Query 026229
Match_columns 241
No_of_seqs 35 out of 37
Neff 2.6
Searched_HMMs 46136
Date Fri Mar 29 05:20:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026229.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026229hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd07963 Anticodon_Ia_Cys Antic 96.9 0.0021 4.5E-08 51.8 5.7 41 165-205 110-150 (156)
2 PRK00260 cysS cysteinyl-tRNA s 96.4 0.0065 1.4E-07 57.6 5.7 41 163-203 414-454 (463)
3 PRK14534 cysS cysteinyl-tRNA s 96.2 0.0082 1.8E-07 58.5 5.6 42 163-204 432-473 (481)
4 PRK14536 cysS cysteinyl-tRNA s 96.0 0.011 2.4E-07 57.6 5.4 41 164-204 442-482 (490)
5 PLN02946 cysteine-tRNA ligase 95.6 0.019 4.1E-07 57.0 5.2 41 164-204 497-537 (557)
6 PRK14535 cysS cysteinyl-tRNA s 95.5 0.021 4.5E-07 58.4 5.4 41 164-204 651-691 (699)
7 TIGR00435 cysS cysteinyl-tRNA 95.5 0.024 5.2E-07 54.2 5.6 39 165-203 419-457 (465)
8 COG0215 CysS Cysteinyl-tRNA sy 93.5 0.14 3E-06 50.4 5.6 43 163-205 415-457 (464)
9 PF07304 SRA1: Steroid recepto 78.4 3.5 7.6E-05 34.7 4.3 37 159-195 82-118 (157)
10 COG5504 Predicted Zn-dependent 73.9 2 4.3E-05 40.4 1.8 53 69-121 8-63 (280)
11 cd07629 BAR_Atg20p The Bin/Amp 71.5 3.1 6.7E-05 35.6 2.3 45 37-83 142-186 (187)
12 cd00175 SNc Staphylococcal nuc 70.1 2.4 5.2E-05 32.4 1.2 13 142-154 2-14 (129)
13 COG0024 Map Methionine aminope 66.4 78 0.0017 29.1 10.3 124 73-204 23-168 (255)
14 TIGR01078 arcA arginine deimin 59.4 5.2 0.00011 38.2 1.5 33 183-215 361-393 (405)
15 smart00318 SNc Staphylococcal 59.0 5.2 0.00011 31.0 1.2 15 140-154 8-22 (138)
16 PTZ00399 cysteinyl-tRNA-synthe 57.7 17 0.00038 36.9 4.9 41 165-205 484-540 (651)
17 PF09832 DUF2059: Uncharacteri 53.7 8.7 0.00019 26.8 1.5 31 88-118 2-33 (64)
18 PF11691 DUF3288: Protein of u 52.0 24 0.00052 28.4 3.9 46 72-117 12-61 (90)
19 COG1525 Micrococcal nuclease ( 51.9 20 0.00043 29.9 3.6 27 137-163 44-80 (192)
20 PF13401 AAA_22: AAA domain; P 51.8 21 0.00046 26.3 3.4 67 36-104 21-88 (131)
21 PF12158 DUF3592: Protein of u 50.4 11 0.00023 29.0 1.7 20 142-161 92-111 (148)
22 COG1734 DksA DnaK suppressor p 49.9 1.1E+02 0.0023 25.4 7.5 49 165-213 47-95 (120)
23 PRK07539 NADH dehydrogenase su 49.6 10 0.00023 31.3 1.6 30 88-118 39-68 (154)
24 PRK08245 hypothetical protein; 49.3 21 0.00045 31.8 3.5 37 142-190 176-212 (240)
25 PRK15348 type III secretion sy 46.8 15 0.00033 33.6 2.3 60 136-195 43-118 (249)
26 PRK01777 hypothetical protein; 45.9 13 0.00028 29.3 1.6 22 140-161 63-85 (95)
27 PF02274 Amidinotransf: Amidin 45.4 11 0.00023 32.7 1.1 33 183-215 240-272 (281)
28 PF14003 YlbE: YlbE-like prote 42.2 28 0.00061 26.6 2.8 34 66-121 10-43 (65)
29 TIGR01958 nuoE_fam NADH-quinon 41.6 17 0.00037 29.8 1.7 29 88-117 33-61 (148)
30 PRK09262 hypothetical protein; 41.5 29 0.00064 30.8 3.3 37 142-190 165-201 (225)
31 cd04906 ACT_ThrD-I_1 First of 41.4 28 0.0006 25.7 2.7 28 183-210 52-79 (85)
32 smart00295 B41 Band 4.1 homolo 39.9 62 0.0013 25.9 4.6 52 46-102 148-199 (207)
33 PF00373 FERM_M: FERM central 38.6 76 0.0016 23.5 4.7 34 66-101 84-117 (126)
34 cd08804 Death_ank2 Death domai 38.2 45 0.00097 25.3 3.4 36 72-111 48-83 (84)
35 PRK06201 hypothetical protein; 37.9 40 0.00087 29.7 3.5 36 142-189 167-202 (221)
36 COG0021 TktA Transketolase [Ca 37.6 33 0.00072 35.8 3.4 61 21-83 257-322 (663)
37 PRK07571 bidirectional hydroge 37.1 24 0.00052 30.4 2.0 30 88-118 53-82 (169)
38 TIGR02798 ligK_PcmE 4-carboxy- 36.4 43 0.00093 29.8 3.5 37 142-190 163-199 (222)
39 smart00459 Sorb Sorbin homolog 34.2 54 0.0012 24.1 3.1 27 50-80 15-41 (50)
40 PRK06518 hypothetical protein; 32.3 20 0.00043 31.0 0.7 11 141-151 29-39 (177)
41 PRK01388 arginine deiminase; P 32.3 27 0.00058 33.6 1.7 32 183-214 362-393 (406)
42 PRK07028 bifunctional hexulose 31.8 53 0.0011 30.9 3.5 36 142-189 376-411 (430)
43 PRK05988 formate dehydrogenase 31.7 32 0.00069 29.0 1.8 29 89-118 41-69 (156)
44 PF03993 DUF349: Domain of Unk 31.5 53 0.0012 23.1 2.7 23 65-87 53-75 (77)
45 PF12544 LAM_C: Lysine-2,3-ami 30.8 23 0.00051 30.0 0.9 26 31-60 80-105 (127)
46 PF13708 Methyltransf_27: Meth 30.1 1.1E+02 0.0024 26.3 4.9 70 63-145 25-95 (194)
47 PLN03181 glycosyltransferase; 29.9 82 0.0018 31.7 4.5 45 69-113 257-303 (453)
48 PF09810 Exo5: Exonuclease V - 28.2 72 0.0016 29.4 3.7 45 49-118 151-195 (322)
49 PF12860 PAS_7: PAS fold 28.2 1.9E+02 0.0041 21.2 5.3 20 137-156 90-109 (115)
50 cd07596 BAR_SNX The Bin/Amphip 27.7 56 0.0012 26.3 2.6 19 65-83 199-217 (218)
51 COG2914 Uncharacterized protei 27.4 88 0.0019 25.8 3.6 19 142-160 65-84 (99)
52 cd08317 Death_ank Death domain 26.3 84 0.0018 23.3 3.1 33 72-108 48-80 (84)
53 TIGR01675 plant-AP plant acid 25.9 56 0.0012 29.4 2.5 29 188-216 186-214 (229)
54 PF07120 DUF1376: Protein of u 25.7 1.2E+02 0.0027 22.8 4.0 49 65-114 19-68 (88)
55 PRK15466 carboxysome structura 25.5 78 0.0017 28.0 3.2 60 56-118 71-138 (166)
56 COG4669 EscJ Type III secretor 25.2 72 0.0016 29.8 3.1 61 136-196 44-121 (246)
57 PF13279 4HBT_2: Thioesterase- 24.9 38 0.00083 25.1 1.0 27 142-170 94-120 (121)
58 PRK12764 hypothetical protein; 24.7 87 0.0019 31.0 3.7 35 142-188 434-468 (500)
59 PF01257 2Fe-2S_thioredx: Thio 24.6 68 0.0015 26.2 2.5 30 88-118 30-59 (145)
60 cd04909 ACT_PDH-BS C-terminal 24.6 69 0.0015 21.8 2.2 15 186-200 55-69 (69)
61 cd04883 ACT_AcuB C-terminal AC 24.5 68 0.0015 21.7 2.2 14 188-201 56-69 (72)
62 PTZ00458 acyl CoA binding prot 24.2 41 0.00088 26.4 1.1 28 90-118 7-34 (90)
63 cd00781 ketosteroid_isomerase 24.1 74 0.0016 23.4 2.5 29 87-115 1-29 (122)
64 PRK13843 conjugal transfer pro 24.0 53 0.0012 29.9 2.0 30 82-113 46-75 (207)
65 cd04882 ACT_Bt0572_2 C-termina 23.8 67 0.0015 21.1 2.0 15 187-201 51-65 (65)
66 KOG1467 Translation initiation 23.8 17 0.00038 37.0 -1.2 52 142-200 357-413 (556)
67 cd01670 Death Death Domain: a 23.2 1.2E+02 0.0025 21.3 3.2 34 72-109 42-76 (79)
68 PF14478 DUF4430: Domain of un 22.8 41 0.00089 24.0 0.9 18 134-151 51-68 (68)
69 TIGR02799 thio_ybgC tol-pal sy 22.5 48 0.001 24.6 1.2 33 137-170 94-126 (126)
70 COG0848 ExbD Biopolymer transp 22.1 4.4E+02 0.0096 21.8 6.9 27 181-207 108-134 (137)
71 PF06439 DUF1080: Domain of Un 21.4 39 0.00085 26.7 0.6 26 129-154 120-147 (185)
72 PRK00539 atpC F0F1 ATP synthas 21.2 2.4E+02 0.0052 23.2 5.1 36 143-180 71-106 (133)
73 cd04886 ACT_ThrD-II-like C-ter 21.2 1.2E+02 0.0025 19.7 2.7 18 184-201 55-72 (73)
74 PRK01254 hypothetical protein; 21.1 2.2E+02 0.0049 30.2 5.9 129 53-210 520-672 (707)
75 PLN03182 xyloglucan 6-xylosylt 21.0 1.4E+02 0.003 30.0 4.3 137 69-219 256-415 (429)
76 PF14907 NTP_transf_5: Unchara 20.9 2.4E+02 0.0051 23.6 5.1 50 161-210 32-84 (249)
77 cd04885 ACT_ThrD-I Tandem C-te 20.7 92 0.002 21.8 2.3 20 182-201 48-67 (68)
No 1
>cd07963 Anticodon_Ia_Cys Anticodon-binding domain of cysteinyl tRNA synthetases. This domain is found in cysteinyl tRNA synthetases (CysRS), which belong to the class Ia aminoacyl tRNA synthetases. It lies C-terminal to the catalytic core domain, and recognizes and specifically binds to the tRNA anticodon. CysRS catalyzes the transfer of cysteine to the 3'-end of its tRNA.
Probab=96.92 E-value=0.0021 Score=51.75 Aligned_cols=41 Identities=17% Similarity=0.370 Sum_probs=36.3
Q ss_pred hHHHHHHHHHHHHHHhhChHhHHHHHHHHHHccceeeecCC
Q 026229 165 GDVQMAAVRRSKARAERNYEQADALHQKIINAGYRLAIHLG 205 (241)
Q Consensus 165 ~eV~~Aa~~R~~ARa~rdY~~ADaLqk~I~dAGYRvi~~~g 205 (241)
.+|.....+|.+||+++||++||.|.+.|...|+.+.+..+
T Consensus 110 ~~v~~Ll~~R~~aR~~Kdf~~AD~IRd~L~~~Gi~i~Dt~~ 150 (156)
T cd07963 110 AEIEALIAQRNQARKAKDWAEADRIRDELAAQGIILEDSPE 150 (156)
T ss_pred HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHCCcEEEECCC
Confidence 46777777799999999999999999999999999998643
No 2
>PRK00260 cysS cysteinyl-tRNA synthetase; Validated
Probab=96.35 E-value=0.0065 Score=57.64 Aligned_cols=41 Identities=20% Similarity=0.370 Sum_probs=37.5
Q ss_pred CchHHHHHHHHHHHHHHhhChHhHHHHHHHHHHccceeeec
Q 026229 163 VPGDVQMAAVRRSKARAERNYEQADALHQKIINAGYRLAIH 203 (241)
Q Consensus 163 VP~eV~~Aa~~R~~ARa~rdY~~ADaLqk~I~dAGYRvi~~ 203 (241)
.+.+|++...+|.+||++|||++||+|.+.|.+.|+.+.+.
T Consensus 414 ~~~~~~~li~~R~~aR~~Kdf~~AD~IRd~L~~~Gi~v~D~ 454 (463)
T PRK00260 414 LDAEIEALIEERQEARKAKDFALADAIRDELAALGIVLEDT 454 (463)
T ss_pred cHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHCCcEEEEc
Confidence 46788888888999999999999999999999999999975
No 3
>PRK14534 cysS cysteinyl-tRNA synthetase; Provisional
Probab=96.21 E-value=0.0082 Score=58.51 Aligned_cols=42 Identities=17% Similarity=0.351 Sum_probs=37.7
Q ss_pred CchHHHHHHHHHHHHHHhhChHhHHHHHHHHHHccceeeecC
Q 026229 163 VPGDVQMAAVRRSKARAERNYEQADALHQKIINAGYRLAIHL 204 (241)
Q Consensus 163 VP~eV~~Aa~~R~~ARa~rdY~~ADaLqk~I~dAGYRvi~~~ 204 (241)
.|.+|.....+|.+||++|||++||+|.+.|.+.|+.+.+..
