161)
...|.|.+.
T Consensus 72 ~~~G~~~i~ 80 (101)
T PF07705_consen 72 PSPGSYTIR 80 (101)
T ss_dssp SS-CEEEEE
T ss_pred CCCCeEEEE
Confidence 999998864
No 4
>PF01345 DUF11: Domain of unknown function DUF11; InterPro: IPR001434 This group of sequences is represented by a conserved region of about 53 amino acids shared between regions, usually repeated, of proteins from a small number of phylogenetically distant prokaryotes. Examples include a 132-residue region found repeated in three of the five longest proteins of Bacillus anthracis, a 131-residue repeat in a cell wall-anchored protein of Enterococcus faecalis (Streptococcus faecalis), and a 120-residue repeat in Methanobacterium thermoautotrophicum. A similar region is found in some Chlamydia trachomatis outer membrane proteins. In C. trachomatis, three cysteine-rich proteins (also believed to be lipoproteins), MOMP, OMP6 and OMP3, make up the extracellular matrix of the outer membrane []. They are involved in the essential structural integrity of both the elementary body (EB) and recticulate body (RB) phase. They are thought to be involved in porin formation and, as these bacteria lack the peptidoglycan layer common to most Gram-negative microbes, such proteins are highly important in the pathogenicity of the organism.; GO: 0005727 extrachromosomal circular DNA
Probab=97.90 E-value=6.7e-05 Score=51.56 Aligned_cols=56 Identities=21% Similarity=0.399 Sum_probs=48.4
Q ss_pred CCCceEEEEeeecccccccCceeEEEEEEEEecCCcceeeEEEecCCCCCCCceEecCc
Q 031356 26 SDVPFIVAHKKASLKRLKSGAERISVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVISGN 84 (161)
Q Consensus 26 ~~~a~LlvsK~i~~~~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~ 84 (161)
...+.+.+.|......+..| +.++.++++.|.|+.+|.+|.|.|. + +..+++++|+
T Consensus 21 ~~~~~~~~~k~~~~~~~~~G-d~v~ytitvtN~G~~~a~nv~v~D~-l-p~g~~~v~~S 76 (76)
T PF01345_consen 21 VAIPDLSITKTVNPSTANPG-DTVTYTITVTNTGPAPATNVVVTDT-L-PAGLTFVSGS 76 (76)
T ss_pred cCCCCEEEEEecCCCcccCC-CEEEEEEEEEECCCCeeEeEEEEEc-C-CCCCEEeCCC
Confidence 34467999999999999999 9999999999999999999999994 5 4557788774
No 5
>PF10633 NPCBM_assoc: NPCBM-associated, NEW3 domain of alpha-galactosidase; InterPro: IPR018905 This domain has been named NEW3, but its function is not known. It is found on proteins which are bacterial galactosidases [].; PDB: 1EUT_A 2BZD_A 1WCQ_C 2BER_A 1W8O_A 1EUU_A 1W8N_A.
Probab=97.70 E-value=0.00026 Score=49.01 Aligned_cols=72 Identities=21% Similarity=0.370 Sum_probs=45.4
Q ss_pred cCceeEEEEEEEEecCCcceeeEEEecCCCCCCCceEecCceeeEEEeecCCCceEEEEEEEEce---eeeEEeecEEEE
Q 031356 44 SGAERISVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVISGNISQSWERLDAGGILSHSFELDAKV---KGMFHGSPALIT 120 (161)
Q Consensus 44 ~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~~s~~~~ri~pg~nvsH~vvv~p~~---~G~f~~t~A~Vt 120 (161)
.| +.++++.++-|.|+.++.++++.=+. ++.|. +. .-..+...|+||++++..+.|+|-. .|.|.++. .++
T Consensus 3 ~G-~~~~~~~tv~N~g~~~~~~v~~~l~~--P~GW~-~~-~~~~~~~~l~pG~s~~~~~~V~vp~~a~~G~y~v~~-~a~ 76 (78)
T PF10633_consen 3 PG-ETVTVTLTVTNTGTAPLTNVSLSLSL--PEGWT-VS-ASPASVPSLPPGESVTVTFTVTVPADAAPGTYTVTV-TAR 76 (78)
T ss_dssp TT-EEEEEEEEEE--SSS-BSS-EEEEE----TTSE-----EEEEE--B-TTSEEEEEEEEEE-TT--SEEEEEEE-EEE
T ss_pred CC-CEEEEEEEEEECCCCceeeEEEEEeC--CCCcc-cc-CCccccccCCCCCEEEEEEEEECCCCCCCceEEEEE-EEE
Confidence 46 89999999999999999999988532 45666 22 2234555999999999999999543 58888753 344
Q ss_pred E
Q 031356 121 F 121 (161)
Q Consensus 121 Y 121 (161)
|
T Consensus 77 y 77 (78)
T PF10633_consen 77 Y 77 (78)
T ss_dssp -
T ss_pred e
Confidence 4
No 6
>TIGR01451 B_ant_repeat conserved repeat domain. This model represents the conserved region of about 53 amino acids shared between regions, usually repeated, of proteins from a small number of phylogenetically distant prokaryotes. Examples include a 132-residue region found repeated in three of the five longest proteins of Bacillus anthracis, a 131-residue repeat in a cell wall-anchored protein of Enterococcus faecalis, and a 120-residue repeat in Methanobacterium thermoautotrophicum. A similar region is found in some Chlamydial outer membrane proteins.
Probab=97.61 E-value=0.00025 Score=46.62 Aligned_cols=50 Identities=24% Similarity=0.359 Sum_probs=41.3
Q ss_pred eeecccccccCceeEEEEEEEEecCCcceeeEEEecCCCCCCCceEecCceee
Q 031356 35 KKASLKRLKSGAERISVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVISGNISQ 87 (161)
Q Consensus 35 K~i~~~~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~~s~ 87 (161)
|......+..| +.++.++++-|.|..+|.+|.|.|. .| +.+++++|+.+.
T Consensus 1 Kt~d~~~~~~G-d~v~Yti~v~N~g~~~a~~v~v~D~-lP-~g~~~v~~S~~~ 50 (53)
T TIGR01451 1 KTVDKTVATIG-DTITYTITVTNNGNVPATNVVVTDI-LP-SGTTFVSNSVTV 50 (53)
T ss_pred CccCccccCCC-CEEEEEEEEEECCCCceEeEEEEEc-CC-CCCEEEeCcEEE
Confidence 45566677888 9999999999999999999999994 55 457888888653
No 7
>PF13473 Cupredoxin_1: Cupredoxin-like domain; PDB: 1IBZ_D 1IC0_E 1IBY_D.
Probab=97.04 E-value=0.0025 Score=46.15 Aligned_cols=62 Identities=13% Similarity=0.135 Sum_probs=35.4
Q ss_pred eeecccccccCceeEEEEEEEEecCCcceeeEEEecCCCCCCCceEecCceeeEEEeecCCCceEEEEEEEEceeeeEEe
Q 031356 35 KKASLKRLKSGAERISVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVISGNISQSWERLDAGGILSHSFELDAKVKGMFHG 114 (161)
Q Consensus 35 K~i~~~~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~~s~~~~ri~pg~nvsH~vvv~p~~~G~f~~ 114 (161)
-.+..+.+-+. .--.|++++-|.|+.+ .++.+.+ +. ....|+||++.+.++ .|.+.|.|.|
T Consensus 30 ~~f~P~~i~v~-~G~~v~l~~~N~~~~~-h~~~i~~--------------~~-~~~~l~~g~~~~~~f--~~~~~G~y~~ 90 (104)
T PF13473_consen 30 FGFSPSTITVK-AGQPVTLTFTNNDSRP-HEFVIPD--------------LG-ISKVLPPGETATVTF--TPLKPGEYEF 90 (104)
T ss_dssp EEEES-EEEEE-TTCEEEEEEEE-SSS--EEEEEGG--------------GT-EEEEE-TT-EEEEEE--EE-S-EEEEE
T ss_pred CeEecCEEEEc-CCCeEEEEEEECCCCc-EEEEECC--------------Cc-eEEEECCCCEEEEEE--cCCCCEEEEE
Confidence 34444444333 2234456678999886 7777776 11 227999999986665 7999999987
Q ss_pred e
Q 031356 115 S 115 (161)
Q Consensus 115 t 115 (161)
.
T Consensus 91 ~ 91 (104)
T PF13473_consen 91 Y 91 (104)
T ss_dssp B
T ss_pred E
Confidence 4
No 8
>PF13584 BatD: Oxygen tolerance
Probab=96.51 E-value=0.036 Score=49.84 Aligned_cols=83 Identities=22% Similarity=0.343 Sum_probs=56.4
Q ss_pred ceEEEEeeecccccccCceeEEEEEEEEecCCcceeeEEEecCCCCC-CCceEecCceeeEEEeecCC--CceEEEEEEE
Q 031356 29 PFIVAHKKASLKRLKSGAERISVSIDIHNQGTSTAYDVSLTDDSWPQ-DKFDVISGNISQSWERLDAG--GILSHSFELD 105 (161)
Q Consensus 29 a~LlvsK~i~~~~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~-~~F~iv~G~~s~~~~ri~pg--~nvsH~vvv~ 105 (161)
+.+-++ +..+.+..| +.+++++++.+-|+ + ..+|. +.|++.+.+.+.+..-+.-. ...+..|++.
T Consensus 13 ~~v~a~--vd~~~v~~g-e~~~l~i~~~~~~~----~-----~~~p~l~~f~v~~~~~s~~~~~inG~~~~~~~~~~~l~ 80 (484)
T PF13584_consen 13 VSVTAS--VDRNEVGLG-ETFQLTITINGDGD----D-----PDLPELDGFEVLGPSQSSSTSIINGKVSSSTTYTYTLQ 80 (484)
T ss_pred eEEEEE--ECCcEEcCC-CEEEEEEEEecCcc----c-----CCCCCCCCeEEcceEEEEEEEEecCceEEEEEEEEEEE
Confidence 444443 566788888 89999999876331 2 33444 88998444445544333322 2356788899
Q ss_pred EceeeeEEeecEEEEEEc
Q 031356 106 AKVKGMFHGSPALITFRI 123 (161)
Q Consensus 106 p~~~G~f~~t~A~VtY~~ 123 (161)
|++.|.|.++++.|++..
T Consensus 81 p~~~G~~~IP~~~v~v~G 98 (484)
T PF13584_consen 81 PKKTGTFTIPPFTVEVDG 98 (484)
T ss_pred ecccceEEEceEEEEECC
Confidence 999999999999997744
No 9
>TIGR02588 conserved hypothetical protein TIGR02588. The function of this protein is unknown. It is always found as part of a two-gene operon with TIGR02587, a protein that appears to span the membrane seven times. It is found in Nostoc sp. PCC 7120, Agrobacterium tumefaciens, Sinorhizobium meliloti, and Gloeobacter violaceus, so far, all of which are bacterial.
Probab=96.05 E-value=0.2 Score=38.81 Aligned_cols=91 Identities=18% Similarity=0.262 Sum_probs=55.3
Q ss_pred HHHHHHHHHHhhhcccCCCCceEEEEeeecccccccCceeEEEEEEEEecCCcceeeEEEecCCCCCCCceEecCceeeE
Q 031356 9 LISVLIALFLISSSFASSDVPFIVAHKKASLKRLKSGAERISVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVISGNISQS 88 (161)
Q Consensus 9 ~~~~llal~~v~~~~~~~~~a~LlvsK~i~~~~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~~s~~ 88 (161)
+++++++++.--..++....|.|.+...= -.+-+.| ..-|.++|.|-|+.+|-.|++.-. ...+.= +--.-...
T Consensus 14 ill~viglv~y~~l~~~~~pp~l~v~~~~-~~r~~~g--qyyVpF~V~N~gg~TAasV~V~ge-L~~~~~--v~E~~e~t 87 (122)
T TIGR02588 14 ILAAMFGLVAYDWLRYSNKAAVLEVAPAE-VERMQTG--QYYVPFAIHNLGGTTAAAVNIRGE-LRQAGA--VVENAEVT 87 (122)
T ss_pred HHHHHHHHHHHHhhccCCCCCeEEEeehh-eeEEeCC--EEEEEEEEEeCCCcEEEEEEEEEE-EccCCc--eeEEeeEE
Confidence 34444444444446778888988777632 2444444 799999999999999999998752 111000 11133566
Q ss_pred EEeecCCCceEEEEEEE
Q 031356 89 WERLDAGGILSHSFELD 105 (161)
Q Consensus 89 ~~ri~pg~nvsH~vvv~ 105 (161)
+|=||-|+...-.++-+
T Consensus 88 iDfl~g~e~~~G~~IF~ 104 (122)
T TIGR02588 88 IDYLASGSKENGTLIFR 104 (122)
T ss_pred EEEcCCCCeEeEEEEEc
Confidence 77777766555444443
No 10
>COG1721 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]
Probab=95.79 E-value=0.072 Score=47.56 Aligned_cols=93 Identities=19% Similarity=0.302 Sum_probs=69.4
Q ss_pred CCCCceEEEEeeecccccccCceeEEEEEEEEecCCcceeeEEEecCCCCCCCceEecCceeeEEEeecCCCceEEEEEE
Q 031356 25 SSDVPFIVAHKKASLKRLKSGAERISVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVISGNISQSWERLDAGGILSHSFEL 104 (161)
Q Consensus 25 ~~~~a~LlvsK~i~~~~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~~s~~~~ri~pg~nvsH~vvv 104 (161)
....+.+-+.+.+....+.+| +++++++.+-| ...-.+.+.| .+|++.+ .+.|..... -.+.+|+. ..+.+
T Consensus 47 ~~~~~~~~v~r~~~~~~~~~g-~~~~v~~~v~~---r~~~~~~~~~-~~~~~~~-~~~~~~~~~-~~~~~~~~--~~~~~ 117 (416)
T COG1721 47 ARSLPGARVERSLEKRRLFAG-EEVEVTLRVRN---RGRPRLLLVD-DIPPSFL-GVEGTEEVS-LRLGPGER--VAYKV 117 (416)
T ss_pred hhcccceEeeccccccccccC-ccceeEEEEEe---cCccceEeee-ccCCccc-ccccCccee-eccCCCce--EEEEE
Confidence 344567888888876668889 99999999999 3344566676 3666644 555554433 35666666 99999
Q ss_pred EEceeeeEEeecEEEEEEcCCC
Q 031356 105 DAKVKGMFHGSPALITFRIPTK 126 (161)
Q Consensus 105 ~p~~~G~f~~t~A~VtY~~~~~ 126 (161)
.|.+-|.|.+.+..+...+.-+
T Consensus 118 ~~~~rG~~~~~~v~~~~~~~~g 139 (416)
T COG1721 118 TPLRRGEYRLPPVRVRAEDPFG 139 (416)
T ss_pred ecccCCcccccceEEEccCccc
Confidence 9999999999999999987765
No 11
>COG1361 S-layer domain [Cell envelope biogenesis, outer membrane]
Probab=94.85 E-value=0.23 Score=45.08 Aligned_cols=84 Identities=23% Similarity=0.297 Sum_probs=68.3
Q ss_pred ccccccCceeEEEEEEEEecCCcceeeEEEecCCCCCCCceEecCce-eeEEEeecCCCceEEEEEEEEc---eeeeEEe
Q 031356 39 LKRLKSGAERISVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVISGNI-SQSWERLDAGGILSHSFELDAK---VKGMFHG 114 (161)
Q Consensus 39 ~~~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~~-s~~~~ri~pg~nvsH~vvv~p~---~~G~f~~ 114 (161)
...+..| +..+++++|.|.|+.+|.++.|...+ |...+.-+.+.. .....-|.||+++.-++.+... ..|.|..
T Consensus 160 ~~~i~~G-~~~~l~~~I~N~G~~~~~~v~l~~~~-~~~~~~~i~~~~~~~~i~~l~p~es~~v~f~v~~~~~a~~g~y~i 237 (500)
T COG1361 160 PEAIIPG-ETNTLTLTIKNPGEGPAKNVSLSLES-PTSYLGPIYSANDTPYIGALGPGESVNVTFSVYAGSNAEPGTYTI 237 (500)
T ss_pred ccccCCC-CccEEEEEEEeCCcccccceEEEEeC-CcceeccccccccceeeeeeCCCceEEEEEEEEeecCCCCccEEE
Confidence 4455667 67799999999999999999999854 666666677776 6889999999999999999987 5787776
Q ss_pred ecEEEEEEcCC
Q 031356 115 SPALITFRIPT 125 (161)
Q Consensus 115 t~A~VtY~~~~ 125 (161)
. ..++|++.+
T Consensus 238 ~-i~i~~~~~~ 247 (500)
T COG1361 238 N-LEITYKDEE 247 (500)
T ss_pred E-EEEEEecCC
Confidence 4 578888843
No 12
>PF07919 Gryzun: Gryzun, putative trafficking through Golgi; InterPro: IPR012880 The proteins featured in this family are all hypothetical eukaryotic proteins of unknown function. The region in question is approximately 150 residues long.
Probab=94.77 E-value=0.33 Score=43.97 Aligned_cols=86 Identities=21% Similarity=0.213 Sum_probs=66.8
Q ss_pred CCCceEEEEeeecccccccCceeEEEEEEEEecCCcceeeEEEecCCCCCCCceEecCceeeEEEeecCCCceEEEEEEE
Q 031356 26 SDVPFIVAHKKASLKRLKSGAERISVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVISGNISQSWERLDAGGILSHSFELD 105 (161)
Q Consensus 26 ~~~a~LlvsK~i~~~~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~~s~~~~ri~pg~nvsH~vvv~ 105 (161)
...++++++- ..+..+| ..++++|+|.|- +.-..+.++.=+ ++++| +.+|.-..++- |.|++.-+-.|.+.
T Consensus 468 ~~~~~v~~~~---p~~~~~~-~~~~l~~~I~N~-T~~~~~~~~~me--~s~~F-~fsG~k~~~~~-llP~s~~~~~y~l~ 538 (554)
T PF07919_consen 468 SSPLRVLASV---PPSAIVG-EPFTLSYTIENP-TNHFQTFELSME--PSDDF-MFSGPKQTTFS-LLPFSRHTVRYNLL 538 (554)
T ss_pred CCCcEEEEec---CCccccC-cEEEEEEEEECC-CCccEEEEEEEc--cCCCE-EEECCCcCceE-ECCCCcEEEEEEEE
Confidence 3345555555 6777888 899999999994 445556666532 45669 99999988885 99999999999999
Q ss_pred EceeeeEEeecEEEE
Q 031356 106 AKVKGMFHGSPALIT 120 (161)
Q Consensus 106 p~~~G~f~~t~A~Vt 120 (161)
|...|...++.=.|.
T Consensus 539 pl~~G~~~lP~l~v~ 553 (554)
T PF07919_consen 539 PLVAGWWILPRLKVR 553 (554)
T ss_pred EccCCcEECCcEEEe
Confidence 999999988766654
No 13
>PF00927 Transglut_C: Transglutaminase family, C-terminal ig like domain; InterPro: IPR008958 Synonym(s): Protein-glutamine gamma-glutamyltransferase, Fibrinoligase, TGase Transglutaminases catalyse the post-translational modification of proteins at glutamine residues, with formation of isopeptide bonds. Members of the transglutaminase family usually have three domains: N-terminal (IPR001102 from INTERPRO), middle (IPR013808 from INTERPRO) and C-terminal. The middle domain is usually well conserved, but family members can display major differences in their N- and C-terminal domains, although their overall structure is conserved []. This entry represents the C-terminal domain found in transglutaminases, which consists of an immunoglobulin-like beta-sandwich consisting of seven strands in two sheets with a Greek key topology. The best known transglutaminase is blood coagulation factor XIII, a plasma tetrameric protein composed of two catalytic A subunits and two non-catalytic B subunits. Factor XIII is responsible for cross-linking fibrin chains, thus stabilising the fibrin clot. Protein-glutamine gamma-glutamyltransferases (2.3.2.13 from EC) are calcium-dependent enzymes that catalyse the cross-linking of proteins by promoting the formation of isopeptide bonds between the gamma-carboxyl group of a glutamine in one polypeptide chain and the epsilon-amino group of a lysine in a second polypeptide chain. TGases also catalyse the conjugation of polyamines to proteins [, ].; GO: 0003810 protein-glutamine gamma-glutamyltransferase activity, 0018149 peptide cross-linking; PDB: 2XZZ_A 1GGY_B 1FIE_B 1GGU_B 1GGT_B 1F13_A 1QRK_B 1EVU_A 1EX0_B 1L9N_B ....
Probab=93.89 E-value=0.094 Score=37.94 Aligned_cols=69 Identities=17% Similarity=0.140 Sum_probs=49.2
Q ss_pred ccccccCceeEEEEEEEEecCCcceeeEEEecCCCCCCCceEe--cCc------eeeEEEeecCCCceEEEEEEEEceee
Q 031356 39 LKRLKSGAERISVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVI--SGN------ISQSWERLDAGGILSHSFELDAKVKG 110 (161)
Q Consensus 39 ~~~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv--~G~------~s~~~~ri~pg~nvsH~vvv~p~~~G 110 (161)
.+.+..| +|+++..++.|-.+.+-++|++.=-.+ .+ .|. .....-.|+||+..++.+.+.|..+|
T Consensus 8 ~~~~~vG-~d~~v~v~~~N~~~~~l~~v~~~l~~~------~v~ytG~~~~~~~~~~~~~~l~p~~~~~~~~~i~p~~yG 80 (107)
T PF00927_consen 8 PGDPVVG-QDFTVSVSFTNPSSEPLRNVSLNLCAF------TVEYTGLTRDQFKKEKFEVTLKPGETKSVEVTITPSQYG 80 (107)
T ss_dssp ESEEBTT-SEEEEEEEEEE-SSS-EECEEEEEEEE------EEECTTTEEEEEEEEEEEEEE-TTEEEEEEEEE-HHSHE
T ss_pred CCCccCC-CCEEEEEEEEeCCcCccccceeEEEEE------EEEECCcccccEeEEEcceeeCCCCEEEEEEEEEceeEe
Confidence 4678899 999999999999999988877653100 11 133 24456679999999999999999999
Q ss_pred eEEe
Q 031356 111 MFHG 114 (161)
Q Consensus 111 ~f~~ 114 (161)
.-..
T Consensus 81 ~~~~ 84 (107)
T PF00927_consen 81 PKQL 84 (107)
T ss_dssp EECC
T ss_pred cchh
Confidence 8444
No 14
>COG1470 Predicted membrane protein [Function unknown]
Probab=93.26 E-value=0.45 Score=44.35 Aligned_cols=95 Identities=18% Similarity=0.283 Sum_probs=64.9
Q ss_pred ccccCceeEEEEEEEEecCCcceeeEEEecCCCCCCCceE-ecCceeeEEEeecCCCceEEEEEEE-E--ceeeeEEeec
Q 031356 41 RLKSGAERISVSIDIHNQGTSTAYDVSLTDDSWPQDKFDV-ISGNISQSWERLDAGGILSHSFELD-A--KVKGMFHGSP 116 (161)
Q Consensus 41 ~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~~F~i-v~G~~s~~~~ri~pg~nvsH~vvv~-p--~~~G~f~~t~ 116 (161)
.+..| ++.++...|.|.|+.|=.||+|+=+ =|++ +++ |++ .+++.|+||++.+-.++++ | ...|-|..+-
T Consensus 392 t~taG-ee~~i~i~I~NsGna~LtdIkl~v~-~Pqg-Wei~Vd~---~~I~sL~pge~~tV~ltI~vP~~a~aGdY~i~i 465 (513)
T COG1470 392 TITAG-EEKTIRISIENSGNAPLTDIKLTVN-GPQG-WEIEVDE---STIPSLEPGESKTVSLTITVPEDAGAGDYRITI 465 (513)
T ss_pred EecCC-ccceEEEEEEecCCCccceeeEEec-CCcc-ceEEECc---ccccccCCCCcceEEEEEEcCCCCCCCcEEEEE
Confidence 45678 8999999999999999999999875 3443 554 232 2899999999999999999 4 3566676544
Q ss_pred EEEEEEcCCCcce--eEEeecCCCcee
Q 031356 117 ALITFRIPTKAAL--QEAYSTPMLPLD 141 (161)
Q Consensus 117 A~VtY~~~~~~~~--q~a~Ss~~g~~~ 141 (161)
...+=..+.+..+ .++-||.-+-.+
T Consensus 466 ~~ksDq~s~e~tlrV~V~~sS~st~iG 492 (513)
T COG1470 466 TAKSDQASSEDTLRVVVGQSSTSTYIG 492 (513)
T ss_pred EEeeccccccceEEEEEeccccchhhh
Confidence 4433333333322 255566555433
No 15
>PF12690 BsuPI: Intracellular proteinase inhibitor; InterPro: IPR020481 BsuPI is a intracellular proteinase inhibitor that directly regulates the major intracellular proteinase (ISP-1) activity in vivo. It inhibits ISP-1 in the early stages of sporulation and then may be inactivated by a membrane-bound proteinase [].; PDB: 3ISY_A.
Probab=92.74 E-value=0.54 Score=33.40 Aligned_cols=66 Identities=18% Similarity=0.288 Sum_probs=37.1
Q ss_pred EEEEEEEEecCCcc---------eeeEEEecCCCCCCCceEecCce---eeEEEeecCCCceEEEEEEEEce--eeeEEe
Q 031356 49 ISVSIDIHNQGTST---------AYDVSLTDDSWPQDKFDVISGNI---SQSWERLDAGGILSHSFELDAKV--KGMFHG 114 (161)
Q Consensus 49 vtV~y~IyNvG~s~---------A~dV~l~D~sfp~~~F~iv~G~~---s~~~~ri~pg~nvsH~vvv~p~~--~G~f~~ 114 (161)
+.++++|-|.|+.+ -+|+.|.|. =..+.|.--.|.+ -..=..|+||+..+...++.... .|.|.+
T Consensus 2 v~~~l~v~N~s~~~v~l~f~sgq~~D~~v~d~-~g~~vwrwS~~~~FtQal~~~~l~pGe~~~~~~~~~~~~~~~G~Y~~ 80 (82)
T PF12690_consen 2 VEFTLTVTNNSDEPVTLQFPSGQRYDFVVKDK-EGKEVWRWSDGKMFTQALQEETLEPGESLTYEETWDLKDLSPGEYTL 80 (82)
T ss_dssp EEEEEEEEE-SSS-EEEEESSS--EEEEEE-T-T--EEEETTTT-------EEEEE-TT-EEEEEEEESS----SEEEEE
T ss_pred EEEEEEEEeCCCCeEEEEeCCCCEEEEEEECC-CCCEEEEecCCchhhheeeEEEECCCCEEEEEEEECCCCCCCceEEE
Confidence 56788888888743 456666652 2233343344443 33557899999999999998776 788876
Q ss_pred e
Q 031356 115 S 115 (161)
Q Consensus 115 t 115 (161)
.
