Query 009983
Match_columns 521
No_of_seqs 49 out of 51
Neff 3.1
Searched_HMMs 46136
Date Thu Mar 28 19:39:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/009983.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/009983hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK11637 AmiB activator; Provi 76.2 44 0.00095 35.4 12.6 78 54-131 45-135 (428)
2 PLN03144 Carbon catabolite rep 72.8 2.9 6.3E-05 47.2 3.1 32 355-386 174-205 (606)
3 PF14988 DUF4515: Domain of un 70.5 20 0.00044 35.3 7.9 77 59-135 81-175 (206)
4 PF10186 Atg14: UV radiation r 64.9 88 0.0019 30.4 11.0 90 58-148 29-126 (302)
5 PF12128 DUF3584: Protein of u 64.2 1.2E+02 0.0026 36.8 14.1 107 56-163 788-894 (1201)
6 PF04012 PspA_IM30: PspA/IM30 61.3 41 0.00089 32.2 8.0 116 44-190 19-138 (221)
7 PF03961 DUF342: Protein of un 60.0 14 0.0003 39.5 5.0 84 304-427 117-200 (451)
8 COG1704 LemA Uncharacterized c 58.4 20 0.00044 35.4 5.3 47 133-191 91-138 (185)
9 PRK10698 phage shock protein P 57.4 81 0.0017 31.3 9.4 76 45-125 21-101 (222)
10 PRK09039 hypothetical protein; 56.5 77 0.0017 33.3 9.6 122 58-191 48-171 (343)
11 TIGR03185 DNA_S_dndD DNA sulfu 55.6 58 0.0013 36.5 9.0 59 51-109 393-453 (650)
12 PRK09239 chorismate mutase; Pr 55.3 1.4E+02 0.003 26.6 9.6 94 89-192 8-101 (104)
13 TIGR01005 eps_transp_fam exopo 51.6 1.2E+02 0.0025 34.5 10.6 109 62-170 200-329 (754)
14 COG2900 SlyX Uncharacterized p 45.0 45 0.00098 28.7 4.7 37 86-125 3-41 (72)
15 PF15294 Leu_zip: Leucine zipp 43.9 2.1E+02 0.0045 30.1 10.2 40 59-98 135-174 (278)
16 TIGR02977 phageshock_pspA phag 42.8 2.1E+02 0.0046 28.0 9.6 54 44-106 20-74 (219)
17 PRK14153 heat shock protein Gr 41.8 3E+02 0.0065 27.3 10.5 58 139-199 82-143 (194)
18 KOG0977 Nuclear envelope prote 41.7 1.4E+02 0.0029 34.1 9.1 45 57-101 35-80 (546)
19 TIGR03185 DNA_S_dndD DNA sulfu 41.5 95 0.0021 34.9 7.9 58 402-462 585-649 (650)
20 KOG0250 DNA repair protein RAD 40.3 3.4E+02 0.0073 33.5 12.3 140 49-191 734-891 (1074)
21 CHL00140 rpl6 ribosomal protei 39.5 46 0.00099 32.0 4.4 53 432-485 80-138 (178)
22 PF01895 PhoU: PhoU domain; I 37.9 1.1E+02 0.0025 23.7 5.8 50 52-101 24-73 (88)
23 PF11464 Rbsn: Rabenosyn Rab b 37.0 79 0.0017 24.7 4.5 40 63-104 3-42 (42)
24 COG1579 Zn-ribbon protein, pos 36.8 1.9E+02 0.0041 29.7 8.5 92 62-162 37-129 (239)
25 KOG0978 E3 ubiquitin ligase in 36.7 2.8E+02 0.0061 32.6 10.7 109 80-191 499-621 (698)
26 COG4942 Membrane-bound metallo 36.1 6.1E+02 0.013 28.2 12.7 92 59-158 41-132 (420)
27 KOG3091 Nuclear pore complex, 35.2 95 0.0021 35.0 6.5 80 47-128 346-446 (508)
28 PLN02939 transferase, transfer 34.6 2.6E+02 0.0056 34.1 10.3 100 50-153 129-280 (977)
29 PRK14154 heat shock protein Gr 34.4 4.9E+02 0.011 26.3 10.8 145 19-199 11-164 (208)
30 PRK10361 DNA recombination pro 34.3 3.8E+02 0.0083 30.1 11.0 57 59-116 56-112 (475)
31 PRK02119 hypothetical protein; 33.5 94 0.002 26.2 4.9 37 84-123 2-40 (73)
32 PF07989 Microtub_assoc: Micro 33.4 1E+02 0.0022 26.2 5.1 65 58-146 2-66 (75)
33 PRK02793 phi X174 lysis protei 33.0 99 0.0021 25.9 4.9 33 88-123 5-39 (72)
34 PF01025 GrpE: GrpE; InterPro 32.8 2.1E+02 0.0045 26.2 7.4 60 137-199 58-121 (165)
35 PF10186 Atg14: UV radiation r 32.6 4.7E+02 0.01 25.4 10.3 49 58-106 58-106 (302)
36 KOG1222 Kinesin associated pro 32.2 1.9E+02 0.0041 33.3 8.2 129 23-179 231-360 (791)
37 TIGR01795 CM_mono_cladeE monof 32.0 3.2E+02 0.0069 23.9 8.1 83 91-186 3-88 (94)
38 PF14389 Lzipper-MIP1: Leucine 31.6 66 0.0014 27.8 3.8 36 43-78 48-83 (88)
39 PF04156 IncA: IncA protein; 31.3 1.9E+02 0.0041 27.0 7.1 24 164-187 158-181 (191)
40 PRK14154 heat shock protein Gr 30.7 2.6E+02 0.0057 28.1 8.2 26 47-72 50-75 (208)
41 PF09726 Macoilin: Transmembra 30.4 2.3E+02 0.005 33.0 8.8 67 54-127 543-611 (697)
42 COG1196 Smc Chromosome segrega 29.2 4E+02 0.0087 32.4 10.8 63 58-120 371-433 (1163)
43 TIGR02169 SMC_prok_A chromosom 28.9 4.4E+02 0.0095 30.7 10.7 17 402-418 606-622 (1164)
44 PRK14148 heat shock protein Gr 28.5 6E+02 0.013 25.3 10.7 58 139-199 89-150 (195)
45 PRK00295 hypothetical protein; 28.1 1.4E+02 0.0029 24.9 4.9 31 89-122 3-35 (68)
46 PF04012 PspA_IM30: PspA/IM30 27.7 1.1E+02 0.0023 29.5 4.9 48 51-98 86-133 (221)
47 PF11932 DUF3450: Protein of u 27.6 5.8E+02 0.013 25.3 10.1 49 68-117 40-88 (251)
48 PRK11020 hypothetical protein; 27.6 94 0.002 29.0 4.2 40 67-109 16-60 (118)
49 PLN02542 fructose-1,6-bisphosp 27.6 1.2E+02 0.0026 33.4 5.7 80 322-419 234-314 (412)
50 PRK06342 transcription elongat 26.9 85 0.0018 30.0 4.0 42 51-97 32-77 (160)
51 cd01246 PH_oxysterol_bp Oxyste 26.9 3.2E+02 0.0069 21.6 8.0 77 430-506 10-89 (91)
52 PF14048 MBD_C: C-terminal dom 26.5 48 0.001 29.5 2.1 19 57-75 77-95 (96)
53 PRK04406 hypothetical protein; 25.6 1.6E+02 0.0035 25.0 5.0 32 88-122 8-41 (75)
54 PF04849 HAP1_N: HAP1 N-termin 25.5 1.5E+02 0.0033 31.5 5.8 48 59-106 230-277 (306)
55 COG1579 Zn-ribbon protein, pos 25.3 3.5E+02 0.0077 27.8 8.2 47 56-102 59-114 (239)
56 PRK14149 heat shock protein Gr 25.3 4.1E+02 0.0088 26.4 8.4 51 139-191 85-139 (191)
57 PRK11281 hypothetical protein; 24.8 3.6E+02 0.0079 33.2 9.5 71 88-158 357-459 (1113)
58 cd01253 PH_beta_spectrin Beta- 24.7 2.9E+02 0.0063 23.2 6.4 76 431-506 19-102 (104)
59 TIGR01076 sortase_fam LPXTG-si 24.4 71 0.0015 28.8 2.9 43 325-368 42-85 (136)
60 PF00038 Filament: Intermediat 24.3 4.3E+02 0.0094 26.4 8.6 50 58-107 211-260 (312)
61 PRK09293 fructose-1,6-bisphosp 24.2 1.3E+02 0.0027 31.9 5.0 77 322-417 145-222 (327)
62 PF04201 TPD52: Tumour protein 23.9 1.6E+02 0.0035 28.7 5.3 51 44-108 24-79 (162)
63 PF08838 DUF1811: Protein of u 23.5 81 0.0018 28.8 3.0 33 60-94 11-43 (102)
64 PRK05498 rplF 50S ribosomal pr 23.4 1.4E+02 0.003 28.7 4.7 53 432-485 80-138 (178)
65 cd00354 FBPase Fructose-1,6-bi 22.9 1.5E+02 0.0033 31.1 5.3 79 322-418 138-217 (315)
66 cd05829 Sortase_E Sortase E (S 22.8 1.3E+02 0.0028 27.6 4.3 51 319-369 42-96 (144)
67 PRK11281 hypothetical protein; 22.8 2.3E+02 0.005 34.8 7.3 61 49-110 66-147 (1113)
68 PF11629 Mst1_SARAH: C termina 22.5 2.7E+02 0.0058 22.6 5.4 23 88-110 23-45 (49)
69 PHA00652 hypothetical protein 22.4 2.6E+02 0.0057 26.5 6.2 57 87-146 38-105 (128)
70 PRK14160 heat shock protein Gr 22.4 6.8E+02 0.015 25.3 9.4 50 139-191 110-161 (211)
71 PRK14139 heat shock protein Gr 21.8 7.8E+02 0.017 24.3 9.9 57 140-199 82-140 (185)
72 KOG3083 Prohibitin [Posttransl 21.8 85 0.0018 32.6 3.1 41 103-143 141-199 (271)
73 PF13600 DUF4140: N-terminal d 21.8 1.2E+02 0.0027 25.8 3.7 36 61-96 68-103 (104)
74 PRK04325 hypothetical protein; 21.4 2.1E+02 0.0046 24.1 4.9 32 89-123 7-40 (74)
75 PF00038 Filament: Intermediat 21.2 3.4E+02 0.0075 27.1 7.2 42 62-103 53-94 (312)
76 PF07926 TPR_MLP1_2: TPR/MLP1/ 21.1 5.4E+02 0.012 23.3 7.8 66 63-128 59-124 (132)
77 cd05828 Sortase_D_4 Sortase D 21.1 1.2E+02 0.0026 27.0 3.6 45 318-367 35-82 (127)
78 PF00901 Orbi_VP5: Orbivirus o 20.9 8E+02 0.017 28.1 10.4 118 39-181 74-200 (508)
79 KOG3990 Uncharacterized conser 20.5 3.1E+02 0.0066 29.1 6.7 29 46-74 215-243 (305)
80 TIGR03654 L6_bact ribosomal pr 20.5 1.7E+02 0.0036 28.1 4.7 53 432-485 79-137 (175)
81 COG1842 PspA Phage shock prote 20.5 3.1E+02 0.0067 27.7 6.7 56 53-113 89-144 (225)
82 PRK14162 heat shock protein Gr 20.4 8.6E+02 0.019 24.2 10.7 57 140-199 89-149 (194)
83 PF11932 DUF3450: Protein of u 20.4 5.1E+02 0.011 25.7 8.1 27 81-107 60-86 (251)
84 TIGR02168 SMC_prok_B chromosom 20.3 1.1E+03 0.023 27.4 11.6 8 313-320 1071-1078(1179)
85 PF01025 GrpE: GrpE; InterPro 20.3 2.3E+02 0.005 25.9 5.4 20 139-158 94-113 (165)
86 PF09787 Golgin_A5: Golgin sub 20.2 3.7E+02 0.0081 29.7 7.8 64 50-113 110-184 (511)
No 1
>PRK11637 AmiB activator; Provisional
Probab=76.21 E-value=44 Score=35.43 Aligned_cols=78 Identities=15% Similarity=0.159 Sum_probs=47.3
Q ss_pred HHHHhhccHHHHHHHHHHHHHHhhhhhhhhcchhhhHHHHhHHHHHHhHHhhHH-------------HHHHHHHHHHhhh
Q 009983 54 LYSRARMQKEEIHSLRQQIAVACLKELQLQNEKYTLERKVSELRMAIDEKQNEA-------------ITSALNELARRKG 120 (521)
Q Consensus 54 l~~~~re~EEEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA~mR~A~DqqQqdl-------------VdaAsKaLsyRq~ 120 (521)
+-.+.++.+++|.++.+.|.+..-+..++.++...|+++|+.+.-.++..|+++ |+.+-+.|..+++
T Consensus 45 ~~~~l~~l~~qi~~~~~~i~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~ 124 (428)
T PRK11637 45 NRDQLKSIQQDIAAKEKSVRQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQER 124 (428)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334555666666666666666666666677777777777766666666555443 2333445555556
Q ss_pred hHhhhhhhhhh
Q 009983 121 VLEENLKLAHD 131 (521)
Q Consensus 121 iiEENiRLtya 131 (521)
.+.+=+|-.|.
T Consensus 125 ~l~~rlra~Y~ 135 (428)
T PRK11637 125 LLAAQLDAAFR 135 (428)
T ss_pred HHHHHHHHHHH
Confidence 66666666665
No 2
>PLN03144 Carbon catabolite repressor protein 4 homolog; Provisional
Probab=72.83 E-value=2.9 Score=47.15 Aligned_cols=32 Identities=34% Similarity=0.632 Sum_probs=27.8
Q ss_pred eecCCCCCceeeeccccCceEEEEEEecCCCC
Q 009983 355 YIEGATNPEYVVTADDVDKLIAVECIPMDDQG 386 (521)
Q Consensus 355 ~IegA~~p~Y~vTADDVd~~iAvec~PmDd~g 386 (521)
.|+=..+..|+.|+||||-.|-+||+|+|...
T Consensus 174 w~~vg~~~~y~p~~~d~g~~lk~~~~~~~~~~ 205 (606)
T PLN03144 174 WIEVGRSKTYTPTADDVGHVLKFECVVVDAET 205 (606)
T ss_pred eEEeCCCccccCChhhCCceEEEEEEEccccc
Confidence 35655788999999999999999999998764
No 3
>PF14988 DUF4515: Domain of unknown function (DUF4515)
Probab=70.55 E-value=20 Score=35.30 Aligned_cols=77 Identities=26% Similarity=0.319 Sum_probs=53.1
Q ss_pred hccHHHHHHHHHHHHHH----hh----hhhhhhcchhhhHHHHhHHHHHH---------hHHhhHHHHHHHHHHH-Hhhh
Q 009983 59 RMQKEEIHSLRQQIAVA----CL----KELQLQNEKYTLERKVSELRMAI---------DEKQNEAITSALNELA-RRKG 120 (521)
Q Consensus 59 re~EEEI~~Lrk~Lad~----s~----KE~Qil~EK~vLErriA~mR~A~---------DqqQqdlVdaAsKaLs-yRq~ 120 (521)
..+|.||..|++.++.. +. =+.|.+.||.-||+-..+++++- .++=|-|.-||-++|. +=++
T Consensus 81 ~~qe~eI~~Le~e~~~~~~e~~~~l~~~~~qfl~EK~~LEke~~e~~i~~l~e~a~~el~~k~~ale~~A~~~l~e~~~~ 160 (206)
T PF14988_consen 81 EQQEREIQTLEEELEKMRAEHAEKLQEAESQFLQEKARLEKEASELKILQLGERAHKELKKKAQALELAAKKSLDEFTRS 160 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46788999888887652 22 25789999999999887777651 2233334444555443 5688
Q ss_pred hHhhhhhhhhhhhhh
Q 009983 121 VLEENLKLAHDLKVA 135 (521)
Q Consensus 121 iiEENiRLtyaLQ~a 135 (521)
|..||.+|.-+|.--
T Consensus 161 i~~EN~~L~k~L~~l 175 (206)
T PF14988_consen 161 IKRENQQLRKELLQL 175 (206)
T ss_pred HHHHHHHHHHHHHHH
Confidence 999999998776543
No 4
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=64.93 E-value=88 Score=30.42 Aligned_cols=90 Identities=18% Similarity=0.146 Sum_probs=48.6
Q ss_pred hhccHHHHHHHHHHHHHHhh--------hhhhhhcchhhhHHHHhHHHHHHhHHhhHHHHHHHHHHHHhhhhHhhhhhhh
Q 009983 58 ARMQKEEIHSLRQQIAVACL--------KELQLQNEKYTLERKVSELRMAIDEKQNEAITSALNELARRKGVLEENLKLA 129 (521)
Q Consensus 58 ~re~EEEI~~Lrk~Lad~s~--------KE~Qil~EK~vLErriA~mR~A~DqqQqdlVdaAsKaLsyRq~iiEENiRLt 129 (521)
...--++...|+.++.++-- .-.++..|...++.|++.+|....++++.+-+.=-+.-..|+.+-...-.|.
T Consensus 29 l~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~r~~~l~~~i~~~~~~i~~~r~~l~~~~~~l~~~~~~l~ 108 (302)
T PF10186_consen 29 LQQLKEENEELRRRIEEILESDSNGQLLEIQQLKREIEELRERLERLRERIERLRKRIEQKRERLEELRESLEQRRSRLS 108 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444455566666655432 3345556677778888888888877766654443333333444433344444
Q ss_pred hhhhhhhhhhHHHHHHHHH
Q 009983 130 HDLKVAEDERYFFMSSMLG 148 (521)
Q Consensus 130 yaLQ~aeqERs~fvssLLp 148 (521)
+.+...+++..++..+..
T Consensus 109 -~~~~~~~~~~~~~~~~~~ 126 (302)
T PF10186_consen 109 -ASQDLVESRQEQLEELQN 126 (302)
T ss_pred -HHHHHHHHHHHHHHHHHH
Confidence 444444555555554433
No 5
>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins.
Probab=64.19 E-value=1.2e+02 Score=36.77 Aligned_cols=107 Identities=22% Similarity=0.257 Sum_probs=70.3
Q ss_pred HHhhccHHHHHHHHHHHHHHhhhhhhhhcchhhhHHHHhHHHHHHhHHhhHHHHHHHHHHHHhhhhHhhhhhhhhhhhhh
Q 009983 56 SRARMQKEEIHSLRQQIAVACLKELQLQNEKYTLERKVSELRMAIDEKQNEAITSALNELARRKGVLEENLKLAHDLKVA 135 (521)
Q Consensus 56 ~~~re~EEEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA~mR~A~DqqQqdlVdaAsKaLsyRq~iiEENiRLtyaLQ~a 135 (521)
.++++++.++..-++-+...=.+.-.+..+|-.|+.+++.++-++.+.++++-.. .+++..+..=+|+.+.-.-+.+..