T Consensus 432 ~~~~i~~li~~R~~aR~~Kd~~~AD~iR~~L~~~Gi~l~Dt~ 473 (481)
T PRK14534 432 IDDNMKSLIEERRLAKCEKDFKRADEIREYFASKGFVLIDTE 473 (481)
T ss_pred CHHHHHHHHHHHHHHHHhCChHHHHHHHHHHHHCCCEEEEcC
Confidence 456788888889999999999999999999999999998653
No 4
>PRK14536 cysS cysteinyl-tRNA synthetase; Provisional
Probab=96.00 E-value=0.011 Score=57.58 Aligned_cols=41 Identities=20% Similarity=0.314 Sum_probs=37.1
Q ss_pred chHHHHHHHHHHHHHHhhChHhHHHHHHHHHHccceeeecC
Q 026229 164 PGDVQMAAVRRSKARAERNYEQADALHQKIINAGYRLAIHL 204 (241)
Q Consensus 164 P~eV~~Aa~~R~~ARa~rdY~~ADaLqk~I~dAGYRvi~~~ 204 (241)
|.+|.....+|.+||++|||++||+|.+.|.+.|+.+.+.-
T Consensus 442 ~~~i~~li~~R~~aR~~kdf~~AD~iR~~L~~~Gi~l~Dt~ 482 (490)
T PRK14536 442 EEEIGQLIEARAHARQTKDFPLADEIRDKLKAEGIELEDTH 482 (490)
T ss_pred HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHCCCEEEEcC
Confidence 46788888889999999999999999999999999999753
No 5
>PLN02946 cysteine-tRNA ligase
Probab=95.58 E-value=0.019 Score=56.98 Aligned_cols=41 Identities=24% Similarity=0.359 Sum_probs=37.0
Q ss_pred chHHHHHHHHHHHHHHhhChHhHHHHHHHHHHccceeeecC
Q 026229 164 PGDVQMAAVRRSKARAERNYEQADALHQKIINAGYRLAIHL 204 (241)
Q Consensus 164 P~eV~~Aa~~R~~ARa~rdY~~ADaLqk~I~dAGYRvi~~~ 204 (241)
|.+|.....+|.+||+++||++||+|.+.|.+.|+.+.+..
T Consensus 497 ~~~i~~li~~R~~aR~~Kdf~~AD~IR~~L~~~Gi~l~Dt~ 537 (557)
T PLN02946 497 EEQVLQKIEERTVARKNKEYEKSDAIRKDLAAVGIALMDSP 537 (557)
T ss_pred HHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHCCCEEEECC
Confidence 35788888889999999999999999999999999999763
No 6
>PRK14535 cysS cysteinyl-tRNA synthetase; Provisional
Probab=95.53 E-value=0.021 Score=58.44 Aligned_cols=41 Identities=20% Similarity=0.326 Sum_probs=37.3
Q ss_pred chHHHHHHHHHHHHHHhhChHhHHHHHHHHHHccceeeecC
Q 026229 164 PGDVQMAAVRRSKARAERNYEQADALHQKIINAGYRLAIHL 204 (241)
Q Consensus 164 P~eV~~Aa~~R~~ARa~rdY~~ADaLqk~I~dAGYRvi~~~ 204 (241)
|.+|.....+|.+||++|||++||+|.+.|.+.|+.+.+..
T Consensus 651 ~~~i~~Li~~R~~AR~~Kdfa~AD~IRd~L~~~GI~veDt~ 691 (699)
T PRK14535 651 NEEIEDLIARRKQARADKNWAESDRIRDLLNEHKIILEDNA 691 (699)
T ss_pred HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHCCCEEEEcC
Confidence 46788888889999999999999999999999999999753
No 7
>TIGR00435 cysS cysteinyl-tRNA synthetase. This model finds the cysteinyl-tRNA synthetase from most but not from all species. The enzyme from one archaeal species, Archaeoglobus fulgidus, is found but the equivalent enzymes from some other Archaea, including Methanococcus jannaschii, are not found, although biochemical evidence suggests that tRNA(Cys) in these species are charged directly with Cys rather than through a misacylation and correction pathway as for tRNA(Gln).
Probab=95.52 E-value=0.024 Score=54.15 Aligned_cols=39 Identities=26% Similarity=0.504 Sum_probs=35.8
Q ss_pred hHHHHHHHHHHHHHHhhChHhHHHHHHHHHHccceeeec
Q 026229 165 GDVQMAAVRRSKARAERNYEQADALHQKIINAGYRLAIH 203 (241)
Q Consensus 165 ~eV~~Aa~~R~~ARa~rdY~~ADaLqk~I~dAGYRvi~~ 203 (241)
.+|.+...+|.+||++|||++||+|.+.|.+.|+.+.+.
T Consensus 419 ~~i~~l~~~R~~ar~~k~~~~aD~iR~~L~~~Gi~~~D~ 457 (465)
T TIGR00435 419 GEIEALIEERSIARKEKDFAKADEIRDELLKKGIVLEDT 457 (465)
T ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHCCCEEEEC
Confidence 468788888999999999999999999999999999875
No 8
>COG0215 CysS Cysteinyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=93.51 E-value=0.14 Score=50.40 Aligned_cols=43 Identities=19% Similarity=0.283 Sum_probs=37.0
Q ss_pred CchHHHHHHHHHHHHHHhhChHhHHHHHHHHHHccceeeecCC
Q 026229 163 VPGDVQMAAVRRSKARAERNYEQADALHQKIINAGYRLAIHLG 205 (241)
Q Consensus 163 VP~eV~~Aa~~R~~ARa~rdY~~ADaLqk~I~dAGYRvi~~~g 205 (241)
...+|...+.+|.+||+.|||++||++.+.|.+.|..+.+..+
T Consensus 415 ~~~~i~~Li~~R~~aR~~K~~~~AD~iRd~L~~~Gi~leD~~~ 457 (464)
T COG0215 415 DDEEIEALIEERLEARKAKNWALADEIRDELLALGIILEDTPD 457 (464)
T ss_pred hHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHCCcEEEECCC
Confidence 5577766666699999999999999999999999999887643
No 9
>PF07304 SRA1: Steroid receptor RNA activator (SRA1); InterPro: IPR009917 This entry consists of several hypothetical mammalian steroid receptor RNA activator proteins. The SRA-RNAs encode stable proteins that are widely expressed and upregulated in breast cancer cell lines. SRA-RNA is a steroid receptor co-activator which acts as a functional RNA. This domain is also found at the C terminus of Sec31, a component of the coat protein complex II (COPII, which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). COPII has two main functions, the physical deformation of the endoplasmic reticulum membrane into vesicles and the selection of cargo molecules. ; PDB: 2YRU_A.
Probab=78.37 E-value=3.5 Score=34.70 Aligned_cols=37 Identities=19% Similarity=0.317 Sum_probs=29.4
Q ss_pred ccCCCchHHHHHHHHHHHHHHhhChHhHHHHHHHHHH
Q 026229 159 ESACVPGDVQMAAVRRSKARAERNYEQADALHQKIIN 195 (241)
Q Consensus 159 Es~~VP~eV~~Aa~~R~~ARa~rdY~~ADaLqk~I~d 195 (241)
.+..|...|.+-..+=.+|...|||++|+++|..|.-
T Consensus 82 n~g~Ls~~v~~~L~~L~~aL~~~d~~~A~~Ih~~L~t 118 (157)
T PF07304_consen 82 NNGKLSKPVVDKLHQLAQALQARDYDAADEIHVDLMT 118 (157)
T ss_dssp HHT-S-HHHHHHHHHHHHHHHHT-HHHHHHHHHHHHH
T ss_pred hcCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 3445778888888889999999999999999999863
No 10
>COG5504 Predicted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]
Probab=73.88 E-value=2 Score=40.37 Aligned_cols=53 Identities=25% Similarity=0.207 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhh-hccch--hhhhhhhhCCCCCCC
Q 026229 69 NWYRKLSEAWREAKPPPTTAEEAARLVIQTLSR-HKKAD--VEGLLAFYGLPLPHT 121 (241)
Q Consensus 69 nWYkKLl~AwK~akPpP~T~eeAarLVi~tLk~-hqkad--vEGLL~FYGLP~P~~ 121 (241)
.||||++.+|--++-.=.--|-+-.+|.--|++ |...+ ++-++.|||++.+..
T Consensus 8 swykk~~s~~~fa~~i~~pFek~~k~i~~~l~~~h~qh~~~~q~~~lgqg~fkd~~ 63 (280)
T COG5504 8 SWYKKILSAPIFAKEILVPFEKKFKMIEKPLKRDHKQHMSAIQFLDLGQGSFKDEL 63 (280)
T ss_pred HHHHHHhcchHHHHHHhHhHHHHHHHHHHHHhcccchhHHHHHHHHhcccCccchh
Confidence 599999999998877766677788889999999 75555 678899999998765
No 11
>cd07629 BAR_Atg20p The Bin/Amphiphysin/Rvs (BAR) domain of yeast Sorting Nexin Atg20p. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. The function of Atg20p is unknown but it has been shown to interact with Atg11p, which plays a role in linking cargo molecules with vesicle-forming components. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=71.49 E-value=3.1 Score=35.59 Aligned_cols=45 Identities=27% Similarity=0.478 Sum_probs=30.5
Q ss_pred hhhhhhcccccccccCCcccccccccchHHHHHHHHHHHHHHHhCCC
Q 026229 37 SALAQDLYHFEITSQVPEGLTRHVTSSKKAQANWYRKLSEAWREAKP 83 (241)
Q Consensus 37 sALarDL~~Fe~TsqVPEgLs~hV~SSkKAQanWYkKLl~AwK~akP 83 (241)
..+-+||-.|..... ..|..=+..=-+.|..||+|++++|+++|-
T Consensus 142 ~~~~~el~rF~~ek~--~dl~~~l~~~a~~~~~~a~~~~~~W~~~~~ 186 (187)
T cd07629 142 TIKQKDLPRFQRERE--ADLREILKNYSKYHKDWAKQNLEAWKEAKA 186 (187)
T ss_pred HHHHHHHHHHHHHhH--HHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 345566666655433 234444455567899999999999998763
No 12
>cd00175 SNc Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds.
Probab=70.13 E-value=2.4 Score=32.36 Aligned_cols=13 Identities=46% Similarity=0.690 Sum_probs=11.2
Q ss_pred cCCCCceEEEEec
Q 026229 142 IPDGDTITVYVSA 154 (241)
Q Consensus 142 VaDGDt~TvYVdT 154 (241)
|.|||||+|+.+.
T Consensus 2 V~dGDt~~v~~~~ 14 (129)
T cd00175 2 VIDGDTIRVRLPP 14 (129)
T ss_pred eecCcEEEEEeCC
Confidence 7899999998763
No 13
>COG0024 Map Methionine aminopeptidase [Translation, ribosomal structure and biogenesis]
Probab=66.39 E-value=78 Score=29.13 Aligned_cols=124 Identities=16% Similarity=0.243 Sum_probs=65.2
Q ss_pred HHHHHHHhCCCCCCCHHHHHHHHHHHHhhhccchhhhhhhhhCCCCCCCC--CCCCCC-CCCCCCCCCCCCccCCCCceE
Q 026229 73 KLSEAWREAKPPPTTAEEAARLVIQTLSRHKKADVEGLLAFYGLPLPHTL--IPVSTA-EPTTLPAGVDARAIPDGDTIT 149 (241)
Q Consensus 73 KLl~AwK~akPpP~T~eeAarLVi~tLk~hqkadvEGLL~FYGLP~P~~~--~~~s~~-~P~s~P~GVdaKaVaDGDt~T 149 (241)
+.|++-.+.--|--|--|-.+++-..++.++- .--.|-+||+|.|... -++..+ -|. |.+-+.|||-+.
T Consensus 23 ~~l~~~~~~v~pGvtt~Eld~~~~~~i~~~ga--~pa~~gy~g~~~~~ciSvNe~v~HgiP~------d~~vlk~GDiv~ 94 (255)
T COG0024 23 KALKEVASLVKPGVTTLELDEIAEEFIREKGA--YPAFLGYKGFPFPTCISVNEVVAHGIPG------DKKVLKEGDIVK 94 (255)
T ss_pred HHHHHHHHHcCCCCCHHHHHHHHHHHHHHcCc--eehhccCcCCCcceEeehhheeeecCCC------CCcccCCCCEEE
Confidence 34444444444666666777777666665321 2234668888876543 222222 232 677777887654
Q ss_pred ----EEEe--cCCC---cccCCCchHHHHHHHHHHHHHH----------hhChHhHHHHHHHHHHccceeeecC
Q 026229 150 ----VYVS--AADP---RESACVPGDVQMAAVRRSKARA----------ERNYEQADALHQKIINAGYRLAIHL 204 (241)
Q Consensus 150 ----vYVd--T~Dp---rEs~~VP~eV~~Aa~~R~~ARa----------~rdY~~ADaLqk~I~dAGYRvi~~~ 204 (241)
|++| ..|- --...++.+.....++-++.-- .|-.+=.+++|+.+...||+++...
T Consensus 95 IDvg~~~dG~~~Dsa~T~~vg~~~~~~~~~L~~~t~eal~~~I~~vkpG~~l~~Ig~aIq~~~~~~G~~vVr~~ 168 (255)
T COG0024 95 IDVGAHIDGYIGDTAITFVVGEVSDEDAKRLLEATKEALYAGIEAVKPGARLGDIGRAIQEYAESRGFSVVRNL 168 (255)
T ss_pred EEEEEEECCeeeeEEEEEECCCCChHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHcCCEEeecc
Confidence 3333 2222 2222233233332222222111 2445567899999999999998654
No 14
>TIGR01078 arcA arginine deiminase. Arginine deiminase is the first enzyme of the arginine deiminase pathway of arginine degradation.