T Consensus 81 ~ 81 (82)
T PF12690_consen 81 E 81 (82)
T ss_dssp E
T ss_pred e
Confidence 4
No 16
>PF14874 PapD-like: Flagellar-associated PapD-like
Probab=92.49 E-value=2.7 Score=29.61 Aligned_cols=74 Identities=16% Similarity=0.181 Sum_probs=51.7
Q ss_pred eecccccccCceeEEEEEEEEecCCcceeeEEEecCCCCCCCceEecCceeeEEEeecCCCceEEEEEEE-EceeeeEEe
Q 031356 36 KASLKRLKSGAERISVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVISGNISQSWERLDAGGILSHSFELD-AKVKGMFHG 114 (161)
Q Consensus 36 ~i~~~~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~~s~~~~ri~pg~nvsH~vvv~-p~~~G~f~~ 114 (161)
++.=.....| +..+..++|.|.|..++ ..++....-..+.|.+--. =..|+||+..+-.+.+. +...|.|..
T Consensus 10 ~ldFG~v~~g-~~~~~~v~l~N~s~~p~-~f~v~~~~~~~~~~~v~~~-----~g~l~PG~~~~~~V~~~~~~~~g~~~~ 82 (102)
T PF14874_consen 10 ELDFGNVFVG-QTYSRTVTLTNTSSIPA-RFRVRQPESLSSFFSVEPP-----SGFLAPGESVELEVTFSPTKPLGDYEG 82 (102)
T ss_pred EEEeeEEccC-CEEEEEEEEEECCCCCE-EEEEEeCCcCCCCEEEECC-----CCEECCCCEEEEEEEEEeCCCCceEEE
Confidence 3444556677 89999999999999976 4444433323455654321 13699999999999999 677788875
Q ss_pred ec
Q 031356 115 SP 116 (161)
Q Consensus 115 t~ 116 (161)
.-
T Consensus 83 ~l 84 (102)
T PF14874_consen 83 SL 84 (102)
T ss_pred EE
Confidence 43
No 17
>TIGR03079 CH4_NH3mon_ox_B methane monooxygenase/ammonia monooxygenase, subunit B. Both ammonia oxidizers such as Nitrosomonas europaea and methanotrophs (obligate methane oxidizers) such as Methylococcus capsulatus each can grow only on their own characteristic substrate. However, both groups have the ability to oxidize both substrates, and so the relevant enzymes must be named here according to their ability to oxidze both. The protein family represented here reflects subunit B of both the particulate methane monooxygenase of methylotrophs and the ammonia monooxygenase of nitrifying bacteria.
Probab=92.45 E-value=0.7 Score=41.89 Aligned_cols=73 Identities=15% Similarity=0.308 Sum_probs=51.0
Q ss_pred ceEEEEeeecccccccCceeEEEEEEEEecCCccee-------eEEEe--------cCCCCCCCceEecCceeeEE-Eee
Q 031356 29 PFIVAHKKASLKRLKSGAERISVSIDIHNQGTSTAY-------DVSLT--------DDSWPQDKFDVISGNISQSW-ERL 92 (161)
Q Consensus 29 a~LlvsK~i~~~~~v~g~~~vtV~y~IyNvG~s~A~-------dV~l~--------D~sfp~~~F~iv~G~~s~~~-~ri 92 (161)
+.-+.-|-..-+|-|.| +.+.++++|.|.|+++-+ +|.+. ++.||++ ++.--++++= +-|
T Consensus 265 ~~~V~~kv~~a~Y~VPG-R~l~~~~~VTN~g~~~vrlgEF~TA~vRFlN~~~v~~~~~~yP~~---lla~GL~v~d~~pI 340 (399)
T TIGR03079 265 PNPVSINVTKANYDVPG-RALRVTMEITNNGDQVISIGEFTTAGIRFMNANGVRVLDPDYPRE---LLAEGLEVDDQSAI 340 (399)
T ss_pred CCceEEEEeccEEecCC-cEEEEEEEEEcCCCCceEEEeEeecceEeeCcccccccCCCChHH---HhhccceeCCCCCc
Confidence 33566777778999999 999999999999998753 33333 3455554 2222334333 359
Q ss_pred cCCCceEEEEEEE
Q 031356 93 DAGGILSHSFELD 105 (161)
Q Consensus 93 ~pg~nvsH~vvv~ 105 (161)
.|||+.+-++.+.
T Consensus 341 ~PGETr~v~v~aq 353 (399)
T TIGR03079 341 APGETVEVKMEAK 353 (399)
T ss_pred CCCcceEEEEEEe
Confidence 9999998887765
No 18
>PF13584 BatD: Oxygen tolerance
Probab=90.87 E-value=4.2 Score=36.59 Aligned_cols=94 Identities=17% Similarity=0.201 Sum_probs=68.1
Q ss_pred EEEEeeecccccccCceeEEEEEEEEecCCcceeeEEEecCCCCCCCceEecCceeeEEEe--ecCCCceEEEEEEEEce
Q 031356 31 IVAHKKASLKRLKSGAERISVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVISGNISQSWER--LDAGGILSHSFELDAKV 108 (161)
Q Consensus 31 LlvsK~i~~~~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~~s~~~~r--i~pg~nvsH~vvv~p~~ 108 (161)
+=.+-+...+.+.+| +.++.+++|-=.|.-+ .+.+-+-.+| +.|++-.......... =...+..+-.+.++|++
T Consensus 273 f~l~~~~~~~~~~~G-e~vt~ti~i~g~Gn~~--~~~lP~l~~~-~~~~vy~~~~~~~~~~~~~g~~g~~~~~~~~ip~~ 348 (484)
T PF13584_consen 273 FSLSQSWDPTEVKVG-EPVTRTITISGEGNLP--SIQLPPLNLP-KGFRVYPPKPQEQDKPSGGGLTGSRTFKYTLIPKK 348 (484)
T ss_pred EEEEEEcCcccccCC-CeEEEEEEEEEEcchh--cccCCCCCCC-cccEEcCCCccccccccCCcceEEEEEEEEEEeCC
Confidence 444555677889999 9999999998777654 2334443344 7788777665443322 22345778899999999
Q ss_pred eeeEEeecEEEEEEcCCCcc
Q 031356 109 KGMFHGSPALITFRIPTKAA 128 (161)
Q Consensus 109 ~G~f~~t~A~VtY~~~~~~~ 128 (161)
.|.|.+++-.+.|-+++..+
T Consensus 349 ~G~~~lP~i~~~~fdp~~~~ 368 (484)
T PF13584_consen 349 PGDFTLPAIRFSWFDPQTGK 368 (484)
T ss_pred CCeEEcCCeEEEEEcCCCCe
Confidence 99999999999999998755
No 19
>COG1361 S-layer domain [Cell envelope biogenesis, outer membrane]
Probab=90.49 E-value=1 Score=40.88 Aligned_cols=82 Identities=22% Similarity=0.248 Sum_probs=56.0
Q ss_pred eeecccccccCceeEEEEEEEEecCCcceeeEEEecCCCCCCCceEecCce-eeEEEeecC--CCceEEEEEEE---Ece
Q 031356 35 KKASLKRLKSGAERISVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVISGNI-SQSWERLDA--GGILSHSFELD---AKV 108 (161)
Q Consensus 35 K~i~~~~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~~-s~~~~ri~p--g~nvsH~vvv~---p~~ 108 (161)
=+.....+..| +++.+..+++|.|...+.|+.+... .... |....+.. ......+.. |+-.++.+.+. ..+
T Consensus 36 ~~~~p~~~~~~-~~~~l~v~~~n~~~~~~~~v~v~i~-~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~V~~~a~ 112 (500)
T COG1361 36 TNYSPNVARPG-EDVDLTVTIENVGELLAEDVKVEIT-PEYP-FSLVSGETLLLSIGTLNFLGGEPATVKFKLTVDENAK 112 (500)
T ss_pred ccccCcccCcc-cceEEEEEeccccccccccEEEEEE-eccc-ceeeEEEeecCCCceeeecCCCcceEEEEEEEcCCCC
Confidence 33444555556 8999999999999998888888763 2222 88888876 333444444 56666666444 677
Q ss_pred eeeEEeecEEE
Q 031356 109 KGMFHGSPALI 119 (161)
Q Consensus 109 ~G~f~~t~A~V 119 (161)
.|.+++.-..-
T Consensus 113 ~g~y~i~v~~~ 123 (500)
T COG1361 113 SGDYEIDVYVS 123 (500)
T ss_pred CCcEEEeEEEE
Confidence 88888877764
No 20
>PF12584 TRAPPC10: Trafficking protein particle complex subunit 10, TRAPPC10; InterPro: IPR022233 The trafficking protein particle complex TRAPP is a multi-protein complex needed in the early stages of the secretory pathway. To date, two kinds of TRAPP complexes have been studied, TRAPPI and TRAPP II. These complexes differ in subunit composition []. TRAPP I binds vesicles derived from the endoplasmic reticulum bringing them closer to the acceptor membrane. This entry represents a domain which forms part of the TRAPP complex for mediating vesicle docking and fusion in the Golgi apparatus. The fungal version is referred to as Trs130, and an alternative vertebrate alias is TMEM1 [, ].
Probab=89.46 E-value=4.5 Score=31.22 Aligned_cols=78 Identities=18% Similarity=0.233 Sum_probs=57.7
Q ss_pred ccccCceeEEEEEEEEecC------------CcceeeEEEecCCCCCCCceEecCceeeEEEeecCCCceEEEEEEEEce
Q 031356 41 RLKSGAERISVSIDIHNQG------------TSTAYDVSLTDDSWPQDKFDVISGNISQSWERLDAGGILSHSFELDAKV 108 (161)
Q Consensus 41 ~~v~g~~~vtV~y~IyNvG------------~s~A~dV~l~D~sfp~~~F~iv~G~~s~~~~ri~pg~nvsH~vvv~p~~ 108 (161)
-..+| +-+.++..|-|.. ....+-.++.++ ++.| +|+|--...+.- ..|+..+-.++|.|.+
T Consensus 26 ~~~vG-qpi~~~l~I~~~~~W~~~~~~~~~~~~~~~~yei~a~---~~~W-lV~Grrrg~f~~-~~~~~~~~~l~LIPL~ 99 (147)
T PF12584_consen 26 PCRVG-QPIPAELRIKNSRKWSSEDQEESSNEDTEFMYEIVAD---SDNW-LVSGRRRGVFSL-SDGSEHEIPLTLIPLR 99 (147)
T ss_pred ceEeC-CeEEEEEEEEEcccCCccccccccCCCccEEEEEecC---CCcE-EEeccCcceEEe-cCCCeEEEEEEEEecc
Confidence 34678 8999999999972 112333344221 3444 899988777755 8888889999999999
Q ss_pred eeeEEeecEEEEEEcC
Q 031356 109 KGMFHGSPALITFRIP 124 (161)
Q Consensus 109 ~G~f~~t~A~VtY~~~ 124 (161)
.|+..++..+|+=...
T Consensus 100 ~G~L~lP~V~i~~~~~ 115 (147)
T PF12584_consen 100 AGYLPLPKVEIRPYDP 115 (147)
T ss_pred cceecCCEEEEEeccC
Confidence 9999999999876663
No 21
>PF09624 DUF2393: Protein of unknown function (DUF2393); InterPro: IPR013417 The function of this protein is unknown. It is always found as part of a two-gene operon with IPR013416 from INTERPRO, a protein that appears to span the membrane seven times. It has so far been found in the bacteria Anabaena sp. (strain PCC 7120), Agrobacterium tumefaciens, Rhizobium meliloti, and Gloeobacter violaceus.
Probab=86.38 E-value=11 Score=28.77 Aligned_cols=30 Identities=30% Similarity=0.300 Sum_probs=25.2
Q ss_pred cccccCceeEEEEEEEEecCCcceeeEEEec
Q 031356 40 KRLKSGAERISVSIDIHNQGTSTAYDVSLTD 70 (161)
Q Consensus 40 ~~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D 70 (161)
+.+..+ +.+.|..+|-|.|+-++.++.++=
T Consensus 56 ~~l~~~-~~~~v~g~V~N~g~~~i~~c~i~~ 85 (149)
T PF09624_consen 56 KRLQYS-ESFYVDGTVTNTGKFTIKKCKITV 85 (149)
T ss_pred eeeeec-cEEEEEEEEEECCCCEeeEEEEEE
Confidence 334456 899999999999999999998875
No 22
>PF03896 TRAP_alpha: Translocon-associated protein (TRAP), alpha subunit; InterPro: IPR005595 The alpha-subunit of the TRAP complex (TRAP alpha) is a single-spanning membrane protein of the endoplasmic reticulum (ER) which is found in proximity of nascent polypeptide chains translocating across the membrane [].; GO: 0005783 endoplasmic reticulum
Probab=85.74 E-value=13 Score=32.47 Aligned_cols=95 Identities=15% Similarity=0.244 Sum_probs=67.6
Q ss_pred EEEEeeecccccccCceeEEEEEEEEecCCcceeeEEEecCCCC-CCCceEecCce-eeEE-EeecCCCceEEEEEEEE-
Q 031356 31 IVAHKKASLKRLKSGAERISVSIDIHNQGTSTAYDVSLTDDSWP-QDKFDVISGNI-SQSW-ERLDAGGILSHSFELDA- 106 (161)
Q Consensus 31 LlvsK~i~~~~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp-~~~F~iv~G~~-s~~~-~ri~pg~nvsH~vvv~p- 106 (161)
++.-|. ...++.| +.+.+-+.+-|.|+ ..+.|...+-||. +.+|...==++ -..+ -.|+||+..|-.|...|
T Consensus 86 ~~F~~~--~~~l~aG-~~~~~LvgftN~g~-~~~~V~~i~aSl~~p~d~~~~iqNfTa~~y~~~V~pg~~aT~~YsF~~~ 161 (285)
T PF03896_consen 86 ILFPKP--TKKLPAG-EPVKFLVGFTNKGS-EPFTVESIEASLRYPQDYSYYIQNFTAVRYNREVPPGEEATFPYSFTPS 161 (285)
T ss_pred EEeccc--cccccCC-CeEEEEEEEEeCCC-CCEEEEEEeeeecCccccceEEEeecccccCcccCCCCeEEEEEEEecc
Confidence 444444 4667778 99999999999999 5788999886666 45554433333 2233 36999999999999997
Q ss_pred --ceeeeEEeecEEEEEEcCCCccee
Q 031356 107 --KVKGMFHGSPALITFRIPTKAALQ 130 (161)
Q Consensus 107 --~~~G~f~~t~A~VtY~~~~~~~~q 130 (161)
-..+.|.+.- .+.|++.++..-|
T Consensus 162 ~~l~pr~f~L~i-~l~y~d~~g~~y~ 186 (285)
T PF03896_consen 162 EELAPRPFGLVI-NLIYEDSDGNQYQ 186 (285)
T ss_pred hhcCCcceEEEE-EEEEEeCCCCEEE
Confidence 3456677765 5569988775433
No 23
>PF09478 CBM49: Carbohydrate binding domain CBM49; InterPro: IPR019028 A carbohydrate-binding module (CBM) is defined as a contiguous amino acid sequence within a carbohydrate-active enzyme with a discreet fold having carbohydrate-binding activity. A few exceptions are CBMs in cellulosomal scaffolding proteins and rare instances of independent putative CBMs. The requirement of CBMs existing as modules within larger enzymes sets this class of carbohydrate-binding protein apart from other non-catalytic sugar binding proteins such as lectins and sugar transport proteins. CBMs were previously classified as cellulose-binding domains (CBDs) based on the initial discovery of several modules that bound cellulose [, ]. However, additional modules in carbohydrate-active enzymes are continually being found that bind carbohydrates other than cellulose yet otherwise meet the CBM criteria, hence the need to reclassify these polypeptides using more inclusive terminology. Previous classification of cellulose-binding domains were based on amino acid similarity. Groupings of CBDs were called "Types" and numbered with roman numerals (e.g. Type I or Type II CBDs). In keeping with the glycoside hydrolase classification, these groupings are now called families and numbered with Arabic numerals. Families 1 to 13 are the same as Types I to XIII. For a detailed review on the structure and binding modes of CBMs see []. This domain is found at the C-terminal of cellulases and in vitro binding studies have shown it to binds to crystalline cellulose []. ; GO: 0030246 carbohydrate binding, 0005576 extracellular region
Probab=85.16 E-value=4.9 Score=27.94 Aligned_cols=65 Identities=9% Similarity=0.207 Sum_probs=45.0
Q ss_pred cccccCce-eEEEEEEEEecCCcceeeEEEecCCCCCCCceEec---Cceee-EEE-eecCCCceEEEEEE
Q 031356 40 KRLKSGAE-RISVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVIS---GNISQ-SWE-RLDAGGILSHSFEL 104 (161)
Q Consensus 40 ~~~v~g~~-~vtV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~---G~~s~-~~~-ri~pg~nvsH~vvv 104 (161)
+.-.+|++ -.-+..+|.|.|+.+-.++.|.=+.+..+-+.+.. |.... +|- .|+||++.+--|+.
T Consensus 9 ~sW~~~g~~y~qy~v~I~N~~~~~I~~~~i~~~~l~~~iW~l~~~~~~~y~lPs~~~~i~pg~s~~FGYI~ 79 (80)
T PF09478_consen 9 NSWTENGQTYTQYDVTITNNGSKPIKSLKISIDNLYGSIWGLDKVSGNTYTLPSYQPTIKPGQSFTFGYIS 79 (80)
T ss_pred eEEEeCCEEEEEEEEEEEECCCCeEEEEEEEECccchhheeEEeccCCEEECCccccccCCCCEEEEEEEe
Confidence 33344433 23467889999999999999988767666676665 22232 554 89999988776653
No 24
>PRK10378 inactive ferrous ion transporter periplasmic protein EfeO; Provisional
Probab=84.96 E-value=6 Score=35.80 Aligned_cols=92 Identities=15% Similarity=0.198 Sum_probs=48.3
Q ss_pred hhhHHHHHHHHHHHhhhcccCCCCceEEEE-e--eecccc--cccCceeEEEEEEEEecCCcceeeEEEecCCCCCCCce
Q 031356 5 ISKSLISVLIALFLISSSFASSDVPFIVAH-K--KASLKR--LKSGAERISVSIDIHNQGTSTAYDVSLTDDSWPQDKFD 79 (161)
Q Consensus 5 ~~~~~~~~llal~~v~~~~~~~~~a~Llvs-K--~i~~~~--~v~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~~F~ 79 (161)
+..++..+|++++.-|..+++.+.+-+-|. | .+.... +..| .+++.|.|.|..+ ...++.
T Consensus 6 ~~~~~~~~~~~~~~~~~~~~a~~~~~v~Vti~d~~c~p~~~tVpAG----~~~f~V~N~~~~~-~Efe~~---------- 70 (375)
T PRK10378 6 RRNALQLALAALFSSAFMANAADIPQVKVTVNDKQCEPMTLTVNAG----KTQFIIQNHSQKA-LEWEIL---------- 70 (375)
T ss_pred hhhHHHHHHHHhccCCcccccccCCceEEEEECCccccCceeeCCC----CEEEEEEeCCCCc-ceEEee----------
Confidence 334455555555544444444443333222 1 122222 2333 2667778888755 334443
Q ss_pred EecCce-eeEEEeecCCCceEEEEEEEEceeeeEEeec
Q 031356 80 VISGNI-SQSWERLDAGGILSHSFELDAKVKGMFHGSP 116 (161)
Q Consensus 80 iv~G~~-s~~~~ri~pg~nvsH~vvv~p~~~G~f~~t~ 116 (161)
.|.+ -...|.|.||.+-+-+ .+.+.|.|.|.=
T Consensus 71 --~~~~vv~e~EnIaPG~s~~l~---~~L~pGtY~~~C 103 (375)
T PRK10378 71 --KGVMVVEERENIAPGFSQKMT---ANLQPGEYDMTC 103 (375)
T ss_pred --ccccccccccccCCCCceEEE---EecCCceEEeec
Confidence 3221 1236899999887744 444689888864
No 25
>PF02102 Peptidase_M35: Deuterolysin metalloprotease (M35) family; InterPro: IPR001384 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. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family M35 (deuterolysin family, clan MA(M)). The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA. Deuterolysin is a microbial zinc-containing metalloprotease that shows some similarity to thermolysin []. The protein is expressed with a possible 19-residue signal sequence, a 155-residue propeptide, and an active peptide of 177 residues []. The latter contains an HEXXH motif towards the C terminus, but the other zinc ligands are as yet undetermined [, ].; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis; PDB: 1EB6_A.
Probab=84.28 E-value=0.31 Score=43.72 Aligned_cols=69 Identities=19% Similarity=0.314 Sum_probs=0.0
Q ss_pred eeEEEEEEEEecCCcceeeE---EEecCCCCCCCceEecCc-----------------eeeEEEeecCCCceEEEEEEEE
Q 031356 47 ERISVSIDIHNQGTSTAYDV---SLTDDSWPQDKFDVISGN-----------------ISQSWERLDAGGILSHSFELDA 106 (161)
Q Consensus 47 ~~vtV~y~IyNvG~s~A~dV---~l~D~sfp~~~F~iv~G~-----------------~s~~~~ri~pg~nvsH~vvv~p 106 (161)
.+..|+-+|.|.|+.+-.=+ +|. |+.|-+.|.+-++. ..--|..|+||++++|+|=+-.
T Consensus 38 ~nt~VkA~VTNtG~e~l~llK~ntil-D~~Pv~kv~V~~~g~~V~F~Gi~~~~~~~~L~~d~F~~L~pG~sve~~fDiA~ 116 (359)
T PF02102_consen 38 GNTRVKATVTNTGSEDLKLLKYNTIL-DSAPVKKVSVYKDGKEVPFTGIRLRYDTSGLTEDAFQTLAPGESVEVEFDIAE 116 (359)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred CCcEEEEEEEeCCCcceEEEeeceec-CCCceeEEEEEcCCcccccccEEEEEecCCCCHHHceecCCCCeEEEEEcchh
Confidence 47789999999999864322 233 46788888776553 3456888999999999987652
Q ss_pred ----ceeeeEEeec
Q 031356 107 ----KVKGMFHGSP 116 (161)
Q Consensus 107 ----~~~G~f~~t~ 116 (161)
...|.|.+.+
T Consensus 117 ~~dLs~gG~~~i~a 130 (359)
T PF02102_consen 117 THDLSSGGTYTISA 130 (359)
T ss_dssp --------------
T ss_pred eeecCCCccEEEEE
Confidence 2345565554
No 26
>PF05506 DUF756: Domain of unknown function (DUF756); InterPro: IPR008475 This domain is found, normally as a tandem repeat, at the C terminus of bacterial phospholipase C proteins.; GO: 0004629 phospholipase C activity, 0016042 lipid catabolic process
Probab=83.34 E-value=8.4 Score=27.01 Aligned_cols=55 Identities=16% Similarity=0.318 Sum_probs=36.8
Q ss_pred EEEEEEEecCCcceeeEEEecCCCCCCCceEecCceeeEEEeecCCCceEEEEEEEEceeeeEEee
Q 031356 50 SVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVISGNISQSWERLDAGGILSHSFELDAKVKGMFHGS 115 (161)
Q Consensus 50 tV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~~s~~~~ri~pg~nvsH~vvv~p~~~G~f~~t 115 (161)
.+..++-|.|..++ .+++.|+.+.. ..+.+ =.|+||+++++..-+ ....|-|-++
T Consensus 21 ~l~l~l~N~g~~~~-~~~v~~~~y~~--------~~~~~-~~v~ag~~~~~~w~l-~~s~gwYDl~ 75 (89)
T PF05506_consen 21 NLRLTLSNPGSAAV-TFTVYDNAYGG--------GGPWT-YTVAAGQTVSLTWPL-AASGGWYDLT 75 (89)
T ss_pred EEEEEEEeCCCCcE-EEEEEeCCcCC--------CCCEE-EEECCCCEEEEEEee-cCCCCcEEEE
Confidence 67889999988655 89999964421 11111 267888888888777 5566666654
No 27
>PRK02710 plastocyanin; Provisional
Probab=83.31 E-value=14 Score=27.40 Aligned_cols=20 Identities=15% Similarity=0.295 Sum_probs=14.3
Q ss_pred eecCCCceEEEEEEEEceeeeEEe
Q 031356 91 RLDAGGILSHSFELDAKVKGMFHG 114 (161)
Q Consensus 91 ri~pg~nvsH~vvv~p~~~G~f~~ 114 (161)
.+.||+..++++.- .|.|.|
T Consensus 83 ~~~pg~t~~~tF~~----~G~y~y 102 (119)
T PRK02710 83 AFAPGESWEETFSE----AGTYTY 102 (119)
T ss_pred ccCCCCEEEEEecC----CEEEEE
Confidence 47899998877764 566654
No 28
>PF04744 Monooxygenase_B: Monooxygenase subunit B protein; InterPro: IPR006833 Ammonia monooxygenase and the particulate methane monooxygenase are both integral membrane proteins, occurring in ammonia oxidisers and methanotrophs respectively, which are thought to be evolutionarily related []. These enzymes have a relatively wide substrate specificity and can catalyse the oxidation of a range of substrates including ammonia, methane, halogenated hydrocarbons and aromatic molecules []. These enzymes are composed of 3 subunits - A (IPR003393 from INTERPRO), B (IPR006833 from INTERPRO) and C (IPR006980 from INTERPRO) - and contain various metal centres, including copper. Particulate methane monooxygenase from Methylococcus capsulatus str. Bath is an ABC homotrimer, which contains mononuclear and dinuclear copper metal centres, and a third metal centre containing a metal ion whose identity in vivo is not certain[]. The soluble regions of these enzymes derive primarily from the B subunit. This subunit forms two antiparallel beta-barrel-like structures and contains the mono- and di- nuclear copper metal centres [].; PDB: 3CHX_E 3RFR_A 3RGB_A 1YEW_A.