T Consensus 788 ~~ie~~r~~V~eY~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~~le~~~~~~~~~~~~ 866 (1201)
T PF12128_consen 788 KRIEERRAEVIEYEDWLQEEWDKVDELREEKPELEEQLRDLEQELQELEQELNQL-QKEVKQRRKELEEELKALEEQLEQ 866 (1201)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444444555677788888888888888888877776543 445555666666666655555555
Q ss_pred hhhhHHHHHHHHHHhhhcCCCCCcccch
Q 009983 136 EDERYFFMSSMLGLLADYGLWPHVTNAS 163 (521)
Q Consensus 136 eqERs~fvssLLpLLaEY~LqP~v~dAq 163 (521)
-++.-.-+..++.-|+++.+.|+..+|+
T Consensus 867 ~~~~l~~l~~~~~~l~~~~~~~~~~~~~ 894 (1201)
T PF12128_consen 867 LEEQLRRLRDLLEKLAELSEPPNAEDAE 894 (1201)
T ss_pred HHHHHHHHHHHHhhhhhcCCCCCchhhh
Confidence 5555555666677778888888888888
No 6
>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription. The PspA protein, a negative regulator of the Escherichia coli phage shock psp operon, is produced when virulence factors are exported through secretins in many Gram-negative pathogenic bacteria and its homologue in plants, VIPP1, plays a critical role in thylakoid biogenesis, essential for photosynthesis. Activation of transcription by the enhancer-dependent bacterial sigma54-containing RNA polymerase occurs through ATP hydrolysis-driven protein conformational changes enabled by activator proteins that belong to the large AAA(+) mechanochemical protein family. It has been shown that PspA directly and specifically acts upon and binds to the AAA(+) domain of the PspF transcription activator [].
Probab=61.30 E-value=41 Score=32.24 Aligned_cols=116 Identities=18% Similarity=0.241 Sum_probs=72.5
Q ss_pred ccccchhhhhHHHHhhccHHHHHHHHHHHHHHhhhhhhhhcchhhhHHHHhHH----HHHHhHHhhHHHHHHHHHHHHhh
Q 009983 44 ISFQDREAMELYSRARMQKEEIHSLRQQIAVACLKELQLQNEKYTLERKVSEL----RMAIDEKQNEAITSALNELARRK 119 (521)
Q Consensus 44 ~~~~d~~~~~l~~~~re~EEEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA~m----R~A~DqqQqdlVdaAsKaLsyRq 119 (521)
..+.||+ .-|=.-+|+-|++|..+|+.++.+...+.++-.+...+++.++.+ +.|...-..||.-.| |..++
T Consensus 19 d~~EDP~-~~l~q~ird~e~~l~~a~~~~a~~~a~~~~le~~~~~~~~~~~~~~~~A~~Al~~g~edLAr~a---l~~k~ 94 (221)
T PF04012_consen 19 DKAEDPE-KMLEQAIRDMEEQLRKARQALARVMANQKRLERKLDEAEEEAEKWEKQAELALAAGREDLAREA---LQRKA 94 (221)
T ss_pred HhhcCHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHH---HHHHH
Confidence 3467888 445567899999999999999998887777666666666655543 456666555554332 22222
Q ss_pred hhHhhhhhhhhhhhhhhhhhHHHHHHHHHHhhhcCCCCCcccchhhhhhhHHHHHHHHHHHHhhhhhcccc
Q 009983 120 GVLEENLKLAHDLKVAEDERYFFMSSMLGLLADYGLWPHVTNASAISNTVKHLYDQLQSQIRTSYDRIRDL 190 (521)
Q Consensus 120 ~iiEENiRLtyaLQ~aeqERs~fvssLLpLLaEY~LqP~v~dAqSIvs~vKvL~~hLq~kl~~~e~klke~ 190 (521)
+.-+ +. .. |+..+..+...|..+|.-++.|..||..+..|....
T Consensus 95 ~~e~--------------~~----~~---------l~~~~~~~~~~~~~l~~~l~~l~~kl~e~k~k~~~l 138 (221)
T PF04012_consen 95 DLEE--------------QA----ER---------LEQQLDQAEAQVEKLKEQLEELEAKLEELKSKREEL 138 (221)
T ss_pred HHHH--------------HH----HH---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 1111 00 01 122334556677788888888888887777765544
No 7
>PF03961 DUF342: Protein of unknown function (DUF342); InterPro: IPR005646 This family of bacterial proteins has no known function. The proteins are in the region of 500-600 amino acid residues in length.
Probab=60.04 E-value=14 Score=39.49 Aligned_cols=84 Identities=24% Similarity=0.275 Sum_probs=51.6
Q ss_pred ccCCCCCCcccceeecccCCCcceeeeccccCCceeeeeEEEEEccCCceeeecCCCCCceeeeccccCceEEEEEEecC
Q 009983 304 SISEGGPGIEGFQIIGEATPGEKLLGCGYPVRGTTLCMFQWVRHLQDGTRHYIEGATNPEYVVTADDVDKLIAVECIPMD 383 (521)
Q Consensus 304 ad~dplP~IeglqI~Gda~pG~~L~acGysinGTtlC~FqWvRhleDGs~~~IegA~~p~Y~vTADDVd~~iAvec~PmD 383 (521)
.--.|.||.+|..+.|+.+|...-.-.-++ .++.-.+..+|=.+++|
T Consensus 117 ~~~p~~~G~~G~~V~G~~I~~~~~~~~~~~--------------------------~g~~~~~~~~d~~~~~A------- 163 (451)
T PF03961_consen 117 EKIPPTPGEPGRDVFGEPIPAKPGKDIPLK--------------------------AGKNTEVSEEDGNKLYA------- 163 (451)
T ss_pred EEccCCCCCCCcccCCCCcCCCCCCcccee--------------------------CCCCEEEEcCCCCEEEE-------
Confidence 344578999999999999987654322111 12333344344444443
Q ss_pred CCCcccceeeeecccCCccccCccchHHHHHHHHhcceEEEEEe
Q 009983 384 DQGRQGELVRRFANDQNKIKCDLGMQSEIDAYISRGHATFSVLM 427 (521)
Q Consensus 384 d~grkGElV~~~aNd~~kI~cDpeMq~~I~~~l~~G~Asf~V~l 427 (521)
...|-++. +++.|..+|.+.=. +--+++|+..|.=.+
T Consensus 164 --~~~G~~~~----~~~~i~V~~~l~i~-dVd~~TGnI~f~G~V 200 (451)
T PF03961_consen 164 --AIDGRPVF----ENGKISVDPVLEIN-DVDYSTGNIDFDGDV 200 (451)
T ss_pred --ecCCEEEE----ECCEEEEEEeeEeC-CCCCCCCCEeeeEEE
Confidence 23444444 45557777777766 777888999986433
No 8
>COG1704 LemA Uncharacterized conserved protein [Function unknown]
Probab=58.44 E-value=20 Score=35.43 Aligned_cols=47 Identities=21% Similarity=0.250 Sum_probs=40.4
Q ss_pred hhhhhhhHHHHHHHHHHhhhc-CCCCCcccchhhhhhhHHHHHHHHHHHHhhhhhccccc
Q 009983 133 KVAEDERYFFMSSMLGLLADY-GLWPHVTNASAISNTVKHLYDQLQSQIRTSYDRIRDLT 191 (521)
Q Consensus 133 Q~aeqERs~fvssLLpLLaEY-~LqP~v~dAqSIvs~vKvL~~hLq~kl~~~e~klke~~ 191 (521)
|.||.|.+-+.+.|+=+-.-| +|.-. ..|..||.+|..||.++.-+.
T Consensus 91 ~~aq~~Ls~~L~rl~a~~E~YPdLKAn------------~~f~~Lq~ql~~tEn~Ia~aR 138 (185)
T COG1704 91 QEAQAELSSALGRLFAVAEAYPDLKAN------------ENFLELQSQLEGTENRIAVAR 138 (185)
T ss_pred HHHHHHHHHHHHHHHHHHHhCcchhhh------------hHHHHHHHHHHhHHHHHHHHH
Confidence 788899999999999988889 66543 469999999999999987766
No 9
>PRK10698 phage shock protein PspA; Provisional
Probab=57.38 E-value=81 Score=31.28 Aligned_cols=76 Identities=16% Similarity=0.181 Sum_probs=46.8
Q ss_pred cccchh-hhhHHHHhhccHHHHHHHHHHHHHHhhhhhhhhcchhhhHHHHhHH----HHHHhHHhhHHHHHHHHHHHHhh
Q 009983 45 SFQDRE-AMELYSRARMQKEEIHSLRQQIAVACLKELQLQNEKYTLERKVSEL----RMAIDEKQNEAITSALNELARRK 119 (521)
Q Consensus 45 ~~~d~~-~~~l~~~~re~EEEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA~m----R~A~DqqQqdlVdaAsKaLsyRq 119 (521)
...||+ ..++ -+++-++.+..+|+-+|.+-..+.++-.+...++.+++.. ++|...-..|| |-+||..++
T Consensus 21 kaEDP~k~l~q--~i~em~~~l~~~r~alA~~~A~~k~~er~~~~~~~~~~~~e~kA~~Al~~G~EdL---Ar~AL~~K~ 95 (222)
T PRK10698 21 KAEDPQKLVRL--MIQEMEDTLVEVRSTSARALAEKKQLTRRIEQAEAQQVEWQEKAELALRKEKEDL---ARAALIEKQ 95 (222)
T ss_pred hhcCHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHH---HHHHHHHHH
Confidence 457998 5565 4788999999999999887666544444444444433332 44554444444 456677777
Q ss_pred hhHhhh
Q 009983 120 GVLEEN 125 (521)
Q Consensus 120 ~iiEEN 125 (521)
..-+.-
T Consensus 96 ~~~~~~ 101 (222)
T PRK10698 96 KLTDLI 101 (222)
T ss_pred HHHHHH
Confidence 665443
No 10
>PRK09039 hypothetical protein; Validated
Probab=56.52 E-value=77 Score=33.33 Aligned_cols=122 Identities=14% Similarity=0.072 Sum_probs=66.7
Q ss_pred hhccHHHHHHHHHHHHHHhhhhhhhhcchhhhHHHHhHHHHHHhHHhhHHHHHHHHHHHHhhhhHhhhhhhhhhh-hhhh
Q 009983 58 ARMQKEEIHSLRQQIAVACLKELQLQNEKYTLERKVSELRMAIDEKQNEAITSALNELARRKGVLEENLKLAHDL-KVAE 136 (521)
Q Consensus 58 ~re~EEEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA~mR~A~DqqQqdlVdaAsKaLsyRq~iiEENiRLtyaL-Q~ae 136 (521)
+...++|+..|..+|++.+.--.==.+....|+.+|+.||--|+.-+. +.+-+|.-+--.++- ..++
T Consensus 48 i~~~~~eL~~L~~qIa~L~e~L~le~~~~~~l~~~l~~l~~~l~~a~~------------~r~~Le~~~~~~~~~~~~~~ 115 (343)
T PRK09039 48 ISGKDSALDRLNSQIAELADLLSLERQGNQDLQDSVANLRASLSAAEA------------ERSRLQALLAELAGAGAAAE 115 (343)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH------------HHHHHHHHHhhhhhhcchHH
Confidence 466789999999999985533222234556677777777776662111 111222211101110 0011
Q ss_pred hhhHHHHHHHHHHhhhc-CCCCCcccchhhhhhhHHHHHHHHHHHHhhhhhccccc
Q 009983 137 DERYFFMSSMLGLLADY-GLWPHVTNASAISNTVKHLYDQLQSQIRTSYDRIRDLT 191 (521)
Q Consensus 137 qERs~fvssLLpLLaEY-~LqP~v~dAqSIvs~vKvL~~hLq~kl~~~e~klke~~ 191 (521)
..-...-.-|=-+.++| .-+|.|.-.++=+..+|.=-..|+..|...|.+.++.+
T Consensus 116 ~~~~~l~~~L~~~k~~~se~~~~V~~L~~qI~aLr~Qla~le~~L~~ae~~~~~~~ 171 (343)
T PRK09039 116 GRAGELAQELDSEKQVSARALAQVELLNQQIAALRRQLAALEAALDASEKRDRESQ 171 (343)
T ss_pred HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 11111123444555667 47777777777777777777777777776666665554
No 11
>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD. This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.
Probab=55.65 E-value=58 Score=36.51 Aligned_cols=59 Identities=20% Similarity=0.181 Sum_probs=47.0
Q ss_pred hhhHHHHhhccHHHHHHHHHHHHHHhhhh--hhhhcchhhhHHHHhHHHHHHhHHhhHHHH
Q 009983 51 AMELYSRARMQKEEIHSLRQQIAVACLKE--LQLQNEKYTLERKVSELRMAIDEKQNEAIT 109 (521)
Q Consensus 51 ~~~l~~~~re~EEEI~~Lrk~Lad~s~KE--~Qil~EK~vLErriA~mR~A~DqqQqdlVd 109 (521)
...|..+.++-|+||..|.++|+.+.-.| .++..++..++++++.++-.+...++.+-.
T Consensus 393 ~~~~~~~~~~~e~el~~l~~~l~~~~~~e~i~~l~e~l~~l~~~l~~~~~~~~~~~~~~~~ 453 (650)
T TIGR03185 393 KSQLLKELRELEEELAEVDKKISTIPSEEQIAQLLEELGEAQNELFRSEAEIEELLRQLET 453 (650)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556677889999999999999876533 356677888999999999999998888753
No 12
>PRK09239 chorismate mutase; Provisional
Probab=55.29 E-value=1.4e+02 Score=26.61 Aligned_cols=94 Identities=15% Similarity=0.139 Sum_probs=58.5
Q ss_pred hHHHHhHHHHHHhHHhhHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhhhhhHHHHHHHHHHhhhcCCCCCcccchhhhhh
Q 009983 89 LERKVSELRMAIDEKQNEAITSALNELARRKGVLEENLKLAHDLKVAEDERYFFMSSMLGLLADYGLWPHVTNASAISNT 168 (521)
Q Consensus 89 LErriA~mR~A~DqqQqdlVdaAsKaLsyRq~iiEENiRLtyaLQ~aeqERs~fvssLLpLLaEY~LqP~v~dAqSIvs~ 168 (521)
+...++++|-.+|+-=..||+.-+|-+.+=+.|.+-...-...+-..++|... +..+--+.++++|.|.+
T Consensus 8 ~~~~L~~lR~~ID~ID~eIv~LLa~R~~l~~~Ia~~K~~~~~~i~dp~RE~~v-l~~~~~~a~~~gl~p~~--------- 77 (104)
T PRK09239 8 APAELAALRQSIDNIDAALIHMLAERFKCTQAVGVLKAEHGLPPADPAREAYQ-IERLRQLAKDANLDPDF--------- 77 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHH-HHHHHHHHHHCCCCHHH---------
Confidence 44556777777777666677654444444444443333222223334444443 35566777889999974
Q ss_pred hHHHHHHHHHHHHhhhhhcccccc
Q 009983 169 VKHLYDQLQSQIRTSYDRIRDLTR 192 (521)
Q Consensus 169 vKvL~~hLq~kl~~~e~klke~~~ 192 (521)
++.+|+.+-+.....++++...+-
T Consensus 78 ~~~i~~~ii~esir~q~~i~~~~~ 101 (104)
T PRK09239 78 AEKFLNFIIKEVIRHHERIAAEHG 101 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccC
Confidence 478899999888888887766553
No 13
>TIGR01005 eps_transp_fam exopolysaccharide transport protein family. The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.
Probab=51.64 E-value=1.2e+02 Score=34.45 Aligned_cols=109 Identities=13% Similarity=0.113 Sum_probs=58.1
Q ss_pred HHHHHHHHHHHHHHhhhhhhhhcc--------hhhhHHHHhHHHHHHhHHhhHHHHHHHHHHHHhhhhHhhh--h-----
Q 009983 62 KEEIHSLRQQIAVACLKELQLQNE--------KYTLERKVSELRMAIDEKQNEAITSALNELARRKGVLEEN--L----- 126 (521)
Q Consensus 62 EEEI~~Lrk~Lad~s~KE~Qil~E--------K~vLErriA~mR~A~DqqQqdlVdaAsKaLsyRq~iiEEN--i----- 126 (521)
+++|..||++|.++-.+=.+...+ .-+.+.+++++.-..-.-|.++++|.++.-..|..+-.-+ .
T Consensus 200 ~~ql~~l~~~l~~aE~~l~~fk~~~~l~~~~~~~~~~~~L~~l~~ql~~a~~~~~~a~a~~~~l~~~l~~~~~~~~~~~~ 279 (754)
T TIGR01005 200 APEIADLSKQSRDAEAEVAAYRAQSDLLMGNNATLATQQLAELNTELSRARANRAAAEGTADSVKKALQNGGSLDVLPEV 279 (754)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCcccCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccchhhh
Confidence 455667777776654443333221 1234588888887777777777776666555444332111 0
Q ss_pred -----hhhhhhhhhhhhhHHHHHHHHHHhhhc-CCCCCcccchhhhhhhH
Q 009983 127 -----KLAHDLKVAEDERYFFMSSMLGLLADY-GLWPHVTNASAISNTVK 170 (521)
Q Consensus 127 -----RLtyaLQ~aeqERs~fvssLLpLLaEY-~LqP~v~dAqSIvs~vK 170 (521)
.+.=.+|...++....-+-+--|...| .-+|.|.+++.=+..++
T Consensus 280 ~~~~~~~~~~i~~L~~~l~~l~~~~~~l~~~y~~~hP~v~~l~~qi~~l~ 329 (754)
T TIGR01005 280 LSSQLKLEDLIQRLRERQAELRATIADLSTTMLANHPRVVAAKSSLADLD 329 (754)
T ss_pred hcCcccccHHHHHHHHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHH
Confidence 011122333334444444455566778 77888877544444443
No 14
>COG2900 SlyX Uncharacterized protein conserved in bacteria [Function unknown]
Probab=44.96 E-value=45 Score=28.73 Aligned_cols=37 Identities=27% Similarity=0.443 Sum_probs=29.5
Q ss_pred hhhhHHHHhH--HHHHHhHHhhHHHHHHHHHHHHhhhhHhhh
Q 009983 86 KYTLERKVSE--LRMAIDEKQNEAITSALNELARRKGVLEEN 125 (521)
Q Consensus 86 K~vLErriA~--mR~A~DqqQqdlVdaAsKaLsyRq~iiEEN 125 (521)
...||+||.+ +|+|| |.+.|+.-|-+|..-|-+|+.+
T Consensus 3 ~~~lE~Ri~eLE~r~Af---QE~tieeLn~~laEq~~~i~k~ 41 (72)
T COG2900 3 DMELEARIIELEIRLAF---QEQTIEELNDALAEQQLVIDKL 41 (72)
T ss_pred hhhHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHH
Confidence 3468999986 58898 7778999998888888877754
No 15
>PF15294 Leu_zip: Leucine zipper
Probab=43.93 E-value=2.1e+02 Score=30.12 Aligned_cols=40 Identities=23% Similarity=0.244 Sum_probs=35.0
Q ss_pred hccHHHHHHHHHHHHHHhhhhhhhhcchhhhHHHHhHHHH
Q 009983 59 RMQKEEIHSLRQQIAVACLKELQLQNEKYTLERKVSELRM 98 (521)
Q Consensus 59 re~EEEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA~mR~ 98 (521)
+.--+|...||.||...--.=...+.||..|++.+.+||.