Probab=59.36 E-value=5.2 Score=38.22 Aligned_cols=33 Identities=21% Similarity=0.318 Sum_probs=28.6
Q ss_pred hHhHHHHHHHHHHccceeeecCCcccccccCCC
Q 026229 183 YEQADALHQKIINAGYRLAIHLGDKSSKQRGSS 215 (241)
Q Consensus 183 Y~~ADaLqk~I~dAGYRvi~~~g~~~~~~~~~~ 215 (241)
|.....+++.|.++||+|+..-+.|+++.+|+.
T Consensus 361 y~rn~~tn~~L~~~Gi~V~~i~~sEl~rg~GG~ 393 (405)
T TIGR01078 361 YSRNVYTNALLEKAGIKVLTIPGSELSRGRGGP 393 (405)
T ss_pred ecCCHHHHHHHHHCCCEEEEeChHHHhcCCCCC
Confidence 345567888999999999999999999999975
No 15
>smart00318 SNc Staphylococcal nuclease homologues.
Probab=59.03 E-value=5.2 Score=30.98 Aligned_cols=15 Identities=40% Similarity=0.585 Sum_probs=12.2
Q ss_pred CccCCCCceEEEEec
Q 026229 140 RAIPDGDTITVYVSA 154 (241)
Q Consensus 140 KaVaDGDt~TvYVdT 154 (241)
..|.|||||+|.++.
T Consensus 8 ~~V~DGDT~~v~~~~ 22 (138)
T smart00318 8 ERVLDGDTIRVRLPK 22 (138)
T ss_pred EEEecCCEEEEEeCC
Confidence 468999999998654
No 16
>PTZ00399 cysteinyl-tRNA-synthetase; Provisional
Probab=57.68 E-value=17 Score=36.89 Aligned_cols=41 Identities=20% Similarity=0.167 Sum_probs=33.1
Q ss_pred hHHHHHHHHHHHHHH----h-----------hChHhHHHHHH-HHHHccceeeecCC
Q 026229 165 GDVQMAAVRRSKARA----E-----------RNYEQADALHQ-KIINAGYRLAIHLG 205 (241)
Q Consensus 165 ~eV~~Aa~~R~~ARa----~-----------rdY~~ADaLqk-~I~dAGYRvi~~~g 205 (241)
..|...+..|.+||+ . ++|+.||.|.. .|.+.|+.+.+..+
T Consensus 484 ~~i~~l~~~R~~~R~~a~~~~~~~~~~~~~~~~~~~~D~iRd~~L~~~Gi~l~D~~~ 540 (651)
T PTZ00399 484 PLLEALLRFRDEVRDAAKAEMKLISLDKKKKQLLQLCDKLRDEWLPNLGIRIEDKPD 540 (651)
T ss_pred HHHHHHHHHHHHHHHHHHhccccccchhhhhhHHHHHHHHHHHHHHHCCCEEEEcCC
Confidence 346555556999994 4 78999999999 69999999998754
No 17
>PF09832 DUF2059: Uncharacterized protein conserved in bacteria (DUF2059); InterPro: IPR018637 This entry contains proteins that have no known function. ; PDB: 2X3O_B 3OAO_A.
Probab=53.69 E-value=8.7 Score=26.82 Aligned_cols=31 Identities=26% Similarity=0.548 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHhhh-ccchhhhhhhhhCCCC
Q 026229 88 AEEAARLVIQTLSRH-KKADVEGLLAFYGLPL 118 (241)
Q Consensus 88 ~eeAarLVi~tLk~h-qkadvEGLL~FYGLP~ 118 (241)
+++.-..++..+..| -..+|+.|++||+=|+
T Consensus 2 ~~~~~~~~~~~y~~~ft~~El~~i~~FY~Sp~ 33 (64)
T PF09832_consen 2 PEKMIDQMAPIYAEHFTEEELDAILAFYESPL 33 (64)
T ss_dssp HHHHHHHHHHHHHHHS-HHHHHHHHHHHHSHH
T ss_pred HHHHHHHHHHHHHHHCCHHHHHHHHHHHCCHH
Confidence 344455666777777 6789999999998664
No 18
>PF11691 DUF3288: Protein of unknown function (DUF3288); InterPro: IPR021705 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=51.96 E-value=24 Score=28.41 Aligned_cols=46 Identities=26% Similarity=0.416 Sum_probs=36.1
Q ss_pred HHHHHHHHhCCCCCCCHHHHHHHHHHHHh----hhccchhhhhhhhhCCC
Q 026229 72 RKLSEAWREAKPPPTTAEEAARLVIQTLS----RHKKADVEGLLAFYGLP 117 (241)
Q Consensus 72 kKLl~AwK~akPpP~T~eeAarLVi~tLk----~hqkadvEGLL~FYGLP 117 (241)
|.+++.--...|-+-.-.|.|||.|+-=- +--+.|++-+|.++||-
T Consensus 12 R~~vd~Ll~~~p~d~~L~eLARL~iRY~gFPGA~diq~DL~kiL~~W~lt 61 (90)
T PF11691_consen 12 REIVDRLLAGEPTDYNLAELARLRIRYQGFPGARDIQKDLDKILQKWGLT 61 (90)
T ss_pred HHHHHHHHcCCCCchhHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCCC
Confidence 45566666667889999999999997643 34567999999999985
No 19
>COG1525 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]
Probab=51.86 E-value=20 Score=29.86 Aligned_cols=27 Identities=26% Similarity=0.286 Sum_probs=20.8
Q ss_pred CCCCccCCCCceEEEEec----------CCCcccCCC
Q 026229 137 VDARAIPDGDTITVYVSA----------ADPRESACV 163 (241)
Q Consensus 137 VdaKaVaDGDt~TvYVdT----------~DprEs~~V 163 (241)
...-.|.|||||+|.... -|+.|....
T Consensus 44 ~~v~~v~dGDT~~v~~~~~~~~~iRl~gIdaPe~~~~ 80 (192)
T COG1525 44 STVVRVIDGDTLKVRGEGGQAVKIRLAGIDAPETKQT 80 (192)
T ss_pred CceEEecCCCeEEEecCCCceeEEEEeccCCCccccc
Confidence 455689999999999887 577777754
No 20
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=51.75 E-value=21 Score=26.30 Aligned_cols=67 Identities=18% Similarity=0.216 Sum_probs=46.5
Q ss_pred hhhhhhhcccccccccCCcccccccccchHH-HHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhhhcc
Q 026229 36 VSALAQDLYHFEITSQVPEGLTRHVTSSKKA-QANWYRKLSEAWREAKPPPTTAEEAARLVIQTLSRHKK 104 (241)
Q Consensus 36 vsALarDL~~Fe~TsqVPEgLs~hV~SSkKA-QanWYkKLl~AwK~akPpP~T~eeAarLVi~tLk~hqk 104 (241)
+..+++++........ ...+. +|..+... ...++++|++++....+.+.+.++-..++++.|+++..
T Consensus 21 ~~~~~~~~~~~~~~~~-~~~~~-~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~l~~~~~ 88 (131)
T PF13401_consen 21 IKRLARQLNAEAEIKN-HPDVI-YVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDALDRRRV 88 (131)
T ss_dssp HHHHHHHHHHHHHHCC-CEEEE-EEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHHHHHCTE
T ss_pred HHHHHHHhHHhhhccC-CCcEE-EEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHHHHhcCC
Confidence 5667777654332222 22222 55544444 78899999999999988888999999999999999876
No 21
>PF12158 DUF3592: Protein of unknown function (DUF3592); InterPro: IPR021994 This family of proteins is functionally uncharacterised.This family of proteins is found in bacteria, archaea, eukaryotes and viruses. Proteins in this family are typically between 150 and 242 amino acids in length.
Probab=50.42 E-value=11 Score=28.99 Aligned_cols=20 Identities=45% Similarity=0.796 Sum_probs=17.8
Q ss_pred cCCCCceEEEEecCCCcccC
Q 026229 142 IPDGDTITVYVSAADPRESA 161 (241)
Q Consensus 142 VaDGDt~TvYVdT~DprEs~ 161 (241)
...||.+|||+|-.||.++.
T Consensus 92 ~~~G~~V~V~Y~P~~P~~~~ 111 (148)
T PF12158_consen 92 YPIGDTVTVYYNPNNPEEAR 111 (148)
T ss_pred CCCcCEEEEEECCcCCCeEE
Confidence 55899999999999999875
No 22
>COG1734 DksA DnaK suppressor protein [Signal transduction mechanisms]
Probab=49.90 E-value=1.1e+02 Score=25.36 Aligned_cols=49 Identities=12% Similarity=0.180 Sum_probs=42.1
Q ss_pred hHHHHHHHHHHHHHHhhChHhHHHHHHHHHHccceeeecCCcccccccC
Q 026229 165 GDVQMAAVRRSKARAERNYEQADALHQKIINAGYRLAIHLGDKSSKQRG 213 (241)
Q Consensus 165 ~eV~~Aa~~R~~ARa~rdY~~ADaLqk~I~dAGYRvi~~~g~~~~~~~~ 213 (241)
.+.......|...|.++-..+-|.-...|.+.+|-+-.--|++|.-.|=
T Consensus 47 ~~~~~~~~~~~~~r~r~~l~~i~~al~rIe~gtYG~Ce~cG~~Ip~~RL 95 (120)
T COG1734 47 QEEERELELRLRDRERKLLRKIESALDRIEEGTYGICEECGEPIPEARL 95 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccchhccCCcCCHHHH
Confidence 4455566679999999999999999999999999999999999987663
No 23
>PRK07539 NADH dehydrogenase subunit E; Validated
Probab=49.63 E-value=10 Score=31.30 Aligned_cols=30 Identities=30% Similarity=0.443 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHhhhccchhhhhhhhhCCCC
Q 026229 88 AEEAARLVIQTLSRHKKADVEGLLAFYGLPL 118 (241)
Q Consensus 88 ~eeAarLVi~tLk~hqkadvEGLL~FYGLP~ 118 (241)
|+||-+.|++.|. .-.++|.|+++||.+=.
T Consensus 39 p~~~~~~iA~~l~-v~~~~v~~v~tFY~~f~ 68 (154)
T PRK07539 39 PDEAIEAVADYLG-MPAIDVEEVATFYSMIF 68 (154)
T ss_pred CHHHHHHHHHHhC-cCHHHHHHHHHHHhhhC
Confidence 4577777777775 56789999999997643
No 24
>PRK08245 hypothetical protein; Validated
Probab=49.35 E-value=21 Score=31.75 Aligned_cols=37 Identities=11% Similarity=0.208 Sum_probs=28.4
Q ss_pred cCCCCceEEEEecCCCcccCCCchHHHHHHHHHHHHHHhhChHhHHHHH
Q 026229 142 IPDGDTITVYVSAADPRESACVPGDVQMAAVRRSKARAERNYEQADALH 190 (241)
Q Consensus 142 VaDGDt~TvYVdT~DprEs~~VP~eV~~Aa~~R~~ARa~rdY~~ADaLq 190 (241)
|+|.|||-| ||.+.-+.++++++++.+++-...++|.
T Consensus 176 ~aD~dGVvv------------IP~~~a~~Vl~~a~~~~~~E~~~~~~i~ 212 (240)
T PRK08245 176 VADDDGVVV------------IPAALADEVAAEAVEQERWEDFIREEVA 212 (240)
T ss_pred EEcCCceEE------------EcHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566666654 8999999999999999888766655554
No 25
>PRK15348 type III secretion system lipoprotein SsaJ; Provisional
Probab=46.76 E-value=15 Score=33.58 Aligned_cols=60 Identities=13% Similarity=0.222 Sum_probs=40.9
Q ss_pred CCCCCccCCCCceEEEEecCC-------------CcccCCCchHHHH---HHHHHHHHHHhhChHhHHHHHHHHHH
Q 026229 136 GVDARAIPDGDTITVYVSAAD-------------PRESACVPGDVQM---AAVRRSKARAERNYEQADALHQKIIN 195 (241)
Q Consensus 136 GVdaKaVaDGDt~TvYVdT~D-------------prEs~~VP~eV~~---Aa~~R~~ARa~rdY~~ADaLqk~I~d 195 (241)
||+.+-..++||+|++|+.+| |+.....-.++.+ .+.-.++-+++-+|.+..+|.+.|..
T Consensus 43 gI~y~~~~~~~G~tI~Vp~~~~~~Ar~~La~~GLP~~g~~~~~~lFd~~~l~~t~te~~qki~y~regELarTI~~ 118 (249)
T PRK15348 43 HIDAEKKQEEDGVTLRVEQSQFINAVELLRLNGYPHRQFTTADKMFPANQLVVSPQEEQQKINFLKEQRIEGMLSQ 118 (249)
T ss_pred CCCceEeeCCCCeEEEecHHHHHHHHHHHHHcCCCCCCCccHHHhCCccccccChhHHHHHHHHHHHHHHHHHHHh
Confidence 355532236788999999887 6666544444543 11225778888899999999999954
No 26
>PRK01777 hypothetical protein; Validated
Probab=45.93 E-value=13 Score=29.25 Aligned_cols=22 Identities=36% Similarity=0.711 Sum_probs=18.6
Q ss_pred CccCCCCceEEEEe-cCCCcccC
Q 026229 140 RAIPDGDTITVYVS-AADPRESA 161 (241)
Q Consensus 140 KaVaDGDt~TvYVd-T~DprEs~ 161 (241)
..+.|||.|.+|=. +.||.|..