Probab=82.09 E-value=9.7 Score=34.64 Aligned_cols=72 Identities=18% Similarity=0.285 Sum_probs=44.6
Q ss_pred EEEeeecccccccCceeEEEEEEEEecCCccee-------eEEEecCCCCCC------CceEecCceeeEEE-eecCCCc
Q 031356 32 VAHKKASLKRLKSGAERISVSIDIHNQGTSTAY-------DVSLTDDSWPQD------KFDVISGNISQSWE-RLDAGGI 97 (161)
Q Consensus 32 lvsK~i~~~~~v~g~~~vtV~y~IyNvG~s~A~-------dV~l~D~sfp~~------~F~iv~G~~s~~~~-ri~pg~n 97 (161)
+--|-..-+|-+.| +.++++++|.|.|+++.+ +|.+.|...+.+ +. +-.+-++++=+ -|+||++
T Consensus 249 V~~~v~~A~Y~vpg-R~l~~~l~VtN~g~~pv~LgeF~tA~vrFln~~v~~~~~~~P~~l-~A~~gL~vs~~~pI~PGET 326 (381)
T PF04744_consen 249 VKVKVTDATYRVPG-RTLTMTLTVTNNGDSPVRLGEFNTANVRFLNPDVPTDDPDYPDEL-LAERGLSVSDNSPIAPGET 326 (381)
T ss_dssp EEEEEEEEEEESSS-SEEEEEEEEEEESSS-BEEEEEESSS-EEE-TTT-SS-S---TTT-EETT-EEES--S-B-TT-E
T ss_pred eEEEEeccEEecCC-cEEEEEEEEEcCCCCceEeeeEEeccEEEeCcccccCCCCCchhh-hccCcceeCCCCCcCCCce
Confidence 55566667888999 999999999999999865 366666444422 11 22223555444 7999999
Q ss_pred eEEEEEEE
Q 031356 98 LSHSFELD 105 (161)
Q Consensus 98 vsH~vvv~ 105 (161)
.+-++.+.
T Consensus 327 rtl~V~a~ 334 (381)
T PF04744_consen 327 RTLTVEAQ 334 (381)
T ss_dssp EEEEEEEE
T ss_pred EEEEEEee
Confidence 99888875
No 29
>COG1572 Uncharacterized conserved protein [Function unknown]
Probab=80.84 E-value=5.8 Score=38.08 Aligned_cols=68 Identities=18% Similarity=0.213 Sum_probs=55.7
Q ss_pred cccccCceeEEEEEEEEecCCcceeeEEEecCCCCCCCceEecCce--eeEEEeecCCCceEEEEEEEEceeeeEEeecE
Q 031356 40 KRLKSGAERISVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVISGNI--SQSWERLDAGGILSHSFELDAKVKGMFHGSPA 117 (161)
Q Consensus 40 ~~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~~--s~~~~ri~pg~nvsH~vvv~p~~~G~f~~t~A 117 (161)
....++ +.+++.|+|-|.|.+.|.+++..+ ++.|.. ..+..-+.||+..+-.|.-.+...|.++++.-
T Consensus 417 ~~~~~~-k~~~i~l~i~N~G~~~a~~~~v~l---------~lnG~~~~~~~i~~l~~~~s~e~~v~~~~~s~G~~~Ls~~ 486 (606)
T COG1572 417 TQESVN-KALTITLNIKNLGEAYASGFQVDL---------VLNGTIVTVDSIPGLESGESREVVVNEVSTSGGSHTLSVV 486 (606)
T ss_pred ceEeec-ceEEEEEEEEeccccccCCceEEE---------EEcCceeeeEecccCCCCCceEEEEEEEecCCCceEEEEE
Confidence 345566 899999999999999999998887 677865 56677788888888888877889999988653
No 30
>KOG2291 consensus Oligosaccharyltransferase, alpha subunit (ribophorin I) [Posttranslational modification, protein turnover, chaperones]
Probab=80.75 E-value=5 Score=38.18 Aligned_cols=72 Identities=22% Similarity=0.218 Sum_probs=42.3
Q ss_pred CCCchhhHHHHHHHHHHHhhhcccCCCCceEE---EEeeecccccccCceeEEEEEEEEecCCcceeeEEEecCCCCC
Q 031356 1 MASPISKSLISVLIALFLISSSFASSDVPFIV---AHKKASLKRLKSGAERISVSIDIHNQGTSTAYDVSLTDDSWPQ 75 (161)
Q Consensus 1 ~~~~~~~~~~~~llal~~v~~~~~~~~~a~Ll---vsK~i~~~~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~ 75 (161)
|+..+...++.++|.++++++.++....+-+. |-+.|+...-.+ ..+.++.|-|+|+.+|...-+.=...+.
T Consensus 1 M~~~~~~~~~~l~l~l~aia~~~a~~a~~~w~n~nv~RTIDlsS~iv---K~tt~l~i~N~g~ePatey~~a~~~~~~ 75 (602)
T KOG2291|consen 1 MAQVSASWALVLVLLLFAIASGAASSAEQDWVNVNVERTIDLSSQIV---KVTTELSIENIGSEPATEYLLAFEKELG 75 (602)
T ss_pred CcchhhHHHHHHHHHHHHHhhccccCCccccccccceEEEehhhhhh---hheeEEEEEecCCCchheEEEeccCccc
Confidence 77655554444555555665554433333333 334444333332 3578899999999999988877544433
No 31
>KOG4386 consensus Uncharacterized conserved protein [Function unknown]
Probab=79.59 E-value=4 Score=39.15 Aligned_cols=74 Identities=19% Similarity=0.257 Sum_probs=61.3
Q ss_pred cccCceeEEEEEEEEecCCcceeeEEEecCCCCCCCceEecCceeeEEEeecCCCceEEEEEEEEceeeeEEeecEEEEE
Q 031356 42 LKSGAERISVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVISGNISQSWERLDAGGILSHSFELDAKVKGMFHGSPALITF 121 (161)
Q Consensus 42 ~v~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~~s~~~~ri~pg~nvsH~vvv~p~~~G~f~~t~A~VtY 121 (161)
..+- +.+.|.|.+-|--+ -+.||+++-+ |+|+| .-+|.-..+. ||-||+.-.-.|.+-|.-.|+-++++--+.-
T Consensus 704 grVR-eslpvkyhLqnktd-lvqdveisve--psDaF-MFSGlkqirl-riLPGteqemlynfypLmAGyqqlPslninl 777 (809)
T KOG4386|consen 704 GRVR-ESLPVKYHLQNKTD-LVQDVEISVE--PSDAF-MFSGLKQIRL-RILPGTEQEMLYNFYPLMAGYQQLPSLNINL 777 (809)
T ss_pred ceec-ccccEEEEeccccc-eeeeEEeecc--cchhh-eecccceEEE-EEcCCCceEEEEEEehhhchhhhCCcccccC
Confidence 3344 68899999999766 6789998854 78899 7888877776 8999999999999999999999998876643
No 32
>PF14796 AP3B1_C: Clathrin-adaptor complex-3 beta-1 subunit C-terminal
Probab=76.28 E-value=15 Score=29.13 Aligned_cols=49 Identities=14% Similarity=0.270 Sum_probs=37.7
Q ss_pred eeEEEEEEEEecCCcceeeEEEecCCCCCCCceEecCce---eeEEEeecCCCceEEEE
Q 031356 47 ERISVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVISGNI---SQSWERLDAGGILSHSF 102 (161)
Q Consensus 47 ~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~~---s~~~~ri~pg~nvsH~v 102 (161)
+-+.|++++-|.++.+-.+|++.+... ..|.- -..+++|+||++++-.+
T Consensus 85 ~mvsIql~ftN~s~~~i~~I~i~~k~l-------~~g~~i~~F~~I~~L~pg~s~t~~l 136 (145)
T PF14796_consen 85 SMVSIQLTFTNNSDEPIKNIHIGEKKL-------PAGMRIHEFPEIESLEPGASVTVSL 136 (145)
T ss_pred CcEEEEEEEEecCCCeecceEECCCCC-------CCCcEeeccCcccccCCCCeEEEEE
Confidence 556788899999999999999999643 33332 24678999999988554
No 33
>TIGR02656 cyanin_plasto plastocyanin. Members of this family are plastocyanin, a blue copper protein related to pseudoazurin, halocyanin, amicyanin, etc. This protein, located in the thylakoid luman, performs electron transport to photosystem I in Cyanobacteria and chloroplasts.
Probab=72.59 E-value=9.3 Score=27.34 Aligned_cols=54 Identities=15% Similarity=0.153 Sum_probs=33.6
Q ss_pred EEecCCcceeeEEEecCCCCCCCceEecCceeeEEEeecCCCceEEEEEEEEceeeeEEe
Q 031356 55 IHNQGTSTAYDVSLTDDSWPQDKFDVISGNISQSWERLDAGGILSHSFELDAKVKGMFHG 114 (161)
Q Consensus 55 IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~~s~~~~ri~pg~nvsH~vvv~p~~~G~f~~ 114 (161)
+-|.|. ...++.+.+..+|....+. .+.+...--.+.||++.++++.- .|.|.+
T Consensus 29 ~~N~~~-~~H~~~~~~~~~~~~~~~~-~~~~~~~~~~~~pG~t~~~tF~~----~G~y~y 82 (99)
T TIGR02656 29 WVNNKG-GPHNVVFDEDAVPAGVKEL-AKSLSHKDLLNSPGESYEVTFST----PGTYTF 82 (99)
T ss_pred EEECCC-CCceEEECCCCCccchhhh-cccccccccccCCCCEEEEEeCC----CEEEEE
Confidence 348764 6799999887777664332 22222122357899999886653 565544
No 34
>PF11611 DUF4352: Domain of unknown function (DUF4352); InterPro: IPR021652 This entry is represented by Bacteriophage A118, Gp32. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry represents a group of putative lipoproteins of unknown function.; PDB: 3CFU_A.
Probab=72.54 E-value=26 Score=25.00 Aligned_cols=67 Identities=19% Similarity=0.274 Sum_probs=33.5
Q ss_pred ccCceeEEEEEEEEecCCcce----eeEEEecC-CCCC-CCceEecCceeeEEEeecCCCceEEEEEEE-Ecee
Q 031356 43 KSGAERISVSIDIHNQGTSTA----YDVSLTDD-SWPQ-DKFDVISGNISQSWERLDAGGILSHSFELD-AKVK 109 (161)
Q Consensus 43 v~g~~~vtV~y~IyNvG~s~A----~dV~l~D~-sfp~-~~F~iv~G~~s~~~~ri~pg~nvsH~vvv~-p~~~ 109 (161)
..|++=+.|.++|-|.|+.+- .+.+|.|+ +-.- ..+....-........|+||++++=.++-. |+..
T Consensus 32 ~~g~~fv~v~v~v~N~~~~~~~~~~~~f~l~d~~g~~~~~~~~~~~~~~~~~~~~i~pG~~~~g~l~F~vp~~~ 105 (123)
T PF11611_consen 32 KEGNKFVVVDVTVKNNGDEPLDFSPSDFKLYDSDGNKYDPDFSASSNDNDLFSETIKPGESVTGKLVFEVPKDD 105 (123)
T ss_dssp ---SEEEEEEEEEEE-SSS-EEEEGGGEEEE-TT--B--EEE-CCCTTTB--EEEE-TT-EEEEEEEEEESTT-
T ss_pred CCCCEEEEEEEEEEECCCCcEEecccceEEEeCCCCEEcccccchhccccccccEECCCCEEEEEEEEEECCCC
Confidence 466688999999999999754 35666642 1111 111111101114678999999998887776 4433
No 35
>PF06159 DUF974: Protein of unknown function (DUF974); InterPro: IPR010378 This is a family of uncharacterised eukaryotic proteins.
Probab=71.57 E-value=33 Score=28.93 Aligned_cols=79 Identities=15% Similarity=0.209 Sum_probs=60.7
Q ss_pred cCceeEEEEEEEEecCCcceeeEEEecCCCC-CC--CceEecCcee-eEEEeecCCCceEEEEEEEEceeeeEEeecEEE
Q 031356 44 SGAERISVSIDIHNQGTSTAYDVSLTDDSWP-QD--KFDVISGNIS-QSWERLDAGGILSHSFELDAKVKGMFHGSPALI 119 (161)
Q Consensus 44 ~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp-~~--~F~iv~G~~s-~~~~ri~pg~nvsH~vvv~p~~~G~f~~t~A~V 119 (161)
.| +.+...+.+-|--+.+..+|.|.-+--. +. .+.+...... .....|+||+++.-.+.-.=+..|.|.. .-.|
T Consensus 12 lG-EtF~~~l~~~N~s~~~v~~v~ikvemqT~s~~~r~~L~~~~~~~~~~~~L~p~~~l~~iv~~~lkE~G~h~L-~c~V 89 (249)
T PF06159_consen 12 LG-ETFSCYLSVNNDSNKPVRNVRIKVEMQTPSQSLRLPLSDNENSDSPVASLAPGESLDFIVSHELKELGNHTL-VCTV 89 (249)
T ss_pred ec-CCEEEEEEeecCCCCceEEeEEEEEEeCCCCCccccCCCCccccccccccCCCCeEeEEEEEEeeecCceEE-EEEE
Confidence 47 7899999999988889999987763222 23 4555444332 3567799999999999999999999998 5578
Q ss_pred EEEcC
Q 031356 120 TFRIP 124 (161)
Q Consensus 120 tY~~~ 124 (161)
+|...
T Consensus 90 sY~~~ 94 (249)
T PF06159_consen 90 SYTDP 94 (249)
T ss_pred EEecC
Confidence 89887
No 36
>cd04036 C2_cPLA2 C2 domain present in cytosolic PhosphoLipase A2 (cPLA2). A single copy of the C2 domain is present in cPLA2 which releases arachidonic acid from membranes initiating the biosynthesis of potent inflammatory mediators such as prostaglandins, leukotrienes, and platelet-activating factor. C2 domains fold into an 8-standed beta-sandwich that can adopt 2 structural arrangements: Type I and Type II, distinguished by a circular permutation involving their N- and C-terminal beta strands. Many C2 domains are Ca2+-dependent membrane-targeting modules that bind a wide variety of substances including bind phospholipids, inositol polyphosphates, and intracellular proteins. Most C2 domain proteins are either signal transduction enzymes that contain a single C2 domain, such as protein kinase C, or membrane trafficking proteins which contain at least two C2 domains, such as synaptotagmin 1. However, there are a few exceptions to this including RIM isoforms and some splice variants o
Probab=69.67 E-value=13 Score=26.79 Aligned_cols=67 Identities=18% Similarity=0.238 Sum_probs=48.3
Q ss_pred ccccCceeEEEEEEEEecCCcceeeEEEec-CCCCCCCceEecCceeeEEEeecCCCceEEEEEEEEceeeeEEee
Q 031356 41 RLKSGAERISVSIDIHNQGTSTAYDVSLTD-DSWPQDKFDVISGNISQSWERLDAGGILSHSFELDAKVKGMFHGS 115 (161)
Q Consensus 41 ~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D-~sfp~~~F~iv~G~~s~~~~ri~pg~nvsH~vvv~p~~~G~f~~t 115 (161)
.++-+ +.+.+ .+.+- ......|++-| +.+ .++| =|......+.|.+|......+.+.++..|..++.
T Consensus 47 nP~Wn-e~f~f--~i~~~-~~~~l~v~v~d~d~~-~~~~---iG~~~~~l~~l~~g~~~~~~~~L~~~~~g~l~~~ 114 (119)
T cd04036 47 NPVWN-ETFEF--RIQSQ-VKNVLELTVMDEDYV-MDDH---LGTVLFDVSKLKLGEKVRVTFSLNPQGKEELEVE 114 (119)
T ss_pred CCccc-eEEEE--EeCcc-cCCEEEEEEEECCCC-CCcc---cEEEEEEHHHCCCCCcEEEEEECCCCCCceEEEE
Confidence 34444 45554 44443 33567899988 444 4443 5788888999999999999999999989988774
No 37
>PF13860 FlgD_ig: FlgD Ig-like domain; PDB: 3C12_A 3OSV_A.
Probab=68.96 E-value=16 Score=25.26 Aligned_cols=48 Identities=21% Similarity=0.340 Sum_probs=27.4
Q ss_pred EEEEEEEecCCcceeeEEEecCCCCCCCceEecCceeeEEEeecCCCceEEEEEEEEceeeeEEe
Q 031356 50 SVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVISGNISQSWERLDAGGILSHSFELDAKVKGMFHG 114 (161)
Q Consensus 50 tV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~~s~~~~ri~pg~nvsH~vvv~p~~~G~f~~ 114 (161)
.++++|||.-...-+.+.+.. .-.|.-+..|+-.....+ |...|.|.+
T Consensus 26 ~v~v~I~d~~G~~V~t~~~~~---------~~~G~~~~~WdG~d~~G~--------~~~~G~Y~~ 73 (81)
T PF13860_consen 26 NVTVTIYDSNGQVVRTISLGS---------QSAGEHSFTWDGKDDDGN--------PVPDGTYTF 73 (81)
T ss_dssp EEEEEEEETTS-EEEEEEEEE---------CSSEEEEEEE-SB-TTS---------B--SEEEEE
T ss_pred EEEEEEEcCCCCEEEEEEcCC---------cCCceEEEEECCCCCCcC--------CCCCCCEEE
Confidence 457778888666666666654 345777889996555443 555565555
No 38
>PF07919 Gryzun: Gryzun, putative trafficking through Golgi; InterPro: IPR012880 The proteins featured in this family are all hypothetical eukaryotic proteins of unknown function. The region in question is approximately 150 residues long.
Probab=68.66 E-value=92 Score=28.23 Aligned_cols=95 Identities=14% Similarity=0.167 Sum_probs=62.4
Q ss_pred ceEEEEeeecccccccCceeEEEEEEEEecCCcceeeEEEecCCC--------CCCCceEe-----------cCceeeEE
Q 031356 29 PFIVAHKKASLKRLKSGAERISVSIDIHNQGTSTAYDVSLTDDSW--------PQDKFDVI-----------SGNISQSW 89 (161)
Q Consensus 29 a~LlvsK~i~~~~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D~sf--------p~~~F~iv-----------~G~~s~~~ 89 (161)
|++-++=.-...-+..| +.+.+.++|.|..+..+..+-..- .+ ..+.=++. ........
T Consensus 173 p~v~I~~~~~~~~~l~g-E~~~i~i~I~n~e~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 250 (554)
T PF07919_consen 173 PKVSIKLPNHKPPALTG-EFYPIPITISNNEDEEASGVLEVR-LLHPSQLGVSSEETEDLSQVNWDSDKDDEPLFLGIPL 250 (554)
T ss_pred CCeEEEeCCCCCCeEcC-CEEEEEEEEEcCCCccceeEEEEE-EecccccccccccCccceecccccccccchhccCccc
Confidence 33444332335666778 899999999999988765432221 12 11111121 00124466
Q ss_pred EeecCCCceEEEEEEEEceeeeEEeecEEEEEEc--CCC
Q 031356 90 ERLDAGGILSHSFELDAKVKGMFHGSPALITFRI--PTK 126 (161)
Q Consensus 90 ~ri~pg~nvsH~vvv~p~~~G~f~~t~A~VtY~~--~~~ 126 (161)
..|++|++.++.+.++....|.+.+. ..++|.. .++
T Consensus 251 g~l~~~~s~~~~l~i~~~~~~~~~L~-i~~~Y~l~~~~~ 288 (554)
T PF07919_consen 251 GELAPGSSITVTLYIRTSRPGEYELS-ISVSYHLDVESD 288 (554)
T ss_pred ccCCCCCcEEEEEEEEeCCceeEEEE-EEEEEEEecCCC
Confidence 78899999999999999999999997 5788876 444
No 39
>PF07610 DUF1573: Protein of unknown function (DUF1573); InterPro: IPR011467 These hypothetical proteins from bacteria, such as Rhodopirellula baltica, Bacteroides thetaiotaomicron and Porphyromonas gingivalis, share a region of conserved sequence towards their N termini.
Probab=66.79 E-value=23 Score=21.99 Aligned_cols=41 Identities=17% Similarity=0.243 Sum_probs=25.0
Q ss_pred EEEEEecCCcceeeEEEecCCCCCCCceEecCceeeEE--EeecCCCceEEEE
Q 031356 52 SIDIHNQGTSTAYDVSLTDDSWPQDKFDVISGNISQSW--ERLDAGGILSHSF 102 (161)
Q Consensus 52 ~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~~s~~~--~ri~pg~nvsH~v 102 (161)
+|++.|.|+++- .|.|- . ---|-+.++| +.|+||++..-.+
T Consensus 1 ~F~~~N~g~~~L---~I~~v-~------tsCgCt~~~~~~~~i~PGes~~i~v 43 (45)
T PF07610_consen 1 TFEFTNTGDSPL---VITDV-Q------TSCGCTTAEYSKKPIAPGESGKIKV 43 (45)
T ss_pred CEEEEECCCCcE---EEEEe-e------EccCCEEeeCCcceECCCCEEEEEE
Confidence 478999999854 45541 1 2234444433 5689999866544
No 40
>PRK15188 fimbrial chaperone protein BcfB; Provisional
Probab=66.26 E-value=54 Score=27.51 Aligned_cols=60 Identities=13% Similarity=0.107 Sum_probs=30.6
Q ss_pred cccccCceeEEEEEEEEecCCcceeeEEE--ec-CCCCCCCceEecCceeeEEEeecCCCceEEEEEE
Q 031356 40 KRLKSGAERISVSIDIHNQGTSTAYDVSL--TD-DSWPQDKFDVISGNISQSWERLDAGGILSHSFEL 104 (161)
Q Consensus 40 ~~~v~g~~~vtV~y~IyNvG~s~A~dV~l--~D-~sfp~~~F~iv~G~~s~~~~ri~pg~nvsH~vvv 104 (161)
.+++-.+.+-.++++|.|.|+...+=|+- .| ++=....| ++. --+-||+||+.-+-.+.-
T Consensus 34 TRvIy~~~~~~~sv~i~N~~~~~p~LvQsWv~~~~~~~~~pF-ivt----PPlfrl~~~~~~~lRI~~ 96 (228)
T PRK15188 34 TRVIYPQGSKQTSLPIINSSASNVFLIQSWVANADGSRSTDF-IIT----PPLFVIQPKKENILRIMY 96 (228)
T ss_pred EEEEEcCCCceEEEEEEeCCCCccEEEEEEEecCCCCccCCE-EEc----CCeEEECCCCceEEEEEE
Confidence 33343335668889999999765433432 22 11111234 222 124566666665555443
No 41
>TIGR02745 ccoG_rdxA_fixG cytochrome c oxidase accessory protein FixG. Member of this ferredoxin-like protein family are found exclusively in species with an operon encoding the cbb3 type of cytochrome c oxidase (cco-cbb3), and near the cco-cbb3 operon in about half the cases. The cco-cbb3 is found in a variety of proteobacteria and almost nowhere else, and is associated with oxygen use under microaerobic conditions. Some (but not all) of these proteobacteria are also nitrogen-fixing, hence the gene symbol fixG. FixG was shown essential for functional cco-cbb3 expression in Bradyrhizobium japonicum.
Probab=65.87 E-value=1.1e+02 Score=28.14 Aligned_cols=56 Identities=20% Similarity=0.246 Sum_probs=36.5
Q ss_pred cCceeEEEEEEEEecCCcc-eeeEEEecCCCCCCCceEecCceeeEEEeecCCCceEEEEEEEE
Q 031356 44 SGAERISVSIDIHNQGTST-AYDVSLTDDSWPQDKFDVISGNISQSWERLDAGGILSHSFELDA 106 (161)
Q Consensus 44 ~g~~~vtV~y~IyNvG~s~-A~dV~l~D~sfp~~~F~iv~G~~s~~~~ri~pg~nvsH~vvv~p 106 (161)
.|.-+...++.|.|..+.+ .+++++. +.|... +. +..+ .+ .++||+..+..+.|+.
T Consensus 343 ~g~i~N~Y~~~i~Nk~~~~~~~~l~v~--g~~~~~--~~-~~~~-~i-~v~~g~~~~~~v~v~~ 399 (434)
T TIGR02745 343 DGVVENTYTLKILNKTEQPHEYYLSVL--GLPGIK--IE-GPGA-PI-HVKAGEKVKLPVFLRT 399 (434)
T ss_pred CCcEEEEEEEEEEECCCCCEEEEEEEe--cCCCcE--EE-cCCc-eE-EECCCCEEEEEEEEEe
Confidence 3445778889999998764 4455544 444432 22 2111 22 8999999999999984
No 42
>PF08626 TRAPPC9-Trs120: Transport protein Trs120 or TRAPPC9, TRAPP II complex subunit; InterPro: IPR013935 The trafficking protein particle complex TRAPP is a multi-protein complex needed in the early stages of the secretory pathway. To date, two kinds of TRAPP complexes have been studied, TRAPPI and TRAPP II. These complexes differ in subunit composition []. TRAPP I binds vesicles derived from the endoplasmic reticulum bringing them closer to the acceptor membrane. Trs120 is a subunit specific to the TRAPP II complex [] along with Trs65p and Trs130p(TRAPPC10). It is suggested that Trs120p is required for the stability of the Trs130p subunit, suggesting that these two proteins might interact in some way []. It is likely that there is a complex function for TRAPP II in multiple pathways [].