T Consensus 135 ~rLq~EN~kLk~rl~~le~~at~~l~Ek~kl~~~L~~lq~ 174 (278)
T PF15294_consen 135 DRLQEENEKLKERLKSLEKQATSALDEKSKLEAQLKELQD 174 (278)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456788899999999888888889999999999999998
No 16
>TIGR02977 phageshock_pspA phage shock protein A. Members of this family are the phage shock protein PspA, from the phage shock operon. This is a narrower family than the set of PspA and its homologs, sometimes several in a genome, as described by PFAM model pfam04012. PspA appears to maintain the protonmotive force under stress conditions that include overexpression of certain phage secretins, heat shock, ethanol, and protein export defects.
Probab=42.83 E-value=2.1e+02 Score=27.97 Aligned_cols=54 Identities=22% Similarity=0.271 Sum_probs=35.9
Q ss_pred ccccchh-hhhHHHHhhccHHHHHHHHHHHHHHhhhhhhhhcchhhhHHHHhHHHHHHhHHhhH
Q 009983 44 ISFQDRE-AMELYSRARMQKEEIHSLRQQIAVACLKELQLQNEKYTLERKVSELRMAIDEKQNE 106 (521)
Q Consensus 44 ~~~~d~~-~~~l~~~~re~EEEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA~mR~A~DqqQqd 106 (521)
....||+ ..+. -+|+-+++|...|+-||.+-..+ ..|||+++.++......++.
T Consensus 20 dk~EDP~~~l~q--~irem~~~l~~ar~~lA~~~a~~-------k~~e~~~~~~~~~~~~~~~~ 74 (219)
T TIGR02977 20 DKAEDPEKMIRL--IIQEMEDTLVEVRTTSARTIADK-------KELERRVSRLEAQVADWQEK 74 (219)
T ss_pred HhccCHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHH
Confidence 3457898 5555 47888889999999998876654 45566665555444444433
No 17
>PRK14153 heat shock protein GrpE; Provisional
Probab=41.84 E-value=3e+02 Score=27.35 Aligned_cols=58 Identities=10% Similarity=0.143 Sum_probs=41.9
Q ss_pred hHHHHHHHHHHhhhc--CCC--CCcccchhhhhhhHHHHHHHHHHHHhhhhhccccccCCCCCCC
Q 009983 139 RYFFMSSMLGLLADY--GLW--PHVTNASAISNTVKHLYDQLQSQIRTSYDRIRDLTREGGTDAG 199 (521)
Q Consensus 139 Rs~fvssLLpLLaEY--~Lq--P~v~dAqSIvs~vKvL~~hLq~kl~~~e~klke~~~~pg~~~~ 199 (521)
...|+..|||.+-.+ -|. +.-.+..+|+.+|+..+++|..-|. ...|+++. +.|..++
T Consensus 82 ~~~~~~~LLpv~DnLerAl~~~~~~~~~~~l~~Gvemi~k~~~~vL~--k~Gv~~I~-~~G~~FD 143 (194)
T PRK14153 82 LEQVLLDLLEVTDNFERALESARTAEDMNSIVEGIEMVSKQFFSILE--KYGLERIE-CEGEEFD 143 (194)
T ss_pred HHHHHHHHhhHHhHHHHHHhcccccchHHHHHHHHHHHHHHHHHHHH--HCCCeeeC-CCCCCCC
Confidence 346889999998877 232 2234568899999999999998885 56667776 3466665
No 18
>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]
Probab=41.74 E-value=1.4e+02 Score=34.11 Aligned_cols=45 Identities=24% Similarity=0.339 Sum_probs=38.2
Q ss_pred HhhccH-HHHHHHHHHHHHHhhhhhhhhcchhhhHHHHhHHHHHHh
Q 009983 57 RARMQK-EEIHSLRQQIAVACLKELQLQNEKYTLERKVSELRMAID 101 (521)
Q Consensus 57 ~~re~E-EEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA~mR~A~D 101 (521)
.+|++| +||.+|=.|||+|.=|=-+|=.|.+.||-.|-.+|-+|-
T Consensus 35 ~sR~rEK~El~~LNDRLA~YIekVR~LEaqN~~L~~di~~lr~~~~ 80 (546)
T KOG0977|consen 35 DSREREKKELQELNDRLAVYIEKVRFLEAQNRKLEHDINLLRGVVG 80 (546)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 344443 689999999999999999999999999999998887664
No 19
>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD. This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.
Probab=41.48 E-value=95 Score=34.86 Aligned_cols=58 Identities=19% Similarity=0.416 Sum_probs=30.7
Q ss_pred cccCccchHHH-HHHHHhcceEEEEEeecCccccccceeE-EEe---ecceEEEeCC--Ccceeeeec
Q 009983 402 IKCDLGMQSEI-DAYISRGHATFSVLMLMDSSENWEQATL-ILR---RSIYRIKIDS--TEAIIEERF 462 (521)
Q Consensus 402 I~cDpeMq~~I-~~~l~~G~Asf~V~l~~~~~d~wE~atL-~Ir---RegY~IK~~~--~~~~I~Ekf 462 (521)
-..|++-+..| +.++.. ++-+|.+++.. ..|..-+. .|+ -..|.|..+. +..+|++.|
T Consensus 585 ~~lD~~~r~~l~~~~~~~--~~~QvIils~d-~e~~~~~~~~l~~~i~~~y~l~y~~~~~~t~i~~gY 649 (650)
T TIGR03185 585 GRLDSSHRENLVVNYFPK--ASHQVLLLSTD-EEVDEKHYNLLKPNISHEYLLEFDDEARTSVVTEGY 649 (650)
T ss_pred cccChHHHHHHHHHHhhc--cCCeEEEEech-HhhCHHHHHHHHHHhhhheEEEecCCcCceeecCCC
Confidence 45777777775 356654 46777777542 23333221 111 1137777774 335566554
No 20
>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]
Probab=40.34 E-value=3.4e+02 Score=33.49 Aligned_cols=140 Identities=14% Similarity=0.112 Sum_probs=91.5
Q ss_pred hhhhhHHHHhhccHHHHHHHHHHHHHHhhhhhhhhcchhhhHHHHhHHHHHHhHHhhHHHHHHHHHHHHhhhhH------
Q 009983 49 REAMELYSRARMQKEEIHSLRQQIAVACLKELQLQNEKYTLERKVSELRMAIDEKQNEAITSALNELARRKGVL------ 122 (521)
Q Consensus 49 ~~~~~l~~~~re~EEEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA~mR~A~DqqQqdlVdaAsKaLsyRq~ii------ 122 (521)
+.-.+|+...+..++||......+-+..-+.-+|..|+.-++.-.+.+|.++- ++++..|++--+|.-|++-+
T Consensus 734 ~~~~~l~~ei~~~~~eIe~~~~~~e~l~~e~e~~~~e~~e~~~~~~~~~~~l~-~e~~~l~~l~~el~~r~dk~~s~e~~ 812 (1074)
T KOG0250|consen 734 SKLEDLAREIKKKEKEIEEKEAPLEKLKEELEHIELEAQELEEYYAAGREKLQ-GEISKLDALKEELKLREDKLRSAEDE 812 (1074)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHhhHHHHHHHHHHHHHhhhhhh
Confidence 44567788888999999999888989999999999999999999999999995 55666778878888887755
Q ss_pred ----hhhhhhhhhhhhhhhhhHHHHHHHHHHh-------hhcCCCC-CcccchhhhhhhHHHHHHHHHHHHhhhhhcccc
Q 009983 123 ----EENLKLAHDLKVAEDERYFFMSSMLGLL-------ADYGLWP-HVTNASAISNTVKHLYDQLQSQIRTSYDRIRDL 190 (521)
Q Consensus 123 ----EENiRLtyaLQ~aeqERs~fvssLLpLL-------aEY~LqP-~v~dAqSIvs~vKvL~~hLq~kl~~~e~klke~ 190 (521)
|++++- -|+...|=-.-.+..=.|+. +++-=-| -+.+-+--|.-+|.--+.|+.+++-.++.+.++
T Consensus 813 ~~HyE~~~K~--~l~~l~~~E~~~~~~e~~~~e~~~ka~~~cp~~~~ei~~~~~~~~eik~ei~rlk~~i~~~ee~~~~~ 890 (1074)
T KOG0250|consen 813 KRHYEDKLKS--RLEELKQKEVEKVNLEEPRAEEDQKARTECPEEGIEIEALGKTVAEIKREIKRLKRQIQMCEESLGEL 890 (1074)
T ss_pred hhhHHHHHHH--hhHHHHHHHHHHHhhhcchhhhCchhhhhCccccchhhcccchHHHHHHHHHHHHHHHHHHHHhcchH
Confidence 344441 12222221112222222222 1221000 111111135677777888888888888877777
Q ss_pred c
Q 009983 191 T 191 (521)
Q Consensus 191 ~ 191 (521)
+
T Consensus 891 ~ 891 (1074)
T KOG0250|consen 891 E 891 (1074)
T ss_pred H
Confidence 6
No 21
>CHL00140 rpl6 ribosomal protein L6; Validated
Probab=39.45 E-value=46 Score=32.03 Aligned_cols=53 Identities=28% Similarity=0.433 Sum_probs=39.4
Q ss_pred cccccceeEEEeecceEEEeCCCcceeeeecCCCceeEecCC------CcceEEEEecCC
Q 009983 432 SENWEQATLILRRSIYRIKIDSTEAIIEERFPKEVSIKVPCG------LSTQFVLTFSDG 485 (521)
Q Consensus 432 ~d~wE~atL~IrRegY~IK~~~~~~~I~Ekfs~~~~IkIp~g------~~~qfvi~~sdG 485 (521)
.+.|+ ..|-|.=-||.+...++.+.|.==||-...+.||.| .+++.+|.+.|-
T Consensus 80 t~Gf~-~~L~lvGvGyr~~~~g~~l~l~LG~sh~i~~~IP~gv~v~~~~~t~I~i~G~dk 138 (178)
T CHL00140 80 SEGFE-KKLELQGVGYRAQVQGKDLILNLGYSHPVKIKIPPGISVEVENNTNITIKGIDK 138 (178)
T ss_pred ccCce-EEEEEEEEEEEEEEeCCcEEEEecCCeeEEEECCCCeEEEeCCCCEEEEEECCH
Confidence 45566 677777788999998777888777888899999976 344566666554
No 22
>PF01895 PhoU: PhoU domain; InterPro: IPR008170 This family contains phosphate regulatory proteins including PhoU. PhoU proteins are known to play a role in the regulation of phosphate uptake. The PhoU domain is composed of a three helix bundle []. The PhoU protein contains two copies of this domain. The domain binds to an iron cluster via its conserved E/DXXXD motif. Deletion of PhoU activates constitutive expression of the phosphate ABC transporter and allows phosphate transport, but causes a growth defect; suggesting that the protein has some secondary function []. ; PDB: 2I0M_A 1T72_B 1T8B_A 1SUM_B 1VCT_A 2BKN_A 2BKP_A 2BKO_A.
Probab=37.87 E-value=1.1e+02 Score=23.72 Aligned_cols=50 Identities=36% Similarity=0.302 Sum_probs=36.3
Q ss_pred hhHHHHhhccHHHHHHHHHHHHHHhhhhhhhhcchhhhHHHHhHHHHHHh
Q 009983 52 MELYSRARMQKEEIHSLRQQIAVACLKELQLQNEKYTLERKVSELRMAID 101 (521)
Q Consensus 52 ~~l~~~~re~EEEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA~mR~A~D 101 (521)
.++..++...|++|..|...+.++.++..+-.+....++.=+.+|+++.+
T Consensus 24 ~~~a~~i~~~e~~id~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~ 73 (88)
T PF01895_consen 24 SELAQEIIQLEEEIDELYREIRRQILKILKNQNPLEELRELVGLLRIARD 73 (88)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCGHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHH
Confidence 46668889999999999999999988877543333335555666666644
No 23
>PF11464 Rbsn: Rabenosyn Rab binding domain; InterPro: IPR021565 Rabenosyn-5 (Rbsn) is a multivalent effector with interacts with the Rab family.Rsbn contains distinct Rab4 and Rab5 binding sites within residues 264-500 and 627-784 respectively []. Rab proteins are GTPases involved in the regulation of all stages of membrane trafficking []. ; PDB: 1Z0K_B 1YZM_A 1Z0J_B.
Probab=36.98 E-value=79 Score=24.71 Aligned_cols=40 Identities=38% Similarity=0.426 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHHhhhhhhhhcchhhhHHHHhHHHHHHhHHh
Q 009983 63 EEIHSLRQQIAVACLKELQLQNEKYTLERKVSELRMAIDEKQ 104 (521)
Q Consensus 63 EEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA~mR~A~DqqQ 104 (521)
|.|..+|..|-+| |.+.=..|-.+||+-+.+|+-.|++||
T Consensus 3 eQi~~I~~~I~qA--k~~~r~dEV~~L~~NL~EL~~e~~~qq 42 (42)
T PF11464_consen 3 EQINIIESYIKQA--KAARRFDEVATLEENLRELQDEIDEQQ 42 (42)
T ss_dssp HHHHHHHHHHHHH--HHTT-HHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHH--HHhcCcHHHHHHHHHHHHHHHHHHhcC
Confidence 5677888888876 677788999999999999999999987
No 24
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=36.83 E-value=1.9e+02 Score=29.68 Aligned_cols=92 Identities=17% Similarity=0.293 Sum_probs=64.5
Q ss_pred HHHHHHHHHHHHHHhhhhhhhhcchhhhHHHHhHHHHHHhHHhhHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhhhhhHH
Q 009983 62 KEEIHSLRQQIAVACLKELQLQNEKYTLERKVSELRMAIDEKQNEAITSALNELARRKGVLEENLKLAHDLKVAEDERYF 141 (521)
Q Consensus 62 EEEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA~mR~A~DqqQqdlVdaAsKaLsyRq~iiEENiRLtyaLQ~aeqERs~ 141 (521)
+.|+..+++.+.+.-+.=--|-+++.-||-.|..+|=-.+--+..+ ++++++=-|+. |+.+++.|++.+-.
T Consensus 37 ~~e~e~~~~~~~~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl-~~v~~~~e~~a--------L~~E~~~ak~r~~~ 107 (239)
T COG1579 37 KAELEALNKALEALEIELEDLENQVSQLESEIQEIRERIKRAEEKL-SAVKDERELRA--------LNIEIQIAKERINS 107 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hccccHHHHHH--------HHHHHHHHHHHHHH
Confidence 4566777777777766666677888888888888875555555555 77766655554 77778888888888
Q ss_pred HHHHHHHHhhhc-CCCCCcccc
Q 009983 142 FMSSMLGLLADY-GLWPHVTNA 162 (521)
Q Consensus 142 fvssLLpLLaEY-~LqP~v~dA 162 (521)
.-+.|.+|+-++ .|+=-..+.
T Consensus 108 le~el~~l~~~~~~l~~~i~~l 129 (239)
T COG1579 108 LEDELAELMEEIEKLEKEIEDL 129 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 888888888777 544443333
No 25
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=36.70 E-value=2.8e+02 Score=32.59 Aligned_cols=109 Identities=17% Similarity=0.133 Sum_probs=75.2
Q ss_pred hhhhcchhhhHHHHhHHHHHHhHHhhHH-------------HHHHHHHHHHhhhhHhhhhhhhhhhhhhhhhhHHHHHHH
Q 009983 80 LQLQNEKYTLERKVSELRMAIDEKQNEA-------------ITSALNELARRKGVLEENLKLAHDLKVAEDERYFFMSSM 146 (521)
Q Consensus 80 ~Qil~EK~vLErriA~mR~A~DqqQqdl-------------VdaAsKaLsyRq~iiEENiRLtyaLQ~aeqERs~fvssL 146 (521)
--|++||++|+.-|+.|--+.|-+++.+ +..-+|.|.-++..||.+=|.+=++. ++....-+-+
T Consensus 499 k~L~~ek~~l~~~i~~l~~~~~~~~~~i~~leeq~~~lt~~~~~l~~el~~~~~~le~~kk~~~e~~---~~~~~Lq~~~ 575 (698)
T KOG0978|consen 499 KLLREEKSKLEEQILTLKASVDKLELKIGKLEEQERGLTSNESKLIKELTTLTQSLEMLKKKAQEAK---QSLEDLQIEL 575 (698)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhhhhhHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHH
Confidence 3478899999999999887777666543 33456677777777777766553332 2222211112
Q ss_pred HHHhhhc-CCCCCcccchhhhhhhHHHHHHHHHHHHhhhhhccccc
Q 009983 147 LGLLADY-GLWPHVTNASAISNTVKHLYDQLQSQIRTSYDRIRDLT 191 (521)
Q Consensus 147 LpLLaEY-~LqP~v~dAqSIvs~vKvL~~hLq~kl~~~e~klke~~ 191 (521)
=-.=+.+ .+++.+.|+.+=+...+--.+||+|++..+..||....