T Consensus 63 ~~L~dGDRVeIyrPL~~DPk~~R 85 (95)
T PRK01777 63 DVLRDGDRVEIYRPLLADPKELR 85 (95)
T ss_pred CcCCCCCEEEEecCCCCCHHHHH
Confidence 46789999999999 99987654
No 27
>PF02274 Amidinotransf: Amidinotransferase; InterPro: IPR003198 This family contains glycine and inosamine amidinotransferases, enzymes which are involved in creatine and streptomycin biosynthesis respectively. This family also includes arginine deiminases, which catalyse the reversible reaction: arginine + H2O = citrulline + NH3 The Streptococcus anti-tumour glycoprotein is also found in this family [].; GO: 0016813 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amidines, 0005737 cytoplasm; PDB: 2CI7_A 2CI1_A 2CI4_A 2CI3_A 2CI5_A 2C6Z_A 2CI6_A 3I4A_B 3I2E_B 2JAI_A ....
Probab=45.44 E-value=11 Score=32.70 Aligned_cols=33 Identities=15% Similarity=0.124 Sum_probs=25.7
Q ss_pred hHhHHHHHHHHHHccceeeecCCcccccccCCC
Q 026229 183 YEQADALHQKIINAGYRLAIHLGDKSSKQRGSS 215 (241)
Q Consensus 183 Y~~ADaLqk~I~dAGYRvi~~~g~~~~~~~~~~ 215 (241)
|.....+++.|.+.||+|+..-.+|+.|..|+-
T Consensus 240 ~~~~~~~~~~L~~~G~~v~~v~~~el~k~gGg~ 272 (281)
T PF02274_consen 240 YASNPRTNEQLEKAGIEVIEVDFSELEKGGGGL 272 (281)
T ss_dssp ETTHHHHHHHHHHTT-EEEEE-HHHHHTTT--T
T ss_pred CCCCHHHHHHHHhcCCeEEEEcHHHhhcCCCch
Confidence 556778899999999999999999999998875
No 28
>PF14003 YlbE: YlbE-like protein
Probab=42.17 E-value=28 Score=26.55 Aligned_cols=34 Identities=35% Similarity=0.611 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhhhccchhhhhhhhhCCCCCCC
Q 026229 66 AQANWYRKLSEAWREAKPPPTTAEEAARLVIQTLSRHKKADVEGLLAFYGLPLPHT 121 (241)
Q Consensus 66 AQanWYkKLl~AwK~akPpP~T~eeAarLVi~tLk~hqkadvEGLL~FYGLP~P~~ 121 (241)
-|=.|||+|. +.|+|-..++..++ -|||.-+|+-
T Consensus 10 ~~P~WYR~Ls----------R~P~~l~~fe~~a~------------~~y~kT~p~r 43 (65)
T PF14003_consen 10 EQPIWYRILS----------RNPEELEAFEKEAK------------HFYKKTIPHR 43 (65)
T ss_pred HCcHHHHHHc----------cCHHHHHHHHHHHH------------HHHhccccHH
Confidence 3668999985 78999777776654 5777777763
No 29
>TIGR01958 nuoE_fam NADH-quinone oxidoreductase, E subunit. This model describes the E chain of complexes that resemble NADH-quinone oxidoreductases. The electron acceptor is a quinone, ubiquinone, in mitochondria and most bacteria, including Escherichia coli, where the recommended gene symbol is nuoB. This model does not identify proteins from chloroplast and cyanobacteria.
Probab=41.60 E-value=17 Score=29.83 Aligned_cols=29 Identities=24% Similarity=0.213 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHhhhccchhhhhhhhhCCC
Q 026229 88 AEEAARLVIQTLSRHKKADVEGLLAFYGLP 117 (241)
Q Consensus 88 ~eeAarLVi~tLk~hqkadvEGLL~FYGLP 117 (241)
|.||-..|+..|. .-.++|+|+.+||.+=
T Consensus 33 ~~~~~~~iA~~l~-~~~~~v~~v~tFY~~f 61 (148)
T TIGR01958 33 TPEAIAAVAEMLG-IPPVWVYEVATFYSMF 61 (148)
T ss_pred CHHHHHHHHHHhC-cCHHHHHHHHhHHhhc
Confidence 3566666666665 4578999999999764
No 30
>PRK09262 hypothetical protein; Provisional
Probab=41.46 E-value=29 Score=30.75 Aligned_cols=37 Identities=24% Similarity=0.376 Sum_probs=26.5
Q ss_pred cCCCCceEEEEecCCCcccCCCchHHHHHHHHHHHHHHhhChHhHHHHH
Q 026229 142 IPDGDTITVYVSAADPRESACVPGDVQMAAVRRSKARAERNYEQADALH 190 (241)
Q Consensus 142 VaDGDt~TvYVdT~DprEs~~VP~eV~~Aa~~R~~ARa~rdY~~ADaLq 190 (241)
|+|.||+-| ||++.-+.++++++++.+++-+..++|.
T Consensus 165 vaD~dGVvv------------IP~~~~~eVl~~a~~~~~~E~~~~~~i~ 201 (225)
T PRK09262 165 VADDDGVVV------------VPRAQAAAVADAAEAREANEESKRERLA 201 (225)
T ss_pred EEECCcEEE------------ECHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 577777765 6777778888888887777666665553
No 31
>cd04906 ACT_ThrD-I_1 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase). This CD includes the first of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase) which catalyzes the committed step in branched chain amino acid biosynthesis in plants and microorganisms, the pyridoxal 5'-phosphate (PLP)-dependent dehydration/deamination of L-threonine (or L-serine) to 2-ketobutyrate (or pyruvate). ThrD-I is a cooperative, feedback-regulated (isoleucine and valine) allosteric enzyme that forms a tetramer and contains four pyridoxal phosphate moieties. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=41.38 E-value=28 Score=25.67 Aligned_cols=28 Identities=25% Similarity=0.323 Sum_probs=22.7
Q ss_pred hHhHHHHHHHHHHccceeeecCCccccc
Q 026229 183 YEQADALHQKIINAGYRLAIHLGDKSSK 210 (241)
Q Consensus 183 Y~~ADaLqk~I~dAGYRvi~~~g~~~~~ 210 (241)
-+..+.+.+.|.++||+++.-.++|..+
T Consensus 52 ~~~~~~i~~~L~~~G~~~~~~~~~~~~~ 79 (85)
T cd04906 52 AEELAELLEDLKSAGYEVVDLSDDELAK 79 (85)
T ss_pred HHHHHHHHHHHHHCCCCeEECCCCHHHH
Confidence 4556788899999999999988887653
No 32
>smart00295 B41 Band 4.1 homologues. Also known as ezrin/radixin/moesin (ERM) protein domains. Present in myosins, ezrin, radixin, moesin, protein tyrosine phosphatases. Plasma membrane-binding domain. These proteins play structural and regulatory roles in the assembly and stabilization of specialized plasmamembrane domains. Some PDZ domain containing proteins bind one or more of this family. Now includes JAKs.
Probab=39.91 E-value=62 Score=25.88 Aligned_cols=52 Identities=13% Similarity=0.250 Sum_probs=37.5
Q ss_pred ccccccCCcccccccccchHHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhhh
Q 026229 46 FEITSQVPEGLTRHVTSSKKAQANWYRKLSEAWREAKPPPTTAEEAARLVIQTLSRH 102 (241)
Q Consensus 46 Fe~TsqVPEgLs~hV~SSkKAQanWYkKLl~AwK~akPpP~T~eeAarLVi~tLk~h 102 (241)
+....=+|+.+.++.. ..+..|-+++.++||+-. .-|+.||-..-++.++..
T Consensus 148 ~~~~~~lP~~~~~~~~---~~~~~~~~~i~~~~~~~~--~~s~~~a~~~yl~~~~~l 199 (207)
T smart00295 148 LSLKRFLPKQLLDSEK---RTLKEWRERIVSLHKELI--GLSPEEAKLKYLELAEKL 199 (207)
T ss_pred cccceeCChhhhhhcc---ccHHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHhccc
Confidence 3344445555533221 346789999999999976 479999999999998865
No 33
>PF00373 FERM_M: FERM central domain; InterPro: IPR019748 The FERM domain (F for 4.1 protein, E for ezrin, R for radixin and M for moesin) is a widespread protein module involved in localising proteins to the plasma membrane []. FERM domains are found in a number of cytoskeletal-associated proteins that associate with various proteins at the interface between the plasma membrane and the cytoskeleton. The FERM domain is located at the N terminus of the majority of FERM-containing proteins [, ], which includes: Band 4.1, which links the spectrin-actin cytoskeleton of erythrocytes to the plasma membrane. Ezrin, a component of the undercoat of the microvilli plasma membrane. Moesin, which is probably involved in binding major cytoskeletal structures to the plasma membrane. Radixin, which is involved in the binding of the barbed end of actin filaments to the plasma membrane in the undercoat of the cell- to-cell adherens junction. Talin, a cytoskeletal protein concentrated in regions of cell-substratum contact and, in lymphocytes, of cell-cell contacts. Filopodin, a slime mold protein that binds actin and which is involved in the control of cell motility and chemotaxis. Merlin (or schwannomin). Protein NBL4. Unconventional myosins X, VIIa and XV, which are mutated in congenital deafness. Focal-adhesion kinases (FAKs), cytoplasmic protein tyrosine kinases involved in signalling through integrins. Janus tyrosine kinases (JAKs), cytoplasmic tyrosine kinases that are non-covalently associated with the cytoplasmic tails of receptors for cytokines or polypeptidic hormones. Non-receptor tyrosine-protein kinase TYK2. Protein-tyrosine phosphatases PTPN3 and PTPN4, enzyme that appear to act at junctions between the membrane and the cytoskeleton. Protein-tyrosine phosphatases PTPN14 and PTP-D1, PTP-RL10 and PTP2E. Caenorhabditis elegans protein phosphatase ptp-1. Ezrin, moesin, and radixin are highly related proteins (ERM protein family), but the other proteins in which the FERM domain is found do not share any region of similarity outside of this domain. ERM proteins are made of three domains, the FERM domain, a central helical domain and a C-terminal tail domain, which binds F-actin. The amino-acid sequence of the FERM domain is highly conserved among ERM proteins and is responsible for membrane association by direct binding to the cytoplasmic domain or tail of integral membrane proteins. ERM proteins are regulated by an intramolecular association of the FERM and C-terminal tail domains that masks their binding sites for other molecules. For cytoskeleton-membrane cross-linking, the dormant molecules becomes activated and the FERM domain attaches to the membrane by binding specific membrane proteins, while the last 34 residues of the tail bind actin filaments. Aside from binding to membranes, the activated FERM domain of ERM proteins can also bind the guanine nucleotide dissociation inhibitor of Rho GTPase (RhoDGI), which suggests that in addition to functioning as a cross-linker, ERM proteins may influence Rho signalling pathways. The crystal structure of the FERM domain reveals that it is composed of three structural modules (F1, F2, and F3) that together form a compact clover-shaped structure []. The FERM domain has also been called the amino-terminal domain, the 30kDa domain, 4.1N30, the membrane-cytoskeletal-linking domain, the ERM-like domain, the ezrin-like domain of the band 4.1 superfamily, the conserved N-terminal region, and the membrane attachment domain [].; PDB: 4DXA_B 2EMS_A 2ZPY_A 1J19_A 2D10_B 2D11_B 1GC6_A 2D2Q_A 2EMT_A 2YVC_A ....
Probab=38.63 E-value=76 Score=23.55 Aligned_cols=34 Identities=21% Similarity=0.363 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhh
Q 026229 66 AQANWYRKLSEAWREAKPPPTTAEEAARLVIQTLSR 101 (241)
Q Consensus 66 AQanWYkKLl~AwK~akPpP~T~eeAarLVi~tLk~ 101 (241)
-+.+|=+++++.|++-+. -|++||....++.++.
