Query 023879
Match_columns 276
No_of_seqs 71 out of 73
Neff 3.2
Searched_HMMs 46136
Date Fri Mar 29 07:19:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023879.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023879hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK08097 ligB NAD-dependent DN 94.5 0.046 1E-06 56.0 4.7 49 126-174 9-70 (562)
2 PF01653 DNA_ligase_aden: NAD- 94.5 0.07 1.5E-06 50.6 5.5 27 148-174 16-43 (315)
3 cd00114 LIGANc NAD+ dependent 94.1 0.058 1.3E-06 51.0 4.0 27 148-174 12-39 (307)
4 PRK07956 ligA NAD-dependent DN 93.9 0.09 1.9E-06 54.5 5.3 27 148-174 18-45 (665)
5 smart00532 LIGANc Ligase N fam 92.3 0.15 3.2E-06 50.7 4.0 26 149-174 15-41 (441)
6 TIGR00575 dnlj DNA ligase, NAD 91.9 0.18 3.9E-06 52.2 4.2 28 147-174 6-34 (652)
7 cd00114 LIGANc NAD+ dependent 91.8 0.23 5E-06 47.0 4.5 36 95-130 3-38 (307)
8 PRK14351 ligA NAD-dependent DN 91.1 0.34 7.3E-06 50.8 5.3 27 148-174 45-72 (689)
9 PF01653 DNA_ligase_aden: NAD- 91.0 0.28 6.1E-06 46.5 4.2 37 94-130 6-42 (315)
10 smart00532 LIGANc Ligase N fam 90.8 0.3 6.5E-06 48.6 4.3 36 95-130 5-40 (441)
11 PRK08097 ligB NAD-dependent DN 89.3 0.43 9.3E-06 49.1 4.1 37 94-130 33-69 (562)
12 PRK14351 ligA NAD-dependent DN 89.2 0.42 9.2E-06 50.0 4.1 37 94-130 35-71 (689)
13 PRK07956 ligA NAD-dependent DN 88.6 0.49 1.1E-05 49.2 4.1 36 95-130 9-44 (665)
14 PRK14350 ligA NAD-dependent DN 88.4 0.62 1.3E-05 48.7 4.7 24 150-173 20-44 (669)
15 PRK14350 ligA NAD-dependent DN 86.4 0.71 1.5E-05 48.3 3.8 36 95-130 9-44 (669)
16 TIGR00575 dnlj DNA ligase, NAD 85.3 0.85 1.8E-05 47.4 3.7 27 104-130 7-33 (652)
17 COG0272 Lig NAD-dependent DNA 83.0 1.9 4.1E-05 45.5 5.1 26 150-175 22-48 (667)
18 PF09851 SHOCT: Short C-termin 74.4 4.9 0.00011 26.2 3.2 26 103-130 5-30 (31)
19 COG0272 Lig NAD-dependent DNA 72.2 4.1 9E-05 43.1 3.8 39 92-130 8-46 (667)
20 TIGR00097 HMP-P_kinase phospho 54.5 55 0.0012 29.0 7.1 57 120-184 115-172 (254)
21 PF07508 Recombinase: Recombin 52.9 12 0.00026 28.2 2.3 20 155-174 82-101 (102)
22 PF11746 DUF3303: Protein of u 51.9 7.6 0.00016 30.8 1.1 69 97-165 12-89 (91)
23 PLN02919 haloacid dehalogenase 44.7 1.9E+02 0.0042 32.0 10.6 17 166-182 167-183 (1057)
24 PRK12412 pyridoxal kinase; Rev 38.9 1.3E+02 0.0028 27.2 7.0 56 120-183 120-176 (268)
25 PF09863 DUF2090: Uncharacteri 38.5 92 0.002 30.6 6.3 65 95-159 189-264 (311)
26 PF02274 Amidinotransf: Amidin 38.2 10 0.00022 34.0 -0.2 63 119-181 197-259 (281)
27 cd07110 ALDH_F10_BADH Arabidop 37.8 1.1E+02 0.0025 29.6 6.9 69 116-184 238-333 (456)
28 cd01169 HMPP_kinase 4-amino-5- 37.4 1.8E+02 0.0038 25.1 7.4 53 123-183 119-172 (242)
29 PF05416 Peptidase_C37: Southa 36.7 12 0.00025 38.6 0.0 42 117-166 253-297 (535)
30 TIGR00777 ahpD alkylhydroperox 35.9 18 0.00039 32.6 1.1 29 147-175 76-105 (177)
31 PF02829 3H: 3H domain; Inter 35.4 86 0.0019 25.6 4.8 33 144-177 50-96 (98)
32 PF04380 BMFP: Membrane fusoge 35.4 62 0.0013 25.1 3.8 38 93-131 24-61 (79)