T Consensus 576 ek~~~~le~i~~~~~e~~~ele~~~~k~~rleEE~e~L~~kle~~k 621 (698)
T KOG0978|consen 576 EKSEAKLEQIQEQYAELELELEIEKFKRKRLEEELERLKRKLERLK 621 (698)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 1222344 67888888888888888888999999999999988877
No 26
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=36.14 E-value=6.1e+02 Score=28.24 Aligned_cols=92 Identities=24% Similarity=0.289 Sum_probs=51.6
Q ss_pred hccHHHHHHHHHHHHHHhhhhhhhhcchhhhHHHHhHHHHHHhHHhhHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhhhh
Q 009983 59 RMQKEEIHSLRQQIAVACLKELQLQNEKYTLERKVSELRMAIDEKQNEAITSALNELARRKGVLEENLKLAHDLKVAEDE 138 (521)
Q Consensus 59 re~EEEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA~mR~A~DqqQqdlVdaAsKaLsyRq~iiEENiRLtyaLQ~aeqE 138 (521)
+.-..||..+.+.|++..=+=.+|..+--.||+.|+.++ -.|+..+..-=.-+++|-+=|=+| -+|++.+.|
T Consensus 41 ~q~q~ei~~~~~~i~~~~~~~~kL~~~lk~~e~~i~~~~-------~ql~~s~~~l~~~~~~I~~~~~~l-~~l~~q~r~ 112 (420)
T COG4942 41 KQIQKEIAALEKKIREQQDQRAKLEKQLKSLETEIASLE-------AQLIETADDLKKLRKQIADLNARL-NALEVQERE 112 (420)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHhHHHHHHhhHHHHHHHH-HHHHHHHHH
Confidence 344455555555555554444444444444444444443 334443332222333333333333 377888888
Q ss_pred hHHHHHHHHHHhhhcCCCCC
Q 009983 139 RYFFMSSMLGLLADYGLWPH 158 (521)
Q Consensus 139 Rs~fvssLLpLLaEY~LqP~ 158 (521)
|.-+++-+|--+--.+..||
T Consensus 113 qr~~La~~L~A~~r~g~~p~ 132 (420)
T COG4942 113 QRRRLAEQLAALQRSGRNPP 132 (420)
T ss_pred HHHHHHHHHHHHHhccCCCC
Confidence 99999998888877788885
No 27
>KOG3091 consensus Nuclear pore complex, p54 component (sc Nup57) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=35.20 E-value=95 Score=35.00 Aligned_cols=80 Identities=26% Similarity=0.283 Sum_probs=54.4
Q ss_pred cchhhhhHHHHhhccHHHHHHHHHHHHHHhhhhhhhhcchhhhHHHHh---------------------HHHHHHhHHhh
Q 009983 47 QDREAMELYSRARMQKEEIHSLRQQIAVACLKELQLQNEKYTLERKVS---------------------ELRMAIDEKQN 105 (521)
Q Consensus 47 ~d~~~~~l~~~~re~EEEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA---------------------~mR~A~DqqQq 105 (521)
||-++..---+++.-.|++..|.||=||+.+|=+++.+---.|++||= +||.-+|--++
T Consensus 346 Q~q~~~~~r~ri~~i~e~v~eLqk~~ad~~~KI~~~k~r~~~Ls~RiLRv~ikqeilr~~G~~L~~~EE~Lr~Kldtll~ 425 (508)
T KOG3091|consen 346 QDQEVKQHRIRINAIGERVTELQKHHADAVAKIEEAKNRHVELSHRILRVMIKQEILRKRGYALTPDEEELRAKLDTLLA 425 (508)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCcCCccHHHHHHHHHHHHH
Confidence 455555444566777788888999999999999999998888999982 34444443333
Q ss_pred HHHHHHHHHHHHhhhhHhhhhhh
Q 009983 106 EAITSALNELARRKGVLEENLKL 128 (521)
Q Consensus 106 dlVdaAsKaLsyRq~iiEENiRL 128 (521)
.+=+= .+|.-|=++|-|=+|.
T Consensus 426 ~ln~P--nq~k~Rl~~L~e~~r~ 446 (508)
T KOG3091|consen 426 QLNAP--NQLKARLDELYEILRM 446 (508)
T ss_pred HhcCh--HHHHHHHHHHHHHHHh
Confidence 33222 5667777776666654
No 28
>PLN02939 transferase, transferring glycosyl groups
Probab=34.63 E-value=2.6e+02 Score=34.08 Aligned_cols=100 Identities=25% Similarity=0.372 Sum_probs=61.9
Q ss_pred hhhhHHHHhhccHHHHHHHHHHHHHHhhhhh-hhhcchhhhHHHHh--HHHHHHhHHhhH--------------------
Q 009983 50 EAMELYSRARMQKEEIHSLRQQIAVACLKEL-QLQNEKYTLERKVS--ELRMAIDEKQNE-------------------- 106 (521)
Q Consensus 50 ~~~~l~~~~re~EEEI~~Lrk~Lad~s~KE~-Qil~EK~vLErriA--~mR~A~DqqQqd-------------------- 106 (521)
.-.+|.--++.-|.-|..|-+ ...-.+.++ .||+||..|.++|. +||+|=-..+-.
T Consensus 129 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 207 (977)
T PLN02939 129 QLEDLVGMIQNAEKNILLLNQ-ARLQALEDLEKILTEKEALQGKINILEMRLSETDARIKLAAQEKIHVEILEEQLEKLR 207 (977)
T ss_pred cHHHHHHHHHHHHhhhHhHHH-HHHHHHHHHHHHHHHHHHHHhhHHHHHHHhhhhhhhhhhhhhccccchhhHHHHHHHh
Confidence 345666667777888875543 222334444 48999999988865 666664211110
Q ss_pred ------------HHHHHHHHHHHhhhhHhhhhhhhhhhhh-----------------hhhhhHHHHHHHHHHhhhc
Q 009983 107 ------------AITSALNELARRKGVLEENLKLAHDLKV-----------------AEDERYFFMSSMLGLLADY 153 (521)
Q Consensus 107 ------------lVdaAsKaLsyRq~iiEENiRLtyaLQ~-----------------aeqERs~fvssLLpLLaEY 153 (521)
-|.+-+++|. .+-|||+-|--++|+ .+.||+..=+||-.|=+.|
T Consensus 208 ~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 280 (977)
T PLN02939 208 NELLIRGATEGLCVHSLSKELD---VLKEENMLLKDDIQFLKAELIEVAETEERVFKLEKERSLLDASLRELESKF 280 (977)
T ss_pred hhhhccccccccccccHHHHHH---HHHHHhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 1112355554 345899999998886 4567777777777766555
No 29
>PRK14154 heat shock protein GrpE; Provisional
Probab=34.41 E-value=4.9e+02 Score=26.26 Aligned_cols=145 Identities=12% Similarity=0.134 Sum_probs=80.5
Q ss_pred CChhhhhhccccc-ccccccccCCCC--ccccchhhhhH-HHHhhccHHHHHHHHHHHHHHhhhhhhhhcchhhhHHHHh
Q 009983 19 KNSDFVNRHKIET-HLAPTKQKEDNF--ISFQDREAMEL-YSRARMQKEEIHSLRQQIAVACLKELQLQNEKYTLERKVS 94 (521)
Q Consensus 19 ~~s~~~~r~~~~~-~l~~~~~~~~~~--~~~~d~~~~~l-~~~~re~EEEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA 94 (521)
|-|++-..++.++ .-+..-+.++.- ..-|.|+-..+ +..+.+.+++|..|+++++++- ++
T Consensus 11 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~el~~le~e~~elk--------d~-------- 74 (208)
T PRK14154 11 PESETKAKNKWEKVMEAEEEQEEGGGDGSQEMEPHREGLEFPSREKLEGQLTRMERKVDEYK--------TQ-------- 74 (208)
T ss_pred chhhhhhhhHHHHHHHHHHHHhhcCCCcccccCcccccccCcchhhHHHHHHHHHHHHHHHH--------HH--------
Confidence 5666666666655 222223333322 33467776666 4455556777777777776542 11
Q ss_pred HHHHHHhHHhhHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhhhhhHHHHHHHHHHhhhc--CCC--C-Ccccchhhhhhh
Q 009983 95 ELRMAIDEKQNEAITSALNELARRKGVLEENLKLAHDLKVAEDERYFFMSSMLGLLADY--GLW--P-HVTNASAISNTV 169 (521)
Q Consensus 95 ~mR~A~DqqQqdlVdaAsKaLsyRq~iiEENiRLtyaLQ~aeqERs~fvssLLpLLaEY--~Lq--P-~v~dAqSIvs~v 169 (521)
+||+.=|- =.||+..-.|=- ++-..-..-|+..|||.+-.+ -|. + .-.+..+|+..|
T Consensus 75 ~lRl~ADf------------eNyRKR~~kE~e------~~~~~a~e~~~~~LLpVlDnLeRAL~~~~~~~~~~~~l~eGv 136 (208)
T PRK14154 75 YLRAQAEM------------DNLRKRIEREKA------DIIKFGSKQLITDLLPVADSLIHGLESPASEDPQVKSMRDGM 136 (208)
T ss_pred HHHHHHHH------------HHHHHHHHHHHH------HHHHHHHHHHHHHHhhHHhHHHHHHhcccccchhHHHHHHHH
Confidence 23332221 123333322210 111122346888999988777 232 1 223468899999
Q ss_pred HHHHHHHHHHHHhhhhhccccccCCCCCCC
Q 009983 170 KHLYDQLQSQIRTSYDRIRDLTREGGTDAG 199 (521)
Q Consensus 170 KvL~~hLq~kl~~~e~klke~~~~pg~~~~ 199 (521)
+-.+++|..-|. ..-|+++...+|..+.
T Consensus 137 emi~k~l~~vL~--k~GVe~I~~~~G~~FD 164 (208)
T PRK14154 137 SLTLDLLHNTLA--KHGVQVINPNPGDPFD 164 (208)
T ss_pred HHHHHHHHHHHH--HCCCEEecCCCCCCCC
Confidence 999999998885 5666776633566665
No 30
>PRK10361 DNA recombination protein RmuC; Provisional
Probab=34.33 E-value=3.8e+02 Score=30.10 Aligned_cols=57 Identities=11% Similarity=0.154 Sum_probs=33.8
Q ss_pred hccHHHHHHHHHHHHHHhhhhhhhhcchhhhHHHHhHHHHHHhHHhhHHHHHHHHHHH
Q 009983 59 RMQKEEIHSLRQQIAVACLKELQLQNEKYTLERKVSELRMAIDEKQNEAITSALNELA 116 (521)
Q Consensus 59 re~EEEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA~mR~A~DqqQqdlVdaAsKaLs 116 (521)
.+.++++..++..|...--....+..+...|+.|+...|-+..+|++. ...|.+.|+
T Consensus 56 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~le~~~~~~~ek~~~-l~~~~~~L~ 112 (475)
T PRK10361 56 EHWRAECELLNNEVRSLQSINTSLEADLREVTTRMEAAQQHADDKIRQ-MINSEQRLS 112 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHH
Confidence 444455555555555555555556666667888888888888665543 344444443
No 31
>PRK02119 hypothetical protein; Provisional
Probab=33.48 E-value=94 Score=26.18 Aligned_cols=37 Identities=22% Similarity=0.382 Sum_probs=27.8
Q ss_pred cchhhhHHHHhHH--HHHHhHHhhHHHHHHHHHHHHhhhhHh
Q 009983 84 NEKYTLERKVSEL--RMAIDEKQNEAITSALNELARRKGVLE 123 (521)
Q Consensus 84 ~EK~vLErriA~m--R~A~DqqQqdlVdaAsKaLsyRq~iiE 123 (521)
+|-..+|.||.+| |+|| |.+.|+.=++++..=|..|.
T Consensus 2 ~~~~~~e~Ri~~LE~rla~---QE~tie~LN~~v~~Qq~~id 40 (73)
T PRK02119 2 QIQQNLENRIAELEMKIAF---QENLLEELNQALIEQQFVID 40 (73)
T ss_pred cchHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHH
Confidence 3445688888764 7777 88999999999887776653
No 32
>PF07989 Microtub_assoc: Microtubule associated; InterPro: IPR012943 Proteins with this domain associate with the spindle body during cell division [].
Probab=33.38 E-value=1e+02 Score=26.22 Aligned_cols=65 Identities=22% Similarity=0.200 Sum_probs=35.4
Q ss_pred hhccHHHHHHHHHHHHHHhhhhhhhhcchhhhHHHHhHHHHHHhHHhhHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhhh
Q 009983 58 ARMQKEEIHSLRQQIAVACLKELQLQNEKYTLERKVSELRMAIDEKQNEAITSALNELARRKGVLEENLKLAHDLKVAED 137 (521)
Q Consensus 58 ~re~EEEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA~mR~A~DqqQqdlVdaAsKaLsyRq~iiEENiRLtyaLQ~aeq 137 (521)
.|++|+.|..|+|- +.++| =||-.| +++.. ...=..-++++.|||-|--.+...+.
T Consensus 2 lrEqe~~i~~L~KE--NF~LK------------LrI~fL-----ee~l~-----~~~~~~~~~~~keNieLKve~~~L~~ 57 (75)
T PF07989_consen 2 LREQEEQIDKLKKE--NFNLK------------LRIYFL-----EERLQ-----KLGPESIEELLKENIELKVEVESLKR 57 (75)
T ss_pred HHHHHHHHHHHHHh--hhhHH------------HHHHHH-----HHHHH-----hcccccHHHHHHHHHHHHHHHHHHHH
Confidence 58899999988873 33333 233332 22222 11123445667778777766666666
Q ss_pred hhHHHHHHH
Q 009983 138 ERYFFMSSM 146 (521)
Q Consensus 138 ERs~fvssL 146 (521)
|-.-.-..|
T Consensus 58 el~~~~~~l 66 (75)
T PF07989_consen 58 ELQEKKKLL 66 (75)
T ss_pred HHHHHHHHH
Confidence 554444333
No 33
>PRK02793 phi X174 lysis protein; Provisional
Probab=32.95 E-value=99 Score=25.94 Aligned_cols=33 Identities=21% Similarity=0.270 Sum_probs=25.3
Q ss_pred hhHHHHhH--HHHHHhHHhhHHHHHHHHHHHHhhhhHh
Q 009983 88 TLERKVSE--LRMAIDEKQNEAITSALNELARRKGVLE 123 (521)
Q Consensus 88 vLErriA~--mR~A~DqqQqdlVdaAsKaLsyRq~iiE 123 (521)
.+|.||.+ +|+|| |++.|+.=++++..=|..|.
T Consensus 5 ~~e~Ri~~LE~~laf---Qe~tIe~Ln~~v~~Qq~~I~ 39 (72)
T PRK02793 5 SLEARLAELESRLAF---QEITIEELNVTVTAHEMEMA 39 (72)
T ss_pred hHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHH
Confidence 37777775 47777 88999999999988775553
No 34
>PF01025 GrpE: GrpE; InterPro: IPR000740 Molecular chaperones are a diverse family of proteins that function to protect proteins in the intracellular milieu from irreversible aggregation during synthesis and in times of cellular stress. The bacterial molecular chaperone DnaK is an enzyme that couples cycles of ATP binding, hydrolysis, and ADP release by an N-terminal ATP-hydrolysing domain to cycles of sequestration and release of unfolded proteins by a C-terminal substrate binding domain. In prokaryotes the grpE protein. Dimeric GrpE is the co-chaperone for DnaK, and acts as a nucleotide exchange factor, stimulating the rate of ADP release 5000-fold []. DnaK is itself a weak ATPase; ATP hydrolysis by DnaK is stimulated by its interaction with another co-chaperone, DnaJ. Thus the co-chaperones DnaJ and GrpE are capable of tightly regulating the nucleotide-bound and substrate-bound state of DnaK in ways that are necessary for the normal housekeeping functions and stress-related functions of the DnaK molecular chaperone cycle. The X-ray crystal structure of GrpE in complex with the ATPase domain of DnaK revealed that GrpE is an asymmetric homodimer, bent in a manner that favours extensive contacts with only one DnaKATPase monomer []. GrpE does not actively compete for the atomic positions occupied by the nucleotide. GrpE and ADP mutually reduce one another's affinity for DnaK 200-fold, and ATP instantly dissociates GrpE from DnaK.; GO: 0000774 adenyl-nucleotide exchange factor activity, 0042803 protein homodimerization activity, 0051087 chaperone binding, 0006457 protein folding; PDB: 3A6M_A 4ANI_A 1DKG_B.
Probab=32.85 E-value=2.1e+02 Score=26.20 Aligned_cols=60 Identities=10% Similarity=0.170 Sum_probs=37.1
Q ss_pred hhhHHHHHHHHHHhhhc----CCCCCcccchhhhhhhHHHHHHHHHHHHhhhhhccccccCCCCCCC
Q 009983 137 DERYFFMSSMLGLLADY----GLWPHVTNASAISNTVKHLYDQLQSQIRTSYDRIRDLTREGGTDAG 199 (521)
Q Consensus 137 qERs~fvssLLpLLaEY----~LqP~v~dAqSIvs~vKvL~~hLq~kl~~~e~klke~~~~pg~~~~ 199 (521)
....-|+..|||++.-+ .--+.-.+..++..+++.++++|..=|. .-.+.++... |..+.
T Consensus 58 ~~~~~~~~~ll~v~D~l~~a~~~~~~~~~~~~~~~g~~~~~~~l~~~L~--~~Gv~~i~~~-G~~FD 121 (165)
T PF01025_consen 58 YALEKFLKDLLPVLDNLERALEAAKSNEEEESLLEGLEMILKQLEDILE--KNGVEEIEPV-GEPFD 121 (165)
T ss_dssp CCHHHHHHHHHHHHHHHHHHHCC-SHHCTCHHHHHHHHHHHHHHHHHHH--TTTEEEE--T-SSB--
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHHHHHH--HCCCEecCCC-CCCCC
Confidence 34566888899988766 2222334567888888888888877663 4555666533 65555
No 35
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=32.63 E-value=4.7e+02 Score=25.43 Aligned_cols=49 Identities=18% Similarity=0.304 Sum_probs=19.8
Q ss_pred hhccHHHHHHHHHHHHHHhhhhhhhhcchhhhHHHHhHHHHHHhHHhhH
Q 009983 58 ARMQKEEIHSLRQQIAVACLKELQLQNEKYTLERKVSELRMAIDEKQNE 106 (521)
Q Consensus 58 ~re~EEEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA~mR~A~DqqQqd 106 (521)
++....|+..++.+++...-+=.++..+-..+-+|++++|-+.....+.