Probab=65.30 E-value=52 Score=33.68 Aligned_cols=98 Identities=15% Similarity=0.220 Sum_probs=59.7
Q ss_pred CCCCceEEEEeeecc---cccccCceeEEEEEEEEecCCcceeeEEEe--cCC-------------CCCCCceEecC---
Q 031356 25 SSDVPFIVAHKKASL---KRLKSGAERISVSIDIHNQGTSTAYDVSLT--DDS-------------WPQDKFDVISG--- 83 (161)
Q Consensus 25 ~~~~a~LlvsK~i~~---~~~v~g~~~vtV~y~IyNvG~s~A~dV~l~--D~s-------------fp~~~F~iv~G--- 83 (161)
..+.|.|-+...-+. -.+.+| +.-++++++.|.|+.+.-.+.++ |.. -|.|-+|+-.-
T Consensus 775 Ip~qP~L~v~~~sl~~~~~mlleG-E~~~~~ItL~N~S~~pvd~l~~sf~DS~~~~~~~~l~~k~l~~~e~yelE~~l~~ 853 (1185)
T PF08626_consen 775 IPPQPLLEVKSSSLTQGALMLLEG-EKQTFTITLRNTSSVPVDFLSFSFQDSTIEPLQKALSNKDLSPDELYELEWQLFK 853 (1185)
T ss_pred ECCCCeEEEEeccCCCcceEEECC-cEEEEEEEEEECCccccceEEEEEEeccHHHHhhhhhcccCChhhhhhhhhhhhc
Confidence 345687777775212 245677 99999999999999888877766 411 11122221110
Q ss_pred ceeeEE---EeecCCCceEEEEEEEEceeeeEEeecE--EEEEEcC
Q 031356 84 NISQSW---ERLDAGGILSHSFELDAKVKGMFHGSPA--LITFRIP 124 (161)
Q Consensus 84 ~~s~~~---~ri~pg~nvsH~vvv~p~~~G~f~~t~A--~VtY~~~ 124 (161)
....+| +.|+||+.++-.+.+.-+ .|.+.++.+ ++.|...
T Consensus 854 ~~~~~i~~~~~I~Pg~~~~~~~~~~~~-~~~~~~~~~~i~l~y~~~ 898 (1185)
T PF08626_consen 854 LPAFRILNKPPIPPGESATFTVEVDGK-PGPIQLTYADIQLEYGYS 898 (1185)
T ss_pred CcceeecccCccCCCCEEEEEEEecCc-ccccceeeeeEEEEeccc
Confidence 011223 389999999999997644 344444444 5577643
No 43
>PF00127 Copper-bind: Copper binding proteins, plastocyanin/azurin family; InterPro: IPR000923 Blue (type 1) copper proteins are small proteins which bind a single copper atom and which are characterised by an intense electronic absorption band near 600 nm [, ]. The most well known members of this class of proteins are the plant chloroplastic plastocyanins, which exchange electrons with cytochrome c6, and the distantly related bacterial azurins, which exchange electrons with cytochrome c551. This family of proteins also includes amicyanin from bacteria such as Methylobacterium extorquens or Paracoccus versutus (Thiobacillus versutus) that can grow on methylamine; auracyanins A and B from Chloroflexus aurantiacus []; blue copper protein from Alcaligenes faecalis; cupredoxin (CPC) from Cucumis sativus (Cucumber) peelings []; cusacyanin (basic blue protein; plantacyanin, CBP) from cucumber; halocyanin from Natronomonas pharaonis (Natronobacterium pharaonis) [], a membrane associated copper-binding protein; pseudoazurin from Pseudomonas; rusticyanin from Thiobacillus ferrooxidans []; stellacyanin from Rhus vernicifera (Japanese lacquer tree); umecyanin from the roots of Armoracia rusticana (Horseradish); and allergen Ra3 from ragweed. This pollen protein is evolutionary related to the above proteins, but seems to have lost the ability to bind copper. Although there is an appreciable amount of divergence in the sequences of all these proteins, the copper ligand sites are conserved.; GO: 0005507 copper ion binding, 0009055 electron carrier activity; PDB: 1UAT_A 1CUO_A 1PLC_A 4PCY_A 3PCY_A 1PND_A 1PNC_A 1JXG_A 6PCY_A 1TKW_A ....
Probab=64.84 E-value=15 Score=26.18 Aligned_cols=52 Identities=25% Similarity=0.303 Sum_probs=32.5
Q ss_pred EEEecCCcceeeEEEecCCCCCC--CceEecCceeeEEEeecCCCceEEEEEEEEceeeeEE
Q 031356 54 DIHNQGTSTAYDVSLTDDSWPQD--KFDVISGNISQSWERLDAGGILSHSFELDAKVKGMFH 113 (161)
Q Consensus 54 ~IyNvG~s~A~dV~l~D~sfp~~--~F~iv~G~~s~~~~ri~pg~nvsH~vvv~p~~~G~f~ 113 (161)
+..|. +....++.+.++++|.. .+..-.+. .-..+.||++.+++|. +.|.|.
T Consensus 28 ~~~n~-~~~~Hnv~~~~~~~~~~~~~~~~~~~~---~~~~~~~G~~~~~tF~----~~G~y~ 81 (99)
T PF00127_consen 28 TFVNN-DSMPHNVVFVADGMPAGADSDYVPPGD---SSPLLAPGETYSVTFT----KPGTYE 81 (99)
T ss_dssp EEEEE-SSSSBEEEEETTSSHTTGGHCHHSTTC---EEEEBSTTEEEEEEEE----SSEEEE
T ss_pred EEEEC-CCCCceEEEecccccccccccccCccc---cceecCCCCEEEEEeC----CCeEEE
Confidence 34455 45668999998776542 22222222 4456899999998887 555544
No 44
>PF04495 GRASP55_65: GRASP55/65 PDZ-like domain ; InterPro: IPR007583 GRASP55 (Golgi reassembly stacking protein of 55 kDa) and GRASP65 (a 65 kDa) protein are highly homologous. GRASP55 is a component of the Golgi stacking machinery. GRASP65, an N-ethylmaleimide-sensitive membrane protein required for the stacking of Golgi cisternae in a cell-free system [].; PDB: 3RLE_A 4EDJ_A.
Probab=59.81 E-value=41 Score=26.07 Aligned_cols=51 Identities=20% Similarity=0.326 Sum_probs=38.2
Q ss_pred EEEEecCCcceeeEEEec-CCCCCCCceEecCce--eeEEEeec-CCCceEEEEEEEEcee
Q 031356 53 IDIHNQGTSTAYDVSLTD-DSWPQDKFDVISGNI--SQSWERLD-AGGILSHSFELDAKVK 109 (161)
Q Consensus 53 y~IyNvG~s~A~dV~l~D-~sfp~~~F~iv~G~~--s~~~~ri~-pg~nvsH~vvv~p~~~ 109 (161)
.+|||.=+..-++|.++. +.|... |.+ +++|++.. ..+..-|+..|.|-..
T Consensus 1 l~v~~~k~~~~R~v~i~ps~~w~~~------g~LG~sv~~~~~~~~~~~~~~Vl~V~p~SP 55 (138)
T PF04495_consen 1 LNVYNAKGQTTREVSIVPSKKWGGQ------GLLGISVRFESFEGAEEEGWHVLRVAPNSP 55 (138)
T ss_dssp EEEEETTTSSEEEEEE---SSSSSS------SSS-EEEEEEE-TTGCCCEEEEEEE-TTSH
T ss_pred CceEECCCCeEEEEEEccCcccCCC------CCCcEEEEEecccccccceEEEeEecCCCH
Confidence 379999999999999976 555554 665 99999999 7888999998986543
No 45
>PRK15208 long polar fimbrial chaperone LpfB; Provisional
Probab=56.02 E-value=1.1e+02 Score=25.44 Aligned_cols=59 Identities=15% Similarity=0.216 Sum_probs=30.4
Q ss_pred ccccCceeEEEEEEEEecCCcceeeEE-EecCCCC--CCCceEecCceeeEEEeecCCCceEEEEEE
Q 031356 41 RLKSGAERISVSIDIHNQGTSTAYDVS-LTDDSWP--QDKFDVISGNISQSWERLDAGGILSHSFEL 104 (161)
Q Consensus 41 ~~v~g~~~vtV~y~IyNvG~s~A~dV~-l~D~sfp--~~~F~iv~G~~s~~~~ri~pg~nvsH~vvv 104 (161)
+++..+.+-.++++|.|.|+...+=|+ -.|+.=. ...| ++. --+-||+||+.-+-.++-
T Consensus 29 RvI~~~~~~~~si~i~N~~~~~~~LvQsWv~~~~~~~~~pf-ivt----PPl~rl~p~~~q~lRIi~ 90 (228)
T PRK15208 29 RVIYDGSKKEASLTVNNKSKTEEFLIQSWIDDANGNKKTPF-IIT----PPLFKLDPTKNNVLRIVN 90 (228)
T ss_pred EEEEeCCCceEEEEEEeCCCCCcEEEEEEEECCCCCccCCE-EEC----CCeEEECCCCccEEEEEE
Confidence 333333566788999999976544442 2332111 1124 222 235567777765555543
No 46
>PRK09918 putative fimbrial chaperone protein; Provisional
Probab=55.15 E-value=1.2e+02 Score=25.10 Aligned_cols=56 Identities=14% Similarity=0.156 Sum_probs=29.2
Q ss_pred ccCceeEEEEEEEEecCCccee-eEEEec-CCCCCCCceEecCceeeEEEeecCCCceEEEEE
Q 031356 43 KSGAERISVSIDIHNQGTSTAY-DVSLTD-DSWPQDKFDVISGNISQSWERLDAGGILSHSFE 103 (161)
Q Consensus 43 v~g~~~vtV~y~IyNvG~s~A~-dV~l~D-~sfp~~~F~iv~G~~s~~~~ri~pg~nvsH~vv 103 (161)
...+.+=..+++|.|.|+.+.. ...+.| +.=+.+.| ++. --.-||+||+.-+-.++
T Consensus 34 i~~~~~~~~si~v~N~~~~p~lvQ~wv~~~~~~~~~~f-ivt----PPl~rl~pg~~q~vRii 91 (230)
T PRK09918 34 IVEESDGEGSINVKNTDSNPILLYTTLVDLPEDKSKLL-LVT----PPVARVEPGQSQQVRFI 91 (230)
T ss_pred EEECCCCeEEEEEEcCCCCcEEEEEEEecCCCCCCCCE-EEc----CCeEEECCCCceEEEEE
Confidence 3333566778899999987532 233333 11123345 222 22446666666544444
No 47
>cd08678 C2_C21orf25-like C2 domain found in the Human chromosome 21 open reading frame 25 (C21orf25) protein. The members in this cd are named after the Human C21orf25 which contains a single C2 domain. Several other members contain a C1 domain downstream of the C2 domain. No other information on this protein is currently known. The C2 domain was first identified in PKC. C2 domains fold into an 8-standed beta-sandwich that can adopt 2 structural arrangements: Type I and Type II, distinguished by a circular permutation involving their N- and C-terminal beta strands. Many C2 domains are Ca2+-dependent membrane-targeting modules that bind a wide variety of substances including bind phospholipids, inositol polyphosphates, and intracellular proteins. Most C2 domain proteins are either signal transduction enzymes that contain a single C2 domain, such as protein kinase C, or membrane trafficking proteins which contain at least two C2 domains, such as synaptotagmin 1. However, there are a
Probab=55.08 E-value=79 Score=22.92 Aligned_cols=74 Identities=18% Similarity=0.186 Sum_probs=49.3
Q ss_pred ccccCceeEEEEEEEEecCCcceeeEEEec-CCCCCCCceEecCceeeEEEeecCCCceEEEEEEEEc------eeeeEE
Q 031356 41 RLKSGAERISVSIDIHNQGTSTAYDVSLTD-DSWPQDKFDVISGNISQSWERLDAGGILSHSFELDAK------VKGMFH 113 (161)
Q Consensus 41 ~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D-~sfp~~~F~iv~G~~s~~~~ri~pg~nvsH~vvv~p~------~~G~f~ 113 (161)
.++-+ +.+++.+. .......|++-| +.+..++| + |......+.|..+.+..+.+.+.|+ ..|...
T Consensus 43 nP~Wn-e~f~f~~~----~~~~~l~~~v~d~~~~~~~~~-l--G~~~i~l~~l~~~~~~~~~~~L~~~~~~~~~~~G~l~ 114 (126)
T cd08678 43 NPFWD-EHFLFELS----PNSKELLFEVYDNGKKSDSKF-L--GLAIVPFDELRKNPSGRQIFPLQGRPYEGDSVSGSIT 114 (126)
T ss_pred CCccC-ceEEEEeC----CCCCEEEEEEEECCCCCCCce-E--EEEEEeHHHhccCCceeEEEEecCCCCCCCCcceEEE
Confidence 45555 56655431 234568888888 55545555 3 7888889999999999999999876 345554
Q ss_pred eecEEEEEEcCC
Q 031356 114 GSPALITFRIPT 125 (161)
Q Consensus 114 ~t~A~VtY~~~~ 125 (161)
+ ++.|..++
T Consensus 115 l---~~~~~~~~ 123 (126)
T cd08678 115 V---EFLFMEPA 123 (126)
T ss_pred E---EEEEeccc
Confidence 4 55665544
No 48
>PRK15098 beta-D-glucoside glucohydrolase; Provisional
Probab=55.03 E-value=47 Score=32.46 Aligned_cols=84 Identities=12% Similarity=0.145 Sum_probs=58.3
Q ss_pred eeEEEEEEEEecCCcceeeEEEecCCCCCCCc----eEecCceeeEEEeecCCCceEEEEEEEEceeeeEEeecEEEEEE
Q 031356 47 ERISVSIDIHNQGTSTAYDVSLTDDSWPQDKF----DVISGNISQSWERLDAGGILSHSFELDAKVKGMFHGSPALITFR 122 (161)
Q Consensus 47 ~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~~F----~iv~G~~s~~~~ri~pg~nvsH~vvv~p~~~G~f~~t~A~VtY~ 122 (161)
..++|+.+|-|.|+-+...|.-.=-+.|...- .-..|- .|. .|+||++.+-++.+.++..+.|.-.. .|.
T Consensus 667 ~~i~v~v~V~NtG~~~G~EVvQlYv~~~~~~~~~P~k~L~gF--~Kv-~L~pGes~~V~~~l~~~~L~~~d~~~---~~~ 740 (765)
T PRK15098 667 GKVTASVTVTNTGKREGATVVQLYLQDVTASMSRPVKELKGF--EKI-MLKPGETQTVSFPIDIEALKFWNQQM---KYV 740 (765)
T ss_pred CeEEEEEEEEECCCCCccEEEEEeccCCCCCCCCHHHhccCc--eeE-eECCCCeEEEEEeecHHHhceECCCC---cEE
Confidence 57999999999999988876544333332211 001222 233 59999999999999999999998753 566
Q ss_pred cCCC-cceeEEeecC
Q 031356 123 IPTK-AALQEAYSTP 136 (161)
Q Consensus 123 ~~~~-~~~q~a~Ss~ 136 (161)
...+ =...+|.||.
T Consensus 741 ~e~G~y~v~vG~ss~ 755 (765)
T PRK15098 741 AEPGKFNVFIGLDSA 755 (765)
T ss_pred EeCceEEEEEECCCC
Confidence 6666 3366887774
No 49
>COG1470 Predicted membrane protein [Function unknown]
Probab=53.61 E-value=95 Score=29.41 Aligned_cols=72 Identities=17% Similarity=0.335 Sum_probs=54.9
Q ss_pred eeEEEEEEEEecCCc-ceeeEEEecCCCCCC-CceEecCceeeEEEeecCCCceEEEEEEEEc---eeeeEEeecEEEE
Q 031356 47 ERISVSIDIHNQGTS-TAYDVSLTDDSWPQD-KFDVISGNISQSWERLDAGGILSHSFELDAK---VKGMFHGSPALIT 120 (161)
Q Consensus 47 ~~vtV~y~IyNvG~s-~A~dV~l~D~sfp~~-~F~iv~G~~s~~~~ri~pg~nvsH~vvv~p~---~~G~f~~t~A~Vt 120 (161)
.-..+.++|-|.|.. .-|+.++. ++|+. .-+...|...++-=+|.||+.-.-++.|+|. ..|.||++-+..+
T Consensus 284 ~t~sf~V~IeN~g~~~d~y~Le~~--g~pe~w~~~Fteg~~~vt~vkL~~gE~kdvtleV~ps~na~pG~Ynv~I~A~s 360 (513)
T COG1470 284 TTASFTVSIENRGKQDDEYALELS--GLPEGWTAEFTEGELRVTSVKLKPGEEKDVTLEVYPSLNATPGTYNVTITASS 360 (513)
T ss_pred CceEEEEEEccCCCCCceeEEEec--cCCCCcceEEeeCceEEEEEEecCCCceEEEEEEecCCCCCCCceeEEEEEec
Confidence 455788899999987 44555555 44443 1225599999999999999999999999976 4699999877665
No 50
>PF11797 DUF3324: Protein of unknown function C-terminal (DUF3324); InterPro: IPR021759 This family consists of several hypothetical bacterial proteins of unknown function.
Probab=53.43 E-value=44 Score=25.56 Aligned_cols=53 Identities=13% Similarity=0.290 Sum_probs=33.6
Q ss_pred ecccccccCceeEEEEEEEEecCCc-ceeeEEEecCC-CCCCCceEecCceeeEE--EeecCC
Q 031356 37 ASLKRLKSGAERISVSIDIHNQGTS-TAYDVSLTDDS-WPQDKFDVISGNISQSW--ERLDAG 95 (161)
Q Consensus 37 i~~~~~v~g~~~vtV~y~IyNvG~s-~A~dV~l~D~s-fp~~~F~iv~G~~s~~~--~ri~pg 95 (161)
+.|..+..= .+++++..||+.|+. .-+.-+..+-+ =|...|++ ...| ++|+||
T Consensus 50 l~N~~~~~l-~~~~v~a~V~~~~~~k~~~~~~~~~~~mAPNS~f~~-----~i~~~~~~lk~G 106 (140)
T PF11797_consen 50 LQNPQPAIL-KKLTVDAKVTKKGSKKVLYTFKKENMQMAPNSNFNF-----PIPLGGKKLKPG 106 (140)
T ss_pred EECCCchhh-cCcEEEEEEEECCCCeEEEEeeccCCEECCCCeEEe-----EecCCCcCccCC
Confidence 666666666 689999999999975 55555555532 23445544 3444 466666
No 51
>PF00207 A2M: Alpha-2-macroglobulin family; InterPro: IPR001599 This entry contains serum complement C3 and C4 precursors and alpha-macrogrobulins. The alpha-macroglobulin (aM) family of proteins includes protease inhibitors [], typified by the human tetrameric a2-macroglobulin (a2M); they belong to the MEROPS proteinase inhibitor family I39, clan IL. These protease inhibitors share several defining properties, which include (i) the ability to inhibit proteases from all catalytic classes, (ii) the presence of a 'bait region' and a thiol ester, (iii) a similar protease inhibitory mechanism and (iv) the inactivation of the inhibitory capacity by reaction of the thiol ester with small primary amines. aM protease inhibitors inhibit by steric hindrance []. The mechanism involves protease cleavage of the bait region, a segment of the aM that is particularly susceptible to proteolytic cleavage, which initiates a conformational change such that the aM collapses about the protease. In the resulting aM-protease complex, the active site of the protease is sterically shielded, thus substantially decreasing access to protein substrates. Two additional events occur as a consequence of bait region cleavage, namely (i) the h-cysteinyl-g-glutamyl thiol ester becomes highly reactive and (ii) a major conformational change exposes a conserved COOH-terminal receptor binding domain [] (RBD). RBD exposure allows the aM protease complex to bind to clearance receptors and be removed from circulation []. Tetrameric, dimeric, and, more recently, monomeric aM protease inhibitors have been identified [, ].; GO: 0004866 endopeptidase inhibitor activity; PDB: 3KLS_B 3PRX_C 3KM9_B 3PVM_C 3CU7_A 4E0S_A 4A5W_A 2PN5_A 3FRP_G 3HRZ_B ....
Probab=50.61 E-value=31 Score=24.15 Aligned_cols=37 Identities=19% Similarity=0.345 Sum_probs=23.6
Q ss_pred eEEEEeee-----cccccccCceeEEEEEEEEecCCcceeeEEE
Q 031356 30 FIVAHKKA-----SLKRLKSGAERISVSIDIHNQGTSTAYDVSL 68 (161)
Q Consensus 30 ~LlvsK~i-----~~~~~v~g~~~vtV~y~IyNvG~s~A~dV~l 68 (161)
.+.++|.+ +...+..| +.+.+.++|+|.++. ..+|++
T Consensus 49 ~~~v~~p~~i~~~lP~~l~~G-D~~~i~v~v~N~~~~-~~~v~V 90 (92)
T PF00207_consen 49 EITVFKPFFIQLNLPRSLRRG-DQIQIPVTVFNYTDK-DQEVTV 90 (92)
T ss_dssp EEEEB-SEEEEEE--SEEETT-SEEEEEEEEEE-SSS--EEEEE
T ss_pred EEEEEeeEEEEcCCCcEEecC-CEEEEEEEEEeCCCC-CEEEEE
Confidence 45555543 25677888 999999999999875 345544
No 52
>PF13473 Cupredoxin_1: Cupredoxin-like domain; PDB: 1IBZ_D 1IC0_E 1IBY_D.
Probab=50.46 E-value=22 Score=25.35 Aligned_cols=41 Identities=17% Similarity=0.373 Sum_probs=23.7
Q ss_pred eeeEEEecCCCCCCCceEecCc-eeeEEEeecCCCceEEEEEEEE
Q 031356 63 AYDVSLTDDSWPQDKFDVISGN-ISQSWERLDAGGILSHSFELDA 106 (161)
Q Consensus 63 A~dV~l~D~sfp~~~F~iv~G~-~s~~~~ri~pg~nvsH~vvv~p 106 (161)
...|++.|..|.|+..++-.|. ....|.....+. |.+++.-
T Consensus 22 ~v~I~~~~~~f~P~~i~v~~G~~v~l~~~N~~~~~---h~~~i~~ 63 (104)
T PF13473_consen 22 TVTITVTDFGFSPSTITVKAGQPVTLTFTNNDSRP---HEFVIPD 63 (104)
T ss_dssp --------EEEES-EEEEETTCEEEEEEEE-SSS----EEEEEGG
T ss_pred cccccccCCeEecCEEEEcCCCeEEEEEEECCCCc---EEEEECC
Confidence 3567777778999999999999 478887775554 8887653
No 53
>COG2373 Large extracellular alpha-helical protein [General function prediction only]
Probab=47.04 E-value=62 Score=34.69 Aligned_cols=82 Identities=22% Similarity=0.333 Sum_probs=58.6
Q ss_pred ecccccccCceeEEEEEEEEecCCcceeeEEEecCCCCCCCceEecCceee----------------------EEEee--
Q 031356 37 ASLKRLKSGAERISVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVISGNISQ----------------------SWERL-- 92 (161)
Q Consensus 37 i~~~~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~~s~----------------------~~~ri-- 92 (161)
+....+..| ..+.|..++-+..+.+ |+-|.|. =|..||+..=+... +-||+
T Consensus 1495 v~~~~l~~g-~~~~v~l~v~~~~~~~--~~~v~Dl--LPaG~Ev~~~~~~~~~~~n~~~~~~~~~~~~~~~e~r~DR~va 1569 (1621)
T COG2373 1495 VDPVELRSG-DLYLVVLTVTAQNDVP--DLLVEDL--LPAGFEVENTTLGIGSAPNEALLSWLESADAEHGEIRDDRFVA 1569 (1621)
T ss_pred CccccccCC-CEEEEEEEEEecCCcc--ceEEEec--CCCceEEeccccccccccccchhhHHHHHHhhhhhhccceEEE
Confidence 444566777 8888999999888877 8888883 34457766543322 11222
Q ss_pred ---cCCCceEEEEEEEEceeeeEEeecEEEE--EEc
Q 031356 93 ---DAGGILSHSFELDAKVKGMFHGSPALIT--FRI 123 (161)
Q Consensus 93 ---~pg~nvsH~vvv~p~~~G~f~~t~A~Vt--Y~~ 123 (161)
.-++..+..|++|+...|.|..++|.|- |++
T Consensus 1570 ~~~~~~~~~~l~Y~vRAvtpGtf~lPpa~ve~MY~p 1605 (1621)
T COG2373 1570 ALDDEGEPVTLAYLVRAVTPGTFQLPPARVEDMYRP 1605 (1621)
T ss_pred EeccCCCceEEEEEEEEecCceecCChhHhhhhcCh
Confidence 2457799999999999999999999874 554
No 54
>PF03314 DUF273: Protein of unknown function, DUF273; InterPro: IPR004988 This is a family of proteins of unknown function.
Probab=46.66 E-value=12 Score=31.81 Aligned_cols=48 Identities=23% Similarity=0.385 Sum_probs=41.8
Q ss_pred eeEEEEEEEEecCCcceeeEEEecCCCCCC-CceEecCceeeEEEeecCCC
Q 031356 47 ERISVSIDIHNQGTSTAYDVSLTDDSWPQD-KFDVISGNISQSWERLDAGG 96 (161)
Q Consensus 47 ~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~-~F~iv~G~~s~~~~ri~pg~ 96 (161)
.+.. ++.|+..|.+=|+|.=|+|..|+++ +| +.+|--......+|.|.
T Consensus 168 t~F~-kvrIl~KGtgWaRD~WLT~s~Ws~~~DF-MlHGwK~~~l~~~p~~~ 216 (222)
T PF03314_consen 168 TDFP-KVRILKKGTGWARDGWLTSSVWSPERDF-MLHGWKTKQLKPTPNGT 216 (222)
T ss_pred cccc-ceEEeeccccceecccccccccCCccch-hhhhhhhhccccCCCCc
Confidence 4555 7899999999999999999999999 99 99998888888888764
No 55
>PF08441 Integrin_alpha2: Integrin alpha; InterPro: IPR013649 This domain is found in integrin alpha and integrin alpha precursors to the C terminus of a number of IPR013517 from INTERPRO repeats and to the N terminus of the IPR013513 from INTERPRO cytoplasmic region. ; PDB: 1M1X_A 1U8C_A 1L5G_A 3IJE_A 1JV2_A 2VDN_A 2VC2_A 3NIF_A 3NIG_C 2VDM_A ....