T Consensus 84 ~~~~~~~~I~~~~~~l~~--~s~~~a~~~fl~~~~~ 117 (126)
T PF00373_consen 84 KQKEWEKRILEQHKKLRG--MSPEEAKLQFLQICQS 117 (126)
T ss_dssp THHHHHHHHHHHHHHTTT----HHHHHHHHHHHHCT
T ss_pred hHHHHHHHHHHHHHHhhC--CCHHHHHHHHHHHHhc
Confidence 466799999999999888 5999999999998876
No 34
>cd08804 Death_ank2 Death domain of Ankyrin-2. Death Domain (DD) of Ankyrin-2 (ANK-2) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-2, also called ankyrin-B (for broadly expressed), is required for proper function of the Na/Ca ion exchanger-1 in cardiomyocytes, and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. Human ANK-2 is associated with "Ankyrin-B syndrome", an atypical arrythmia disorder with risk of sudden cardiac death. It also plays key roles in the brain and striated muscle. Loss of ANK-2 is associated with significant nervous system defects and sarcomere disorganization. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other
Probab=38.21 E-value=45 Score=25.32 Aligned_cols=36 Identities=19% Similarity=0.357 Sum_probs=28.9
Q ss_pred HHHHHHHHhCCCCCCCHHHHHHHHHHHHhhhccchhhhhh
Q 026229 72 RKLSEAWREAKPPPTTAEEAARLVIQTLSRHKKADVEGLL 111 (241)
Q Consensus 72 kKLl~AwK~akPpP~T~eeAarLVi~tLk~hqkadvEGLL 111 (241)
..||..|++-...-.|.+ -++++|+...+.|+-+++
T Consensus 48 ~~mL~~W~~r~g~~At~~----~L~~aL~~i~r~Div~~~ 83 (84)
T cd08804 48 HALLKYWLERDGKHATDT----NLMKCLTKINRMDIVHLM 83 (84)
T ss_pred HHHHHHHHHccCCCchHH----HHHHHHHHcChHHHHHHh
Confidence 679999999887555533 478899999999998765
No 35
>PRK06201 hypothetical protein; Validated
Probab=37.87 E-value=40 Score=29.65 Aligned_cols=36 Identities=22% Similarity=0.339 Sum_probs=25.2
Q ss_pred cCCCCceEEEEecCCCcccCCCchHHHHHHHHHHHHHHhhChHhHHHH
Q 026229 142 IPDGDTITVYVSAADPRESACVPGDVQMAAVRRSKARAERNYEQADAL 189 (241)
Q Consensus 142 VaDGDt~TvYVdT~DprEs~~VP~eV~~Aa~~R~~ARa~rdY~~ADaL 189 (241)
++|.||+-| ||+++-+.++++++++.++.-...+++
T Consensus 167 ~aD~dGVvv------------iP~~~a~eV~~~a~~~~~~E~~~~~~i 202 (221)
T PRK06201 167 VGDDDGLVA------------VPPADAEALLEAARAKHAAEAKQLEAI 202 (221)
T ss_pred EEcCCceEE------------EcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566666655 688888888888888777665554444
No 36
>COG0021 TktA Transketolase [Carbohydrate transport and metabolism]
Probab=37.60 E-value=33 Score=35.78 Aligned_cols=61 Identities=26% Similarity=0.414 Sum_probs=41.6
Q ss_pred CCCCCCCcccccchhhhhhhhhccccc-ccccCCcccccccc----cchHHHHHHHHHHHHHHHhCCC
Q 026229 21 SGSLGPHGVSAATVGVSALAQDLYHFE-ITSQVPEGLTRHVT----SSKKAQANWYRKLSEAWREAKP 83 (241)
Q Consensus 21 ~~s~~phgv~~at~GvsALarDL~~Fe-~TsqVPEgLs~hV~----SSkKAQanWYkKLl~AwK~akP 83 (241)
+++..-||...-..+++ +++--|+|+ .-.+||+....|.- ..+|++..| ++++++|++..|
T Consensus 257 egt~~~HGapLg~~ev~-~~k~~lgw~~~~F~vp~ev~~~~~~~~~~g~~~~~~W-~~~~~~y~~~~P 322 (663)
T COG0021 257 EGTHKVHGAPLGEEEVA-AAKKALGWEPEPFEVPEEVYAAFRAVEERGAKAEAAW-NELFAAYKKKYP 322 (663)
T ss_pred CCCccccCCCCCHHHHH-HHHHHhCCCCCceecCHHHHHHHHHHhhhhhhHHHHH-HHHHHHHHhhCh
Confidence 55666677655555554 444455555 22899999988876 555777888 578999998654
No 37
>PRK07571 bidirectional hydrogenase complex protein HoxE; Reviewed
Probab=37.11 E-value=24 Score=30.39 Aligned_cols=30 Identities=23% Similarity=0.256 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHhhhccchhhhhhhhhCCCC
Q 026229 88 AEEAARLVIQTLSRHKKADVEGLLAFYGLPL 118 (241)
Q Consensus 88 ~eeAarLVi~tLk~hqkadvEGLL~FYGLP~ 118 (241)
|.||-+.|++.|. .-.++|+|+.+||.+-.
T Consensus 53 p~e~~~~iA~~l~-v~~a~V~gVatFY~~f~ 82 (169)
T PRK07571 53 ERDLLLYVARQLK-LPLSRVYGVATFYHLFS 82 (169)
T ss_pred CHHHHHHHHHHhC-cCHHHHHHHHHHccccC
Confidence 3566777777775 46789999999998764
No 38
>TIGR02798 ligK_PcmE 4-carboxy-4-hydroxy-2-oxoadipate aldolase/oxaloacetate decarboxylase. Members of this protein family 4-carboxy-4-hydroxy-2-oxoadipate aldolase, also called 4-oxalocitramalate aldolase. This enzyme of the protocatechuate 4,5-cleavage pathway converts its substrate to pyruvate plus oxaloacetate. Protocatechuate is an intermediate in many pathways for degrading aromatic compounds, including lignin, fluorene, etc. Hara, et al. showed the LigK gene was not only a 4-carboxy-4-hydroxy-2-oxoadipate aldolase but also the enzyme of the following step, oxaloacetate decarboxylase.
Probab=36.44 E-value=43 Score=29.84 Aligned_cols=37 Identities=24% Similarity=0.312 Sum_probs=27.3
Q ss_pred cCCCCceEEEEecCCCcccCCCchHHHHHHHHHHHHHHhhChHhHHHHH
Q 026229 142 IPDGDTITVYVSAADPRESACVPGDVQMAAVRRSKARAERNYEQADALH 190 (241)
Q Consensus 142 VaDGDt~TvYVdT~DprEs~~VP~eV~~Aa~~R~~ARa~rdY~~ADaLq 190 (241)
|+|.||+-| ||.+.-+.++++++++.+++-+..++|.
T Consensus 163 ~aD~dGVvv------------iP~~~~~~vl~~a~~~~~~E~~~~~~i~ 199 (222)
T TIGR02798 163 VADDDGVVV------------VPRANAGAVLDAAQAREANEEAKRVKLA 199 (222)
T ss_pred EEcCCcEEE------------EcHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466666654 7888888999988888887766665554
No 39
>smart00459 Sorb Sorbin homologous domain. First found in the peptide hormone sorbin and later in the ponsin/ArgBP2/vinexin family of proteins.
Probab=34.20 E-value=54 Score=24.10 Aligned_cols=27 Identities=26% Similarity=0.561 Sum_probs=18.7
Q ss_pred ccCCcccccccccchHHHHHHHHHHHHHHHh
Q 026229 50 SQVPEGLTRHVTSSKKAQANWYRKLSEAWRE 80 (241)
Q Consensus 50 sqVPEgLs~hV~SSkKAQanWYkKLl~AwK~ 80 (241)
+.+|--|..-|--++. |||+|...--.
T Consensus 15 ~giPi~~rs~v~~~~d----WYk~MfkqiHk 41 (50)
T smart00459 15 SGIPQAPRSSVERPKD----WYRTMFKQIHR 41 (50)
T ss_pred CCCccccccCcccHHH----HHHHHHHHHHc
Confidence 5677777777766655 99998764433
No 40
>PRK06518 hypothetical protein; Provisional
Probab=32.30 E-value=20 Score=31.02 Aligned_cols=11 Identities=18% Similarity=0.362 Sum_probs=9.6
Q ss_pred ccCCCCceEEE
Q 026229 141 AIPDGDTITVY 151 (241)
Q Consensus 141 aVaDGDt~TvY 151 (241)
.|.|||||++-
T Consensus 29 ~V~DGDTl~l~ 39 (177)
T PRK06518 29 QVTSGVTFKLI 39 (177)
T ss_pred EEEcCCEEEEe
Confidence 48899999995
No 41
>PRK01388 arginine deiminase; Provisional
Probab=32.29 E-value=27 Score=33.63 Aligned_cols=32 Identities=19% Similarity=0.368 Sum_probs=28.1
Q ss_pred hHhHHHHHHHHHHccceeeecCCcccccccCC
Q 026229 183 YEQADALHQKIINAGYRLAIHLGDKSSKQRGS 214 (241)
Q Consensus 183 Y~~ADaLqk~I~dAGYRvi~~~g~~~~~~~~~ 214 (241)
|...-.+++.|.++|++|+..-+.|+++.+|+
T Consensus 362 ~~~n~~t~~~L~~~G~~v~~i~~~el~~~~Gg 393 (406)
T PRK01388 362 YDRNTVTNALLRKAGIEVITIPGSELGRGRGG 393 (406)
T ss_pred eCCcHHHHHHHHHCCCEEEEeChHHhhcCCCC
Confidence 44555688999999999999999999999996
No 42
>PRK07028 bifunctional hexulose-6-phosphate synthase/ribonuclease regulator; Validated
Probab=31.82 E-value=53 Score=30.93 Aligned_cols=36 Identities=19% Similarity=0.297 Sum_probs=24.3
Q ss_pred cCCCCceEEEEecCCCcccCCCchHHHHHHHHHHHHHHhhChHhHHHH
Q 026229 142 IPDGDTITVYVSAADPRESACVPGDVQMAAVRRSKARAERNYEQADAL 189 (241)
Q Consensus 142 VaDGDt~TvYVdT~DprEs~~VP~eV~~Aa~~R~~ARa~rdY~~ADaL 189 (241)
|+|.||+-| ||.+.-+.+.++++++.+++-...+++
T Consensus 376 ~aD~dGvvv------------ip~~~~~~v~~~a~~~~~~e~~~~~~i 411 (430)
T PRK07028 376 IGDENGVVV------------VPKERAYEIARRALEVKKTEDRIREEI 411 (430)
T ss_pred EEcCCceEE------------EcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566666655 677777888888877777665544444
No 43
>PRK05988 formate dehydrogenase subunit gamma; Validated
Probab=31.69 E-value=32 Score=28.99 Aligned_cols=29 Identities=28% Similarity=0.509 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHhhhccchhhhhhhhhCCCC
Q 026229 89 EEAARLVIQTLSRHKKADVEGLLAFYGLPL 118 (241)
Q Consensus 89 eeAarLVi~tLk~hqkadvEGLL~FYGLP~ 118 (241)
.||.+.|+..|. .-.++|+|+.+||.+=.
T Consensus 41 ~e~~~~iA~~l~-v~~~~V~~vatFY~~f~ 69 (156)
T PRK05988 41 EDAVPVIAEALN-LSRAEVHGVITFYHDFR 69 (156)
T ss_pred HHHHHHHHHHhC-CCHHHHHHHHHHhhccC
Confidence 566666666665 45689999999997643
No 44
>PF03993 DUF349: Domain of Unknown Function (DUF349); InterPro: IPR007139 This motif is found singly or as up to five tandem repeats in a small set of bacterial proteins. There are two or three alpha-helices, and possibly a beta-strand.
Probab=31.50 E-value=53 Score=23.12 Aligned_cols=23 Identities=30% Similarity=0.624 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHHHhCCCCCCC
Q 026229 65 KAQANWYRKLSEAWREAKPPPTT 87 (241)
Q Consensus 65 KAQanWYkKLl~AwK~akPpP~T 87 (241)
+.=.+-|+.|.+.||+..|.|+.
T Consensus 53 ~~~~~~~k~l~~~Wk~iG~vpr~ 75 (77)
T PF03993_consen 53 KEAAEEIKELQQEWKEIGPVPRK 75 (77)
T ss_pred HHHHHHHHHHHHHHHHcCCCCcC
Confidence 45567799999999999999974
No 45
>PF12544 LAM_C: Lysine-2,3-aminomutase ; PDB: 2A5H_D.
Probab=30.76 E-value=23 Score=30.04 Aligned_cols=26 Identities=35% Similarity=0.471 Sum_probs=16.7
Q ss_pred ccchhhhhhhhhcccccccccCCccccccc
Q 026229 31 AATVGVSALAQDLYHFEITSQVPEGLTRHV 60 (241)
Q Consensus 31 ~at~GvsALarDL~~Fe~TsqVPEgLs~hV 60 (241)
...+||++|-.| +..|.+|++|.|+=
T Consensus 80 ~~~~Gi~~Ll~~----~~~sl~P~~~~R~~ 105 (127)
T PF12544_consen 80 YSAIGIAKLLSD----EKISLEPENLERLE 105 (127)
T ss_dssp ----HHHHHHTT----S-SEE-BTT-GGG-
T ss_pred cccHhHHHHhCC----CceEEeeCCCchhh
Confidence 357899999999 78899999999874
No 46
>PF13708 Methyltransf_27: Methyltransferase domain
Probab=30.08 E-value=1.1e+02 Score=26.31 Aligned_cols=70 Identities=23% Similarity=0.324 Sum_probs=54.2
Q ss_pred chHHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhhhccchhhhhhhhh-CCCCCCCCCCCCCCCCCCCCCCCCCCc
Q 026229 63 SKKAQANWYRKLSEAWREAKPPPTTAEEAARLVIQTLSRHKKADVEGLLAFY-GLPLPHTLIPVSTAEPTTLPAGVDARA 141 (241)
Q Consensus 63 SkKAQanWYkKLl~AwK~akPpP~T~eeAarLVi~tLk~hqkadvEGLL~FY-GLP~P~~~~~~s~~~P~s~P~GVdaKa 141 (241)
|.++|..|++.|- +..+||=|.|..-..+.+-++.....-.+|++.+| +| |...-|--|-++..|.
T Consensus 25 ~~~~r~~~~~~l~----~~~~p~ft~~NI~~t~~~l~~~r~~~~~~~v~~vF~~L---------s~~yKTN~~~~~gkki 91 (194)
T PF13708_consen 25 SAQARDEWDKQLE----EDDPPEFTEENIYSTFEQLHANRGEIFERGVIDVFRSL---------SWDYKTNSPCKFGKKI 91 (194)
T ss_pred CHHHHHHHHHHHh----cCCCCCccHHHHHHHHHHHHHCHHHHHHHHHHHHHHHh---------chhhccCCCeeeccce
Confidence 4578889999876 44999999999999999999999999999999876 44 3344555666666666
Q ss_pred cCCC
Q 026229 142 IPDG 145 (241)
Q Consensus 142 VaDG 145 (241)
|-.|
T Consensus 92 Ii~~ 95 (194)
T PF13708_consen 92 IINN 95 (194)
T ss_pred eecC
Confidence 6544
No 47
>PLN03181 glycosyltransferase; Provisional
Probab=29.86 E-value=82 Score=31.72 Aligned_cols=45 Identities=16% Similarity=0.422 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhhh--ccchhhhhhhh
Q 026229 69 NWYRKLSEAWREAKPPPTTAEEAARLVIQTLSRH--KKADVEGLLAF 113 (241)
Q Consensus 69 nWYkKLl~AwK~akPpP~T~eeAarLVi~tLk~h--qkadvEGLL~F 113 (241)
.|-.+||++|-.+-|....-+++..++..||+.. -.+|=|.-|.|
T Consensus 257 qWSl~LLDaWa~Mgp~~p~~~~~G~~l~~~l~~r~~~eaDDQsaLvy 303 (453)
T PLN03181 257 QWSLDFMDAWASMGPASPEYAKWGKILRSTFKDKLFPESDDQSALVY 303 (453)
T ss_pred HHHHHHHHHHHhcCCCCchHHHHHHHHHHHhCCCCCCCccchHHHHH
Confidence 4999999999999999999999999999999987 34555554443
No 48
>PF09810 Exo5: Exonuclease V - a 5' deoxyribonuclease; InterPro: IPR019190 Members of this family of proteins are thought to be involved in cellular morphology, though little else is known about them. Mutation of the Saccharomyces cerevisiae (Baker's yeast) gene results in a number of features that include aberrant mitochondria and fragmentation of the nucleus [].