T Consensus 58 ~~~~~~~~~~~~~r~~~l~~~i~~~~~~i~~~r~~l~~~~~~l~~~~~~ 106 (302)
T PF10186_consen 58 IQQLKREIEELRERLERLRERIERLRKRIEQKRERLEELRESLEQRRSR 106 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444444444444333222223333333344444444444444443
No 36
>KOG1222 consensus Kinesin associated protein KAP [Intracellular trafficking, secretion, and vesicular transport]
Probab=32.21 E-value=1.9e+02 Score=33.34 Aligned_cols=129 Identities=22% Similarity=0.210 Sum_probs=84.8
Q ss_pred hhhhccccc-ccccccccCCCCccccchhhhhHHHHhhccHHHHHHHHHHHHHHhhhhhhhhcchhhhHHHHhHHHHHHh
Q 009983 23 FVNRHKIET-HLAPTKQKEDNFISFQDREAMELYSRARMQKEEIHSLRQQIAVACLKELQLQNEKYTLERKVSELRMAID 101 (521)
Q Consensus 23 ~~~r~~~~~-~l~~~~~~~~~~~~~~d~~~~~l~~~~re~EEEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA~mR~A~D 101 (521)
.|+|+.+-- -|..++-.-| .+|++..| .|||..|-|+|--+..|..||| |+||.
T Consensus 231 ElkRye~w~~El~k~krs~d-----e~p~netL-------k~e~dr~~kklk~~~~KQeqLL-------------rva~y 285 (791)
T KOG1222|consen 231 ELKRYEFWIAELKKTKRSTD-----EKPKNETL-------KEEIDRLNKKLKTAIRKQEQLL-------------RVAVY 285 (791)
T ss_pred HHHHHHHHHHHHhhhhcccc-----cCcchhhH-------HHHHHHHHHHHHHHHHHHHHHH-------------HHHHH
Confidence 567776543 3433332222 68888877 7999999999999999999985 44554
Q ss_pred HHhhHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhhhhhHHHHHHHHHHhhhcCCCCCcccchhhhhhhHHHHHHHHHH
Q 009983 102 EKQNEAITSALNELARRKGVLEENLKLAHDLKVAEDERYFFMSSMLGLLADYGLWPHVTNASAISNTVKHLYDQLQSQ 179 (521)
Q Consensus 102 qqQqdlVdaAsKaLsyRq~iiEENiRLtyaLQ~aeqERs~fvssLLpLLaEY~LqP~v~dAqSIvs~vKvL~~hLq~k 179 (521)
--=+ |..-.+-+|.-|...|-. -|--||+..--+..|.|++.|-=|+=|+=---|.-+--||.-+-.||+-=...
T Consensus 286 lLlN-lAed~~~ElKMrrkniV~--mLVKaLdr~n~~Ll~lv~~FLkKLSIf~eNK~~M~~~~iveKL~klfp~~h~d 360 (791)
T KOG1222|consen 286 LLLN-LAEDISVELKMRRKNIVA--MLVKALDRSNSSLLTLVIKFLKKLSIFDENKIVMEQNGIVEKLLKLFPIQHPD 360 (791)
T ss_pred HHHH-HhhhhhHHHHHHHHhHHH--HHHHHHcccchHHHHHHHHHHHHhhhhccchHHHHhccHHHHHHHhcCCCCHH
Confidence 3222 223334444443322211 35567777777888999999999988877777777778887777777543333
No 37
>TIGR01795 CM_mono_cladeE monofunctional chorismate mutase, alpha proteobacterial type. The alpha proteobacterial members are trusted because the pathways of CM are evident and there is only one plausible CM in the genome. In S. coelicolor, however, there is another aparrent monofunctional CM.
Probab=32.02 E-value=3.2e+02 Score=23.91 Aligned_cols=83 Identities=22% Similarity=0.274 Sum_probs=52.5
Q ss_pred HHHhHHHHHHhHHhhHHHHHHHHHHHHhhhhHhhhhhhh--hhhhhhhhhhHHH-HHHHHHHhhhcCCCCCcccchhhhh
Q 009983 91 RKVSELRMAIDEKQNEAITSALNELARRKGVLEENLKLA--HDLKVAEDERYFF-MSSMLGLLADYGLWPHVTNASAISN 167 (521)
Q Consensus 91 rriA~mR~A~DqqQqdlVdaAsKaLsyRq~iiEENiRLt--yaLQ~aeqERs~f-vssLLpLLaEY~LqP~v~dAqSIvs 167 (521)
++++++|-..|+-=..||+- |+.|..+..+--++- ..+-+-+.+|-.- +..+.-+..++||.|.+
T Consensus 3 ~~L~~lR~~ID~ID~qLv~L----L~~R~~~~~~ia~~K~~~~~~v~dp~Re~~vl~~~~~~a~~~gl~p~~-------- 70 (94)
T TIGR01795 3 AELKALRQSIDNIDAAVIHM----LAERFKCTSQVGVLKANAGLAPADPAREDYQIARLRRLAIDAGLDPEF-------- 70 (94)
T ss_pred hhHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHHCCCCHHH--------
Confidence 35677777777766666654 555555555544333 2333444444433 35678888999999985
Q ss_pred hhHHHHHHHHHHHHhhhhh
Q 009983 168 TVKHLYDQLQSQIRTSYDR 186 (521)
Q Consensus 168 ~vKvL~~hLq~kl~~~e~k 186 (521)
+..||+.+.+.....+++
T Consensus 71 -~e~i~~~i~~esir~q~~ 88 (94)
T TIGR01795 71 -AEKFLNFIVTEVIKHHER 88 (94)
T ss_pred -HHHHHHHHHHHHHHHHHH
Confidence 367788888777766655
No 38
>PF14389 Lzipper-MIP1: Leucine-zipper of ternary complex factor MIP1
Probab=31.57 E-value=66 Score=27.82 Aligned_cols=36 Identities=19% Similarity=0.177 Sum_probs=27.5
Q ss_pred CccccchhhhhHHHHhhccHHHHHHHHHHHHHHhhh
Q 009983 43 FISFQDREAMELYSRARMQKEEIHSLRQQIAVACLK 78 (521)
Q Consensus 43 ~~~~~d~~~~~l~~~~re~EEEI~~Lrk~Lad~s~K 78 (521)
...+.++.+++|+.-+-.-|+||.-|-+++-+.-.+
T Consensus 48 ~~~~lp~~~keLL~EIA~lE~eV~~LE~~v~~L~~~ 83 (88)
T PF14389_consen 48 SPSSLPKKAKELLEEIALLEAEVAKLEQKVLSLYRQ 83 (88)
T ss_pred ccccCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345788999999988888888888877777665443
No 39
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=31.28 E-value=1.9e+02 Score=26.99 Aligned_cols=24 Identities=13% Similarity=0.284 Sum_probs=9.7
Q ss_pred hhhhhhHHHHHHHHHHHHhhhhhc
Q 009983 164 AISNTVKHLYDQLQSQIRTSYDRI 187 (521)
Q Consensus 164 SIvs~vKvL~~hLq~kl~~~e~kl 187 (521)
.-+...+.-+.++++.+....+++
T Consensus 158 ~~~~~~~~~~~~~~~~~~~l~~~~ 181 (191)
T PF04156_consen 158 EEVQELRSQLERLQENLQQLEEKI 181 (191)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444443333333
No 40
>PRK14154 heat shock protein GrpE; Provisional
Probab=30.74 E-value=2.6e+02 Score=28.12 Aligned_cols=26 Identities=8% Similarity=0.072 Sum_probs=17.4
Q ss_pred cchhhhhHHHHhhccHHHHHHHHHHH
Q 009983 47 QDREAMELYSRARMQKEEIHSLRQQI 72 (521)
Q Consensus 47 ~d~~~~~l~~~~re~EEEI~~Lrk~L 72 (521)
.-|+-.+|-.++.+-++++..|+.++
T Consensus 50 ~~~~~~~l~~el~~le~e~~elkd~~ 75 (208)
T PRK14154 50 EFPSREKLEGQLTRMERKVDEYKTQY 75 (208)
T ss_pred cCcchhhHHHHHHHHHHHHHHHHHHH
Confidence 44556666666677777877776666
No 41
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=30.39 E-value=2.3e+02 Score=33.00 Aligned_cols=67 Identities=33% Similarity=0.407 Sum_probs=46.2
Q ss_pred HHHHhhccHHHHHHHHHHHHHHhhhhhhhhcchhhhHHHHhHHHHHH--hHHhhHHHHHHHHHHHHhhhhHhhhhh
Q 009983 54 LYSRARMQKEEIHSLRQQIAVACLKELQLQNEKYTLERKVSELRMAI--DEKQNEAITSALNELARRKGVLEENLK 127 (521)
Q Consensus 54 l~~~~re~EEEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA~mR~A~--DqqQqdlVdaAsKaLsyRq~iiEENiR 127 (521)
+=.|.++-|.||.+||.-| -.||-| +..||..+.+||+.- +++-.+..=+|+-||--+-..||+|+.
T Consensus 543 ~r~r~~~lE~E~~~lr~el---k~kee~----~~~~e~~~~~lr~~~~e~~~~~e~L~~aL~amqdk~~~LE~sLs 611 (697)
T PF09726_consen 543 CRQRRRQLESELKKLRREL---KQKEEQ----IRELESELQELRKYEKESEKDTEVLMSALSAMQDKNQHLENSLS 611 (697)
T ss_pred HHHHHHHHHHHHHHHHHHH---HHHHHH----HHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHhhh
Confidence 5567788899999998755 356654 467899999999852 244455566677777666666666653
No 42
>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]
Probab=29.16 E-value=4e+02 Score=32.37 Aligned_cols=63 Identities=14% Similarity=0.115 Sum_probs=46.1
Q ss_pred hhccHHHHHHHHHHHHHHhhhhhhhhcchhhhHHHHhHHHHHHhHHhhHHHHHHHHHHHHhhh
Q 009983 58 ARMQKEEIHSLRQQIAVACLKELQLQNEKYTLERKVSELRMAIDEKQNEAITSALNELARRKG 120 (521)
Q Consensus 58 ~re~EEEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA~mR~A~DqqQqdlVdaAsKaLsyRq~ 120 (521)
..+.++.+..+|..+++.--.-+++.++...|++.|.+++...+.....+-+.-.+-..-+..
T Consensus 371 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~i~~l~~~~~~~~~~~~~~~~~~~~~~~~ 433 (1163)
T COG1196 371 LEELEELFEALREELAELEAELAEIRNELEELKREIESLEERLERLSERLEDLKEELKELEAE 433 (1163)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345666677888888888888889999999999999988888877766665544444433333
No 43
>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type. SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent.
Probab=28.87 E-value=4.4e+02 Score=30.65 Aligned_cols=17 Identities=6% Similarity=0.120 Sum_probs=13.0
Q ss_pred cccCccchHHHHHHHHh
Q 009983 402 IKCDLGMQSEIDAYISR 418 (521)
Q Consensus 402 I~cDpeMq~~I~~~l~~ 418 (521)
|.||++....|+..+.+
T Consensus 606 i~~~~~~~~~~~~~lg~ 622 (1164)
T TIGR02169 606 VEFDPKYEPAFKYVFGD 622 (1164)
T ss_pred ccCcHHHHHHHHHHCCC
Confidence 78898888888776554
No 44
>PRK14148 heat shock protein GrpE; Provisional
Probab=28.52 E-value=6e+02 Score=25.30 Aligned_cols=58 Identities=12% Similarity=0.143 Sum_probs=41.2
Q ss_pred hHHHHHHHHHHhhhc----CCCCCcccchhhhhhhHHHHHHHHHHHHhhhhhccccccCCCCCCC
Q 009983 139 RYFFMSSMLGLLADY----GLWPHVTNASAISNTVKHLYDQLQSQIRTSYDRIRDLTREGGTDAG 199 (521)
Q Consensus 139 Rs~fvssLLpLLaEY----~LqP~v~dAqSIvs~vKvL~~hLq~kl~~~e~klke~~~~pg~~~~ 199 (521)
..-|+..|||.+--+ +.-+.-.++.+|+.+|+-.+++|..=|. ..-|+++. +.|..++
T Consensus 89 ~~~~~~~LLpV~DnlerAl~~~~~~~~~~~l~~Gv~mi~k~l~~vL~--k~Gv~~I~-~~G~~FD 150 (195)
T PRK14148 89 IEKFAKELLPVIDSIEQALKHEVKLEEAIAMKEGIELTAKMLVDILK--KNGVEELD-PKGEKFD 150 (195)
T ss_pred HHHHHHHHhhHHhHHHHHHhccccchhHHHHHHHHHHHHHHHHHHHH--HCCCEEeC-CCCCCCC
Confidence 346889999998877 2234334567899999999999988885 55566665 3465555
No 45
>PRK00295 hypothetical protein; Provisional
Probab=28.13 E-value=1.4e+02 Score=24.88 Aligned_cols=31 Identities=32% Similarity=0.499 Sum_probs=21.7
Q ss_pred hHHHHhH--HHHHHhHHhhHHHHHHHHHHHHhhhhH
Q 009983 89 LERKVSE--LRMAIDEKQNEAITSALNELARRKGVL 122 (521)
Q Consensus 89 LErriA~--mR~A~DqqQqdlVdaAsKaLsyRq~ii 122 (521)
+|.||.+ +|+|| |++.|+.=++++..=|..|
T Consensus 3 ~e~Ri~~LE~kla~---qE~tie~Ln~~v~~Qq~~I 35 (68)
T PRK00295 3 LEERVTELESRQAF---QDDTIQALNDVLVEQQRVI 35 (68)
T ss_pred HHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHH
Confidence 5566664 46666 7888888888887777444
No 46
>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription. The PspA protein, a negative regulator of the Escherichia coli phage shock psp operon, is produced when virulence factors are exported through secretins in many Gram-negative pathogenic bacteria and its homologue in plants, VIPP1, plays a critical role in thylakoid biogenesis, essential for photosynthesis. Activation of transcription by the enhancer-dependent bacterial sigma54-containing RNA polymerase occurs through ATP hydrolysis-driven protein conformational changes enabled by activator proteins that belong to the large AAA(+) mechanochemical protein family. It has been shown that PspA directly and specifically acts upon and binds to the AAA(+) domain of the PspF transcription activator [].
Probab=27.75 E-value=1.1e+02 Score=29.47 Aligned_cols=48 Identities=29% Similarity=0.279 Sum_probs=35.8
Q ss_pred hhhHHHHhhccHHHHHHHHHHHHHHhhhhhhhhcchhhhHHHHhHHHH
Q 009983 51 AMELYSRARMQKEEIHSLRQQIAVACLKELQLQNEKYTLERKVSELRM 98 (521)
Q Consensus 51 ~~~l~~~~re~EEEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA~mR~ 98 (521)
......+....|+++..|...+..+.-...+|.+.-..||.||.+|+-
T Consensus 86 Ar~al~~k~~~e~~~~~l~~~~~~~~~~~~~l~~~l~~l~~kl~e~k~ 133 (221)
T PF04012_consen 86 AREALQRKADLEEQAERLEQQLDQAEAQVEKLKEQLEELEAKLEELKS 133 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344556667777788888888888888888888888888888877763
No 47
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=27.60 E-value=5.8e+02 Score=25.29 Aligned_cols=49 Identities=24% Similarity=0.283 Sum_probs=27.9
Q ss_pred HHHHHHHHhhhhhhhhcchhhhHHHHhHHHHHHhHHhhHHHHHHHHHHHH
Q 009983 68 LRQQIAVACLKELQLQNEKYTLERKVSELRMAIDEKQNEAITSALNELAR 117 (521)
Q Consensus 68 Lrk~Lad~s~KE~Qil~EK~vLErriA~mR~A~DqqQqdlVdaAsKaLsy 117 (521)
..+++....-.-.+++.|...|++.+.-|+. |-++.+..|++.-+.+..
T Consensus 40 sQ~~id~~~~e~~~L~~e~~~l~~e~e~L~~-~~~~l~~~v~~q~~el~~ 88 (251)
T PF11932_consen 40 SQKRIDQWDDEKQELLAEYRQLEREIENLEV-YNEQLERQVASQEQELAS 88 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHH
Confidence 3444444455555566666667777766665 455555566555554443
No 48
>PRK11020 hypothetical protein; Provisional
Probab=27.60 E-value=94 Score=29.04 Aligned_cols=40 Identities=28% Similarity=0.439 Sum_probs=27.4
Q ss_pred HHHHHHHHHhhh-----hhhhhcchhhhHHHHhHHHHHHhHHhhHHHH
Q 009983 67 SLRQQIAVACLK-----ELQLQNEKYTLERKVSELRMAIDEKQNEAIT 109 (521)
Q Consensus 67 ~Lrk~Lad~s~K-----E~Qil~EK~vLErriA~mR~A~DqqQqdlVd 109 (521)
.+|.+||.+... =+|+..|+..|+++|+.|+= +|.++|-.
T Consensus 16 ~~~~Klaaa~~rgd~~~i~qf~~E~~~l~k~I~~lk~---~~~~~lsk 60 (118)
T PRK11020 16 AIRHKLAAASLRGDAEKYAQFEKEKATLEAEIARLKE---VQSQKLSK 60 (118)
T ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHH
Confidence 345556655443 36899999999999999983 44444433
No 49
>PLN02542 fructose-1,6-bisphosphatase
Probab=27.59 E-value=1.2e+02 Score=33.40 Aligned_cols=80 Identities=25% Similarity=0.461 Sum_probs=56.9
Q ss_pred CCCcceeeeccccCCceeeeeEEEEEccCCceeeecCCCCCceeeeccccCceEEEEEEecCCCCcccceeeeec-ccCC
Q 009983 322 TPGEKLLGCGYPVRGTTLCMFQWVRHLQDGTRHYIEGATNPEYVVTADDVDKLIAVECIPMDDQGRQGELVRRFA-NDQN 400 (521)
Q Consensus 322 ~pG~~L~acGysinGTtlC~FqWvRhleDGs~~~IegA~~p~Y~vTADDVd~~iAvec~PmDd~grkGElV~~~a-Nd~~ 400 (521)
-||+++.|.||-+-|.+.-. |=.+.+|...|.=....=+|++|.+++ . +|- ++ ++|+ |++|
T Consensus 234 qpG~~qvAAGY~lYGpsT~L---Vlt~G~GV~~FtLDp~~geFvLt~~~i------~-IP~--~g------~iySiN~~N 295 (412)
T PLN02542 234 QPGSNLLAAGYCMYSSSVIF---VLTIGTGVFSFTLDPMYGEFVLTQENI------Q-IPK--AG------KIYSFNEGN 295 (412)
T ss_pred CcchhhhEEEEEEEccceEE---EEEECCCEEEEEEcCCCCeEEEeCCCe------e-eCC--CC------cEeeeCccc
Confidence 39999999999998865322 223467777666444555788888775 1 232 22 4788 7888
Q ss_pred ccccCccchHHHHHHHHhc
Q 009983 401 KIKCDLGMQSEIDAYISRG 419 (521)
Q Consensus 401 kI~cDpeMq~~I~~~l~~G 419 (521)
-=.+|+.+|.-|+.....|
T Consensus 296 ~~~W~~~~~~yi~~~~~~~ 314 (412)
T PLN02542 296 YQLWDDKLKKYIDDLKDPG 314 (412)
T ss_pred ccccCHHHHHHHHHHhhCC
Confidence 8889999999999998644
No 50
>PRK06342 transcription elongation factor regulatory protein; Validated
Probab=26.92 E-value=85 Score=29.95 Aligned_cols=42 Identities=12% Similarity=0.073 Sum_probs=24.2
Q ss_pred hhhHHHHhhccHHHHHHHHHHHHHHh----hhhhhhhcchhhhHHHHhHHH
Q 009983 51 AMELYSRARMQKEEIHSLRQQIAVAC----LKELQLQNEKYTLERKVSELR 97 (521)
Q Consensus 51 ~~~l~~~~re~EEEI~~Lrk~Lad~s----~KE~Qil~EK~vLErriA~mR 97 (521)
|.+.|.+. ++|+..|+..|++|. +.| =..+...+|+||+||.