Probab=44.72 E-value=54 Score=29.15 Aligned_cols=46 Identities=22% Similarity=0.405 Sum_probs=31.1
Q ss_pred ceEEEEeeecccc----cccCc-eeEEEEEEEEecCCcceeeEEEecCCCCCC
Q 031356 29 PFIVAHKKASLKR----LKSGA-ERISVSIDIHNQGTSTAYDVSLTDDSWPQD 76 (161)
Q Consensus 29 a~LlvsK~i~~~~----~v~g~-~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~ 76 (161)
|.|-++-++.... ++.|. +++.++++|-|.|+ .||+-+|.= .+|+.
T Consensus 168 ~dL~l~~~~~~~~~~~~l~lg~~~~l~l~v~v~N~GE-~AY~a~l~v-~~P~~ 218 (457)
T PF08441_consen 168 SDLQLSASFSNSESSDVLVLGSDNTLNLNVTVTNKGE-DAYEAKLTV-TYPSG 218 (457)
T ss_dssp --EEEEEEETS-CS---EECSS-EEEEEEEEEEESSS--BSSEEEEE-EEETT
T ss_pred cCeEEEEEecCccceeEEEECCCCEEEEEEEEEECCC-CCCceeEEE-ECCCC
Confidence 4455555555555 55543 78999999999997 999988885 46654
No 56
>PLN02171 endoglucanase
Probab=44.31 E-value=1.4e+02 Score=28.98 Aligned_cols=62 Identities=19% Similarity=0.268 Sum_probs=46.2
Q ss_pred cCceeEEEEEEEEecCCcceeeEEEecCCCCCCCceEec---CceeeEE-EeecCCCceEEEEEEE
Q 031356 44 SGAERISVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVIS---GNISQSW-ERLDAGGILSHSFELD 105 (161)
Q Consensus 44 ~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~---G~~s~~~-~ri~pg~nvsH~vvv~ 105 (161)
-|..-..++.+|+|.+..++.+++|.-..+..+-+++.. |..--+| ..|++|++.+-.++.+
T Consensus 550 ~g~~y~qy~v~I~N~s~~~ik~i~i~~~~~~~~iW~v~~~~ngytlPs~~~sL~aG~s~tFgyI~~ 615 (629)
T PLN02171 550 KGRTYYRYSTTVTNRSAKTLKELHLGISKLYGPLWGLTKAGYGYVLPSWMPSLPAGKSLEFVYVHS 615 (629)
T ss_pred CCceEEEEEEEEEECCCCceeeeeeeeccccccchheeecCCcccCchhhcccCCCCeeEEEeecC
Confidence 344566788999999999999999986567777777754 2222233 4999999999888855
No 57
>TIGR03102 halo_cynanin halocyanin domain. Halocyanins are blue (type I) copper redox proteins found in halophilic archaea such as Natronobacterium pharaonis. This model represents a domain duplicated in some halocyanins, while appearing once in others. This domain includes the characteristic copper ligand residues. This family does not include plastocyanins, and does not include certain divergent paralogs of halocyanin.
Probab=41.64 E-value=92 Score=23.43 Aligned_cols=46 Identities=15% Similarity=0.234 Sum_probs=28.5
Q ss_pred EEEEecCCcceeeEEEec-CCCCCCCceEecCceeeEEEeecCCCceEEEEEEEEceeeeEEe
Q 031356 53 IDIHNQGTSTAYDVSLTD-DSWPQDKFDVISGNISQSWERLDAGGILSHSFELDAKVKGMFHG 114 (161)
Q Consensus 53 y~IyNvG~s~A~dV~l~D-~sfp~~~F~iv~G~~s~~~~ri~pg~nvsH~vvv~p~~~G~f~~ 114 (161)
++.-|.++..+++|+..+ ..|.. |. ..+++|++.+|+|. +.|.|.+
T Consensus 52 Vtw~~~~d~~~HnV~s~~~~~f~s-------~~-----~~~~~G~t~s~Tf~----~~G~Y~Y 98 (115)
T TIGR03102 52 VVWEWTGEGGGHNVVSDGDGDLDE-------SE-----RVSEEGTTYEHTFE----EPGIYLY 98 (115)
T ss_pred EEEEECCCCCCEEEEECCCCCccc-------cc-----cccCCCCEEEEEec----CCcEEEE
Confidence 456677777888988764 22321 11 13468888888885 4566554
No 58
>PF00630 Filamin: Filamin/ABP280 repeat; InterPro: IPR017868 The many different actin cross-linking proteins share a common architecture, consisting of a globular actin-binding domain and an extended rod. Whereas their actin-binding domains consist of two calponin homology domains (see IPR001715 from INTERPRO), their rods fall into three families. The rod domain of the family including the Dictyostelium discoideum (Slime mould) gelation factor (ABP120) and human filamin (ABP280) is constructed from tandem repeats of a 100-residue motif that is glycine and proline rich []. The gelation factor's rod contains 6 copies of the repeat, whereas filamin has a rod constructed from 24 repeats. The resolution of the 3D structure of rod repeats from the gelation factor has shown that they consist of a beta-sandwich, formed by two beta-sheets arranged in an immunoglobulin-like fold [, ]. Because conserved residues that form the core of the repeats are preserved in filamin, the repeat structure should be common to the members of the gelation factor/filamin family. The head to tail homodimerisation is crucial to the function of the ABP120 and ABP280 proteins. This interaction involves a small portion at the distal end of the rod domains. For the gelation factor it has been shown that the carboxy-terminal repeat 6 dimerises through a double edge-to-edge extension of the beta-sheet and that repeat 5 contributes to dimerisation to some extent [, , ].; PDB: 2DI9_A 2EEC_A 2DIC_A 2EEA_A 2DMC_A 2EE9_A 2D7O_A 2D7N_A 2K7P_A 2NQC_A ....
Probab=40.88 E-value=1.2e+02 Score=20.79 Aligned_cols=70 Identities=13% Similarity=0.228 Sum_probs=44.5
Q ss_pred cccccCceeEEEEEEEEecCCcc------eeeEEEecCCCCCCCceEecCceeeEEEeecCCCceEEEEEEEEceeeeEE
Q 031356 40 KRLKSGAERISVSIDIHNQGTST------AYDVSLTDDSWPQDKFDVISGNISQSWERLDAGGILSHSFELDAKVKGMFH 113 (161)
Q Consensus 40 ~~~v~g~~~vtV~y~IyNvG~s~------A~dV~l~D~sfp~~~F~iv~G~~s~~~~ri~pg~nvsH~vvv~p~~~G~f~ 113 (161)
+...+| +..++.++..+.+..+ ...|++.+++=..+. ....++ +....+=++.+..+|+..|.|+
T Consensus 15 ~~~~~g-~~~~F~V~~~d~~g~~~~~~~~~~~v~i~~p~~~~~~-------~~~~~~-v~~~~~G~y~v~y~p~~~G~y~ 85 (101)
T PF00630_consen 15 EPAVVG-EPATFTVDTRDAGGNPVSSGGDEFQVTITSPDGKEEP-------VPVPVE-VIDNGDGTYTVSYTPTEPGKYK 85 (101)
T ss_dssp TEEETT-SEEEEEEEETTTTSSBEESTSSEEEEEEESSSSESS---------EEEEE-EEEESSSEEEEEEEESSSEEEE
T ss_pred CCeECC-CcEEEEEEEccCCCCccccCCceeEEEEeCCCCCccc-------cccceE-EEECCCCEEEEEEEeCccEeEE
Confidence 445778 8999999999996553 346777653111000 033343 3333444888888999999998
Q ss_pred eecEEEEE
Q 031356 114 GSPALITF 121 (161)
Q Consensus 114 ~t~A~VtY 121 (161)
+ .|+|
T Consensus 86 i---~V~~ 90 (101)
T PF00630_consen 86 I---SVKI 90 (101)
T ss_dssp E---EEEE
T ss_pred E---EEEE
Confidence 8 5555
No 59
>cd08379 C2D_MCTP_PRT_plant C2 domain fourth repeat found in Multiple C2 domain and Transmembrane region Proteins (MCTP); plant subset. MCTPs are involved in Ca2+ signaling at the membrane. Plant-MCTPs are composed of a variable N-terminal sequence, four C2 domains, two transmembrane regions (TMRs), and a short C-terminal sequence. It is one of four protein classes that are anchored to membranes via a transmembrane region; the others being synaptotagmins, extended synaptotagmins, and ferlins. MCTPs are the only membrane-bound C2 domain proteins that contain two functional TMRs. MCTPs are unique in that they bind Ca2+ but not phospholipids. C2 domains fold into an 8-standed beta-sandwich that can adopt 2 structural arrangements: Type I and Type II, distinguished by a circular permutation involving their N- and C-terminal beta strands. Many C2 domains are Ca2+-dependent membrane-targeting modules that bind a wide variety of substances including bind phospholipids, inositol polyphosphate
Probab=40.80 E-value=1e+02 Score=23.13 Aligned_cols=46 Identities=22% Similarity=0.318 Sum_probs=33.8
Q ss_pred CcceeeEEEec-CCC------CCCCceEecCceeeEEEeecCCCceEEEEEEEEce
Q 031356 60 TSTAYDVSLTD-DSW------PQDKFDVISGNISQSWERLDAGGILSHSFELDAKV 108 (161)
Q Consensus 60 ~s~A~dV~l~D-~sf------p~~~F~iv~G~~s~~~~ri~pg~nvsH~vvv~p~~ 108 (161)
.....+|++-| +.+ ..++| + |........+.+|....|.|.+++..
T Consensus 61 ~~~~l~v~V~d~d~~~~~~~~~~dd~--l-G~~~i~l~~l~~~~~~~~~~~L~~~~ 113 (126)
T cd08379 61 PCTVLTVGVFDNSQSHWKEAVQPDVL--I-GKVRIRLSTLEDDRVYAHSYPLLSLN 113 (126)
T ss_pred CCCEEEEEEEECCCccccccCCCCce--E-EEEEEEHHHccCCCEEeeEEEeEeCC
Confidence 34578999988 333 14444 3 77777777999999999999999554
No 60
>PF14263 DUF4354: Domain of unknown function (DUF4354); PDB: 3NRF_B 3SB3_A.
Probab=40.26 E-value=83 Score=24.40 Aligned_cols=92 Identities=14% Similarity=0.168 Sum_probs=36.4
Q ss_pred HHHHHHHhhhcccCCCCceEEEEeeecccccccCce---eEEEEEEEEecCCcceeeEEEec---CCCCCCCceEecCce
Q 031356 12 VLIALFLISSSFASSDVPFIVAHKKASLKRLKSGAE---RISVSIDIHNQGTSTAYDVSLTD---DSWPQDKFDVISGNI 85 (161)
Q Consensus 12 ~llal~~v~~~~~~~~~a~LlvsK~i~~~~~v~g~~---~vtV~y~IyNvG~s~A~dV~l~D---~sfp~~~F~iv~G~~ 85 (161)
++|+.++..+.+...+.-.+.+.++-...--+.| + ..++++.+.|.++.+. +|+. .-|.++.=++..-..
T Consensus 10 ~~l~~~~~~a~a~~~d~i~V~At~~~~Gs~sv~~-k~~ytktF~V~vaN~s~~~i---dLsk~Cf~a~~~~gk~f~ldTV 85 (124)
T PF14263_consen 10 VALASFSFSANASAPDNIAVYATEKSQGSVSVGG-KSFYTKTFDVTVANLSDKDI---DLSKMCFKAYSPDGKEFKLDTV 85 (124)
T ss_dssp ---------------SSEEEEEEEEEEEEEEETT-EEEEEEEEEEEEEE-SSS-E---E-TT-EEEEEETTS-EEEEEEE
T ss_pred HHHHHHHHhhhhccCCCeEEEEEecCCccEeecC-ccceEEEEEEEEecCCCCcc---ccccchhhhccccCCEEEeccc
Confidence 4444443333333334344666665543333333 3 3578889999999754 4544 122233222222111
Q ss_pred --eeEEEeecCCCceEEEEEEEEc
Q 031356 86 --SQSWERLDAGGILSHSFELDAK 107 (161)
Q Consensus 86 --s~~~~ri~pg~nvsH~vvv~p~ 107 (161)
+..=..|.||+++.=.++--..
T Consensus 86 d~~L~~g~lK~g~s~kG~avFaS~ 109 (124)
T PF14263_consen 86 DEELTSGTLKPGESVKGIAVFASD 109 (124)
T ss_dssp -GGGG-SEE-TT-EEEEEEEEEES
T ss_pred chhhhhccccCCCceeEEEEEeeC
Confidence 2222468899988776665543
No 61
>TIGR03096 nitroso_cyanin nitrosocyanin. Nitrosocyanin, as described from the obligate chemolithoautotroph Nitrosomonas europaea, is a red copper protein of unknown function with sequence similarity to a number of blue copper redox proteins.
Probab=39.73 E-value=1.8e+02 Score=22.71 Aligned_cols=23 Identities=26% Similarity=0.356 Sum_probs=12.7
Q ss_pred EeecCCCceEEEEEEEEceeeeEEe
Q 031356 90 ERLDAGGILSHSFELDAKVKGMFHG 114 (161)
Q Consensus 90 ~ri~pg~nvsH~vvv~p~~~G~f~~ 114 (161)
..|+||++.+ +...|.+.|.|.|
T Consensus 94 ~~I~pGet~T--itF~adKpG~Y~y 116 (135)
T TIGR03096 94 EVIKAGETKT--ISFKADKAGAFTI 116 (135)
T ss_pred eEECCCCeEE--EEEECCCCEEEEE
Confidence 3566655443 4445666666654
No 62
>PRK12634 flgD flagellar basal body rod modification protein; Reviewed
Probab=39.40 E-value=1.4e+02 Score=24.94 Aligned_cols=39 Identities=23% Similarity=0.440 Sum_probs=24.6
Q ss_pred EEEEEEEecCCcceeeEEEecCCCCCCCceEecCceeeEEEeecCCCc
Q 031356 50 SVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVISGNISQSWERLDAGGI 97 (161)
Q Consensus 50 tV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~~s~~~~ri~pg~n 97 (161)
.++++|||--...-+.+++.+ .-.|.-...||-...+.+
T Consensus 123 ~v~i~I~d~~G~~V~t~~lg~---------~~aG~~~f~WDG~d~~G~ 161 (221)
T PRK12634 123 FVNFEITDANGAFVKQISVPA---------SAAGEVSFAWDGTDANGN 161 (221)
T ss_pred eEEEEEEcCCCCEEEEEecCC---------cCCCceeEEECCCCCCCC
Confidence 466777776554555666543 336888899998655443
No 63
>PRK06655 flgD flagellar basal body rod modification protein; Reviewed
Probab=39.01 E-value=1.7e+02 Score=24.48 Aligned_cols=53 Identities=21% Similarity=0.377 Sum_probs=29.0
Q ss_pred EEEEEEEecCCcceeeEEEecCCCCCCCceEecCceeeEEEeecCCCce----EEEEEEEEceeee
Q 031356 50 SVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVISGNISQSWERLDAGGIL----SHSFELDAKVKGM 111 (161)
Q Consensus 50 tV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~~s~~~~ri~pg~nv----sH~vvv~p~~~G~ 111 (161)
.|+++|||--...-+.+++.. .-.|.....||.++...+. .++|.|.++..|.
T Consensus 127 ~vti~I~D~~G~~Vrt~~lg~---------~~aG~~~f~WDG~d~~G~~lp~G~Yt~~V~A~~~g~ 183 (225)
T PRK06655 127 NVTVTITDSAGQVVRTIDLGA---------QSAGVVSFTWDGTDTDGNALPDGNYTIKASASVGGK 183 (225)
T ss_pred EEEEEEEcCCCCEEEEEecCC---------cCCCceeEEECCCCCCCCcCCCeeEEEEEEEEeCCc
Confidence 466666665333334444432 3367778999997775542 3444444443333
No 64
>cd08547 Type_II_cohesin Type II cohesin domain, interaction partner of dockerin. Bacterial cohesin domains bind to a complementary protein domain named dockerin, and this interaction is required for the formation of the cellulosome, a cellulose-degrading complex. The cellulosome consists of scaffoldin, a noncatalytic scaffolding polypeptide, that comprises repeating cohesion modules and a single carbohydrate-binding module (CBM). Specific calcium-dependent interactions between cohesins and dockerins appear to be essential for cellulosome assembly. This subfamily represents type II cohesins; their interactions with dockerin mediate attachment of the cellulosome complex to the bacterial cell wall.
Probab=38.93 E-value=1.5e+02 Score=21.48 Aligned_cols=39 Identities=21% Similarity=0.483 Sum_probs=31.8
Q ss_pred cccCceeEEEEEEEEecCCcceeeEEEecCCCCCCCceEecCc
Q 031356 42 LKSGAERISVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVISGN 84 (161)
Q Consensus 42 ~v~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~ 84 (161)
...| +.++|.+.+-|...-.+++++|. |.++.+++++..
T Consensus 12 v~~G-~~~~v~v~~~~~~~~~~~~~~l~---YD~~~l~~~~~~ 50 (132)
T cd08547 12 VKVG-ETFTVTVKVNNATNLAGYQFTLS---YDPSVLEFVSVT 50 (132)
T ss_pred cCCC-CEEEEEEEEeccCceEEEEEEEE---ECcceEEEEecc
Confidence 6778 89999999999997778888776 667888888754
No 65
>PF07760 DUF1616: Protein of unknown function (DUF1616); InterPro: IPR011674 This is a group of sequences from hypothetical archaeal proteins. The region in question is approximately 330 amino acid residues long.
Probab=38.76 E-value=1.6e+02 Score=25.06 Aligned_cols=67 Identities=18% Similarity=0.389 Sum_probs=45.6
Q ss_pred cccccCceeEEEEEEEEecCCc-ceeeEEE--ecCCCCCCCceEecCce--eeEEEeecCCCceEEEEEEEEce
Q 031356 40 KRLKSGAERISVSIDIHNQGTS-TAYDVSL--TDDSWPQDKFDVISGNI--SQSWERLDAGGILSHSFELDAKV 108 (161)
Q Consensus 40 ~~~v~g~~~vtV~y~IyNvG~s-~A~dV~l--~D~sfp~~~F~iv~G~~--s~~~~ri~pg~nvsH~vvv~p~~ 108 (161)
+.+..| ++.++...|+|-... ..|.|++ .+..|.++...+..... .-.. .|+.|++.+..+.+.|..
T Consensus 185 t~l~~g-e~~~v~vgI~NhE~~~~~Ytv~v~l~~~~~~~~~~~~~~~~~l~~~~~-~L~~n~t~~~~~~~~~~~ 256 (287)
T PF07760_consen 185 TNLTSG-EPGTVIVGIENHEGRPENYTVVVVLQNVTWNPNNYNVMESTVLDRPIV-TLADNETWEQPYKFTPFI 256 (287)
T ss_pred eeEEcC-CcEEEEEEEEcCCCCcEEEEEEEEEeccccccccccccchhcccceEE-EeCCCCeEEEEEEEEEec
Confidence 445577 899999999998754 5555554 55556644444444333 2333 899999999999999833
No 66
>PF14310 Fn3-like: Fibronectin type III-like domain; PDB: 3ABZ_D 3AC0_D 2X40_A 2X41_A 2X42_A.
Probab=38.44 E-value=28 Score=23.30 Aligned_cols=25 Identities=20% Similarity=0.243 Sum_probs=20.8
Q ss_pred eecCCCceEEEEEEEEceeeeEEee
Q 031356 91 RLDAGGILSHSFELDAKVKGMFHGS 115 (161)
Q Consensus 91 ri~pg~nvsH~vvv~p~~~G~f~~t 115 (161)
.|+||++.+.++.|.|...+.++-.
T Consensus 28 ~l~pGes~~v~~~l~~~~l~~~d~~ 52 (71)
T PF14310_consen 28 SLAPGESKTVSFTLPPEDLAYWDED 52 (71)
T ss_dssp EE-TT-EEEEEEEEEHHHHEEEETT
T ss_pred EECCCCEEEEEEEECHHHEeeEcCC
Confidence 3999999999999999999988875
No 67
>PRK11385 putativi pili assembly chaperone; Provisional
Probab=38.27 E-value=2.4e+02 Score=23.67 Aligned_cols=59 Identities=15% Similarity=0.078 Sum_probs=32.7
Q ss_pred cccccCceeEEEEEEEEecCCcceeeEEE-ecCCCC----------CCCceEecCceeeEEEeecCCCceEEEEEEE
Q 031356 40 KRLKSGAERISVSIDIHNQGTSTAYDVSL-TDDSWP----------QDKFDVISGNISQSWERLDAGGILSHSFELD 105 (161)
Q Consensus 40 ~~~v~g~~~vtV~y~IyNvG~s~A~dV~l-~D~sfp----------~~~F~iv~G~~s~~~~ri~pg~nvsH~vvv~ 105 (161)
.+++-.+.+=.++++|.|.|+.+. =|+. .| .++ ...| ++. --+-||+||+.-+-.++..
T Consensus 33 TRvIy~~~~~~~sv~l~N~~~~p~-LvQswv~-~~~~~~~~~~~~~~~pF-ivt----PPlfrl~p~~~q~lRIi~~ 102 (236)
T PRK11385 33 TRFIFPADRESISILLTNTSQESW-LINSKIN-RPTRWAGGEASTVPAPL-LAA----PPLILLKPGTTGTLRLLRT 102 (236)
T ss_pred eEEEEcCCCceEEEEEEeCCCCcE-EEEEEcc-cCccccCcccccccCCE-EEc----CCeEEECCCCceEEEEEEC
Confidence 444444456778889999999864 3333 22 111 1224 221 2355777777766666554
No 68
>PF12742 Gryzun-like: Gryzun, putative Golgi trafficking
Probab=37.37 E-value=89 Score=21.20 Aligned_cols=40 Identities=13% Similarity=0.312 Sum_probs=33.5
Q ss_pred CCCceEecCceeeEEEeecCCCceEEEEEEEEceeeeEEeec
Q 031356 75 QDKFDVISGNISQSWERLDAGGILSHSFELDAKVKGMFHGSP 116 (161)
Q Consensus 75 ~~~F~iv~G~~s~~~~ri~pg~nvsH~vvv~p~~~G~f~~t~ 116 (161)
++.| ++.|....++ ++-||+.-+-.+.-.|...|.+..+.
T Consensus 15 n~~F-~v~G~~~~~~-~~~~~~~~~i~~~Fipl~aG~~~LP~ 54 (57)
T PF12742_consen 15 NDNF-IVCGPKKMNF-HMWPGQKFEIPYNFIPLTAGFLKLPK 54 (57)
T ss_pred CCce-EEEccceeEE-EEccCceEEEEEEEEEeehheecCcc
Confidence 5678 8888776666 88999999999999999999987654
No 69
>PF06030 DUF916: Bacterial protein of unknown function (DUF916); InterPro: IPR010317 This family consists of putative cell surface proteins, from Firmicutes, of unknown function.
Probab=37.07 E-value=1.8e+02 Score=21.85 Aligned_cols=64 Identities=16% Similarity=0.200 Sum_probs=36.4
Q ss_pred cccCceeEEEEEEEEecCCcc-eeeEEEecCCCCCCCceEecCce------------------eeEEEeecCCCceEEEE
Q 031356 42 LKSGAERISVSIDIHNQGTST-AYDVSLTDDSWPQDKFDVISGNI------------------SQSWERLDAGGILSHSF 102 (161)
Q Consensus 42 ~v~g~~~vtV~y~IyNvG~s~-A~dV~l~D~sfp~~~F~iv~G~~------------------s~~~~ri~pg~nvsH~v 102 (161)
+..| +.-++++.|.|.++.+ -++|++.+ ..-.+.-.|.=+.. +.. =.|+||++..-.+
T Consensus 23 ~~P~-q~~~l~v~i~N~s~~~~tv~v~~~~-A~Tn~nG~I~Y~~~~~~~d~sl~~~~~~~v~~~~~-Vtl~~~~sk~V~~ 99 (121)
T PF06030_consen 23 VKPG-QKQTLEVRITNNSDKEITVKVSANT-ATTNDNGVIDYSQNNPKKDKSLKYPFSDLVKIPKE-VTLPPNESKTVTF 99 (121)
T ss_pred eCCC-CEEEEEEEEEeCCCCCEEEEEEEee-eEecCCEEEEECCCCcccCcccCcchHHhccCCcE-EEECCCCEEEEEE
Confidence 3445 7888888999987764 34555544 22222211111111 112 4688888888888
Q ss_pred EEE-Ece
Q 031356 103 ELD-AKV 108 (161)
Q Consensus 103 vv~-p~~ 108 (161)
.|. |.+
T Consensus 100 ~i~~P~~ 106 (121)
T PF06030_consen 100 TIKMPKK 106 (121)
T ss_pred EEEcCCC
Confidence 887 554
No 70
>PF10731 Anophelin: Thrombin inhibitor from mosquito; InterPro: IPR018932 Members of this family are all inhibitors of thrombin, the peptidase that is at the end of the blood coagulation cascade and which creates the clot by cleaving fibrinogen. The interaction between thrombin and fibrinogen involves two different areas of contact - via the thrombin active site and via a second substrate-binding site known as an exosite. The inhibitor acts by blocking the exosite, rather than by interacting with the active site. The inhibitors are from mosquitoes that feed on human blood and which, by inhibiting thrombin, prevent the blood from clotting and keep it flowing.
Probab=36.54 E-value=19 Score=24.92 Aligned_cols=17 Identities=24% Similarity=0.356 Sum_probs=8.4
Q ss_pred HHHHHHhhhcccCCCCc
Q 031356 13 LIALFLISSSFASSDVP 29 (161)
Q Consensus 13 llal~~v~~~~~~~~~a 29 (161)
+++++|++.++-.+.+|
T Consensus 7 vialLC~aLva~vQ~AP 23 (65)
T PF10731_consen 7 VIALLCVALVAIVQSAP 23 (65)
T ss_pred HHHHHHHHHHHHHhcCc
Confidence 55666665544333333
No 71
>PF11906 DUF3426: Protein of unknown function (DUF3426); InterPro: IPR021834 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 262 to 463 amino acids in length.