Probab=28.23 E-value=72 Score=29.39 Aligned_cols=45 Identities=29% Similarity=0.377 Sum_probs=35.3
Q ss_pred cccCCcccccccccchHHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhhhccchhhhhhhhhCCCC
Q 026229 49 TSQVPEGLTRHVTSSKKAQANWYRKLSEAWREAKPPPTTAEEAARLVIQTLSRHKKADVEGLLAFYGLPL 118 (241)
Q Consensus 49 TsqVPEgLs~hV~SSkKAQanWYkKLl~AwK~akPpP~T~eeAarLVi~tLk~hqkadvEGLL~FYGLP~ 118 (241)
+..+|..-+ +-+-|-|+--|++||+.--. ++.|.+.|+..|||..
T Consensus 151 ~~~lPs~~~---~~~aklQlmlY~~~l~~L~~----------------------~~~~~~~~~~~~~Ld~ 195 (322)
T PF09810_consen 151 SRSLPSQSQ---VRSAKLQLMLYRRFLDDLAS----------------------GKFDYEKLFERYGLDP 195 (322)
T ss_pred cCCCCchhh---hhhhHHHHHHHHHHHHHHhc----------------------CCcCHHHHHHHcCCCC
Confidence 356887322 45678899999999986544 8899999999999984
No 49
>PF12860 PAS_7: PAS fold
Probab=28.22 E-value=1.9e+02 Score=21.19 Aligned_cols=20 Identities=25% Similarity=0.629 Sum_probs=17.4
Q ss_pred CCCCccCCCCceEEEEecCC
Q 026229 137 VDARAIPDGDTITVYVSAAD 156 (241)
Q Consensus 137 VdaKaVaDGDt~TvYVdT~D 156 (241)
|......||..|.+|.|-++
T Consensus 90 ~~~~~~~~Gg~v~~~~DVT~ 109 (115)
T PF12860_consen 90 VRAQPLPDGGFVLTFTDVTE 109 (115)
T ss_pred EEeEECCCCCEEEEEEeCCH
Confidence 77888899999999999655
No 50
>cd07596 BAR_SNX The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=27.68 E-value=56 Score=26.34 Aligned_cols=19 Identities=32% Similarity=0.693 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHHHhCCC
Q 026229 65 KAQANWYRKLSEAWREAKP 83 (241)
Q Consensus 65 KAQanWYkKLl~AwK~akP 83 (241)
..|..||++.++.|.+..|
T Consensus 199 ~~qi~~~~~~~~~W~~~~~ 217 (218)
T cd07596 199 RLQVQYAEKIAEAWESLLP 217 (218)
T ss_pred HHHHHHHHHHHHHHHhhCC
Confidence 4699999999999998876
No 51
>COG2914 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.42 E-value=88 Score=25.75 Aligned_cols=19 Identities=42% Similarity=0.889 Sum_probs=16.3
Q ss_pred cCCCCceEEEEe-cCCCccc
Q 026229 142 IPDGDTITVYVS-AADPRES 160 (241)
Q Consensus 142 VaDGDt~TvYVd-T~DprEs 160 (241)
+-|||-|-+|=. .+||-|.
T Consensus 65 l~dgDRVEIyRPLlaDPKE~ 84 (99)
T COG2914 65 LHDGDRVEIYRPLLADPKEA 84 (99)
T ss_pred ccCCCEEEEecccccChHHH
Confidence 789999999999 9997543
No 52
>cd08317 Death_ank Death domain associated with Ankyrins. Death Domain (DD) associated with Ankyrins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. Ankyrins function as adaptor proteins and they interact, through ANK repeats, with structurally diverse membrane proteins, including ion channels/pumps, calcium release channels, and cell adhesion molecules. They play critical roles in the proper expression and membrane localization of these proteins. In mammals, this family includes ankyrin-R for restricted (or ANK1), ankyrin-B for broadly expressed (or ANK2) and ankyrin-G for general or giant (or ANK3). They are expressed in different combinations in many tissues and play non-overlapping functions. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-associati
Probab=26.29 E-value=84 Score=23.34 Aligned_cols=33 Identities=15% Similarity=0.311 Sum_probs=26.5
Q ss_pred HHHHHHHHhCCCCCCCHHHHHHHHHHHHhhhccchhh
Q 026229 72 RKLSEAWREAKPPPTTAEEAARLVIQTLSRHKKADVE 108 (241)
Q Consensus 72 kKLl~AwK~akPpP~T~eeAarLVi~tLk~hqkadvE 108 (241)
..||..|++-...-.|.+ -++++|+.+.+.|+=
T Consensus 48 ~~mL~~W~~r~g~~at~~----~L~~AL~~i~r~Di~ 80 (84)
T cd08317 48 QAMLKLWLEREGKKATGN----SLEKALKKIGRDDIV 80 (84)
T ss_pred HHHHHHHHHhcCCcchHH----HHHHHHHHcChHHHH
Confidence 578999999887766654 588999999988873
No 53
>TIGR01675 plant-AP plant acid phosphatase. This model explicitly excludes the VSPs which lack the nucleophilc aspartate. The possibility exists, however, that some members of this family may, while containing all of the conserved HAD-superfamily catalytic residues, lack activity and have a function related to the function of the VSPs rather than the acid phosphatases.
Probab=25.89 E-value=56 Score=29.42 Aligned_cols=29 Identities=28% Similarity=0.529 Sum_probs=23.7
Q ss_pred HHHHHHHHccceeeecCCcccccccCCCc
Q 026229 188 ALHQKIINAGYRLAIHLGDKSSKQRGSSS 216 (241)
Q Consensus 188 aLqk~I~dAGYRvi~~~g~~~~~~~~~~~ 216 (241)
+..+.|++.|||++-+.||-.|.-.|...
T Consensus 186 ~~R~~l~~~GYrIv~~iGDq~sDl~G~~~ 214 (229)
T TIGR01675 186 EVRKSLMEEGYRIWGNIGDQWSDLLGSPP 214 (229)
T ss_pred HHHHHHHhCCceEEEEECCChHHhcCCCc
Confidence 45567888999999999999988877543
No 54
>PF07120 DUF1376: Protein of unknown function (DUF1376); InterPro: IPR010781 This entry is represented by Bacteriophage PBC5 (Sinorhizobium phage PBC5), Orf49. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several hypothetical bacterial proteins of around 95 residues in length. The function of this family is unknown.
Probab=25.70 E-value=1.2e+02 Score=22.81 Aligned_cols=49 Identities=18% Similarity=0.284 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHHH-HHhCCCCCCCHHHHHHHHHHHHhhhccchhhhhhhhh
Q 026229 65 KAQANWYRKLSEA-WREAKPPPTTAEEAARLVIQTLSRHKKADVEGLLAFY 114 (241)
Q Consensus 65 KAQanWYkKLl~A-wK~akPpP~T~eeAarLVi~tLk~hqkadvEGLL~FY 114 (241)
-.|-..|..|+.. |+..+|.|-.....+|++-.+.+.=++ =++.||+|.
T Consensus 19 ~~E~gaY~~Ll~~~~~~~~plp~d~~~Lar~~~~s~~~~~~-a~~~ll~~f 68 (88)
T PF07120_consen 19 AEEHGAYMRLLDLYYDTEGPLPDDDKRLARICGCSTKEWRK-ALDFLLREF 68 (88)
T ss_pred hHHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHCcCHHHHHH-HHHHHHHhC
Confidence 3588999998865 677999999999999988776665433 367777765
No 55
>PRK15466 carboxysome structural protein EutK; Provisional
Probab=25.49 E-value=78 Score=28.01 Aligned_cols=60 Identities=22% Similarity=0.393 Sum_probs=41.6
Q ss_pred cccccccchHHHHHHHHHHHHHHH--------hCCCCCCCHHHHHHHHHHHHhhhccchhhhhhhhhCCCC
Q 026229 56 LTRHVTSSKKAQANWYRKLSEAWR--------EAKPPPTTAEEAARLVIQTLSRHKKADVEGLLAFYGLPL 118 (241)
Q Consensus 56 Ls~hV~SSkKAQanWYkKLl~AwK--------~akPpP~T~eeAarLVi~tLk~hqkadvEGLL~FYGLP~ 118 (241)
.+.||..+---+.-++ +..++ +..+||.++|-+-.|++.--.-.|..-.--+-+.||+|+
T Consensus 71 Vss~VIprP~ed~~~~---i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 138 (166)
T PRK15466 71 ISRKEIGRPDDDTQWL---VTGFNRQPKQPVKEPDAPVIVAESADELLALLTSVRQGMTAGEVAAHFGWPL 138 (166)
T ss_pred EEEEEeCCCCHHHHHH---HhccCCCCCCcccCCCCCCCChhhHHHHHHHHHHHHccccHHHHHHHhCCcH
Confidence 4566666666666544 55554 445788899887777766555558888888888999987
No 56
>COG4669 EscJ Type III secretory pathway, lipoprotein EscJ [Intracellular trafficking and secretion]
Probab=25.23 E-value=72 Score=29.79 Aligned_cols=61 Identities=26% Similarity=0.393 Sum_probs=43.9
Q ss_pred CCCCCccCCCCceE-EEEecCC-------------CcccCCCchHHHH---HHHHHHHHHHhhChHhHHHHHHHHHHc
Q 026229 136 GVDARAIPDGDTIT-VYVSAAD-------------PRESACVPGDVQM---AAVRRSKARAERNYEQADALHQKIINA 196 (241)
Q Consensus 136 GVdaKaVaDGDt~T-vYVdT~D-------------prEs~~VP~eV~~---Aa~~R~~ARa~rdY~~ADaLqk~I~dA 196 (241)
||+|.-++|+||-+ ++|+-+| ||++..==.++.- .+.-.++-|+|-+|.+...|-..|.+-
T Consensus 44 gI~A~K~~~~~g~~~l~Ve~~~fa~Av~iL~~~GlPr~~f~~l~d~Fp~dgLVsSP~eEkaR~~~~~eQ~le~tLs~m 121 (246)
T COG4669 44 GINAEKKADKDGGTSLLVEESDFAEAVEILNQNGLPRKKFTTLGDIFPKDGLVSSPTEEKARLNYAKEQQLEQTLSKM 121 (246)
T ss_pred CCcceeeccCCCceEEEEcHHHHHHHHHHHHhcCCCCCCCCcHHHhCCcccccCCcHHHHHHHHHHHHHHHHHHHHhc
Confidence 59999999999876 9999776 6666521112111 122367788999999999999999764
No 57
>PF13279 4HBT_2: Thioesterase-like superfamily; PDB: 2W3X_E 3CK1_A 2GF6_C 2NUJ_A 2HLJ_A 2XFL_B 2XEM_B 2OIW_B 2HX5_A 2FUJ_A ....
Probab=24.86 E-value=38 Score=25.06 Aligned_cols=27 Identities=30% Similarity=0.516 Sum_probs=20.1
Q ss_pred cCCCCceEEEEecCCCcccCCCchHHHHH
Q 026229 142 IPDGDTITVYVSAADPRESACVPGDVQMA 170 (241)
Q Consensus 142 VaDGDt~TvYVdT~DprEs~~VP~eV~~A 170 (241)
++.|.+..|+||... | +..+|.++.++
T Consensus 94 ~a~~~~~~v~~d~~~-r-~~~~P~~~~~~ 120 (121)
T PF13279_consen 94 AATGRTVMVFVDYKT-R-SVPIPDELREA 120 (121)
T ss_dssp EEEEEEEEEEEETTT-C-E-B--HHHHHH
T ss_pred EEEEEEEEEEEeCCC-C-cCCCCHHHHhc
Confidence 788889999999777 5 89999999664
No 58
>PRK12764 hypothetical protein; Provisional
Probab=24.69 E-value=87 Score=30.98 Aligned_cols=35 Identities=17% Similarity=0.245 Sum_probs=24.4
Q ss_pred cCCCCceEEEEecCCCcccCCCchHHHHHHHHHHHHHHhhChHhHHH
Q 026229 142 IPDGDTITVYVSAADPRESACVPGDVQMAAVRRSKARAERNYEQADA 188 (241)
Q Consensus 142 VaDGDt~TvYVdT~DprEs~~VP~eV~~Aa~~R~~ARa~rdY~~ADa 188 (241)
|+|.|||-| ||++.-+.++++++++.+++-...++
T Consensus 434 vaD~dGVvv------------IP~~~aeeVl~~a~~~~~~E~~~~~~ 468 (500)
T PRK12764 434 VGDDDGVVV------------IPPALAEEVADDAIAQEHEEAFIAER 468 (500)
T ss_pred EEcCCcEEE------------EcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566666654 88998899998888877665444443
No 59
>PF01257 2Fe-2S_thioredx: Thioredoxin-like [2Fe-2S] ferredoxin; InterPro: IPR002023 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. Among the many polypeptide subunits that make up complex I, there is one with a molecular weight of 24 kDa (in mammals), which is a component of the iron-sulphur (IP) fragment of the enzyme. It seems to bind a 2Fe-2S iron-sulphur cluster. The 24 kDa subunit is nuclear encoded, as a precursor form with a transit peptide in mammals and in Neurospora crassa. There is a highly conserved region located in the central section of this subunit that contains two conserved cysteines, that are probably involved in the binding of the 2Fe-2S centre. The 24 kDa subunit is highly similar to [, ]: Subunit E of Escherichia coli NADH-ubiquinone oxidoreductase (gene nuoE) Subunit NQO2 of Paracoccus denitrificans NADH-ubiquinone oxidoreductase ; GO: 0016491 oxidoreductase activity, 0051287 NAD binding, 0055114 oxidation-reduction process; PDB: 1M2D_A 1M2A_B 1F37_B 1M2B_B 2FUG_B 3M9S_B 3IAM_B 3IAS_K 2YBB_2 3I9V_B ....