T Consensus 32 T~~G~~~L---~~El~~L~~~i~~Ar~~GDlsE--ak~~~~~~e~rI~~L~ 77 (160)
T PRK06342 32 TEAGLKAL---EDQLAQARAAYEAAQAIEDVNE--RRRQMARPLRDLRYLA 77 (160)
T ss_pred CHHHHHHH---HHHHHHHHHHHHHHHHCCChhH--HHHHHHHHHHHHHHHH
Confidence 55555554 578999988777773 334 1223334555555543
No 51
>cd01246 PH_oxysterol_bp Oxysterol binding protein (OSBP) Pleckstrin homology (PH) domain. Oxysterol binding protein (OSBP) Pleckstrin homology (PH) domain. Oxysterol binding proteins are a multigene family that is conserved in yeast, flies, worms, mammals and plants. They all contain a C-terminal oxysterol binding domain, and most contain an N-terminal PH domain. OSBP PH domains bind to membrane phosphoinositides and thus likely play an important role in intracellular targeting. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=26.89 E-value=3.2e+02 Score=21.56 Aligned_cols=77 Identities=9% Similarity=0.095 Sum_probs=48.5
Q ss_pred CccccccceeEEEeecceEEEeC-CCc--ceeeeecCCCceeEecCCCcceEEEEecCCceeeeecCCCCCchhhHHHHH
Q 009983 430 DSSENWEQATLILRRSIYRIKID-STE--AIIEERFPKEVSIKVPCGLSTQFVLTFSDGSSYPFSTYNVRMRDTLVLTMR 506 (521)
Q Consensus 430 ~~~d~wE~atL~IrRegY~IK~~-~~~--~~I~Ekfs~~~~IkIp~g~~~qfvi~~sdG~e~~Lr~~n~~~RD~iVLTlR 506 (521)
.....|..-.++|+.....+-.. ++. .....-.=....|.++.+.+..|.|...+|..+.|.+.+...++.=|-.||
T Consensus 10 ~~~~~W~~r~~vl~~~~L~~~~~~~~~~~~~~~~i~l~~~~~~~~~~~~~~F~i~~~~~~~~~~~a~s~~e~~~Wi~al~ 89 (91)
T cd01246 10 NYLKGWQKRWFVLDNGLLSYYKNKSSMRGKPRGTILLSGAVISEDDSDDKCFTIDTGGDKTLHLRANSEEERQRWVDALE 89 (91)
T ss_pred ccCCCceeeEEEEECCEEEEEecCccCCCCceEEEEeceEEEEECCCCCcEEEEEcCCCCEEEEECCCHHHHHHHHHHHH
Confidence 34578999999998665444222 221 222221122234666677788999999988999999988776665554443
No 52
>PF14048 MBD_C: C-terminal domain of methyl-CpG binding protein 2 and 3; PDB: 2L2L_B.
Probab=26.50 E-value=48 Score=29.48 Aligned_cols=19 Identities=26% Similarity=0.398 Sum_probs=17.2
Q ss_pred HhhccHHHHHHHHHHHHHH
Q 009983 57 RARMQKEEIHSLRQQIAVA 75 (521)
Q Consensus 57 ~~re~EEEI~~Lrk~Lad~ 75 (521)
-+|.||+-....|+|||+|
T Consensus 77 DIr~QE~rVk~aR~RLaeA 95 (96)
T PF14048_consen 77 DIRRQERRVKKARKRLAEA 95 (96)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4689999999999999987
No 53
>PRK04406 hypothetical protein; Provisional
Probab=25.56 E-value=1.6e+02 Score=25.00 Aligned_cols=32 Identities=22% Similarity=0.489 Sum_probs=24.1
Q ss_pred hhHHHHhHH--HHHHhHHhhHHHHHHHHHHHHhhhhH
Q 009983 88 TLERKVSEL--RMAIDEKQNEAITSALNELARRKGVL 122 (521)
Q Consensus 88 vLErriA~m--R~A~DqqQqdlVdaAsKaLsyRq~ii 122 (521)
.||.||.+| |+|| |++.|+.=++++..=|..|
T Consensus 8 ~le~Ri~~LE~~lAf---QE~tIe~LN~~v~~Qq~~I 41 (75)
T PRK04406 8 QLEERINDLECQLAF---QEQTIEELNDALSQQQLLI 41 (75)
T ss_pred HHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHH
Confidence 467777754 7776 7889999998888777444
No 54
>PF04849 HAP1_N: HAP1 N-terminal conserved region; InterPro: IPR006933 This family is defined by an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues. HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntingtons disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34 [].
Probab=25.52 E-value=1.5e+02 Score=31.50 Aligned_cols=48 Identities=31% Similarity=0.275 Sum_probs=38.9
Q ss_pred hccHHHHHHHHHHHHHHhhhhhhhhcchhhhHHHHhHHHHHHhHHhhH
Q 009983 59 RMQKEEIHSLRQQIAVACLKELQLQNEKYTLERKVSELRMAIDEKQNE 106 (521)
Q Consensus 59 re~EEEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA~mR~A~DqqQqd 106 (521)
..|.|||.+|..+|+|.--|.-|+-.|+.-|=..++..+-+=.+-|-+
T Consensus 230 ~rQQEEIt~LlsqivdlQ~r~k~~~~EnEeL~q~L~~ske~Q~~L~aE 277 (306)
T PF04849_consen 230 RRQQEEITSLLSQIVDLQQRCKQLAAENEELQQHLQASKESQRQLQAE 277 (306)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 457899999999999999999999999999988887776554433333
No 55
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=25.30 E-value=3.5e+02 Score=27.79 Aligned_cols=47 Identities=21% Similarity=0.235 Sum_probs=30.5
Q ss_pred HHhhccHHHHHHHHHHHHHHhhhh---------hhhhcchhhhHHHHhHHHHHHhH
Q 009983 56 SRARMQKEEIHSLRQQIAVACLKE---------LQLQNEKYTLERKVSELRMAIDE 102 (521)
Q Consensus 56 ~~~re~EEEI~~Lrk~Lad~s~KE---------~Qil~EK~vLErriA~mR~A~Dq 102 (521)
..++-.|.||.-+|++++++..|= ..|-.|.+++++|++.|+=...+
T Consensus 59 ~qv~~~e~ei~~~r~r~~~~e~kl~~v~~~~e~~aL~~E~~~ak~r~~~le~el~~ 114 (239)
T COG1579 59 NQVSQLESEIQEIRERIKRAEEKLSAVKDERELRALNIEIQIAKERINSLEDELAE 114 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345667888888888888775542 13555667777777666655443
No 56
>PRK14149 heat shock protein GrpE; Provisional
Probab=25.26 E-value=4.1e+02 Score=26.45 Aligned_cols=51 Identities=12% Similarity=0.121 Sum_probs=36.7
Q ss_pred hHHHHHHHHHHhhhcC----CCCCcccchhhhhhhHHHHHHHHHHHHhhhhhccccc
Q 009983 139 RYFFMSSMLGLLADYG----LWPHVTNASAISNTVKHLYDQLQSQIRTSYDRIRDLT 191 (521)
Q Consensus 139 Rs~fvssLLpLLaEY~----LqP~v~dAqSIvs~vKvL~~hLq~kl~~~e~klke~~ 191 (521)
..-|+..|||.|-.+. .-+...+..+|+.+|+-.+++|..-|. ..-|+++.
T Consensus 85 ~~~~~~~LLpVlDnLerAl~~~~~~~~~~~l~~Gv~mi~k~l~~vL~--k~GV~~I~ 139 (191)
T PRK14149 85 YEKIALDLLPVIDALLGALKSAAEVDKESALTKGLELTMEKLHEVLA--RHGIEGIE 139 (191)
T ss_pred HHHHHHHHhhHHhHHHHHHhccccccchHHHHHHHHHHHHHHHHHHH--HCCCEEeC
Confidence 3568999999998872 223335667899999999999988775 34455554
No 57
>PRK11281 hypothetical protein; Provisional
Probab=24.81 E-value=3.6e+02 Score=33.20 Aligned_cols=71 Identities=21% Similarity=0.390 Sum_probs=51.1
Q ss_pred hhHHHHhHHHHHH---hHHhhHH------H----------------HHHHHHHHHhhhhHhhhhh-------hhhhhhhh
Q 009983 88 TLERKVSELRMAI---DEKQNEA------I----------------TSALNELARRKGVLEENLK-------LAHDLKVA 135 (521)
Q Consensus 88 vLErriA~mR~A~---DqqQqdl------V----------------daAsKaLsyRq~iiEENiR-------LtyaLQ~a 135 (521)
-|.++||++|+.- .||+..| + ++..+-|.-|+++|++=++ +.=.||.+
T Consensus 357 ~l~~~iAdlrl~~f~~~q~~~~l~~~~~y~~~l~~~~~~~~~~~~~~~l~~ll~~r~~LL~~l~~~~~~~l~~~~~l~~~ 436 (1113)
T PRK11281 357 GLADRIADLRLEQFEINQQRDALFQPDAYIDKLEAGHKSEVTDEVRDALLQLLDERRELLDQLNKQLNNQLNLAINLQLN 436 (1113)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHhcChhhHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3889999999763 2222111 1 2344678889999988433 45578888
Q ss_pred hhhhHHHHHHHHHHhhhcCCCCC
Q 009983 136 EDERYFFMSSMLGLLADYGLWPH 158 (521)
Q Consensus 136 eqERs~fvssLLpLLaEY~LqP~ 158 (521)
+|+-..-+.+|=-.|.|.-+|=+
T Consensus 437 q~Ql~~~~~~l~~~L~~~lfWv~ 459 (1113)
T PRK11281 437 QQQLLSVSDSLQSTLTQQIFWVN 459 (1113)
T ss_pred HHHHHHHHHHHHHHHHHhhhccC
Confidence 99998889999999999988844
No 58
>cd01253 PH_beta_spectrin Beta-spectrin pleckstrin homology (PH) domain. Beta-spectrin pleckstrin homology (PH) domain. Beta spectrin binds actin and functions as a major component of the cytoskeleton underlying cellular membranes. Beta spectrin consists of multiple spectrin repeats followed by a PH domain, which binds to Inositol-1,4,5-Trisphosphate. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. PH domains are often involved in targeting proteins to the plasma membrane via lipid binding. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPases, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=24.73 E-value=2.9e+02 Score=23.15 Aligned_cols=76 Identities=16% Similarity=0.226 Sum_probs=47.1
Q ss_pred ccccccceeEEEeecceEEEeCCCcceeeee----cC-CCceeEecC---CCcceEEEEecCCceeeeecCCCCCchhhH
Q 009983 431 SSENWEQATLILRRSIYRIKIDSTEAIIEER----FP-KEVSIKVPC---GLSTQFVLTFSDGSSYPFSTYNVRMRDTLV 502 (521)
Q Consensus 431 ~~d~wE~atL~IrRegY~IK~~~~~~~I~Ek----fs-~~~~IkIp~---g~~~qfvi~~sdG~e~~Lr~~n~~~RD~iV 502 (521)
+.-.|..-.++|+.....+-.+......... .+ ..+.|.+.. .++.-|.|...+|..+.|.+.+....+.=|
T Consensus 19 ~~~~Wk~r~~vL~~~~L~~ykd~~~~~~~~~~~~~i~l~~~~i~~~~~~~k~~~~F~l~~~~~~~~~f~a~s~e~~~~Wi 98 (104)
T cd01253 19 SNRSWDNVYGVLCGQSLSFYKDEKMAAENVHGEPPVDLTGAQCEVASDYTKKKHVFRLRLPDGAEFLFQAPDEEEMSSWV 98 (104)
T ss_pred CCCCcceEEEEEeCCEEEEEecCcccccCCCCCCcEeccCCEEEecCCcccCceEEEEEecCCCEEEEECCCHHHHHHHH
Confidence 3568999999999877666554211100000 00 133444442 466789999999999999998876655544
Q ss_pred HHHH
Q 009983 503 LTMR 506 (521)
Q Consensus 503 LTlR 506 (521)
-.||
T Consensus 99 ~aL~ 102 (104)
T cd01253 99 RALK 102 (104)
T ss_pred HHHh
Confidence 4443
No 59
>TIGR01076 sortase_fam LPXTG-site transpeptidase (sortase) family protein. of an LPXTG motif to the cell wall. It also includes a protein required for correct assembly of an LPXTG-containing fimbrial protein, a set of homologous proteins from Streptococcus pneumoniae, in which LPXTG proteins are common. However, related proteins are found in Bacillus subtilis and Methanobacterium thermoautotrophicum, in which LPXTG-mediated cell wall attachment is not known.
Probab=24.40 E-value=71 Score=28.81 Aligned_cols=43 Identities=23% Similarity=0.291 Sum_probs=31.0
Q ss_pred cceeeeccccCCceeeeeEEEEEccCCceeeecCCC-CCceeeec
Q 009983 325 EKLLGCGYPVRGTTLCMFQWVRHLQDGTRHYIEGAT-NPEYVVTA 368 (521)
Q Consensus 325 ~~L~acGysinGTtlC~FqWvRhleDGs~~~IegA~-~p~Y~vTA 368 (521)
+-..-.||... .....|..+..|+.|..-+|.... ..+|.||+
T Consensus 42 gN~vIaGH~~~-~~~~~F~~L~~l~~GD~i~v~~~~~~~~Y~V~~ 85 (136)
T TIGR01076 42 TRIVITGHRGL-PTATMFTNLDKLKKGDMLYLHVGNEVLTYQVTS 85 (136)
T ss_pred CeEEEEecCCC-CCCCccCCHHHCCCCCEEEEEECCcEEEEEEEE
Confidence 45666788754 345799999999999998887443 45777765
No 60
>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope. They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....
Probab=24.26 E-value=4.3e+02 Score=26.44 Aligned_cols=50 Identities=32% Similarity=0.419 Sum_probs=40.3
Q ss_pred hhccHHHHHHHHHHHHHHhhhhhhhhcchhhhHHHHhHHHHHHhHHhhHH
Q 009983 58 ARMQKEEIHSLRQQIAVACLKELQLQNEKYTLERKVSELRMAIDEKQNEA 107 (521)
Q Consensus 58 ~re~EEEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA~mR~A~DqqQqdl 107 (521)
+....+|+..+|+.+.....+=..|.+.+..||++|++|.--++.+.++.
T Consensus 211 ~~~~~~E~~~~r~~~~~l~~el~~l~~~~~~Le~~l~~le~~~~~~~~~~ 260 (312)
T PF00038_consen 211 LESAKEELKELRRQIQSLQAELESLRAKNASLERQLRELEQRLDEEREEY 260 (312)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cchhHhHHHHHHhhhhHhhhhhhccccchhhhhhhHHHHHHHHHHHHHHH
Confidence 34567888889999988888878888999999999999987777665543
No 61
>PRK09293 fructose-1,6-bisphosphatase; Provisional
Probab=24.24 E-value=1.3e+02 Score=31.87 Aligned_cols=77 Identities=23% Similarity=0.510 Sum_probs=55.7
Q ss_pred CCCcceeeeccccCCceeeeeEEEEEccCCceeeecCCCCCceeeeccccCceEEEEEEecCCCCcccceeeeec-ccCC
Q 009983 322 TPGEKLLGCGYPVRGTTLCMFQWVRHLQDGTRHYIEGATNPEYVVTADDVDKLIAVECIPMDDQGRQGELVRRFA-NDQN 400 (521)
Q Consensus 322 ~pG~~L~acGysinGTtlC~FqWvRhleDGs~~~IegA~~p~Y~vTADDVd~~iAvec~PmDd~grkGElV~~~a-Nd~~ 400 (521)
-||+++.|.||-+-|.+.... =.+.+|...|.=....-+|++|-+++- +|- ++ ++|+ |+++
T Consensus 145 q~G~~~vaAgy~~YG~~t~lv---~t~g~gv~~ftld~~~g~f~l~~~~i~-------ip~--~~------~~ys~n~~n 206 (327)
T PRK09293 145 QPGNNQVAAGYVLYGPSTMLV---LTTGDGVHGFTLDPSLGEFVLTHENIR-------IPE--DG------KEYAINEGN 206 (327)
T ss_pred CCchhheeEEEEEEcCceEEE---EEeCCCEEEEEEeCCCCeEEEecCCce-------eCC--CC------CEEccCchh
Confidence 399999999999988765442 334677666655555667888887654 232 22 4899 8899
Q ss_pred ccccCccchHHHHHHHH
Q 009983 401 KIKCDLGMQSEIDAYIS 417 (521)
Q Consensus 401 kI~cDpeMq~~I~~~l~ 417 (521)
-=.+++.+|+-| .++.
T Consensus 207 ~~~w~~~~~~yi-~~~~ 222 (327)
T PRK09293 207 QRHWEPGVKKYI-ELLA 222 (327)
T ss_pred hhhcCHHHHHHH-HHhc
Confidence 889999999999 5553
No 62
>PF04201 TPD52: Tumour protein D52 family; InterPro: IPR007327 The hD52 gene was originally identified through its elevated expression level in human breast carcinoma. Cloning of D52 homologues from other species has indicated that D52 may play roles in calcium-mediated signal transduction and cell proliferation. Two human homologues of hD52, hD53 and hD54, have also been identified, demonstrating the existence of a novel gene/protein family []. These proteins have an N-terminal coiled-coil that allows members to form homo- and heterodimers with each other [].