Probab=35.97 E-value=1.9e+02 Score=21.71 Aligned_cols=60 Identities=22% Similarity=0.288 Sum_probs=38.2
Q ss_pred CceeEEEEEEEEecCCc----ceeeEEEecC-CCCCCCceE-----ecCceeeEEEeecCCCceEEEEEEE
Q 031356 45 GAERISVSIDIHNQGTS----TAYDVSLTDD-SWPQDKFDV-----ISGNISQSWERLDAGGILSHSFELD 105 (161)
Q Consensus 45 g~~~vtV~y~IyNvG~s----~A~dV~l~D~-sfp~~~F~i-----v~G~~s~~~~ri~pg~nvsH~vvv~ 105 (161)
+..-++|+-+|.|.++. |+..++|.|. +=+-....+ ..+.+ ..-..|+||+.+.-.+.+.
T Consensus 66 ~~~~l~v~g~i~N~~~~~~~~P~l~l~L~D~~g~~l~~r~~~P~~yl~~~~-~~~~~l~pg~~~~~~~~~~ 135 (149)
T PF11906_consen 66 GPGVLVVSGTIRNRADFPQALPALELSLLDAQGQPLARRVFTPADYLPPGL-AAQAGLPPGESVPFRLRLE 135 (149)
T ss_pred CCCEEEEEEEEEeCCCCcccCceEEEEEECCCCCEEEEEEEChHHhccccc-ccccccCCCCeEEEEEEee
Confidence 44789999999999987 7899999983 100000000 00000 1134688888888887776
No 72
>PRK12633 flgD flagellar basal body rod modification protein; Provisional
Probab=35.85 E-value=1.6e+02 Score=24.68 Aligned_cols=37 Identities=19% Similarity=0.463 Sum_probs=20.5
Q ss_pred EEEEEEecCCcceeeEEEecCCCCCCCceEecCceeeEEEeecCCC
Q 031356 51 VSIDIHNQGTSTAYDVSLTDDSWPQDKFDVISGNISQSWERLDAGG 96 (161)
Q Consensus 51 V~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~~s~~~~ri~pg~ 96 (161)
++++|||--..--+.+++.+ .-.|.....||-.....
T Consensus 131 v~v~I~D~~G~vV~t~~lg~---------~~aG~~~f~WDG~d~~G 167 (230)
T PRK12633 131 VTVKVLDPSGAVVRTMELGD---------LKTGVHTLQWDGNNDGG 167 (230)
T ss_pred EEEEEEeCCCCEEEEEecCC---------CCCCceeEEECCCCCCC
Confidence 44555554443434444432 24677788998876543
No 73
>KOG1691 consensus emp24/gp25L/p24 family of membrane trafficking proteins [Intracellular trafficking, secretion, and vesicular transport]
Probab=35.13 E-value=2.8e+02 Score=23.44 Aligned_cols=32 Identities=13% Similarity=0.141 Sum_probs=22.5
Q ss_pred ccccccCceeEEEEEEEEecCCc--ceeeEEEecC
Q 031356 39 LKRLKSGAERISVSIDIHNQGTS--TAYDVSLTDD 71 (161)
Q Consensus 39 ~~~~v~g~~~vtV~y~IyNvG~s--~A~dV~l~D~ 71 (161)
..++-++ .=++-.|.+.|.-.+ ...+|.++|+
T Consensus 36 ~EeI~~n-~lv~g~y~i~~~~~~~~~~~~~~Vts~ 69 (210)
T KOG1691|consen 36 SEEIHEN-VLVVGDYEIINPNGDHSHKLSVKVTSP 69 (210)
T ss_pred hhhhccC-eEEEEEEEEecCCCCccceEEEEEEcC
Confidence 4555555 555567888887666 5888888884
No 74
>PF00394 Cu-oxidase: Multicopper oxidase; InterPro: IPR001117 Copper is one of the most prevalent transition metals in living organisms and its biological function is intimately related to its redox properties. Since free copper is toxic, even at very low concentrations, its homeostasis in living organisms is tightly controlled by subtle molecular mechanisms. In eukaryotes, before being transported inside the cell via the high-affinity copper transporters of the CTR family, the copper (II) ion is reduced to copper (I). In blue copper proteins such as cupredoxin, the copper (I) ion form is stabilised by a constrained His2Cys coordination environment. Multicopper oxidases oxidise their substrate by accepting electrons at a mononuclear copper centre and transferring them to a trinuclear copper centre; dioxygen binds to the trinuclear centre and, following the transfer of four electrons, is reduced to two molecules of water []. There are three spectroscopically different copper centres found in multicopper oxidases: type 1 (or blue), type 2 (or normal) and type 3 (or coupled binuclear) [, ]. Multicopper oxidases consist of 2, 3 or 6 of these homologous domains, which also share homology to the cupredoxins azurin and plastocyanin. Structurally, these domains consist of a cupredoxin-like fold, a beta-sandwich consisting of 7 strands in 2 beta-sheets, arranged in a Greek-key beta-barrel []. Multicopper oxidases include: Ceruloplasmin (1.16.3.1 from EC) (ferroxidase), a 6-domain enzyme found in the serum of mammals and birds that oxidizes different inorganic and organic substances; exhibits internal sequence homology that appears to have evolved from the triplication of a Cu-binding domain similar to that of laccase and ascorbate oxidase. Laccase (1.10.3.2 from EC) (urishiol oxidase), a 3-domain enzyme found in fungi and plants, which oxidizes different phenols and diamines. CueO is a laccase found in Escherichia coli that is involved in copper-resistance []. Ascorbate oxidase (1.10.3.3 from EC), a 3-domain enzyme found in higher plants. Nitrite reductase (1.7.2.1 from EC), a 2-domain enzyme containing type-1 and type-2 copper centres [, ]. In addition to the above enzymes there are a number of other proteins that are similar to the multi-copper oxidases in terms of structure and sequence, some of which have lost the ability to bind copper. These include: copper resistance protein A (copA) from a plasmid in Pseudomonas syringae; domain A of (non-copper binding) blood coagulation factors V (Fa V) and VIII (Fa VIII) []; yeast FET3 required for ferrous iron uptake []; yeast hypothetical protein YFL041w; and the fission yeast homologue SpAC1F7.08. This entry represents multicopper oxidase type 1 (blue) domains. These domains are also present in proteins that have lost the ability to bind copper.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1RZP_A 2AVF_D 1NIA_A 1KCB_A 2NRD_A 1NIB_A 2BW4_A 1RZQ_C 2BWD_A 2BWI_A ....
Probab=34.81 E-value=1.3e+02 Score=22.98 Aligned_cols=61 Identities=18% Similarity=0.220 Sum_probs=39.9
Q ss_pred EEEEEEecCCcceeeEEEecCCCCCCCceEec--Cce----eeEEEeecCCCceEEEEEEEEceeeeEEeecE
Q 031356 51 VSIDIHNQGTSTAYDVSLTDDSWPQDKFDVIS--GNI----SQSWERLDAGGILSHSFELDAKVKGMFHGSPA 117 (161)
Q Consensus 51 V~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~--G~~----s~~~~ri~pg~nvsH~vvv~p~~~G~f~~t~A 117 (161)
+...+.|.|....+.+.+.+. .|.+|. |.. ..+-=.|.||+.++--+.. +...|.|.+...
T Consensus 70 ~rlRliNa~~~~~~~~~i~gh-----~~~Via~DG~~v~p~~~~~l~l~~G~R~dvlv~~-~~~~g~y~i~~~ 136 (159)
T PF00394_consen 70 YRLRLINAGASTSFNFSIDGH-----PMTVIAADGVPVEPYKVDTLVLAPGQRYDVLVTA-DQPPGNYWIRAS 136 (159)
T ss_dssp EEEEEEEESSS-BEEEEETTB-----CEEEEEETTEEEEEEEESBEEE-TTEEEEEEEEE-CSCSSEEEEEEE
T ss_pred EEEEEEeccCCeeEEEEeecc-----ceeEeeeccccccccccceEEeeCCeEEEEEEEe-CCCCCeEEEEEe
Confidence 678899999999999999763 355543 221 3333367888887655554 224899988666
No 75
>cd04458 CSP_CDS Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein. CSP expression is up-regulated by an abrupt drop in growth temperature. CSP's are also expressed under normal condition at lower level. The function of cold-shock proteins is not fully understood. They preferentially bind poly-pyrimidine region of single-stranded RNA and DNA. CSP's are thought to bind mRNA and regulate ribosomal translation, mRNA degradation, and the rate of transcription termination. The human Y-box protein, which contains a CSD, regulates transcription and translation of genes that contain the Y-box sequence in their promoters. This specific ssDNA-binding properties of CSD are required for the binding of Y-box protein to the promoter's Y-box sequence, thereby regulating transcription.
Probab=33.96 E-value=84 Score=20.34 Aligned_cols=40 Identities=20% Similarity=0.314 Sum_probs=30.2
Q ss_pred CCCceEEEEeeecccc----cccCceeEEEEEEEEecCCcceeeEE
Q 031356 26 SDVPFIVAHKKASLKR----LKSGAERISVSIDIHNQGTSTAYDVS 67 (161)
Q Consensus 26 ~~~a~LlvsK~i~~~~----~v~g~~~vtV~y~IyNvG~s~A~dV~ 67 (161)
..+..+.+|++...+. +.+| +.+++++.-.+-| --|.+|+
T Consensus 21 ~~g~diffh~~~~~~~~~~~~~~G-~~V~f~~~~~~~g-~~A~~V~ 64 (65)
T cd04458 21 DGGEDVFVHISALEGDGFRSLEEG-DRVEFELEEGDKG-PQAVNVR 64 (65)
T ss_pred CCCcCEEEEhhHhhccCCCcCCCC-CEEEEEEEECCCC-CeEEEeE
Confidence 3367899999888764 8888 8999888888544 4666665
No 76
>PF06280 DUF1034: Fn3-like domain (DUF1034); InterPro: IPR010435 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 domain of unknown function is present in bacterial and plant peptidases belonging to MEROPS peptidase family S8 (subfamily S8A subtilisin, clan SB). It is C-terminal to and adjacent to the S8 peptidase domain and can be found in conjunction with the PA (Protease associated) domain (IPR003137 from INTERPRO) and additionally in Gram-positive bacteria with the surface protein anchor domain (IPR001899 from INTERPRO).; GO: 0004252 serine-type endopeptidase activity, 0005618 cell wall, 0016020 membrane; PDB: 3EIF_A 1XF1_B.
Probab=33.48 E-value=1.8e+02 Score=20.82 Aligned_cols=79 Identities=20% Similarity=0.267 Sum_probs=38.8
Q ss_pred eeEEEEEEEEecCCccee-eEEEe----cCCCCCC-Cc----eEe---cCceeeEEEeecCCCceEEEEEEEE-c----e
Q 031356 47 ERISVSIDIHNQGTSTAY-DVSLT----DDSWPQD-KF----DVI---SGNISQSWERLDAGGILSHSFELDA-K----V 108 (161)
Q Consensus 47 ~~vtV~y~IyNvG~s~A~-dV~l~----D~sfp~~-~F----~iv---~G~~s~~~~ri~pg~nvsH~vvv~p-~----~ 108 (161)
+..+.+++|.|.|+.+.. .++-. |.....+ .+ ... ....+...=.|+||++.+-.+.+.+ . .
T Consensus 8 ~~~~~~itl~N~~~~~~ty~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~vTV~ag~s~~v~vti~~p~~~~~~ 87 (112)
T PF06280_consen 8 NKFSFTITLHNYGDKPVTYTLSHVPVLTDKTDTEEGYSILVPPVPSISTVSFSPDTVTVPAGQSKTVTVTITPPSGLDAS 87 (112)
T ss_dssp SEEEEEEEEEE-SSS-EEEEEEEE-EEEEEE--ETTEEEEEEEE----EEE---EEEEE-TTEEEEEEEEEE--GGGHHT
T ss_pred CceEEEEEEEECCCCCEEEEEeeEEEEeeEeeccCCcccccccccceeeEEeCCCeEEECCCCEEEEEEEEEehhcCCcc
Confidence 458899999999998543 33332 2211111 11 111 1222334447899999999999986 4 1
Q ss_pred eeeEEeecEEEEEEcCCCc
Q 031356 109 KGMFHGSPALITFRIPTKA 127 (161)
Q Consensus 109 ~G~f~~t~A~VtY~~~~~~ 127 (161)
.|.| -.--|....++++
T Consensus 88 ~~~~--~eG~I~~~~~~~~ 104 (112)
T PF06280_consen 88 NGPF--YEGFITFKSSDGE 104 (112)
T ss_dssp T-EE--EEEEEEEESSTTS
T ss_pred cCCE--EEEEEEEEcCCCC
Confidence 2222 2235555665554
No 77
>PF00345 PapD_N: Pili and flagellar-assembly chaperone, PapD N-terminal domain; InterPro: IPR016147 Most Gram-negative bacteria possess a supramolecular structure - the pili - on their surface, which mediates attachment to specific receptors. Many interactive subunits are required to assemble pili, but their assembly only takes place after translocation across the cytoplasmic membrane. Periplasmic chaperones assist pili assembly by binding to the subunits, thereby preventing premature aggregation [, ]. Pili chaperones are structurally, and possibly evolutionarily, related to the immunoglobulin superfamily [, ]: they contain two globular domains, with a topology identical to an immunoglobulin fold. This entry represents the N-terminal domain of pili assembly chaperone, and has a beta-sandwich fold consisting of seven strands in two sheets with a Greek key topology.; GO: 0007047 cellular cell wall organization, 0030288 outer membrane-bounded periplasmic space; PDB: 2CO6_B 2CO7_B 1L4I_B 3GFU_A 3F65_F 3F6L_A 3F6I_A 3GEW_B 3DSN_D 2OS7_B ....
Probab=33.45 E-value=1.8e+02 Score=20.90 Aligned_cols=71 Identities=23% Similarity=0.217 Sum_probs=44.9
Q ss_pred eEEEEEEEEecCCcc-eeeEEEecC-C---C-CCCCceEecCceeeEEEeecCCCceEEEEEEEEc----eeeeEEeecE
Q 031356 48 RISVSIDIHNQGTST-AYDVSLTDD-S---W-PQDKFDVISGNISQSWERLDAGGILSHSFELDAK----VKGMFHGSPA 117 (161)
Q Consensus 48 ~vtV~y~IyNvG~s~-A~dV~l~D~-s---f-p~~~F~iv~G~~s~~~~ri~pg~nvsH~vvv~p~----~~G~f~~t~A 117 (161)
+=..+++|+|.|+.+ ...+.+.|. . - +.+.| ++ +-..-+|+||+.-+-.+...+. +...|.+.-.
T Consensus 15 ~~~~~i~v~N~~~~~~~vq~~v~~~~~~~~~~~~~~~-~v----sPp~~~L~pg~~q~vRv~~~~~~~~~~E~~yrl~~~ 89 (122)
T PF00345_consen 15 QRSASITVTNNSDQPYLVQVWVYDQDDEDEDEPTDPF-IV----SPPIFRLEPGESQTVRVYRGSKLPIDRESLYRLSFR 89 (122)
T ss_dssp SSEEEEEEEESSSSEEEEEEEEEETTSTTSSSSSSSE-EE----ESSEEEEETTEEEEEEEEECSGS-SSS-EEEEEEEE
T ss_pred CCEEEEEEEcCCCCcEEEEEEEEcCCCcccccccccE-EE----eCCceEeCCCCcEEEEEEecCCCCCCceEEEEEEEE
Confidence 346789999999984 457777761 1 1 11234 22 3445599999999988844322 3456777777
Q ss_pred EEEEEc
Q 031356 118 LITFRI 123 (161)
Q Consensus 118 ~VtY~~ 123 (161)
++-...
T Consensus 90 ~iP~~~ 95 (122)
T PF00345_consen 90 EIPPSE 95 (122)
T ss_dssp EEESCC
T ss_pred EEeccc
Confidence 776666
No 78
>TIGR02231 conserved hypothetical protein. This family consists of proteins over 500 amino acids long in Caenorhabditis elegans and several bacteria (Pseudomonas aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans, etc.). The function is unknown.
Probab=33.08 E-value=3.9e+02 Score=24.55 Aligned_cols=25 Identities=16% Similarity=0.299 Sum_probs=20.4
Q ss_pred eEEEEEEEEecCCcceeeEEEecCCCC
Q 031356 48 RISVSIDIHNQGTSTAYDVSLTDDSWP 74 (161)
Q Consensus 48 ~vtV~y~IyNvG~s~A~dV~l~D~sfp 74 (161)
+...+|+|-|.++.+ .+|.|.|. .|
T Consensus 443 ~~~~~i~v~N~~~~~-v~v~v~d~-~P 467 (525)
T TIGR02231 443 EYAYRITLKNLRKEP-ERVQIEEQ-LP 467 (525)
T ss_pred EEEEEEEEEcCCCCc-eEEEEEee-cc
Confidence 567889999999985 59999984 66
No 79
>PRK13792 lysozyme inhibitor; Provisional
Probab=32.87 E-value=1.2e+02 Score=23.53 Aligned_cols=13 Identities=23% Similarity=0.498 Sum_probs=6.9
Q ss_pred eeEEEEEEEEecCCc
Q 031356 47 ERISVSIDIHNQGTS 61 (161)
Q Consensus 47 ~~vtV~y~IyNvG~s 61 (161)
++++|+| +|.++.
T Consensus 55 ~~~tV~y--~n~~~~ 67 (127)
T PRK13792 55 RKFTVQY--LNKGDN 67 (127)
T ss_pred CEEEEEE--eCCCCC
Confidence 4455544 476653
No 80
>PF04744 Monooxygenase_B: Monooxygenase subunit B protein; InterPro: IPR006833 Ammonia monooxygenase and the particulate methane monooxygenase are both integral membrane proteins, occurring in ammonia oxidisers and methanotrophs respectively, which are thought to be evolutionarily related []. These enzymes have a relatively wide substrate specificity and can catalyse the oxidation of a range of substrates including ammonia, methane, halogenated hydrocarbons and aromatic molecules []. These enzymes are composed of 3 subunits - A (IPR003393 from INTERPRO), B (IPR006833 from INTERPRO) and C (IPR006980 from INTERPRO) - and contain various metal centres, including copper. Particulate methane monooxygenase from Methylococcus capsulatus str. Bath is an ABC homotrimer, which contains mononuclear and dinuclear copper metal centres, and a third metal centre containing a metal ion whose identity in vivo is not certain[]. The soluble regions of these enzymes derive primarily from the B subunit. This subunit forms two antiparallel beta-barrel-like structures and contains the mono- and di- nuclear copper metal centres [].; PDB: 3CHX_E 3RFR_A 3RGB_A 1YEW_A.
Probab=32.72 E-value=1.6e+02 Score=26.94 Aligned_cols=69 Identities=26% Similarity=0.449 Sum_probs=39.3
Q ss_pred eeecccccccCceeEEEEEEEEecCCcceeeEEEecCCCCCC------Cc--------------eEecCceeeEEEeecC
Q 031356 35 KKASLKRLKSGAERISVSIDIHNQGTSTAYDVSLTDDSWPQD------KF--------------DVISGNISQSWERLDA 94 (161)
Q Consensus 35 K~i~~~~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~------~F--------------~iv~G~~s~~~~ri~p 94 (161)
=+.+.+.+.+| ++++++=. +.+-. +||.+ .| ..++|.+-.+=-+|+.
T Consensus 19 v~wS~~~v~Vn-ee~tiTGK-----------~~v~~-~WP~~v~~P~~~FLnv~~PGPv~vr~e~~ing~~~p~S~~le~ 85 (381)
T PF04744_consen 19 VKWSKDRVKVN-EEMTITGK-----------FHVFE-DWPEAVAKPEVAFLNVGEPGPVFVRKERWINGQPVPRSVSLEL 85 (381)
T ss_dssp EEES-SEEETT--EEEEEEE-----------EEE-T-T--TTS--TTSEEEEEESSSSSEEEEEEEETTEE-SS-B---T
T ss_pred eeeccceeccC-CeEEEEEE-----------EEEcc-cChhhcCCCceEEEecCCCCCeeeeeeeeecCccccceEEeec
Confidence 34667888899 88888643 33332 35432 12 2456766555568999
Q ss_pred CCceEEEEEEEEceeeeEEeec
Q 031356 95 GGILSHSFELDAKVKGMFHGSP 116 (161)
Q Consensus 95 g~nvsH~vvv~p~~~G~f~~t~ 116 (161)
|......++++++..|.|+..+
T Consensus 86 G~~y~fki~lkar~pG~~hvh~ 107 (381)
T PF04744_consen 86 GGTYEFKIVLKARRPGTWHVHP 107 (381)
T ss_dssp T-EEEEEEEEEE-S-EEEEEEE
T ss_pred CCeeeEEEEEecccCcccccee
Confidence 9999999999999999998865
No 81
>KOG3865 consensus Arrestin [Signal transduction mechanisms]
Probab=32.52 E-value=67 Score=29.18 Aligned_cols=61 Identities=20% Similarity=0.317 Sum_probs=33.4
Q ss_pred eeEEEEEEEEecCCcceeeEEEecC------CCCCCCceEecCceeeEEE--eecCCCceEEEEEEEEce
Q 031356 47 ERISVSIDIHNQGTSTAYDVSLTDD------SWPQDKFDVISGNISQSWE--RLDAGGILSHSFELDAKV 108 (161)
Q Consensus 47 ~~vtV~y~IyNvG~s~A~dV~l~D~------sfp~~~F~iv~G~~s~~~~--ri~pg~nvsH~vvv~p~~ 108 (161)
+.+.|.+.|-|--+.+...+++.-. -|..+.|.-.--. -..=| .++||++.+.++.|.|.-
T Consensus 210 E~isvnV~V~NNsnKtVKkIK~~V~Q~adi~Lfs~aqy~~~VA~-~E~~eGc~v~Pgstl~Kvf~l~Pll 278 (402)
T KOG3865|consen 210 EPISVNVHVTNNSNKTVKKIKISVRQVADICLFSTAQYKKPVAM-EETDEGCPVAPGSTLSKVFTLTPLL 278 (402)
T ss_pred CceeEEEEEecCCcceeeeeEEEeEeeceEEEEecccccceeee-eecccCCccCCCCeeeeeEEechhh
Confidence 6666666666666666555544321 1222222110000 11123 688999999999999864
No 82
>PF08626 TRAPPC9-Trs120: Transport protein Trs120 or TRAPPC9, TRAPP II complex subunit; InterPro: IPR013935 The trafficking protein particle complex TRAPP is a multi-protein complex needed in the early stages of the secretory pathway. To date, two kinds of TRAPP complexes have been studied, TRAPPI and TRAPP II. These complexes differ in subunit composition []. TRAPP I binds vesicles derived from the endoplasmic reticulum bringing them closer to the acceptor membrane. Trs120 is a subunit specific to the TRAPP II complex [] along with Trs65p and Trs130p(TRAPPC10). It is suggested that Trs120p is required for the stability of the Trs130p subunit, suggesting that these two proteins might interact in some way []. It is likely that there is a complex function for TRAPP II in multiple pathways [].
Probab=31.49 E-value=1.8e+02 Score=29.96 Aligned_cols=77 Identities=13% Similarity=0.124 Sum_probs=54.9
Q ss_pred ccccccCceeEEEEEEEEecCCcceeeEEEecCCCCCC--CceEecCceeeEEEeecCCCceEEEEEEEEceeeeEEeec
Q 031356 39 LKRLKSGAERISVSIDIHNQGTSTAYDVSLTDDSWPQD--KFDVISGNISQSWERLDAGGILSHSFELDAKVKGMFHGSP 116 (161)
Q Consensus 39 ~~~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~--~F~iv~G~~s~~~~ri~pg~nvsH~vvv~p~~~G~f~~t~ 116 (161)
...+|+| +..+|.+++.|==. .||+|.|-....+ .|+ ..+...--++|.+..+..+..+|+..|...++.
T Consensus 644 ~~~~V~g-E~~~v~VtLqNPf~---fel~I~~I~L~~egv~fe----s~~~s~~l~~p~s~~~v~L~g~P~~~G~L~I~G 715 (1185)
T PF08626_consen 644 EPLWVVG-EPAEVKVTLQNPFK---FELEISSISLSTEGVPFE----SYPVSIVLLPPNSTQTVRLSGTPLETGTLKITG 715 (1185)
T ss_pred CccEEcC-CeEEEEEEEECCcc---ceEEEEEEEEEEcCCccc----cceeeeEecCCCcceEEEEEEEECccceEEEEE
Confidence 4577888 99999999999754 5777776333222 231 112333224999999999999999999999999
Q ss_pred EEEEEEc
Q 031356 117 ALITFRI 123 (161)
Q Consensus 117 A~VtY~~ 123 (161)
..|+...
T Consensus 716 ~~i~v~g 722 (1185)
T PF08626_consen 716 CIIKVFG 722 (1185)
T ss_pred EEEEEcc
Confidence 8886543
No 83
>PF10976 DUF2790: Protein of unknown function (DUF2790); InterPro: IPR021245 This family of proteins with unknown function appear to be restricted to Pseudomonadaceae.
Probab=30.51 E-value=72 Score=22.65 Aligned_cols=24 Identities=17% Similarity=0.158 Sum_probs=17.9
Q ss_pred eeEEeecEEEEEEcCCCcceeEEe
Q 031356 110 GMFHGSPALITFRIPTKAALQEAY 133 (161)
Q Consensus 110 G~f~~t~A~VtY~~~~~~~~q~a~ 133 (161)
..=..-||.++|.++.++...+.|
T Consensus 46 ~~C~Vvpa~MtY~DS~G~~h~l~Y 69 (78)
T PF10976_consen 46 NVCGVVPARMTYEDSQGELHTLEY 69 (78)
T ss_pred CCCcEEccEEEEECCCCCEEEEEe
Confidence 444677899999999996644555
No 84
>PRK13861 type IV secretion system protein VirB9; Provisional
Probab=30.38 E-value=3.7e+02 Score=23.39 Aligned_cols=41 Identities=17% Similarity=0.125 Sum_probs=22.3
Q ss_pred ceeeEEEecCCCCCCCce-EecCceeeEEEeecCCCceEEEEEEEEceeee
Q 031356 62 TAYDVSLTDDSWPQDKFD-VISGNISQSWERLDAGGILSHSFELDAKVKGM 111 (161)
Q Consensus 62 ~A~dV~l~D~sfp~~~F~-iv~G~~s~~~~ri~pg~nvsH~vvv~p~~~G~ 111 (161)
.++.|+|.++ |... +.-|. +..|+..+- +| .+-++|+..+.