Probab=24.61 E-value=68 Score=26.24 Aligned_cols=30 Identities=30% Similarity=0.418 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHhhhccchhhhhhhhhCCCC
Q 026229 88 AEEAARLVIQTLSRHKKADVEGLLAFYGLPL 118 (241)
Q Consensus 88 ~eeAarLVi~tLk~hqkadvEGLL~FYGLP~ 118 (241)
|+||.+.|+..|. ...++|.|+.+||.+=.
T Consensus 30 ~~~~~~~iA~~l~-i~~~~v~~v~tFY~~f~ 59 (145)
T PF01257_consen 30 PEEALEEIAEALG-IPPAEVYGVATFYSMFR 59 (145)
T ss_dssp -HHHHHHHHHHHT-S-HHHHHHHHHHSSSS-
T ss_pred CHHHHHHHHHHHC-CCHHHHHHHHHHHHHcc
Confidence 5677788887774 57899999999997644
No 60
>cd04909 ACT_PDH-BS C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH). The C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate, found in Bacillus subtilis (BS) and other Firmicutes, Deinococci, and Bacteroidetes. PDH is the first enzyme in the aromatic amino acid pathway specific for the biosynthesis of tyrosine. This enzyme is feedback-inhibited by tyrosine in B. subtilis and other microorganisms. Both phenylalanine and tryptophan have been shown to be inhibitors of this activity in B. subtilis. Bifunctional chorismate mutase-PDH (TyrA) enzymes such as those seen in Escherichia coli do not contain an ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=24.56 E-value=69 Score=21.75 Aligned_cols=15 Identities=20% Similarity=0.470 Sum_probs=11.9
Q ss_pred HHHHHHHHHHcccee
Q 026229 186 ADALHQKIINAGYRL 200 (241)
Q Consensus 186 ADaLqk~I~dAGYRv 200 (241)
.+.+.+.|.++||+|
T Consensus 55 ~~~~~~~L~~~G~~v 69 (69)
T cd04909 55 RERAKEILKEAGYEV 69 (69)
T ss_pred HHHHHHHHHHcCCcC
Confidence 457788899999975
No 61
>cd04883 ACT_AcuB C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. This CD includes the C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. AcuB is putatively involved in the anaerobic catabolism of acetoin, and related proteins. Studies report the induction of AcuB by nitrate respiration and also by fermentation. Since acetoin can be secreted and later serve as a source of carbon, it has been proposed that, during anaerobic growth when other carbon sources are exhausted, the induction of the AcuB protein results in acetoin catabolism. AcuB-like proteins have two N-terminal tandem CBS domains and a single C-terminal ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=24.49 E-value=68 Score=21.72 Aligned_cols=14 Identities=21% Similarity=0.515 Sum_probs=11.1
Q ss_pred HHHHHHHHccceee
Q 026229 188 ALHQKIINAGYRLA 201 (241)
Q Consensus 188 aLqk~I~dAGYRvi 201 (241)
.+.+.|.++||+++
T Consensus 56 ~~~~~L~~~G~~v~ 69 (72)
T cd04883 56 PIIEDLRRAGYEVL 69 (72)
T ss_pred HHHHHHHHCCCeee
Confidence 56677888999886
No 62
>PTZ00458 acyl CoA binding protein; Provisional
Probab=24.17 E-value=41 Score=26.44 Aligned_cols=28 Identities=25% Similarity=0.299 Sum_probs=19.4
Q ss_pred HHHHHHHHHHhhhccchhhhhhhhhCCCC
Q 026229 90 EAARLVIQTLSRHKKADVEGLLAFYGLPL 118 (241)
Q Consensus 90 eAarLVi~tLk~hqkadvEGLL~FYGLP~ 118 (241)
+|... +..|....+.+-+-+|.||||=-
T Consensus 7 ~A~~~-v~~~~~~~~~s~d~~L~lYalyK 34 (90)
T PTZ00458 7 ECVSF-INSLPKTVNLSVEIKLDLYKYYK 34 (90)
T ss_pred HHHHH-HHhCCCCCCCCHHHHHHHHHHHh
Confidence 34444 44555556788999999999854
No 63
>cd00781 ketosteroid_isomerase ketosteroid isomerase: Many biological reactions proceed by enzymatic cleavage of a C-H bond adjacent to carbonyl or a carboxyl group, leading to an enol or a enolate intermediate that is subsequently re-protonated at the same or an adjacent carbon. Ketosteroid isomerases are important members of this class of enzymes which are the most proficient of all enzymes known and have served as a paradigm for enzymatic enolizations since its discovery in 1954. This CD includes members of this class that calalyze the isomerization of various beta,gamma-unsaturated isomers at nearly a diffusion-controlled rate. These enzymes are widely distributed in bacteria.
Probab=24.12 E-value=74 Score=23.36 Aligned_cols=29 Identities=24% Similarity=0.395 Sum_probs=23.3
Q ss_pred CHHHHHHHHHHHHhhhccchhhhhhhhhC
Q 026229 87 TAEEAARLVIQTLSRHKKADVEGLLAFYG 115 (241)
Q Consensus 87 T~eeAarLVi~tLk~hqkadvEGLL~FYG 115 (241)
||++...||.+-+.-..+-|+++|+++|-
T Consensus 1 ~~~~~~~~v~~~~~a~~~~D~~~~~~l~a 29 (122)
T cd00781 1 TPQEMKAAVQRYVEAVNAGDPEGIVALFA 29 (122)
T ss_pred CcHHHHHHHHHHHHHHHCCCHHHHHHHcC
Confidence 57777788877777778889999998874
No 64
>PRK13843 conjugal transfer protein TraH; Provisional
Probab=23.98 E-value=53 Score=29.93 Aligned_cols=30 Identities=33% Similarity=0.526 Sum_probs=21.6
Q ss_pred CCCCCCHHHHHHHHHHHHhhhccchhhhhhhh
Q 026229 82 KPPPTTAEEAARLVIQTLSRHKKADVEGLLAF 113 (241)
Q Consensus 82 kPpP~T~eeAarLVi~tLk~hqkadvEGLL~F 113 (241)
.|.|+|++||-.+|-+-..+. .++| ||..|
T Consensus 46 ~~~P~s~~EA~~~vr~l~~~g-~v~V-Gl~Qf 75 (207)
T PRK13843 46 VPKPKTPDEAMALIRQYVGQA-VVRV-GLTQY 75 (207)
T ss_pred cCCCCCHHHHHHHHHHHHhcC-ceee-eeEEe
Confidence 366999999988877666554 7776 55554
No 65
>cd04882 ACT_Bt0572_2 C-terminal ACT domain of a novel protein composed of just two ACT domains. Included in this CD is the C-terminal ACT domain of a novel protein composed of just two ACT domains, as seen in the yet uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related proteins. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=23.81 E-value=67 Score=21.06 Aligned_cols=15 Identities=13% Similarity=0.226 Sum_probs=10.4
Q ss_pred HHHHHHHHHccceee
Q 026229 187 DALHQKIINAGYRLA 201 (241)
Q Consensus 187 DaLqk~I~dAGYRvi 201 (241)
+.+.+.|.++||+++
T Consensus 51 ~~~~~~L~~~G~~v~ 65 (65)
T cd04882 51 EKAIEVLQERGVELV 65 (65)
T ss_pred HHHHHHHHHCCceEC
Confidence 455667788888764
No 66
>KOG1467 consensus Translation initiation factor 2B, delta subunit (eIF-2Bdelta/GCD2) [Translation, ribosomal structure and biogenesis]
Probab=23.76 E-value=17 Score=37.01 Aligned_cols=52 Identities=23% Similarity=0.328 Sum_probs=26.5
Q ss_pred cCCCCceEEEEecCCCcccCCCchHHHHHHHHHHHHH-----HhhChHhHHHHHHHHHHcccee
Q 026229 142 IPDGDTITVYVSAADPRESACVPGDVQMAAVRRSKAR-----AERNYEQADALHQKIINAGYRL 200 (241)
Q Consensus 142 VaDGDt~TvYVdT~DprEs~~VP~eV~~Aa~~R~~AR-----a~rdY~~ADaLqk~I~dAGYRv 200 (241)
|.|||.|-+|-. ++|=.+|..-|.++.+.= --|--=+--.|.+.|.++||-+
T Consensus 357 I~dgdviltyg~-------s~vV~~ill~A~~~~k~frVvVVDSRP~~EG~~~lr~Lv~~Ginc 413 (556)
T KOG1467|consen 357 IQDGDVLLTYGS-------SSVVNMILLEAKELGKKFRVVVVDSRPNLEGRKLLRRLVDRGINC 413 (556)
T ss_pred hhcCCEEEEecc-------hHHHHHHHHHHHHhCcceEEEEEeCCCCcchHHHHHHHHHcCCCe
Confidence 568888888843 333333333333221110 0011224566788888888654
No 67
>cd01670 Death Death Domain: a protein-protein interaction domain. Death Domains (DDs) are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. Structural analysis of DD-DD complexes show that the domains interact with each other in many different ways. DD-containing proteins serve as adaptors in signaling pathways and they can recruit other proteins into signaling complexes. In mammals, they are prominent components of the programmed cell death (apoptosis) pathway and are found in a number of other signaling pathways. In invertebrates, they are involved in transcriptional regulation of zygotic patterning genes in insect embryogenesis, and are components of the ToII/NF-kappaB pathway, a conserved innate immune pathway in a
Probab=23.17 E-value=1.2e+02 Score=21.26 Aligned_cols=34 Identities=21% Similarity=0.319 Sum_probs=25.2
Q ss_pred HHHHHHHHhCCCCCCCHHHHHHHHHHHHhhhcc-chhhh
Q 026229 72 RKLSEAWREAKPPPTTAEEAARLVIQTLSRHKK-ADVEG 109 (241)
Q Consensus 72 kKLl~AwK~akPpP~T~eeAarLVi~tLk~hqk-advEG 109 (241)
.+||..|++..+...|.++ ++.+|+...+ .+++-
T Consensus 42 ~~mL~~W~~~~~~~at~~~----L~~aL~~~~~~~~a~~ 76 (79)
T cd01670 42 YQLLLKWEEREGDNATVGN----LIEALREIGRRDDAAK 76 (79)
T ss_pred HHHHHHHHhccCcCcHHHH----HHHHHHHcCHHHHHHH
Confidence 6899999999987666555 6778887766 55543
No 68
>PF14478 DUF4430: Domain of unknown function (DUF4430); PDB: 3U7Z_B 2BB5_A.
Probab=22.82 E-value=41 Score=24.04 Aligned_cols=18 Identities=39% Similarity=0.647 Sum_probs=10.9
Q ss_pred CCCCCCCccCCCCceEEE
Q 026229 134 PAGVDARAIPDGDTITVY 151 (241)
Q Consensus 134 P~GVdaKaVaDGDt~TvY 151 (241)
+.|++...|.|||.|+-|
T Consensus 51 ~~ga~~~~l~~GD~i~~~ 68 (68)
T PF14478_consen 51 NVGAGSYKLKDGDKITWY 68 (68)
T ss_dssp SS-CCC-B--TTEEEEE-
T ss_pred hcCcceeEeCCCCEEEeC
Confidence 347999999999999864
No 69
>TIGR02799 thio_ybgC tol-pal system-associated acyl-CoA thioesterase. The tol-pal system consists of five critical genes. Inner membrane proteins TolQ and TolR convert protomotive force to energy that is transduced through TolA to an outer membrane complex of TolB and Pal. The system is known to be required to maintain outer membrane integrity. In a system with several homologous parts, ExbB and ExbD transduces energy through TonB to a variety of outer membrane proteins, many of which are siderophore receptors. The tol-pal system therefore may also be involved in transport. This family consists of a protein nearly always found in operons with the genes of the tol-pal system. The significance of this thioesterase to the tol-pal system is unclear, but either of two observations may be relevant. First, Pal, or peptidoglycan-associated lipoprotein, has a conserved N-terminal cleavage and acylation that makes it a lipoprotein. Second, the tol-pal system is implicated not only in the import o
Probab=22.53 E-value=48 Score=24.61 Aligned_cols=33 Identities=15% Similarity=0.226 Sum_probs=25.3
Q ss_pred CCCCccCCCCceEEEEecCCCcccCCCchHHHHH
Q 026229 137 VDARAIPDGDTITVYVSAADPRESACVPGDVQMA 170 (241)
Q Consensus 137 VdaKaVaDGDt~TvYVdT~DprEs~~VP~eV~~A 170 (241)
.+...++.|.++.|+||.+. +.+..+|.++.+|
T Consensus 94 ~~g~~~a~~~~~~v~vd~~~-~~~~~~p~~~~~~ 126 (126)
T TIGR02799 94 RGDTLLCEATVEVACVDASD-MRPRRLPAELRAA 126 (126)
T ss_pred eCCEEEEEEEEEEEEEECCC-CcCcCCCHHHhhC
Confidence 34567888999999999754 5678899998543
No 70
>COG0848 ExbD Biopolymer transport protein [Intracellular trafficking and secretion]
Probab=22.10 E-value=4.4e+02 Score=21.83 Aligned_cols=27 Identities=15% Similarity=0.230 Sum_probs=22.4
Q ss_pred hChHhHHHHHHHHHHccceeeecCCcc
Q 026229 181 RNYEQADALHQKIINAGYRLAIHLGDK 207 (241)
Q Consensus 181 rdY~~ADaLqk~I~dAGYRvi~~~g~~ 207 (241)
-+|++.-.....|.++||+-|-....+
T Consensus 108 v~y~~vv~vm~~l~~aG~~~v~L~t~~ 134 (137)
T COG0848 108 VKYGTVVKVMDLLKEAGFKKVGLVTEK 134 (137)
T ss_pred CCHHHHHHHHHHHHHcCCceEEEEecC
Confidence 469999999999999999988765544
No 71
>PF06439 DUF1080: Domain of Unknown Function (DUF1080); InterPro: IPR010496 This is a family of proteins of unknown function.; PDB: 3IMM_B 3NMB_A 3S5Q_A 3OSD_A 3HBK_A 3H3L_A 3U1X_A.