Probab=23.93 E-value=1.6e+02 Score=28.75 Aligned_cols=51 Identities=33% Similarity=0.421 Sum_probs=35.2
Q ss_pred ccccchhhhhHHHHhhccHHHHHHHHHHHHHHhhhhhhhhcchhhhHHHHhHHHHH-----HhHHhhHHH
Q 009983 44 ISFQDREAMELYSRARMQKEEIHSLRQQIAVACLKELQLQNEKYTLERKVSELRMA-----IDEKQNEAI 108 (521)
Q Consensus 44 ~~~~d~~~~~l~~~~re~EEEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA~mR~A-----~DqqQqdlV 108 (521)
.-|.+.|-.+|-.-...-||||..||.-|+. | ||+.++||=. +.+-+|++-
T Consensus 24 ~~LsEeE~eeLr~EL~KvEeEI~TLrqvL~a---K-----------er~~~eLKrkLGit~l~elkqnls 79 (162)
T PF04201_consen 24 EGLSEEEREELRSELAKVEEEIQTLRQVLAA---K-----------ERHCAELKRKLGITPLSELKQNLS 79 (162)
T ss_pred ccCCHHHHHHHHHHHHHHHHHHHHHHHHHHH---H-----------HHhHHHHHHHHCCchHHHHHHHHH
Confidence 4567777778877777789999999998874 3 5666666532 445555553
No 63
>PF08838 DUF1811: Protein of unknown function (DUF1811); InterPro: IPR014938 This entry consists uncharacterised bacterial proteins. Some of the proteins are annotated as being transcriptional regulators (see Q4MQL7 from SWISSPROT, Q65MA2 from SWISSPROT). The structure of one of the proteins has revealed a beta-barrel like structure with helix-turn-helix like motif. ; PDB: 2YXY_A 1SF9_A.
Probab=23.54 E-value=81 Score=28.78 Aligned_cols=33 Identities=30% Similarity=0.402 Sum_probs=25.0
Q ss_pred ccHHHHHHHHHHHHHHhhhhhhhhcchhhhHHHHh
Q 009983 60 MQKEEIHSLRQQIAVACLKELQLQNEKYTLERKVS 94 (521)
Q Consensus 60 e~EEEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA 94 (521)
|-++||..|+.+-..| ...-+.||--|||||++
T Consensus 11 EL~~Ei~~L~ekarKA--Eq~G~~nE~aV~erK~~ 43 (102)
T PF08838_consen 11 ELRQEIARLKEKARKA--EQLGIVNEYAVYERKII 43 (102)
T ss_dssp HHHHHHHHHHHHHHHH--HHCT-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH--HHcCCccHHHHHHHHHH
Confidence 4468888888887544 45568899999999985
No 64
>PRK05498 rplF 50S ribosomal protein L6; Validated
Probab=23.36 E-value=1.4e+02 Score=28.71 Aligned_cols=53 Identities=21% Similarity=0.323 Sum_probs=37.1
Q ss_pred cccccceeEEEeecceEEEeCCCcceeeeecCCCceeEecCC------CcceEEEEecCC
Q 009983 432 SENWEQATLILRRSIYRIKIDSTEAIIEERFPKEVSIKVPCG------LSTQFVLTFSDG 485 (521)
Q Consensus 432 ~d~wE~atL~IrRegY~IK~~~~~~~I~Ekfs~~~~IkIp~g------~~~qfvi~~sdG 485 (521)
...|+ ..|-|.=.||.+...++.+.|.==||-...+.||.| .+++.+|.+.|-
T Consensus 80 t~Gf~-~~L~lvGvgyrv~~~g~~l~l~LG~sh~i~~~Ip~gv~v~~~~~t~I~i~G~dk 138 (178)
T PRK05498 80 TEGFE-KKLEIVGVGYRAQVKGKKLNLSLGYSHPVEYEIPEGITVEVPKPTEIVVKGIDK 138 (178)
T ss_pred CCCeE-EEEEEEeEEEEEEEeCCeEEEEecCCEEEEEECCCCeEEEeCCCCEEEEEECCH
Confidence 34555 667777788888887666777666787788888876 345566666654
No 65
>cd00354 FBPase Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1,7-biphosphatases that play a role in pentose phosphate pathway (Calvin cycle).
Probab=22.88 E-value=1.5e+02 Score=31.09 Aligned_cols=79 Identities=22% Similarity=0.406 Sum_probs=53.6
Q ss_pred CCCcceeeeccccCCceeeeeEEEEEccCCceeeecCCCCCceeeeccccCceEEEEEEecCCCCcccceeeeec-ccCC
Q 009983 322 TPGEKLLGCGYPVRGTTLCMFQWVRHLQDGTRHYIEGATNPEYVVTADDVDKLIAVECIPMDDQGRQGELVRRFA-NDQN 400 (521)
Q Consensus 322 ~pG~~L~acGysinGTtlC~FqWvRhleDGs~~~IegA~~p~Y~vTADDVd~~iAvec~PmDd~grkGElV~~~a-Nd~~ 400 (521)
-||+++.|.||-+-|.+.... =.+.+|...|.=....=+|++|..++ ++ |- ++ ++|+ |+.|
T Consensus 138 q~G~~~vAAgy~lYGp~T~lv---~t~g~gv~~ftld~~~g~f~lt~~~~------~i-p~--~~------~~ys~n~~n 199 (315)
T cd00354 138 QPGRNQVAAGYALYGPSTMLV---LTLGQGVHGFTLDPSLGEFILTHPNV------KI-PK--KG------KIYSINEGN 199 (315)
T ss_pred CcchhhheEEEEEEcCceEEE---EEeCCceEEEEEcCCCCeEEEecCCc------ee-CC--CC------CEECCCCcc
Confidence 489999999999998765543 23346766555444344677776552 22 22 22 4888 6566
Q ss_pred ccccCccchHHHHHHHHh
Q 009983 401 KIKCDLGMQSEIDAYISR 418 (521)
Q Consensus 401 kI~cDpeMq~~I~~~l~~ 418 (521)
.=.+|+.+|..|+..+..
T Consensus 200 ~~~w~~~~~~yi~~~~~~ 217 (315)
T cd00354 200 YRYWDEPVKKYIDDCKAG 217 (315)
T ss_pred hhcCCHHHHHHHHHHhcc
Confidence 667999999999988764
No 66
>cd05829 Sortase_E Sortase E (SrtE) is a membrane transpeptidase found in gram-positive bacteria that cleaves surface proteins at a cell sorting motif and catalyzes a transpeptidation reaction in which the surface protein substrate is covalently linked to peptidoglycan for display on the bacterial surface. Sortases are grouped into different classes and subfamilies based on sequence, membrane topology, genomic positioning, and cleavage site preference. The function of Sortase E is unknown. In two different sortase families, the N-terminus either functions as both a signal peptide for secretion and a stop-transfer signal for membrane anchoring, or it contains a signal peptide only and the C-terminus serves as a membrane anchor. Most gram-positive bacteria contain more than one sortase and it is thought that the different sortases anchor different surface protein classes. The sortase domain is a modified beta-barrel flanked by two (SrtA) or three (SrtB) short alpha-helices.
Probab=22.85 E-value=1.3e+02 Score=27.61 Aligned_cols=51 Identities=18% Similarity=0.231 Sum_probs=35.8
Q ss_pred cccCCC--cceeeeccccCCceeeeeEEEEEccCCceeeecCCCC--Cceeeecc
Q 009983 319 GEATPG--EKLLGCGYPVRGTTLCMFQWVRHLQDGTRHYIEGATN--PEYVVTAD 369 (521)
Q Consensus 319 Gda~pG--~~L~acGysinGTtlC~FqWvRhleDGs~~~IegA~~--p~Y~vTAD 369 (521)
+-+.|| +...-.||....-.-..|-.+..|+-|..-+|..+.. -+|.||.-
T Consensus 42 ~~~~pG~~Gn~viaGH~~~~g~~~~F~~L~~l~~GD~I~v~~~~g~~~~Y~V~~~ 96 (144)
T cd05829 42 GGPKPGEKGTAVLAGHVDSRGGPAVFFRLGDLRKGDKVEVTRADGQTATFRVDRV 96 (144)
T ss_pred CCCCCCCCCCEEEEEecCCCCCChhhcchhcCCCCCEEEEEECCCCEEEEEEeEE
Confidence 344444 3556678875422457899999999999999998543 77887753
No 67
>PRK11281 hypothetical protein; Provisional
Probab=22.77 E-value=2.3e+02 Score=34.82 Aligned_cols=61 Identities=26% Similarity=0.317 Sum_probs=45.0
Q ss_pred hhhhhHHHHhhccHHHHHHHHHHHHHHhh------------hh---------hhhhcchhhhHHHHhHHHHHHhHHhhHH
Q 009983 49 REAMELYSRARMQKEEIHSLRQQIAVACL------------KE---------LQLQNEKYTLERKVSELRMAIDEKQNEA 107 (521)
Q Consensus 49 ~~~~~l~~~~re~EEEI~~Lrk~Lad~s~------------KE---------~Qil~EK~vLErriA~mR~A~DqqQqdl 107 (521)
..+.++|.++..++++...|+++|++|.- |+ ..-++. ..||.+++...-.-.+.|.+|
T Consensus 66 ~~tL~~L~qi~~~~~~~~~L~k~l~~Ap~~l~~a~~~Le~Lk~~~~~~~~~~~~~~Sl-~qLEq~L~q~~~~Lq~~Q~~L 144 (1113)
T PRK11281 66 EQTLALLDKIDRQKEETEQLKQQLAQAPAKLRQAQAELEALKDDNDEETRETLSTLSL-RQLESRLAQTLDQLQNAQNDL 144 (1113)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhccccccccccccccCH-HHHHHHHHHHHHHHHHHHHHH
Confidence 35678899999999999999999888531 21 111122 349999999988888888888
Q ss_pred HHH
Q 009983 108 ITS 110 (521)
Q Consensus 108 Vda 110 (521)
-++
T Consensus 145 a~~ 147 (1113)
T PRK11281 145 AEY 147 (1113)
T ss_pred HHH
Confidence 776
No 68
>PF11629 Mst1_SARAH: C terminal SARAH domain of Mst1; InterPro: IPR024205 The SARAH (Sav/Rassf/Hpo) domain is found at the C terminus in three classes of eukaryotic tumour suppressors that give the domain its name. In the Sav (Salvador) and Hpo (Hippo) families, the SARAH domain mediates signal transduction from Hpo via the Sav scaffolding protein to the downstream component Wts (Warts); the phosphorylation of Wts by Hpo triggers cell cycle arrest and apoptosis by down-regulating cyclin E, Diap 1 and other targets []. The SARAH domain is also involved in dimerisation, as in the human Hpo orthologue, Mst1, which homodimerises via its C-terminal SARAH domain. The SARAH domain is found associated with other domains, such as protein kinase domains, WW/rsp5/WWP domain (IPR001202 from INTERPRO), C1 domain (IPR002219 from INTERPRO), LIM domain (IPR001781 from INTERPRO), or the Ras-associating (RA) domain (IPR000159 from INTERPRO).; GO: 0004674 protein serine/threonine kinase activity; PDB: 2JO8_A.
Probab=22.50 E-value=2.7e+02 Score=22.63 Aligned_cols=23 Identities=22% Similarity=0.453 Sum_probs=20.9
Q ss_pred hhHHHHhHHHHHHhHHhhHHHHH
Q 009983 88 TLERKVSELRMAIDEKQNEAITS 110 (521)
Q Consensus 88 vLErriA~mR~A~DqqQqdlVda 110 (521)
.+|+-|.++|-.|-++.|=++||
T Consensus 23 ~ME~Eieelr~RY~~KRqPIldA 45 (49)
T PF11629_consen 23 EMEQEIEELRQRYQAKRQPILDA 45 (49)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhhccHHHH
Confidence 47899999999999999999987
No 69
>PHA00652 hypothetical protein
Probab=22.43 E-value=2.6e+02 Score=26.49 Aligned_cols=57 Identities=9% Similarity=0.021 Sum_probs=39.2
Q ss_pred hhhHHHHhHHHHHH-hHHhhHHHHHH-------HHHHHHhhhhHhhhhhhhhhhhhh---hhhhHHHHHHH
Q 009983 87 YTLERKVSELRMAI-DEKQNEAITSA-------LNELARRKGVLEENLKLAHDLKVA---EDERYFFMSSM 146 (521)
Q Consensus 87 ~vLErriA~mR~A~-DqqQqdlVdaA-------sKaLsyRq~iiEENiRLtyaLQ~a---eqERs~fvssL 146 (521)
++|=.| |+.+- .+..+.+|.|. ..+|...=++|..=+||+|+||.- --.|+-+.+-+
T Consensus 38 f~Lg~~---i~~~~~~~llellI~A~k~~Kkt~L~~ld~eLd~LR~~vRLa~~l~~~~~i~~~rYe~~~~~ 105 (128)
T PHA00652 38 HGVARE---MFLKCLLGQVELFIVAGKSNQVSKLYAADAGLAMLRFWLRFLAGIQKPHAMTPHQVETAQVL 105 (128)
T ss_pred hhHHHH---HHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHHHHHHHHHHhhhhhhhccCHHHHHHHHHH
Confidence 666554 34455 77888888887 445666678888899999977765 45566555543
No 70
>PRK14160 heat shock protein GrpE; Provisional
Probab=22.42 E-value=6.8e+02 Score=25.28 Aligned_cols=50 Identities=6% Similarity=0.113 Sum_probs=35.6
Q ss_pred hHHHHHHHHHHhhhc--CCCCCcccchhhhhhhHHHHHHHHHHHHhhhhhccccc
Q 009983 139 RYFFMSSMLGLLADY--GLWPHVTNASAISNTVKHLYDQLQSQIRTSYDRIRDLT 191 (521)
Q Consensus 139 Rs~fvssLLpLLaEY--~LqP~v~dAqSIvs~vKvL~~hLq~kl~~~e~klke~~ 191 (521)
..-|+..|||.+--+ -|.- ..+..+|+.+|+-.+++|..=|. ..-|+++.
T Consensus 110 ~e~~~~~LLpVlDnLerAl~~-~~~~~~l~~Gv~mi~kql~~vL~--k~GVe~I~ 161 (211)
T PRK14160 110 CEDVLKELLPVLDNLERAAAV-EGSVEDLKKGIEMTVKQFKTSLE--KLGVEEIS 161 (211)
T ss_pred HHHHHHHHhhHHhHHHHHHhc-ccchhHHHHHHHHHHHHHHHHHH--HCCCEEeC
Confidence 356899999998877 2321 24557899999999999988774 44555554
No 71
>PRK14139 heat shock protein GrpE; Provisional
Probab=21.81 E-value=7.8e+02 Score=24.31 Aligned_cols=57 Identities=18% Similarity=0.194 Sum_probs=39.4
Q ss_pred HHHHHHHHHHhhhc--CCCCCcccchhhhhhhHHHHHHHHHHHHhhhhhccccccCCCCCCC
Q 009983 140 YFFMSSMLGLLADY--GLWPHVTNASAISNTVKHLYDQLQSQIRTSYDRIRDLTREGGTDAG 199 (521)
Q Consensus 140 s~fvssLLpLLaEY--~LqP~v~dAqSIvs~vKvL~~hLq~kl~~~e~klke~~~~pg~~~~ 199 (521)
.-|+..|||.+-.+ -|.=.-.+..+|+.+|+-.+++|..=|. ..-|+++. +.|..++
T Consensus 82 ~~~~~~LLpv~DnLerAl~~~~~~~~~l~~Gv~mi~k~l~~vL~--k~Gv~~I~-~~G~~FD 140 (185)
T PRK14139 82 ESFAESLLPVKDSLEAALADESGDLEKLREGVELTLKQLTSAFE--KGRVVEIN-PVGEKFD 140 (185)
T ss_pred HHHHHHHhhHHhHHHHHHhcccchHHHHHHHHHHHHHHHHHHHH--HCCCceeC-CCCCCCC
Confidence 45888899988777 2221113567899999999999988875 45666666 3566665
No 72
>KOG3083 consensus Prohibitin [Posttranslational modification, protein turnover, chaperones]
Probab=21.79 E-value=85 Score=32.58 Aligned_cols=41 Identities=29% Similarity=0.524 Sum_probs=28.4
Q ss_pred HhhHHHHH-HHHHHHHh---hhhHhhhhhhhh------------hhhhhhhh--hHHHH
Q 009983 103 KQNEAITS-ALNELARR---KGVLEENLKLAH------------DLKVAEDE--RYFFM 143 (521)
Q Consensus 103 qQqdlVda-AsKaLsyR---q~iiEENiRLty------------aLQ~aeqE--Rs~fv 143 (521)
-|.++|++ .+++|..| -+++-+++-+|| +-|+|||| |.-||
T Consensus 141 TqRe~vS~~v~~~lt~rA~~Fgl~LddvsiThltfGkEFt~AvE~KQVAQQEAErarFv 199 (271)
T KOG3083|consen 141 TQRELVSRQVSNDLTERAATFGLILDDVSITHLTFGKEFTEAVEAKQVAQQEAERARFV 199 (271)
T ss_pred hhhHHHHHHHHHHHHHHHHhhCeeechhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36677766 67777777 456777777765 56888885 67775
No 73
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=21.77 E-value=1.2e+02 Score=25.82 Aligned_cols=36 Identities=22% Similarity=0.273 Sum_probs=26.7
Q ss_pred cHHHHHHHHHHHHHHhhhhhhhhcchhhhHHHHhHH
Q 009983 61 QKEEIHSLRQQIAVACLKELQLQNEKYTLERKVSEL 96 (521)
Q Consensus 61 ~EEEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA~m 96 (521)
..+++..|+++|.++--+-..+.+++.+++.+++.|
T Consensus 68 ~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~L 103 (104)
T PF13600_consen 68 DSPELKELEEELEALEDELAALQDEIQALEAQIAFL 103 (104)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 455777777777777777777778888888887755
No 74
>PRK04325 hypothetical protein; Provisional
Probab=21.44 E-value=2.1e+02 Score=24.11 Aligned_cols=32 Identities=25% Similarity=0.522 Sum_probs=23.0
Q ss_pred hHHHHhH--HHHHHhHHhhHHHHHHHHHHHHhhhhHh
Q 009983 89 LERKVSE--LRMAIDEKQNEAITSALNELARRKGVLE 123 (521)
Q Consensus 89 LErriA~--mR~A~DqqQqdlVdaAsKaLsyRq~iiE 123 (521)
+|.||.+ +|+|| |++.|+.=++++..=|..|.