T Consensus 53 ~~T~I~f~~g----E~I~~va~GD-t~sW~v~~~-~N---~lfIKP~~~~~ 94 (292)
T PRK13861 53 ATLVVTFGAN----ETVTAVAVSN-SKDLAALPR-GN---YLFFKASKVLP 94 (292)
T ss_pred cEEEEEECCC----CEEEEecccc-ccceEEecC-Cc---EEEEEECCCCC
Confidence 4566777664 2222 33333 467866544 33 37788887643
No 85
>smart00557 IG_FLMN Filamin-type immunoglobulin domains. These form a rod-like structure in the actin-binding cytoskeleton protein, filamin. The C-terminal repeats of filamin bind beta1-integrin (CD29).
Probab=29.46 E-value=2e+02 Score=19.99 Aligned_cols=66 Identities=17% Similarity=0.201 Sum_probs=44.7
Q ss_pred ccccCceeEEEEEEEEecCCcceeeEEEecCCCCCCCceEecCceeeEEEeecCCCceEEEEEEEEceeeeEEeecEEEE
Q 031356 41 RLKSGAERISVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVISGNISQSWERLDAGGILSHSFELDAKVKGMFHGSPALIT 120 (161)
Q Consensus 41 ~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~~s~~~~ri~pg~nvsH~vvv~p~~~G~f~~t~A~Vt 120 (161)
...+| +..++.++-.+.|. ....|.|.+++- . .... ++....+=++.+.-+|++.|.|.+ .|.
T Consensus 13 ~~~vg-~~~~f~v~~~d~G~-~~~~v~i~~p~g--~-------~~~~---~v~d~~dGty~v~y~P~~~G~~~i---~V~ 75 (93)
T smart00557 13 KGVVG-EPAEFTIDTRGAGG-GELEVEVTGPSG--K-------KVPV---EVKDNGDGTYTVSYTPTEPGDYTV---TVK 75 (93)
T ss_pred ceecC-CCEEEEEEcCCCCC-CcEEEEEECCCC--C-------eeEe---EEEeCCCCEEEEEEEeCCCEeEEE---EEE
Confidence 34667 78888899888875 677888888521 0 1122 334455557888888999998877 566
Q ss_pred EEc
Q 031356 121 FRI 123 (161)
Q Consensus 121 Y~~ 123 (161)
|..
T Consensus 76 ~~g 78 (93)
T smart00557 76 FGG 78 (93)
T ss_pred ECC
Confidence 653
No 86
>PF12389 Peptidase_M73: Camelysin metallo-endopeptidase; InterPro: IPR022121 Camelysin is a novel surface metallopeptidase from Bacillus cereus []. Camelysin prefers cleavage sites in front of aliphatic and hydrophilic amino acid residues (-OH, -SO3H, amido group), and requires zinc for activity [, ].
Probab=29.44 E-value=3.4e+02 Score=22.67 Aligned_cols=19 Identities=21% Similarity=0.408 Sum_probs=14.3
Q ss_pred EEEeecCCCceEEEEEEEE
Q 031356 88 SWERLDAGGILSHSFELDA 106 (161)
Q Consensus 88 ~~~ri~pg~nvsH~vvv~p 106 (161)
.++-|.||..+++.|.|.-
T Consensus 57 ~v~nlkPGD~v~k~f~l~N 75 (199)
T PF12389_consen 57 DVSNLKPGDTVEKEFTLKN 75 (199)
T ss_pred ecccCCCCCeEEEEEEEEe
Confidence 3557888888888888874
No 87
>PRK15290 lfpB fimbrial chaperone protein; Provisional
Probab=29.30 E-value=3.5e+02 Score=22.83 Aligned_cols=55 Identities=15% Similarity=0.133 Sum_probs=28.6
Q ss_pred hhHHHHHHHHHHHhhhcccCCCCceEEEEeeecccccccCceeEEEEEEEEecCCcceeeE
Q 031356 6 SKSLISVLIALFLISSSFASSDVPFIVAHKKASLKRLKSGAERISVSIDIHNQGTSTAYDV 66 (161)
Q Consensus 6 ~~~~~~~llal~~v~~~~~~~~~a~LlvsK~i~~~~~v~g~~~vtV~y~IyNvG~s~A~dV 66 (161)
++.++-+++.++++++.+++. +-|.++ ..+++..+.+-.++++|.|.++...+=|
T Consensus 16 ~~~~~~~~~~~~~~~~~~~a~--Agv~l~----~TRvIy~~~~~~~sl~v~N~~~~~p~Lv 70 (243)
T PRK15290 16 SCKLFTAIILSVFLGQPALTY--AGVVIG----GTRVVYLSNNPDKSISVFSKEEKIPYLI 70 (243)
T ss_pred HHhHHHHHHHHHHHhchhhhe--EeEEEC----ceEEEEeCCCceEEEEEEeCCCCCcEEE
Confidence 344444444444443333232 224433 3444444466778899999997543333
No 88
>PRK15463 cold shock-like protein CspF; Provisional
Probab=28.36 E-value=1.2e+02 Score=20.70 Aligned_cols=42 Identities=26% Similarity=0.162 Sum_probs=29.6
Q ss_pred CCCCceEEEEeeeccc----ccccCceeEEEEEEEEecCCcceeeEEE
Q 031356 25 SSDVPFIVAHKKASLK----RLKSGAERISVSIDIHNQGTSTAYDVSL 68 (161)
Q Consensus 25 ~~~~a~LlvsK~i~~~----~~v~g~~~vtV~y~IyNvG~s~A~dV~l 68 (161)
.+.++.+++|.+.+.. .|.+| +.+++++.=-..| --|.+|.+
T Consensus 24 ~~g~~DvFvH~sal~~~g~~~l~~G-~~V~f~v~~~~~G-~~A~~V~~ 69 (70)
T PRK15463 24 SDGRKDVQVHISALNLRDAEELTTG-LRVEFCRINGLRG-PTAANVYL 69 (70)
T ss_pred CCCCccEEEEehhhhhcCCCCCCCC-CEEEEEEEECCCC-ceeEEEEc
Confidence 3456789999887754 48888 7887766555556 57777765
No 89
>PF12034 DUF3520: Domain of unknown function (DUF3520); InterPro: IPR021908 This presumed domain is functionally uncharacterised. This domain is found in bacteria. This domain is about 180 amino acids in length. This domain is found associated with PF00092 from PFAM.
Probab=27.80 E-value=1.3e+02 Score=24.82 Aligned_cols=40 Identities=10% Similarity=0.101 Sum_probs=30.5
Q ss_pred EEeecCCCceEEEEEEEEcee-------------------eeEEeecEEEEEEcCCCcc
Q 031356 89 WERLDAGGILSHSFELDAKVK-------------------GMFHGSPALITFRIPTKAA 128 (161)
Q Consensus 89 ~~ri~pg~nvsH~vvv~p~~~-------------------G~f~~t~A~VtY~~~~~~~ 128 (161)
-..|-+|.+||--|.|+|... +.=.+.-..|.|+.+++.+
T Consensus 46 AGEIGAGHsVTALYEi~p~g~~~~~~~~lkY~~~~~~~~~~~~el~tvklRYK~P~~~~ 104 (183)
T PF12034_consen 46 AGEIGAGHSVTALYEIVPAGSKGEVVDDLKYQDNEAAPASNSGELATVKLRYKDPDGDK 104 (183)
T ss_pred ccccCCCCEEEEEEEEEECCCCccccccccccccccCCCCCCCceEEEEEEeeCCCCCc
Confidence 346888999999999999853 3455666788999887743
No 90
>TIGR03079 CH4_NH3mon_ox_B methane monooxygenase/ammonia monooxygenase, subunit B. Both ammonia oxidizers such as Nitrosomonas europaea and methanotrophs (obligate methane oxidizers) such as Methylococcus capsulatus each can grow only on their own characteristic substrate. However, both groups have the ability to oxidize both substrates, and so the relevant enzymes must be named here according to their ability to oxidze both. The protein family represented here reflects subunit B of both the particulate methane monooxygenase of methylotrophs and the ammonia monooxygenase of nitrifying bacteria.
Probab=27.78 E-value=3.1e+02 Score=25.28 Aligned_cols=71 Identities=20% Similarity=0.200 Sum_probs=47.8
Q ss_pred eecccccccCceeEEEEE-----------------EEEecCCcceeeEEEecCCCCCCCceEecCceeeEEEeecCCCce
Q 031356 36 KASLKRLKSGAERISVSI-----------------DIHNQGTSTAYDVSLTDDSWPQDKFDVISGNISQSWERLDAGGIL 98 (161)
Q Consensus 36 ~i~~~~~v~g~~~vtV~y-----------------~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~~s~~~~ri~pg~nv 98 (161)
+.+.+.+.+| ++++++= ...|+|+--..=|.+.- .+.|.+-.+=-+|..|...
T Consensus 40 ~wS~~~~kVN-ee~~iTGKfhv~~~WP~~v~~P~~sFlN~g~PGPv~vR~~t---------~lng~~~~~S~~LelG~dY 109 (399)
T TIGR03079 40 KWGPDTTKVN-ETATITGKFHLAEDWPRAVEKPHVSFFNVGSPSPVFVRLST---------KVNGMPVFISGPLEIGRDY 109 (399)
T ss_pred eeccceeeec-ceEEEEEEEEEcccCchhcCCCceEEEecCCCCCeEEEeeE---------EECCEeecceeEeecCCce
Confidence 4555888888 8888752 33455554333333332 4566553333468999999
Q ss_pred EEEEEEEEceeeeEEeec
Q 031356 99 SHSFELDAKVKGMFHGSP 116 (161)
Q Consensus 99 sH~vvv~p~~~G~f~~t~ 116 (161)
...++++++..|.++..+
T Consensus 110 efkv~lkaR~pG~~hvh~ 127 (399)
T TIGR03079 110 EFEVTLQARIPGRHHMHA 127 (399)
T ss_pred eEEEEEeeccCCccccee
Confidence 999999999999988754
No 91
>PF00963 Cohesin: Cohesin domain; InterPro: IPR002102 Cohesin domains interact with a complementary domain, termed the dockerin domain (see IPR002105 from INTERPRO). The cohesin-dockerin interaction is the crucial interaction for complex formation in the cellulosome []. The scaffoldin component of the cellulolytic bacterium Clostridium thermocellum is a non-hydrolytic protein which organises the hydrolytic enzymes in a large complex, called the cellulosome. Scaffoldin comprises a series of functional domains, amongst which is a single cellulose-binding domain and nine cohesin domains which are responsible for integrating the individual enzymatic subunits into the complex.; GO: 0030246 carbohydrate binding, 0000272 polysaccharide catabolic process; PDB: 2BM3_A 3P0D_I 3KCP_A 2B59_A 3L8Q_B 3FNK_C 3GHP_B 2CCL_A 1ANU_A 1OHZ_A ....
Probab=27.55 E-value=1.5e+02 Score=21.97 Aligned_cols=43 Identities=16% Similarity=0.348 Sum_probs=31.8
Q ss_pred ecccccccCceeEEEEEEEEecCC-cceeeEEEecCCCCCCCceEecC
Q 031356 37 ASLKRLKSGAERISVSIDIHNQGT-STAYDVSLTDDSWPQDKFDVISG 83 (161)
Q Consensus 37 i~~~~~v~g~~~vtV~y~IyNvG~-s~A~dV~l~D~sfp~~~F~iv~G 83 (161)
+.......| +.++|.+.+-|..+ =.+.+.+|. |+++.+++++.
T Consensus 5 ~~~~~a~~G-~tv~V~V~v~~~~~~i~~~~~~l~---yDp~~Le~~~v 48 (141)
T PF00963_consen 5 VDSVSAKPG-ETVTVPVNVSNVSNSIAGMQFTLS---YDPSVLEFVSV 48 (141)
T ss_dssp ESECEE-TT-SEEEEEEEEESCTTTEEEEEEEEE---E-TTTEEEEEC
T ss_pred eCCceECCC-CEEEEEEEEEcCCCcEEEEEEEEE---eCCceEEEEee
Confidence 344556788 99999999999988 566666664 77888888865
No 92
>PF13598 DUF4139: Domain of unknown function (DUF4139)
Probab=27.51 E-value=3.7e+02 Score=22.57 Aligned_cols=32 Identities=19% Similarity=0.386 Sum_probs=22.8
Q ss_pred eeEEEEEEEEecCCcceeeEEEecCCCC-CCCceE
Q 031356 47 ERISVSIDIHNQGTSTAYDVSLTDDSWP-QDKFDV 80 (161)
Q Consensus 47 ~~vtV~y~IyNvG~s~A~dV~l~D~sfp-~~~F~i 80 (161)
.+...+|+|-|.++.+. +|+|.|. .| +++-+|
T Consensus 242 ~~~~~~itv~N~~~~~v-~v~v~d~-iPvs~~~~I 274 (317)
T PF13598_consen 242 RTYEYTITVRNNKDEPV-TVTVEDQ-IPVSEDEDI 274 (317)
T ss_pred EEEEEEEEEECCCCCCE-EEEEEeC-CCCCCCceE
Confidence 45778899999997555 6999984 55 444433
No 93
>PF05984 Cytomega_UL20A: Cytomegalovirus UL20A protein; InterPro: IPR009245 This family consists of several Cytomegalovirus UL20A proteins. UL20A is thought to be a glycoprotein [].
Probab=27.23 E-value=1.8e+02 Score=21.53 Aligned_cols=21 Identities=19% Similarity=0.142 Sum_probs=9.5
Q ss_pred HHHHHH-HHHhhhcccCCCCce
Q 031356 10 ISVLIA-LFLISSSFASSDVPF 30 (161)
Q Consensus 10 ~~~lla-l~~v~~~~~~~~~a~ 30 (161)
++.||| .++|+.+|-++..-|
T Consensus 7 iLslLAVtLtVALAAPsQKsKR 28 (100)
T PF05984_consen 7 ILSLLAVTLTVALAAPSQKSKR 28 (100)
T ss_pred HHHHHHHHHHHHhhcccccccc
Confidence 445555 445544443344443
No 94
>COG2372 CopC Uncharacterized protein, homolog of Cu resistance protein CopC [General function prediction only]
Probab=26.92 E-value=3.1e+02 Score=21.39 Aligned_cols=21 Identities=10% Similarity=0.219 Sum_probs=14.4
Q ss_pred EEEEEE---EceeeeEEeecEEEE
Q 031356 100 HSFELD---AKVKGMFHGSPALIT 120 (161)
Q Consensus 100 H~vvv~---p~~~G~f~~t~A~Vt 120 (161)
|.++|. |.+.|.|....-.|+
T Consensus 87 ~~l~v~l~~~L~aG~Y~v~WrvvS 110 (127)
T COG2372 87 TQLEVPLPQPLKAGVYTVDWRVVS 110 (127)
T ss_pred cEEEecCcccCCCCcEEEEEEEEe
Confidence 555555 788899987665553
No 95
>PRK12812 flgD flagellar basal body rod modification protein; Reviewed
Probab=26.35 E-value=3.4e+02 Score=23.34 Aligned_cols=38 Identities=13% Similarity=0.427 Sum_probs=20.5
Q ss_pred EEEEEEecCCcceeeEEEecCCCCCCCceEecCceeeEEEeecCCCc
Q 031356 51 VSIDIHNQGTSTAYDVSLTDDSWPQDKFDVISGNISQSWERLDAGGI 97 (161)
Q Consensus 51 V~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~~s~~~~ri~pg~n 97 (161)
|+++|||--...-+.+++.+ .-.|.....||-.....+
T Consensus 143 v~v~I~D~~G~~V~t~~lg~---------~~aG~~~f~WDG~d~~G~ 180 (259)
T PRK12812 143 GTLEIYDSNNKLVEKIDFKE---------ISQGLFTMEWDGRDNDGV 180 (259)
T ss_pred EEEEEEeCCCCEEEEEecCC---------CCCcceeEEECCCCCCCC
Confidence 45555554333444444432 346777888988554333
No 96
>PLN02191 L-ascorbate oxidase
Probab=25.95 E-value=3.5e+02 Score=25.64 Aligned_cols=71 Identities=10% Similarity=0.167 Sum_probs=42.7
Q ss_pred EEEEEEEecCCcceeeEEEecCCCCCCCceEec--Cc----eeeEEEeecCCCceEEEEEEEEceeeeEEe---------
Q 031356 50 SVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVIS--GN----ISQSWERLDAGGILSHSFELDAKVKGMFHG--------- 114 (161)
Q Consensus 50 tV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~--G~----~s~~~~ri~pg~nvsH~vvv~p~~~G~f~~--------- 114 (161)
+..+.|.|.|....+.+.|.+.. |.++. |. ..+.-=.|.||+..+-.+.......|.|-+
T Consensus 235 ~yRlRiINa~~~~~~~~~idgH~-----~tVIa~DG~~v~P~~v~~l~i~~GqRydVlV~a~~~~~~~y~ira~~~~~~~ 309 (574)
T PLN02191 235 TYRIRLASTTALASLNLAVQGHK-----LVVVEADGNYITPFTTDDIDIYSGESYSVLLTTDQDPSQNYYISVGVRGRKP 309 (574)
T ss_pred EEEEEEEecCCceeEEEEECCCe-----EEEEEcCCeeccceEeeeEEEcCCCeEEEEEECCCCCCCCEEEEEEccccCC
Confidence 34789999999999999997643 43432 22 233334578888776555544322233332
Q ss_pred ----ecEEEEEEcCC
Q 031356 115 ----SPALITFRIPT 125 (161)
Q Consensus 115 ----t~A~VtY~~~~ 125 (161)
..|.+.|....
T Consensus 310 ~~~~~~ail~Y~~~~ 324 (574)
T PLN02191 310 NTTQALTILNYVTAP 324 (574)
T ss_pred CCCCceEEEEECCCC
Confidence 23778886543
No 97
>PF10989 DUF2808: Protein of unknown function (DUF2808); InterPro: IPR021256 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=25.08 E-value=76 Score=24.38 Aligned_cols=39 Identities=13% Similarity=0.288 Sum_probs=26.3
Q ss_pred eeeEEE-eecCCCceEEEE-EEE-EceeeeEEeecEEEEEEcCCC
Q 031356 85 ISQSWE-RLDAGGILSHSF-ELD-AKVKGMFHGSPALITFRIPTK 126 (161)
Q Consensus 85 ~s~~~~-ri~pg~nvsH~v-vv~-p~~~G~f~~t~A~VtY~~~~~ 126 (161)
++..++ -|+||++++-.+ -++ |...|.|.|. ++-...-+
T Consensus 91 i~I~f~~PV~pG~tv~V~l~~v~NP~~~G~Y~f~---v~a~p~G~ 132 (146)
T PF10989_consen 91 ITITFDEPVPPGTTVTVVLSPVRNPRSGGTYQFN---VTAFPPGD 132 (146)
T ss_pred EEEEeCCCCCCCCEEEEEEEeeeCCCCCCeEEEE---EEEECCCC
Confidence 344443 489999888777 554 8899999994 44444433
No 98
>PRK15211 fimbrial chaperone protein PefD; Provisional
Probab=25.06 E-value=4.1e+02 Score=22.19 Aligned_cols=59 Identities=15% Similarity=0.084 Sum_probs=32.4
Q ss_pred cccccCceeEEEEEEEEecCCcceeeEE-EecCCCCCC----CceEecCceeeEEEeecCCCceEEEEEEE
Q 031356 40 KRLKSGAERISVSIDIHNQGTSTAYDVS-LTDDSWPQD----KFDVISGNISQSWERLDAGGILSHSFELD 105 (161)
Q Consensus 40 ~~~v~g~~~vtV~y~IyNvG~s~A~dV~-l~D~sfp~~----~F~iv~G~~s~~~~ri~pg~nvsH~vvv~ 105 (161)
.+++..+.+-.++++|.|.|+.+.. |+ -.| .+..+ .| ++. --+-||+||+.-+-.++-.
T Consensus 29 TRvIy~~~~~~~si~i~N~~~~p~L-vQswv~-~~~~~~~~~pF-ivt----PPlfrl~p~~~q~lRI~~~ 92 (229)
T PRK15211 29 TRFIYDEGRKNISFEVTNQADQTYG-GQVWID-NTTQGSSTVYM-VPA----PPFFKVRPKEKQIIRIMKT 92 (229)
T ss_pred eEEEEcCCCceEEEEEEeCCCCcEE-EEEEEe-cCCCCCccCCE-EEc----CCeEEECCCCceEEEEEEC
Confidence 3334333566778899999998643 33 222 23321 24 222 2355777777666665544
No 99
>PLN03080 Probable beta-xylosidase; Provisional
Probab=24.52 E-value=2.3e+02 Score=27.97 Aligned_cols=64 Identities=17% Similarity=0.154 Sum_probs=42.7
Q ss_pred eEEEEEEEEecCCcceeeEEEecCCCCCCC----ceEecCceeeEEEeecCCCceEEEEEEEE-ceeeeEEe
Q 031356 48 RISVSIDIHNQGTSTAYDVSLTDDSWPQDK----FDVISGNISQSWERLDAGGILSHSFELDA-KVKGMFHG 114 (161)
Q Consensus 48 ~vtV~y~IyNvG~s~A~dV~l~D~sfp~~~----F~iv~G~~s~~~~ri~pg~nvsH~vvv~p-~~~G~f~~ 114 (161)
.++|+++|-|.|+-+...|...=-++|... =.-..|- .|. .|+||++.+-++.|.+ +...+++.
T Consensus 685 ~~~v~v~VtNtG~~~G~evvQlYv~~p~~~~~~P~k~L~gF--~kv-~L~~Ges~~V~~~l~~~~~ls~~d~ 753 (779)
T PLN03080 685 RFNVHISVSNVGEMDGSHVVMLFSRSPPVVPGVPEKQLVGF--DRV-HTASGRSTETEIVVDPCKHLSVANE 753 (779)
T ss_pred eEEEEEEEEECCcccCcEEEEEEEecCccCCCCcchhccCc--EeE-eeCCCCEEEEEEEeCchHHceEEcC
Confidence 489999999999998888766443444321 0111111 122 3899999999999987 66666654
No 100
>PRK15299 fimbrial chaperone protein StiB; Provisional
Probab=24.22 E-value=4.1e+02 Score=21.90 Aligned_cols=24 Identities=21% Similarity=0.188 Sum_probs=16.0
Q ss_pred cccccCceeEEEEEEEEecCCcce
Q 031356 40 KRLKSGAERISVSIDIHNQGTSTA 63 (161)
Q Consensus 40 ~~~v~g~~~vtV~y~IyNvG~s~A 63 (161)
.+++..+.+=..+++|.|.|+.+.
T Consensus 29 TRvi~~~~~~~~sl~l~N~~~~p~ 52 (227)
T PRK15299 29 TRVIFHGDAKDASISISNSDNVPY 52 (227)
T ss_pred eEEEEeCCCcEEEEEEEeCCCCcE
Confidence 344444356677888999998753
No 101
>COG1572 Uncharacterized conserved protein [Function unknown]
Probab=23.64 E-value=3.4e+02 Score=26.36 Aligned_cols=85 Identities=16% Similarity=0.245 Sum_probs=53.1
Q ss_pred CceEEEEeeecccccccCceeEEEEEEEEecCCcceeeEEEecCCCCCCCceEecCce--eeEEEeecCCCceEEEEEEE
Q 031356 28 VPFIVAHKKASLKRLKSGAERISVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVISGNI--SQSWERLDAGGILSHSFELD 105 (161)
Q Consensus 28 ~a~LlvsK~i~~~~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~~--s~~~~ri~pg~nvsH~vvv~ 105 (161)
+|-|+..--...-.+-.| ++.++++.+-|+|..+++--..- | .+.|.. .....+|.+|+.-+-.+-..
T Consensus 290 ~~dl~i~~~~~~~~~~ag-~~~~It~~VkN~G~~~s~~~~~~--------~-Y~dg~~~~~~~i~~l~sg~~~~~~~n~~ 359 (606)
T COG1572 290 GPDLIIVSGLTVCELSAG-KDSTITASVKNQGNGTSRGSRSW--------L-YIDGELVGTTDIPSLSSGEESTISFNWP 359 (606)
T ss_pred CcceeeeeccccccccCC-cceeEEEEEecccccccccceeE--------E-EEccccccceeccccCCccccccccccc
Confidence 344444443444566778 99999999999999877543322 1 444544 55667788887777666666
Q ss_pred EceeeeEEeecEEEEEEcCCC
Q 031356 106 AKVKGMFHGSPALITFRIPTK 126 (161)
Q Consensus 106 p~~~G~f~~t~A~VtY~~~~~ 126 (161)
|.-.|. .-++.++...+
T Consensus 360 ~a~~~~----~~~l~v~~d~~ 376 (606)
T COG1572 360 PACEGE----SVELRVVNDKD 376 (606)
T ss_pred eeeccc----eEEeeeecccc
Confidence 666554 33444554443
No 102
>TIGR02657 amicyanin amicyanin. Members of this family are amicyanin, a type I blue copper protein that accepts electrons from the tryptophan tryptophylquinone (TTQ) cofactor of the methylamine dehydrogenase light chain and then transfers them to the heme group of cytochrome c-551i. Amicyanin, methylamine dehydrogenase, and cytochrome c-551i are periplasmic and form a complex. This system has been studied primarily in Paracoccus denitrificans and Methylobacterium extorquens. Related type I blue copper proteins include plastocyanin, pseudoazurin, halocyanin, etc.