Probab=21.45 E-value=39 Score=26.70 Aligned_cols=26 Identities=31% Similarity=0.592 Sum_probs=17.3
Q ss_pred CCCCCCCC--CCCCccCCCCceEEEEec
Q 026229 129 EPTTLPAG--VDARAIPDGDTITVYVSA 154 (241)
Q Consensus 129 ~P~s~P~G--VdaKaVaDGDt~TvYVdT 154 (241)
.+..+|.| -..+.++.||.|+|||+-
T Consensus 120 ~~~~~~~~~W~~~~I~~~g~~i~v~vnG 147 (185)
T PF06439_consen 120 VNVAIPPGEWNTVRIVVKGNRITVWVNG 147 (185)
T ss_dssp S--S--TTSEEEEEEEEETTEEEEEETT
T ss_pred ccccCCCCceEEEEEEEECCEEEEEECC
Confidence 34445555 667788899999999983
No 72
>PRK00539 atpC F0F1 ATP synthase subunit epsilon; Validated
Probab=21.24 E-value=2.4e+02 Score=23.17 Aligned_cols=36 Identities=3% Similarity=-0.029 Sum_probs=22.3
Q ss_pred CCCCceEEEEecCCCcccCCCchHHHHHHHHHHHHHHh
Q 026229 143 PDGDTITVYVSAADPRESACVPGDVQMAAVRRSKARAE 180 (241)
Q Consensus 143 aDGDt~TvYVdT~DprEs~~VP~eV~~Aa~~R~~ARa~ 180 (241)
.++|.+|+.++++.+.|.-+ .+--+.+.+|++++-+
T Consensus 71 v~~n~v~Ilad~ae~~eeID--~~~a~~a~erAe~~L~ 106 (133)
T PRK00539 71 IKKTEAKIFTENFVFADELD--YDETLKRKKELERKIK 106 (133)
T ss_pred EECCEEEEEECeEEchhhCC--HHHHHHHHHHHHHHHH
Confidence 35578889998887666553 3333455556666554
No 73
>cd04886 ACT_ThrD-II-like C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. This CD includes the C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. The Escherichia coli tdcB gene product, ThrD-II, anaerobically catalyzes the pyridoxal phosphate-dependent dehydration of L-threonine and L-serine to ammonia and to alpha-ketobutyrate and pyruvate, respectively. Tetrameric ThrD-II is subject to allosteric activation by AMP, inhibition by alpha-keto acids, and catabolite inactivation by several metabolites of glycolysis and the citric acid cycle. Also included in this CD are N-terminal ACT domains present in smaller (~170 a.a.) archaeal proteins of unknown function. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=21.23 E-value=1.2e+02 Score=19.74 Aligned_cols=18 Identities=22% Similarity=0.477 Sum_probs=13.6
Q ss_pred HhHHHHHHHHHHccceee
Q 026229 184 EQADALHQKIINAGYRLA 201 (241)
Q Consensus 184 ~~ADaLqk~I~dAGYRvi 201 (241)
+..+.+.+.|...||++.
T Consensus 55 ~~l~~l~~~l~~~g~~~~ 72 (73)
T cd04886 55 EHIEEIIAALREAGYDVR 72 (73)
T ss_pred HHHHHHHHHHHHcCCEEe
Confidence 445677888888999874
No 74
>PRK01254 hypothetical protein; Provisional
Probab=21.08 E-value=2.2e+02 Score=30.18 Aligned_cols=129 Identities=18% Similarity=0.272 Sum_probs=80.4
Q ss_pred CcccccccccchHHH----HHHHHHHHHHHHhCCC-------------CCCCHHHHHHHHHHHHhhhccchhhhhhhhhC
Q 026229 53 PEGLTRHVTSSKKAQ----ANWYRKLSEAWREAKP-------------PPTTAEEAARLVIQTLSRHKKADVEGLLAFYG 115 (241)
Q Consensus 53 PEgLs~hV~SSkKAQ----anWYkKLl~AwK~akP-------------pP~T~eeAarLVi~tLk~hqkadvEGLL~FYG 115 (241)
||-.+..|...++-- ..-|+++++..++.-| |=.|-||...|+.- |+ ..+.++|.+=-||
T Consensus 520 pEH~Sd~VLk~M~Kp~~~~~e~F~e~f~rirk~~gk~q~LipyfIvGhPGeTeeDf~eLaef-Lk-el~f~~eQVQ~FT- 596 (707)
T PRK01254 520 PEHTEEGPLSKMMKPGMGSYDRFKELFDKYSKEAGKEQYLIPYFISAHPGTTDEDMVNLALW-LK-KNRFRLDQVQNFY- 596 (707)
T ss_pred cccCCHHHHHHhCCCCcccHHHHHHHHHHHHHHCCCCeEEEEeEEEECCCCCHHHHHHHHHH-HH-HhCCCcceeeeee-
Confidence 666777777665432 4678999888887766 66777787777644 43 3678888888888
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCccCCCCceEEEEecCCCc-------ccCCCchHHHHHHHHHHHHHHhhChHhHHH
Q 026229 116 LPLPHTLIPVSTAEPTTLPAGVDARAIPDGDTITVYVSAADPR-------ESACVPGDVQMAAVRRSKARAERNYEQADA 188 (241)
Q Consensus 116 LP~P~~~~~~s~~~P~s~P~GVdaKaVaDGDt~TvYVdT~Dpr-------Es~~VP~eV~~Aa~~R~~ARa~rdY~~ADa 188 (241)
|.|-+... ..|-.-.||. |.--||+.-++-..||+=-+- ++-+.-+.
T Consensus 597 -PtP~t~~T------------------------~MYytg~dP~~~~~~~~~~v~v~k~~~ek~~qka~l~~-~~p~n~~~ 650 (707)
T PRK01254 597 -PSPMANAT------------------------TMYYTGKNPLKKVKYKSEDVVVPKGDRQRRLHKALLRY-HDPANWPL 650 (707)
T ss_pred -cCCCcCch------------------------HHHhccCCcccccccCCCeeeccCCHHHHHHHHHHhcc-CCccchHH
Confidence 55533311 1233344443 444455665555555543332 33334466
Q ss_pred HHHHHHHccceeeecCCccccc
Q 026229 189 LHQKIINAGYRLAIHLGDKSSK 210 (241)
Q Consensus 189 Lqk~I~dAGYRvi~~~g~~~~~ 210 (241)
+.+-|..+|-+-+.+.|.+--.
T Consensus 651 ~~~al~~~gr~dlig~~~~~l~ 672 (707)
T PRK01254 651 IREALEAMGKKHLIGNRRDCLV 672 (707)
T ss_pred HHHHHHhCCccccccCCcccCC
Confidence 7888889998888877765533
No 75
>PLN03182 xyloglucan 6-xylosyltransferase; Provisional
Probab=21.04 E-value=1.4e+02 Score=29.96 Aligned_cols=137 Identities=20% Similarity=0.292 Sum_probs=79.8
Q ss_pred HHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHhhhc--cchhhhhhhhhCCCC-C----CCCCCCCCCCCCCCCCC-----
Q 026229 69 NWYRKLSEAWREAKPPPTTAEEAARLVIQTLSRHK--KADVEGLLAFYGLPL-P----HTLIPVSTAEPTTLPAG----- 136 (241)
Q Consensus 69 nWYkKLl~AwK~akPpP~T~eeAarLVi~tLk~hq--kadvEGLL~FYGLP~-P----~~~~~~s~~~P~s~P~G----- 136 (241)
.|-.+||+||--+.|.-..-++|..++..+|+..- .+|=|+-|.+-=+-. + .+-.| +.--=+|
T Consensus 256 qWSldlLDaWa~mgp~~~~~~~~g~~l~~~l~~rp~~eaDDQSAlvyLl~~~~~~w~~kv~le-----~~y~l~Gyw~~i 330 (429)
T PLN03182 256 QWSLDLLDAWAPMGPKGPIRDEAGKILTAELKGRPAFEADDQSALVYLLLTQRERWGDKVYLE-----NSYYLHGYWVGL 330 (429)
T ss_pred HHHHHHHHHHHhcCCCCchhhhHHHHHHHhhcCCCCCCcccHHHHHHHHHhcchhhccceEEe-----ecceeccccHHH
Confidence 49999999999999999999999999999998873 344444443311000 0 00000 0000012
Q ss_pred -------CCCCccCCCC----ceEEEEecCCCcccCCCchHHHHHHHHHHHHHHhhChHhHHHHHHHHHHccceeeecCC
Q 026229 137 -------VDARAIPDGD----TITVYVSAADPRESACVPGDVQMAAVRRSKARAERNYEQADALHQKIINAGYRLAIHLG 205 (241)
Q Consensus 137 -------VdaKaVaDGD----t~TvYVdT~DprEs~~VP~eV~~Aa~~R~~ARa~rdY~~ADaLqk~I~dAGYRvi~~~g 205 (241)
....-.+=|| -||=||--+-=-...+-|. +|=-.-++|-+-=|| .+.|...||+--.-+.
T Consensus 331 v~~yee~~~~~~~g~gd~rwPfvtHF~GckpC~~~~~y~~-------~~C~~~m~ra~nFaD--nQvL~~yGf~H~~l~~ 401 (429)
T PLN03182 331 VDRYEEMMEKYHPGLGDDRWPFVTHFVGCKPCGGYGDYPV-------ERCLKQMERAFNFAD--NQVLELYGFRHKSLAS 401 (429)
T ss_pred HHHHHHHHHhcCCCCCCcccceeEeeccceecCCCCCcCH-------HHHHHHHHHHhccch--HHHHHHhCccccccCc
Confidence 2223335578 7888886332222222222 222233344444455 4778889999888888
Q ss_pred cccccccCCCcccc
Q 026229 206 DKSSKQRGSSSTKV 219 (241)
Q Consensus 206 ~~~~~~~~~~~~~~ 219 (241)
.++.+-|..++...
T Consensus 402 ~~v~~~~~~~~~pl 415 (429)
T PLN03182 402 AEVKRVRNDTSNPL 415 (429)
T ss_pred cceeehhccCCCcc
Confidence 88877776665543
No 76
>PF14907 NTP_transf_5: Uncharacterised nucleotidyltransferase
Probab=20.95 E-value=2.4e+02 Score=23.58 Aligned_cols=50 Identities=14% Similarity=0.154 Sum_probs=37.2
Q ss_pred CCCchHHHHHHHH---HHHHHHhhChHhHHHHHHHHHHccceeeecCCccccc
Q 026229 161 ACVPGDVQMAAVR---RSKARAERNYEQADALHQKIINAGYRLAIHLGDKSSK 210 (241)
Q Consensus 161 ~~VP~eV~~Aa~~---R~~ARa~rdY~~ADaLqk~I~dAGYRvi~~~g~~~~~ 210 (241)
..+|.++...-.+ ++..|..+-......+.+.+.++|.+++...|--.+.
T Consensus 32 ~~~p~~~~~~l~~~~~~~~~rn~~~~~~~~~i~~~l~~~gI~~~~lKG~~l~~ 84 (249)
T PF14907_consen 32 DRPPDEVLQRLKSAYRRNALRNLRLLAELQEILAALNANGIPVILLKGAALAQ 84 (249)
T ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCEEEEchHHHHH
Confidence 3467677754444 5666666667788888899999999999998876553
No 77
>cd04885 ACT_ThrD-I Tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase). This CD includes each of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase) which catalyzes the committed step in branched chain amino acid biosynthesis in plants and microorganisms, the pyridoxal 5'-phosphate (PLP)-dependent dehydration/deamination of L-threonine (or L-serine) to 2-ketobutyrate (or pyruvate). ThrD-I is a cooperative, feedback-regulated (isoleucine and valine) allosteric enzyme that forms a tetramer and contains four pyridoxal phosphate moieties. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=20.67 E-value=92 Score=21.75 Aligned_cols=20 Identities=20% Similarity=0.411 Sum_probs=16.0
Q ss_pred ChHhHHHHHHHHHHccceee
Q 026229 182 NYEQADALHQKIINAGYRLA 201 (241)
Q Consensus 182 dY~~ADaLqk~I~dAGYRvi 201 (241)
+-...++|.+.|.++||++.
T Consensus 48 ~~~~~~~i~~~L~~~G~~~~ 67 (68)
T cd04885 48 DREDLAELKERLEALGYPYV 67 (68)
T ss_pred CHHHHHHHHHHHHHcCCCcc
Confidence 44567889999999999864
Done!