T Consensus 7 ~e~Ri~~LE~klAf---QE~tIe~LN~vv~~Qq~~I~ 40 (74)
T PRK04325 7 MEDRITELEIQLAF---QEDLIDGLNATVARQQQTLD 40 (74)
T ss_pred HHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHH
Confidence 4555554 46676 78899999999887775553
No 75
>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope. They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....
Probab=21.16 E-value=3.4e+02 Score=27.12 Aligned_cols=42 Identities=29% Similarity=0.414 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHHHhhhhhhhhcchhhhHHHHhHHHHHHhHH
Q 009983 62 KEEIHSLRQQIAVACLKELQLQNEKYTLERKVSELRMAIDEK 103 (521)
Q Consensus 62 EEEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA~mR~A~Dqq 103 (521)
|.||..||+.|.+.+..=+++.-|.-.|..-+.++|.-|...
T Consensus 53 e~el~~lr~~id~~~~eka~l~~e~~~l~~e~~~~r~k~e~e 94 (312)
T PF00038_consen 53 EEELRELRRQIDDLSKEKARLELEIDNLKEELEDLRRKYEEE 94 (312)
T ss_dssp HHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHhHHhhhhHHHHhhHHhhhhhhHHHHHHHHHHHHHHH
Confidence 678888888888888877788888888888888877777765
No 76
>PF07926 TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro: IPR012929 This domain is found in a number of proteins, including TPR protein (P12270 from SWISSPROT) and yeast myosin-like proteins 1 (MLP1, Q02455 from SWISSPROT) and 2 (MLP2, P40457 from SWISSPROT). These proteins share a number of features; for example, they all have coiled-coil regions and all three are associated with nuclear pores [, , ]. TPR is thought to be a component of nuclear pore complex- attached intranuclear filaments [], and is implicated in nuclear protein import []. Moreover, its N-terminal region is involved in the activation of oncogenic kinases, possibly by mediating the dimerisation of kinase domains or by targeting these kinases to the nuclear pore complex []. MLP1 and MLP2 are involved in the process of telomere length regulation, where they are thought to interact with proteins such as Tel1p and modulate their activity []. ; GO: 0006606 protein import into nucleus, 0005643 nuclear pore
Probab=21.12 E-value=5.4e+02 Score=23.33 Aligned_cols=66 Identities=17% Similarity=0.181 Sum_probs=43.8
Q ss_pred HHHHHHHHHHHHHhhhhhhhhcchhhhHHHHhHHHHHHhHHhhHHHHHHHHHHHHhhhhHhhhhhh
Q 009983 63 EEIHSLRQQIAVACLKELQLQNEKYTLERKVSELRMAIDEKQNEAITSALNELARRKGVLEENLKL 128 (521)
Q Consensus 63 EEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA~mR~A~DqqQqdlVdaAsKaLsyRq~iiEENiRL 128 (521)
++|..||+.+..+-..=.++..+.......+...+-.+..+...|-..-+.+=..+.|+-+.|=-|
T Consensus 59 ~~L~~lr~e~~~~~~~~~~l~~~~~~a~~~l~~~e~sw~~qk~~le~e~~~~~~r~~dL~~QN~lL 124 (132)
T PF07926_consen 59 KELQQLREELQELQQEINELKAEAESAKAELEESEASWEEQKEQLEKELSELEQRIEDLNEQNKLL 124 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455667777777666666666666777777777777777766666666666666666666666433
No 77
>cd05828 Sortase_D_4 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved at the cell wall sorting signal and covalently linked to peptidoglycan for display on the bacterial surface. Sortases are grouped into different classes and subfamilies based on sequence, membrane topology, genomic positioning, and cleavage site preference. Class D sortases are further classified into subfamilies 4 and 5. This group contains a subset of Class D sortases belonging to subfamily-4. These sortases recognize a unique sorting signal (LPXTA) and they constitute a specialized sorting pathway found in bacilli. Their substrates are predicted to be predominantly enzymes such as 5'-nucleotidases, glycosyl hydrolase, and subtilase.
Probab=21.09 E-value=1.2e+02 Score=26.97 Aligned_cols=45 Identities=24% Similarity=0.366 Sum_probs=31.8
Q ss_pred ecccCCC--cceeeeccccCCceeeeeEEEEEccCCceeeecCC-CCCceeee
Q 009983 318 IGEATPG--EKLLGCGYPVRGTTLCMFQWVRHLQDGTRHYIEGA-TNPEYVVT 367 (521)
Q Consensus 318 ~Gda~pG--~~L~acGysinGTtlC~FqWvRhleDGs~~~IegA-~~p~Y~vT 367 (521)
.|-+.|| +-..-.||.. ..|-.+..|+.|..-++..+ ...+|.||
T Consensus 35 ~~~~~pg~~gn~vIaGH~~-----~~F~~L~~l~~Gd~i~v~~~~~~~~Y~V~ 82 (127)
T cd05828 35 AGSALPGEGGNIVIAGHRD-----THFRFLGELEPGDIITLQTLGGTYTYRVT 82 (127)
T ss_pred cCCCCCCCCCcEEEEEeCc-----hhhhChhcCCCCCEEEEEECCEEEEEEEe
Confidence 4556665 5677788864 47999999999999888755 23455554
No 78
>PF00901 Orbi_VP5: Orbivirus outer capsid protein VP5; InterPro: IPR000145 The orbivirus VP5 protein is one of the two proteins (with VP2) which make up the virus particle outer capsid. Cryoelectron microscopy indicates that VP5 is a trimer suggesting that there are 360 copies of VP5 per virion [].; GO: 0005198 structural molecule activity, 0019028 viral capsid
Probab=20.95 E-value=8e+02 Score=28.08 Aligned_cols=118 Identities=20% Similarity=0.201 Sum_probs=70.2
Q ss_pred cCCCCccccchhhhhHHHHhhccHHHHH--HHHHHHHHHhh-hhhhhhcchhhhHHHHhHHHHHHh---HHhhHHHHHHH
Q 009983 39 KEDNFISFQDREAMELYSRARMQKEEIH--SLRQQIAVACL-KELQLQNEKYTLERKVSELRMAID---EKQNEAITSAL 112 (521)
Q Consensus 39 ~~~~~~~~~d~~~~~l~~~~re~EEEI~--~Lrk~Lad~s~-KE~Qil~EK~vLErriA~mR~A~D---qqQqdlVdaAs 112 (521)
..+...-=-+|-++.|+.|++|-|+|.. +.|-+..+.-+ |...-|.+-|.+=+ --..-+ +.|-++++.|.
T Consensus 74 ~~d~~pDPLsPgE~~l~~Kl~eLE~e~k~d~v~~khn~~I~~k~g~~L~~v~~~~~----~~~~~~~~e~~q~~~LekAl 149 (508)
T PF00901_consen 74 TGDEPPDPLSPGEQGLQRKLKELEDEQKEDEVREKHNKKIIEKFGNDLEKVYKFMK----GQEKVEEEEENQIEILEKAL 149 (508)
T ss_pred CCCCCCCCCCHhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH----HhHhhhhhHHHHHHHHHHHH
Confidence 3344444457889999999999988875 34433333222 22222222222211 112222 33666777777
Q ss_pred HHHHHhhhhHhhhh---hhhhhhhhhhhhhHHHHHHHHHHhhhcCCCCCcccchhhhhhhHHHHHHHHHHHH
Q 009983 113 NELARRKGVLEENL---KLAHDLKVAEDERYFFMSSMLGLLADYGLWPHVTNASAISNTVKHLYDQLQSQIR 181 (521)
Q Consensus 113 KaLsyRq~iiEENi---RLtyaLQ~aeqERs~fvssLLpLLaEY~LqP~v~dAqSIvs~vKvL~~hLq~kl~ 181 (521)
|++. +=+-+||- ||+-|||....+||. |=..||+..+.-|+.|+.-+.
T Consensus 150 ~~~~--~i~~~E~~~l~~L~~AL~kE~~~Rt~-------------------dE~~mv~~yr~ki~aL~~aIe 200 (508)
T PF00901_consen 150 KSYG--KIVKEENKQLDRLARALQKESRERTQ-------------------DERKMVEEYRQKIDALKNAIE 200 (508)
T ss_pred HHHH--HHHHHHHHHHHHHHHHHHHHHHhccH-------------------HHHHHHHHHHHHHHHHHHHHH
Confidence 7643 44444554 578999999999973 666777777777777776654
No 79
>KOG3990 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.52 E-value=3.1e+02 Score=29.07 Aligned_cols=29 Identities=28% Similarity=0.408 Sum_probs=25.7
Q ss_pred ccchhhhhHHHHhhccHHHHHHHHHHHHH
Q 009983 46 FQDREAMELYSRARMQKEEIHSLRQQIAV 74 (521)
Q Consensus 46 ~~d~~~~~l~~~~re~EEEI~~Lrk~Lad 74 (521)
|-|+.--+-++++.--+|||..|.+.|+.
T Consensus 215 ~~D~~~~dh~V~i~~lkeeia~Lkk~L~q 243 (305)
T KOG3990|consen 215 FGDRDPGDHMVKIQKLKEEIARLKKLLHQ 243 (305)
T ss_pred CCCCCCcchHHHHHHHHHHHHHHHHHHhh
Confidence 66888888889999999999999999985
No 80
>TIGR03654 L6_bact ribosomal protein L6, bacterial type.
Probab=20.49 E-value=1.7e+02 Score=28.13 Aligned_cols=53 Identities=23% Similarity=0.328 Sum_probs=37.1
Q ss_pred cccccceeEEEeecceEEEeCCCcceeeeecCCCceeEecCC------CcceEEEEecCC
Q 009983 432 SENWEQATLILRRSIYRIKIDSTEAIIEERFPKEVSIKVPCG------LSTQFVLTFSDG 485 (521)
Q Consensus 432 ~d~wE~atL~IrRegY~IK~~~~~~~I~Ekfs~~~~IkIp~g------~~~qfvi~~sdG 485 (521)
.+.|+ ..|-|-=.||.+...++.+.|.==||-...+.||.| .+++.+|.+.|-
T Consensus 79 t~Gf~-~~L~lvGvgyrv~~~g~~l~l~LG~sh~i~~~Ip~~v~v~~~~~t~I~i~G~dk 137 (175)
T TIGR03654 79 SEGFE-KKLEIVGVGYRAQLQGKKLNLSLGYSHPVEYEIPEGITVEVPKPTEIVVKGIDK 137 (175)
T ss_pred ccCcE-EEEEEEEEEEEEEEeCCeEEEEecCceeEEEECCCCeEEEeCCCCEEEEEECCH
Confidence 35555 667777788888887766777777787788888876 345566666654
No 81
>COG1842 PspA Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]
Probab=20.46 E-value=3.1e+02 Score=27.67 Aligned_cols=56 Identities=21% Similarity=0.281 Sum_probs=44.4
Q ss_pred hHHHHhhccHHHHHHHHHHHHHHhhhhhhhhcchhhhHHHHhHHHHHHhHHhhHHHHHHHH
Q 009983 53 ELYSRARMQKEEIHSLRQQIAVACLKELQLQNEKYTLERKVSELRMAIDEKQNEAITSALN 113 (521)
Q Consensus 53 ~l~~~~re~EEEI~~Lrk~Lad~s~KE~Qil~EK~vLErriA~mR~A~DqqQqdlVdaAsK 113 (521)
++.-+....|+.+..++..+..+.-...++...-..||.||+++| +|.+.+.|..+
T Consensus 89 ~al~~~~~le~~~~~~~~~~~~~~~~~~~l~~~~~~Le~Ki~e~~-----~~~~~l~ar~~ 144 (225)
T COG1842 89 EALEEKQSLEDLAKALEAELQQAEEQVEKLKKQLAALEQKIAELR-----AKKEALKARKA 144 (225)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHH
Confidence 444577888999999999999999999999999999999999987 34444444433
No 82
>PRK14162 heat shock protein GrpE; Provisional
Probab=20.39 E-value=8.6e+02 Score=24.22 Aligned_cols=57 Identities=12% Similarity=0.194 Sum_probs=40.2
Q ss_pred HHHHHHHHHHhhhcC--CC--CCcccchhhhhhhHHHHHHHHHHHHhhhhhccccccCCCCCCC
Q 009983 140 YFFMSSMLGLLADYG--LW--PHVTNASAISNTVKHLYDQLQSQIRTSYDRIRDLTREGGTDAG 199 (521)
Q Consensus 140 s~fvssLLpLLaEY~--Lq--P~v~dAqSIvs~vKvL~~hLq~kl~~~e~klke~~~~pg~~~~ 199 (521)
.-|+..|||.+--+. |. |.-.+..+|+.+|+-.+++|..=|. ..-|+++. +.|..++
T Consensus 89 ~~~~~~LLpV~DnLerAl~~~~~~~~~~~l~~Gvemi~k~l~~vL~--~~GV~~I~-~~G~~FD 149 (194)
T PRK14162 89 QSLAKDVLPAMDNLERALAVKADDEAAKQLKKGVQMTLDHLVKALK--DHGVTEIK-ADGEKFD 149 (194)
T ss_pred HHHHHHHhhHHhHHHHHHhccccchhHHHHHHHHHHHHHHHHHHHH--HCCCEEeC-CCCCCCC
Confidence 458899999988773 22 3323457899999999999988885 45666665 3465555
No 83
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=20.37 E-value=5.1e+02 Score=25.67 Aligned_cols=27 Identities=26% Similarity=0.286 Sum_probs=14.4
Q ss_pred hhhcchhhhHHHHhHHHHHHhHHhhHH
Q 009983 81 QLQNEKYTLERKVSELRMAIDEKQNEA 107 (521)
Q Consensus 81 Qil~EK~vLErriA~mR~A~DqqQqdl 107 (521)
++..|...|+..+..|.--.+.|++.+
T Consensus 60 ~l~~e~e~L~~~~~~l~~~v~~q~~el 86 (251)
T PF11932_consen 60 QLEREIENLEVYNEQLERQVASQEQEL 86 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555555555555555544
No 84
>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type. SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle.
Probab=20.28 E-value=1.1e+03 Score=27.45 Aligned_cols=8 Identities=25% Similarity=0.688 Sum_probs=3.6
Q ss_pred ccceeecc
Q 009983 313 EGFQIIGE 320 (521)
Q Consensus 313 eglqI~Gd 320 (521)
.|+.|.-.
T Consensus 1071 ~~~~~~~~ 1078 (1179)
T TIGR02168 1071 AGIEIFAQ 1078 (1179)
T ss_pred cCceEEEe
Confidence 44554433
No 85
>PF01025 GrpE: GrpE; InterPro: IPR000740 Molecular chaperones are a diverse family of proteins that function to protect proteins in the intracellular milieu from irreversible aggregation during synthesis and in times of cellular stress. The bacterial molecular chaperone DnaK is an enzyme that couples cycles of ATP binding, hydrolysis, and ADP release by an N-terminal ATP-hydrolysing domain to cycles of sequestration and release of unfolded proteins by a C-terminal substrate binding domain. In prokaryotes the grpE protein. Dimeric GrpE is the co-chaperone for DnaK, and acts as a nucleotide exchange factor, stimulating the rate of ADP release 5000-fold []. DnaK is itself a weak ATPase; ATP hydrolysis by DnaK is stimulated by its interaction with another co-chaperone, DnaJ. Thus the co-chaperones DnaJ and GrpE are capable of tightly regulating the nucleotide-bound and substrate-bound state of DnaK in ways that are necessary for the normal housekeeping functions and stress-related functions of the DnaK molecular chaperone cycle. The X-ray crystal structure of GrpE in complex with the ATPase domain of DnaK revealed that GrpE is an asymmetric homodimer, bent in a manner that favours extensive contacts with only one DnaKATPase monomer []. GrpE does not actively compete for the atomic positions occupied by the nucleotide. GrpE and ADP mutually reduce one another's affinity for DnaK 200-fold, and ATP instantly dissociates GrpE from DnaK.; GO: 0000774 adenyl-nucleotide exchange factor activity, 0042803 protein homodimerization activity, 0051087 chaperone binding, 0006457 protein folding; PDB: 3A6M_A 4ANI_A 1DKG_B.
Probab=20.27 E-value=2.3e+02 Score=25.87 Aligned_cols=20 Identities=10% Similarity=0.139 Sum_probs=15.3
Q ss_pred hHHHHHHHHHHhhhcCCCCC
Q 009983 139 RYFFMSSMLGLLADYGLWPH 158 (521)
Q Consensus 139 Rs~fvssLLpLLaEY~LqP~ 158 (521)
-.++.+.|+-+|+.+|+.|=
T Consensus 94 ~~~~~~~l~~~L~~~Gv~~i 113 (165)
T PF01025_consen 94 LEMILKQLEDILEKNGVEEI 113 (165)
T ss_dssp HHHHHHHHHHHHHTTTEEEE
T ss_pred HHHHHHHHHHHHHHCCCEec
Confidence 44667788999999988653
No 86
>PF09787 Golgin_A5: Golgin subfamily A member 5; InterPro: IPR019177 This entry represents a family of proteins involved in maintaining Golgi structure. They stimulate the formation of Golgi stacks and ribbons, and are involved in intra-Golgi retrograde transport. Two main interactions have been characterised: one with RAB1A that has been activated by GTP-binding and another with isoform CASP of CUTL1 [].
Probab=20.25 E-value=3.7e+02 Score=29.68 Aligned_cols=64 Identities=23% Similarity=0.311 Sum_probs=46.8
Q ss_pred hhhhHHHHhhccHHHHHHHHHHHHHHhhhhhhhhcch-----------hhhHHHHhHHHHHHhHHhhHHHHHHHH
Q 009983 50 EAMELYSRARMQKEEIHSLRQQIAVACLKELQLQNEK-----------YTLERKVSELRMAIDEKQNEAITSALN 113 (521)
Q Consensus 50 ~~~~l~~~~re~EEEI~~Lrk~Lad~s~KE~Qil~EK-----------~vLErriA~mR~A~DqqQqdlVdaAsK 113 (521)
+...|=.+..+-++|+..||.+|.++=-.+.+++... ..|..|+..+..|+...+.+++.+...
T Consensus 110 e~a~lk~~l~e~~~El~~l~~~l~~l~~~~~~~~~~~~~~~~l~~~~~~sL~ekl~lld~al~~~~~~~~~~~~~ 184 (511)
T PF09787_consen 110 ELAVLKIRLQELDQELRRLRRQLEELQNEKSRILSDESTVSRLQNGAPRSLQEKLSLLDEALKREDGNAITAVVE 184 (511)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCchhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCccHHHHHHH
Confidence 6666666778899999999999999822222222211 678888999999999888888776544
Done!