Probab=23.52 E-value=2.2e+02 Score=19.36 Aligned_cols=46 Identities=11% Similarity=0.137 Sum_probs=24.7
Q ss_pred EEecCCcceeeEEEecCCCCCCCceEecCceeeEEEeecCCCceEEEEEEEEceeeeEEe
Q 031356 55 IHNQGTSTAYDVSLTDDSWPQDKFDVISGNISQSWERLDAGGILSHSFELDAKVKGMFHG 114 (161)
Q Consensus 55 IyNvG~s~A~dV~l~D~sfp~~~F~iv~G~~s~~~~ri~pg~nvsH~vvv~p~~~G~f~~ 114 (161)
..|... ...+|.+.+..+....|+ + ..+.||+..++++ ...|.|.+
T Consensus 23 ~~N~d~-~~Hnv~~~~g~~~~~~~~--~-------~~~~~g~~~~~tf----~~~G~y~y 68 (83)
T TIGR02657 23 WINREA-MPHNVHFVAGVLGEAALK--G-------PMMKKEQAYSLTF----TEAGTYDY 68 (83)
T ss_pred EEECCC-CCccEEecCCCCcccccc--c-------cccCCCCEEEEEC----CCCEEEEE
Confidence 457643 668888776433332221 1 1346777777655 34565543
No 103
>cd04016 C2_Tollip C2 domain present in Toll-interacting protein (Tollip). Tollip is a part of the Interleukin-1 receptor (IL-1R) signaling pathway. Tollip is proposed to link serine/threonine kinase IRAK to IL-1Rs as well as inhibiting phosphorylation of IRAK. There is a single C2 domain present in Tollip. C2 domains fold into an 8-standed beta-sandwich that can adopt 2 structural arrangements: Type I and Type II, distinguished by a circular permutation involving their N- and C-terminal beta strands. Many C2 domains are Ca2+-dependent membrane-targeting modules that bind a wide variety of substances including bind phospholipids, inositol polyphosphates, and intracellular proteins. Most C2 domain proteins are either signal transduction enzymes that contain a single C2 domain, such as protein kinase C, or membrane trafficking proteins which contain at least two C2 domains, such as synaptotagmin 1. However, there are a few exceptions to this including RIM isoforms and some splice varian
Probab=23.42 E-value=2.5e+02 Score=20.86 Aligned_cols=66 Identities=15% Similarity=0.246 Sum_probs=40.6
Q ss_pred ccccCceeEEEEEEEEecCCcceeeEEEec-CCCCCCCceEecCceeeEE-EeecCCCceEEEEEEEE----ceeeeEEe
Q 031356 41 RLKSGAERISVSIDIHNQGTSTAYDVSLTD-DSWPQDKFDVISGNISQSW-ERLDAGGILSHSFELDA----KVKGMFHG 114 (161)
Q Consensus 41 ~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D-~sfp~~~F~iv~G~~s~~~-~ri~pg~nvsH~vvv~p----~~~G~f~~ 114 (161)
.++=+ +.+.+. |-+ + .....+++-| +.|..++| + |..+... +.+.+|+.+..-+.+.+ .+.|..++
T Consensus 46 nP~WN-e~F~f~--v~~-~-~~~l~~~V~d~d~~~~dd~-i--G~~~i~l~~~~~~g~~~~~W~~L~~~~~~~~~g~i~l 117 (121)
T cd04016 46 NPRWN-KTIQCT--LPE-G-VDSIYIEIFDERAFTMDER-I--AWTHITIPESVFNGETLDDWYSLSGKQGEDKEGMINL 117 (121)
T ss_pred CCccC-eEEEEE--ecC-C-CcEEEEEEEeCCCCcCCce-E--EEEEEECchhccCCCCccccEeCcCccCCCCceEEEE
Confidence 56666 666654 333 2 2346778777 66776655 2 4555666 36788888777777776 34455554
No 104
>PF00313 CSD: 'Cold-shock' DNA-binding domain; InterPro: IPR002059 When Escherichia coli is exposed to a temperature drop from 37 to 10 degrees centigrade, a 4-5 hour lag phase occurs, after which growth is resumed at a reduced rate []. During the lag phase, the expression of around 13 proteins, which contain specific DNA-binding regions [], is increased 2-10 fold. These so-called 'cold shock' proteins are thought to help the cell to survive in temperatures lower than optimum growth temperature, by contrast with heat shock proteins, which help the cell to survive in temperatures greater than the optimum, possibly by condensation of the chromosome and organisation of the prokaryotic nucleoid []. A conserved domain of about 70 amino acids has been found in prokaryotic and eukaryotic DNA-binding proteins [, , ]. This domain is known as the 'cold-shock domain' (CSD), part of which is highly similar [] to the RNP-1 RNA-binding motif.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1HZC_A 1I5F_A 1HZ9_B 1C9O_B 1HZB_B 1HZA_A 2HAX_B 2L15_A 2LSS_A 3I2Z_B ....
Probab=23.30 E-value=2.2e+02 Score=18.38 Aligned_cols=42 Identities=19% Similarity=0.209 Sum_probs=28.7
Q ss_pred CCCCceEEEEeeecccc----cccCceeEEEEEEEEecCCcceeeEEE
Q 031356 25 SSDVPFIVAHKKASLKR----LKSGAERISVSIDIHNQGTSTAYDVSL 68 (161)
Q Consensus 25 ~~~~a~LlvsK~i~~~~----~v~g~~~vtV~y~IyNvG~s~A~dV~l 68 (161)
.+..+.+.+|++-.... +.+| +++++++.- +.+.--|.+|++
T Consensus 20 ~~~~~diFfh~s~~~~~~~~~l~~G-~~V~F~~~~-~~~g~~A~~V~~ 65 (66)
T PF00313_consen 20 DDGGEDIFFHISDLSGNGFRSLKEG-DRVEFEVEE-GKKGPQAVNVRK 65 (66)
T ss_dssp TTSSSEEEEEGGGBCSSSSTS--TT-SEEEEEEEE-CTTSEEEEEEEE
T ss_pred cccceeEEeccccccccccccCCCC-CEEEEEEEE-CCCCCEEEEEEC
Confidence 34445799997665554 5778 899888888 555558888875
No 105
>PF10528 PA14_2: GLEYA domain; InterPro: IPR018871 This presumed domain is found in fungal adhesins and is related to the PA14 domain. ; PDB: 4A3X_A.
Probab=22.75 E-value=2.1e+02 Score=21.26 Aligned_cols=32 Identities=28% Similarity=0.391 Sum_probs=25.7
Q ss_pred ccccccCceeEEEEEEEEecCCcceeeEEEecC
Q 031356 39 LKRLKSGAERISVSIDIHNQGTSTAYDVSLTDD 71 (161)
Q Consensus 39 ~~~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D~ 71 (161)
.-++..| .=..|++-..|.|.....+.+++|+
T Consensus 63 tv~L~aG-~yyPiRi~~~N~~g~~~~~~~i~~P 94 (113)
T PF10528_consen 63 TVYLTAG-TYYPIRIVYANGGGPGSFDFSITDP 94 (113)
T ss_dssp EEEE-TT--BEEEEEEEEE-SS-EEEEEEEEET
T ss_pred EEEEECC-cEEEEEEEEEcCCCceEEEEEEECC
Confidence 5778888 9999999999999999999999994
No 106
>PF04202 Mfp-3: Foot protein 3; InterPro: IPR007328 Mytilus foot protein-3 (Mfp-3) is a highly polymorphic protein family located in the byssal adhesive plaques of blue mussels.
Probab=22.66 E-value=67 Score=22.61 Aligned_cols=18 Identities=56% Similarity=0.639 Sum_probs=11.2
Q ss_pred HHHHHHHHHhhhcccCCC
Q 031356 10 ISVLIALFLISSSFASSD 27 (161)
Q Consensus 10 ~~~llal~~v~~~~~~~~ 27 (161)
+..||||.++++.|-+++
T Consensus 6 i~VLlaLvLIg~fAVqSd 23 (71)
T PF04202_consen 6 IAVLLALVLIGSFAVQSD 23 (71)
T ss_pred HHHHHHHHHHhhheeeec
Confidence 556777777776554444
No 107
>PRK15295 fimbrial assembly chaperone SthB; Provisional
Probab=22.55 E-value=4.5e+02 Score=21.76 Aligned_cols=59 Identities=24% Similarity=0.211 Sum_probs=32.8
Q ss_pred cccccCceeEEEEEEEEecCCcceeeEEE--ecC---CCCCCCceEecCceeeEEEeecCCCceEEEEEE
Q 031356 40 KRLKSGAERISVSIDIHNQGTSTAYDVSL--TDD---SWPQDKFDVISGNISQSWERLDAGGILSHSFEL 104 (161)
Q Consensus 40 ~~~v~g~~~vtV~y~IyNvG~s~A~dV~l--~D~---sfp~~~F~iv~G~~s~~~~ri~pg~nvsH~vvv 104 (161)
.+++..+.+-.++++|.|.|+.+.. |+- .|+ .=+...| ++. --.-||.||+.-+-.++-
T Consensus 26 TRvI~~~~~~~~si~i~N~~~~p~L-vQsWv~~~~~~~~~~~pF-ivt----PPl~rl~p~~~q~lRI~~ 89 (226)
T PRK15295 26 TRLVFDGNNDESSINVENKDSKANL-VQSWLSVVDPQVTNKQAF-IIT----PPLFRLDAGQKNSIRVIR 89 (226)
T ss_pred eEEEEeCCCceeEEEEEeCCCCcEE-EEEEEeCCCCCCCCCCCE-EEc----CCeEEECCCCceEEEEEE
Confidence 4444444567888999999998643 442 221 1112234 222 235577777776665544
No 108
>PRK01001 putative inner membrane protein translocase component YidC; Provisional
Probab=22.29 E-value=4.1e+02 Score=26.71 Aligned_cols=44 Identities=14% Similarity=0.188 Sum_probs=29.2
Q ss_pred ceeEEEEEEEEecCC----cceeeEEEecCCCCCCCceEecCceeeEEEeec
Q 031356 46 AERISVSIDIHNQGT----STAYDVSLTDDSWPQDKFDVISGNISQSWERLD 93 (161)
Q Consensus 46 ~~~vtV~y~IyNvG~----s~A~dV~l~D~sfp~~~F~iv~G~~s~~~~ri~ 93 (161)
++.+..+|++ |+ .=..|.++.-.++.+.-+ +-+|.+...|+.=.
T Consensus 357 ~~~i~~~Ytl---~~~~~~~Y~~~~~i~~~G~~~~~w-~~~~~~~l~W~~~~ 404 (795)
T PRK01001 357 DRSIRKTYSL---GEPEEQPYAFELAIQLTGDSEDLW-ITSGVPEVEIMSNA 404 (795)
T ss_pred CcEEEEEEEC---CCCCCCCcEEEEEEEEeccccccc-cCCCCeeEEeecCc
Confidence 3789999999 66 556666666666655533 34477788886533
No 109
>PF07495 Y_Y_Y: Y_Y_Y domain; InterPro: IPR011123 This region is mostly found at the end of the beta propellers (IPR011110 from INTERPRO) in a family of two component regulators. However they are also found tandemly repeated in Q891H4 from SWISSPROT without other signal conduction domains being present. It is named after the conserved tyrosines found in the alignment. The exact function is not known.; PDB: 3V9F_D 3VA6_B 3OTT_B 4A2M_D 4A2L_B.
Probab=22.26 E-value=2.1e+02 Score=17.97 Aligned_cols=35 Identities=11% Similarity=0.108 Sum_probs=21.2
Q ss_pred eeEEEeecCCCceEEEEEEEEceeeeEEeecEEEEEEcCCC
Q 031356 86 SQSWERLDAGGILSHSFELDAKVKGMFHGSPALITFRIPTK 126 (161)
Q Consensus 86 s~~~~ri~pg~nvsH~vvv~p~~~G~f~~t~A~VtY~~~~~ 126 (161)
...|-.+..+.+ .+...+...|.|.| +|..+...+
T Consensus 18 d~~W~~~~~~~~---~~~~~~L~~G~Y~l---~V~a~~~~~ 52 (66)
T PF07495_consen 18 DDEWITLGSYSN---SISYTNLPPGKYTL---EVRAKDNNG 52 (66)
T ss_dssp ESSEEEESSTS----EEEEES--SEEEEE---EEEEEETTS
T ss_pred CCeEEECCCCcE---EEEEEeCCCEEEEE---EEEEECCCC
Confidence 356777777666 66667777777777 566655544
No 110
>TIGR02781 VirB9 P-type conjugative transfer protein VirB9. The VirB9 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in a type IV secretion system. VirB9 is a homolog of the F-type conjugative transfer system TraK protein (which is believed to be an outer membrane pore-forming secretin, TIGR02756) as well as the Ti system TrbG protein.
Probab=22.05 E-value=3.5e+02 Score=22.57 Aligned_cols=21 Identities=24% Similarity=0.468 Sum_probs=12.8
Q ss_pred eeEEEeecCCCceEEEEEEEEceee
Q 031356 86 SQSWERLDAGGILSHSFELDAKVKG 110 (161)
Q Consensus 86 s~~~~ri~pg~nvsH~vvv~p~~~G 110 (161)
+..|+-.+.| +++.++|+..|
T Consensus 69 t~~W~v~~~~----n~i~IKP~~~~ 89 (243)
T TIGR02781 69 SKAWEVTPNG----NKLFIKPTEKD 89 (243)
T ss_pred CcceEEEcCC----CEEEEEECCCC
Confidence 5677776664 34666665555
No 111
>PRK10893 lipopolysaccharide exporter periplasmic protein; Provisional
Probab=21.81 E-value=3.2e+02 Score=22.14 Aligned_cols=36 Identities=6% Similarity=0.089 Sum_probs=27.0
Q ss_pred cccccccCceeEEEEEEEEecCCcceeeEEEec-CCCCCCCc
Q 031356 38 SLKRLKSGAERISVSIDIHNQGTSTAYDVSLTD-DSWPQDKF 78 (161)
Q Consensus 38 ~~~~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D-~sfp~~~F 78 (161)
..+|..++ +..+.||.-....+.++=.. .+||.++.
T Consensus 40 ~Pdy~~~~-----~~~~~yd~~G~l~y~l~a~~~~Hy~~~~~ 76 (192)
T PRK10893 40 DPTYQSQH-----TDTVVYNPEGALSYKLVAQHVEYYSDQAV 76 (192)
T ss_pred CCCEEEec-----cEEEEECCCCCEEEEEEecceEEcCCCCC
Confidence 35677666 66788999888888888777 67886654
No 112
>cd08546 cohesin_like Cohesin domain, interaction parter of dockerin. Bacterial cohesin domains bind to a complementary protein domain named dockerin, and this interaction is required for the formation of the cellulosome, a cellulose-degrading complex. The cellulosome consists of scaffoldin, a noncatalytic scaffolding polypeptide, that comprises repeating cohesion modules and a single carbohydrate-binding module (CBM). Specific calcium-dependent interactions between cohesins and dockerins appear to be essential for cellulosome assembly. Cohesin modules are phylogenetically distributed into three groups: type I cohesin-dockerin interactions mediate assembly of a range of dockerin-borne enzymes to the complex, while type-II interactions mediate attachment of the cellulosome complex to the bacterial cell wall. Recently discovered type-III cohesins, such as found in the anchoring scaffoldin ScaE, appears to contribute to increased stability of the elaborate cellulosome complex. While the p
Probab=21.73 E-value=3.1e+02 Score=19.54 Aligned_cols=37 Identities=24% Similarity=0.462 Sum_probs=29.5
Q ss_pred ccCceeEEEEEEEEecCCcceeeEEEecCCCCCCCceEecC
Q 031356 43 KSGAERISVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVISG 83 (161)
Q Consensus 43 v~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~~F~iv~G 83 (161)
..| +.++|.+.+-|...-.+.++.|. |.++.|++++-
T Consensus 12 ~~G-~~~~v~v~~~~~~~~~~~~~~l~---yD~~~l~~~~~ 48 (135)
T cd08546 12 KVG-ETVTVTVKVNNVPNVAAADFTLS---YDPSVLEFVSV 48 (135)
T ss_pred cCC-CEEEEEEEEecCCCeEEEEEEEE---ECcccEEEEec
Confidence 678 89999999999997677777775 66778887774
No 113
>PF00635 Motile_Sperm: MSP (Major sperm protein) domain; InterPro: IPR000535 Major sperm proteins (MSP) are central components in molecular interactions underlying sperm motility in Caenorhabditis elegans, whose sperm employ an amoebae-like crawling motion using a MSP-containing lamellipod, rather than the flagellar-based swimming motion associated with other sperm. These proteins oligomerise to form an extensive filament system that extends from sperm villipoda, along the leading edge of the pseudopod. About 30 MSP isoforms may exist in C. elegans. MSPs form a fibrous network, whereby MSP dimers form helical subfilaments that coil around one another to produce filaments, which in turn form supercoils to produce bundles. The crystal structure of MSP from C. elegans reveals an immunoglobulin (Ig)-like seven-stranded beta sandwich fold []. ; GO: 0005198 structural molecule activity; PDB: 1MSP_A 3MSP_B 2BVU_B 2MSP_C 1Z9O_F 1Z9L_A 3IKK_A 1WIC_A 2CRI_A 2RR3_A ....
Probab=21.34 E-value=2.9e+02 Score=19.06 Aligned_cols=51 Identities=12% Similarity=0.373 Sum_probs=35.6
Q ss_pred eeEEEEEEEEecCCc-ceeeEEEecCCCCCCCceEecCceeeEEEeecCCCceEEEEEEEE
Q 031356 47 ERISVSIDIHNQGTS-TAYDVSLTDDSWPQDKFDVISGNISQSWERLDAGGILSHSFELDA 106 (161)
Q Consensus 47 ~~vtV~y~IyNvG~s-~A~dV~l~D~sfp~~~F~iv~G~~s~~~~ri~pg~nvsH~vvv~p 106 (161)
+.....++|.|.++. -|+.|+-+.+ +.|. |. -...-|.||++.+-.+.+.|
T Consensus 18 ~~~~~~l~l~N~s~~~i~fKiktt~~----~~y~-v~----P~~G~i~p~~~~~i~I~~~~ 69 (109)
T PF00635_consen 18 KQQSCELTLTNPSDKPIAFKIKTTNP----NRYR-VK----PSYGIIEPGESVEITITFQP 69 (109)
T ss_dssp S-EEEEEEEEE-SSSEEEEEEEES-T----TTEE-EE----SSEEEE-TTEEEEEEEEE-S
T ss_pred ceEEEEEEEECCCCCcEEEEEEcCCC----ceEE-ec----CCCEEECCCCEEEEEEEEEe
Confidence 678899999999998 6778876653 3453 22 34678999999999999987
No 114
>PRK15218 fimbrial chaperone protein PegB; Provisional
Probab=21.07 E-value=1.6e+02 Score=24.57 Aligned_cols=25 Identities=16% Similarity=0.416 Sum_probs=16.8
Q ss_pred cccccCceeEEEEEEEEecCCccee
Q 031356 40 KRLKSGAERISVSIDIHNQGTSTAY 64 (161)
Q Consensus 40 ~~~v~g~~~vtV~y~IyNvG~s~A~ 64 (161)
++++..+.+-.++++|.|.|+.+..
T Consensus 25 TRvIy~~~~~~~si~i~N~~~~pyL 49 (226)
T PRK15218 25 TRIIYPAQKKDITVQLMNDGKRSSL 49 (226)
T ss_pred eEEEEcCCCcEEEEEEEcCCCCcEE
Confidence 4444443566777888999998643
No 115
>PRK15254 fimbrial chaperone protein StdC; Provisional
Probab=20.79 E-value=4.9e+02 Score=21.91 Aligned_cols=60 Identities=23% Similarity=0.336 Sum_probs=30.9
Q ss_pred cccccCceeEEEEEEEEecCCcceeeEE--Eec-CCCCCCCceEecCceeeEEEeecCCCceEEEEEE
Q 031356 40 KRLKSGAERISVSIDIHNQGTSTAYDVS--LTD-DSWPQDKFDVISGNISQSWERLDAGGILSHSFEL 104 (161)
Q Consensus 40 ~~~v~g~~~vtV~y~IyNvG~s~A~dV~--l~D-~sfp~~~F~iv~G~~s~~~~ri~pg~nvsH~vvv 104 (161)
.+++..+.+-.++++|.|.++...+=|+ +.| ++=+...| ++. --+-||+||+.-+-.++-
T Consensus 23 TRvIy~~~~~~~sv~v~N~~~~~p~LvQsWv~d~~~~~~~pF-ivt----PPlfrl~p~~~~~lRI~~ 85 (239)
T PRK15254 23 TRIIMDAPQKTVAITLNNDDKTTPFLAQSWVTDADGVRTDAL-MAL----PPLQRIDAGQKSQVRITQ 85 (239)
T ss_pred eEEEEeCCCceEEEEEEeCCCCCcEEEEEEEecCCCCCcCCE-EEc----CCeEEECCCCceEEEEEE
Confidence 4444444567788999999975333332 323 21111234 222 224567777666555543
No 116
>cd04049 C2_putative_Elicitor-responsive_gene C2 domain present in the putative elicitor-responsive gene. In plants elicitor-responsive proteins are triggered in response to specific elicitor molecules such as glycolproteins, peptides, carbohydrates and lipids. A host of defensive responses are also triggered resulting in localized cell death. Antimicrobial secondary metabolites, such as phytoalexins, or defense-related proteins, including pathogenesis-related (PR) proteins are also produced. There is a single C2 domain present here. C2 domains fold into an 8-standed beta-sandwich that can adopt 2 structural arrangements: Type I and Type II, distinguished by a circular permutation involving their N- and C-terminal beta strands. Many C2 domains are Ca2+-dependent membrane-targeting modules that bind a wide variety of substances including bind phospholipids, inositol polyphosphates, and intracellular proteins. Most C2 domain proteins are either signal transduction enzymes that contai
Probab=20.73 E-value=2.9e+02 Score=19.63 Aligned_cols=76 Identities=17% Similarity=0.225 Sum_probs=47.3
Q ss_pred ccccCceeEEEEEEEEecCCcceeeEEEec-CCCCCCCceEecCceeeEEEeecCCCceEEEEEEEEceeeeEEeecEEE
Q 031356 41 RLKSGAERISVSIDIHNQGTSTAYDVSLTD-DSWPQDKFDVISGNISQSWERLDAGGILSHSFELDAKVKGMFHGSPALI 119 (161)
Q Consensus 41 ~~v~g~~~vtV~y~IyNvG~s~A~dV~l~D-~sfp~~~F~iv~G~~s~~~~ri~pg~nvsH~vvv~p~~~G~f~~t~A~V 119 (161)
.+.-+ +.+.+.+.--+........|++-| +.+..+.| =|.....++.+..++....-+.+.|. -|++..+..
T Consensus 46 nP~Wn-e~f~f~v~~~~~~~~~~l~v~V~d~~~~~~d~~---iG~~~i~l~~l~~~~~~~~~~~l~p~---~~~~~~~~~ 118 (124)
T cd04049 46 NPEWN-EKFKFTVEYPGWGGDTKLILRIMDKDNFSDDDF---IGEATIHLKGLFEEGVEPGTAELVPA---KYNVVLEDD 118 (124)
T ss_pred CCccc-ceEEEEecCcccCCCCEEEEEEEECccCCCCCe---EEEEEEEhHHhhhCCCCcCceEeecc---ceEEEEece
Confidence 44445 555544332221134567788777 55655654 36778888888888888888888886 345555555
Q ss_pred EEEc
Q 031356 120 TFRI 123 (161)
Q Consensus 120 tY~~ 123 (161)
+|+.
T Consensus 119 ~~~~ 122 (124)
T cd04049 119 TYKG 122 (124)
T ss_pred EEEe
Confidence 7764
No 117
>PF07550 DUF1533: Protein of unknown function (DUF1533); InterPro: IPR011432 This domain is found duplicated in proteins of unknown function. The proteins typically also contain leucine-rich repeats.
Probab=20.39 E-value=1.5e+02 Score=19.68 Aligned_cols=38 Identities=13% Similarity=0.150 Sum_probs=22.1
Q ss_pred CCCCceE-ecCceeeEEEee-cCCCceEEEEEEEEceeeeEEe
Q 031356 74 PQDKFDV-ISGNISQSWERL-DAGGILSHSFELDAKVKGMFHG 114 (161)
Q Consensus 74 p~~~F~i-v~G~~s~~~~ri-~pg~nvsH~vvv~p~~~G~f~~ 114 (161)
....|.+ ..|.+...-..+ ..| .|.++|.+..+.-..|
T Consensus 24 ~~~~y~~~~~~~l~i~~~~f~~~G---~~~I~I~A~GY~d~~~ 63 (65)
T PF07550_consen 24 GNDKYSISSKGSLKIKASAFNKDG---ENTIVIKATGYKDKTF 63 (65)
T ss_pred ccccEEeccCCcEEEcHHHcCcCC---ceEEEEEeCCccceEE
Confidence 3445555 445454444444 344 5888888877665554
No 118
>PF08441 Integrin_alpha2: Integrin alpha; InterPro: IPR013649 This domain is found in integrin alpha and integrin alpha precursors to the C terminus of a number of IPR013517 from INTERPRO repeats and to the N terminus of the IPR013513 from INTERPRO cytoplasmic region. ; PDB: 1M1X_A 1U8C_A 1L5G_A 3IJE_A 1JV2_A 2VDN_A 2VC2_A 3NIF_A 3NIG_C 2VDM_A ....
Probab=20.16 E-value=1e+02 Score=27.35 Aligned_cols=31 Identities=29% Similarity=0.534 Sum_probs=23.1
Q ss_pred cCceeEEEEEEEEecCCcceeeEEEecCCCCCC
Q 031356 44 SGAERISVSIDIHNQGTSTAYDVSLTDDSWPQD 76 (161)
Q Consensus 44 ~g~~~vtV~y~IyNvG~s~A~dV~l~D~sfp~~ 76 (161)
.| .++...|.|.|.|.++.-+++|.= .||..
T Consensus 341 ig-~~v~h~y~V~N~Gps~i~~~~l~i-~~P~~ 371 (457)
T PF08441_consen 341 IG-PEVTHTYEVRNNGPSTIPSASLNI-MWPYQ 371 (457)
T ss_dssp H---EEEEEEEEEE-SSS-EEEEEEEE-EEECE
T ss_pred CC-CcEEEEEEeeecCCCccccEEEEE-eeChh
Confidence 45 699999999999999988888885 57765
Done!