33 PF08278 DnaG_DnaB_bind: DNA p 34.4 79 0.0017 25.2 4.5 48 94-150 79-126 (127)
34 PRK08176 pdxK pyridoxal-pyrido 33.1 1.3E+02 0.0028 27.4 6.2 53 123-183 143-196 (281)
35 cd07114 ALDH_DhaS Uncharacteri 31.4 1.7E+02 0.0036 28.5 6.9 68 116-183 237-331 (457)
36 PRK13696 hypothetical protein; 30.5 74 0.0016 24.5 3.5 50 115-172 6-62 (62)
37 PTZ00381 aldehyde dehydrogenas 28.7 1.6E+02 0.0034 29.6 6.4 67 116-183 224-314 (493)
38 cd07120 ALDH_PsfA-ACA09737 Pse 28.1 2.1E+02 0.0045 28.2 7.0 70 116-185 236-332 (455)
39 PRK06427 bifunctional hydroxy- 28.0 2.5E+02 0.0055 24.8 7.0 54 123-184 124-179 (266)
40 cd07092 ALDH_ABALDH-YdcW Esche 27.5 2.3E+02 0.005 27.4 7.1 68 116-183 235-328 (450)
41 PRK15398 aldehyde dehydrogenas 27.5 1.5E+02 0.0032 29.6 5.9 59 116-176 247-316 (465)
42 PRK12413 phosphomethylpyrimidi 27.3 2.8E+02 0.0061 24.3 7.1 53 123-182 117-172 (253)
43 COG4443 Uncharacterized protei 27.0 44 0.00095 26.5 1.7 18 113-130 52-70 (72)
44 PF04280 Tim44: Tim44-like dom 26.6 41 0.00089 27.2 1.6 36 140-175 22-62 (147)
45 PF12207 DUF3600: Domain of un 26.1 56 0.0012 29.4 2.5 63 113-175 36-121 (162)
46 PF08976 DUF1880: Domain of un 25.7 36 0.00077 29.2 1.1 15 158-172 2-16 (118)
47 PF05120 GvpG: Gas vesicle pro 25.4 1.2E+02 0.0025 24.2 3.9 27 144-172 34-61 (79)
48 PLN00049 carboxyl-terminal pro 25.3 1.7E+02 0.0037 28.4 5.8 68 95-172 2-80 (389)
49 KOG1372 GDP-mannose 4,6 dehydr 25.1 33 0.00073 33.7 1.0 39 99-137 257-309 (376)
50 cd07105 ALDH_SaliADH Salicylal 25.0 2.6E+02 0.0056 27.1 6.9 70 116-185 219-310 (432)
51 PLN02278 succinic semialdehyde 24.2 2.6E+02 0.0057 27.9 7.0 68 116-183 278-372 (498)
52 TIGR01222 minC septum site-det 24.0 99 0.0021 27.7 3.7 15 117-131 16-30 (217)
53 PF12162 STAT1_TAZ2bind: STAT1 24.0 60 0.0013 20.8 1.6 12 160-171 10-21 (23)
54 PLN02766 coniferyl-aldehyde de 23.8 2.6E+02 0.0056 28.1 6.9 69 116-184 277-372 (501)
55 PF05193 Peptidase_M16_C: Pept 23.6 1.5E+02 0.0033 22.9 4.3 33 94-129 152-184 (184)
56 PF03965 Penicillinase_R: Peni 23.5 2E+02 0.0042 22.9 4.9 33 95-131 1-33 (115)
57 cd07143 ALDH_AldA_AN0554 Asper 23.3 2.8E+02 0.0061 27.5 7.0 68 116-183 263-357 (481)
58 cd07115 ALDH_HMSADH_HapE Pseud 23.2 3E+02 0.0065 26.8 7.0 68 116-183 235-329 (453)
59 COG2960 Uncharacterized protei 23.0 1.1E+02 0.0024 25.8 3.4 38 92-130 32-69 (103)
60 PRK14562 haloacid dehalogenase 22.7 1.3E+02 0.0029 27.0 4.3 42 120-165 58-107 (204)
61 PF13937 DUF4212: Domain of un 22.5 1.5E+02 0.0032 23.6 4.0 33 204-242 15-48 (81)
62 cd07144 ALDH_ALD2-YMR170C Sacc 22.4 3.3E+02 0.0071 26.9 7.2 68 116-183 262-357 (484)
63 PLN02428 lipoic acid synthase 22.3 1.1E+02 0.0025 30.0 4.0 29 157-185 295-323 (349)
64 cd07135 ALDH_F14-YMR110C Sacch 22.2 3E+02 0.0066 27.0 6.9 70 116-185 223-315 (436)
65 cd07078 ALDH NAD(P)+ dependent 22.2 3.2E+02 0.0069 25.9 6.9 67 117-183 215-308 (432)
66 COG2901 Fis Factor for inversi 21.9 2.7E+02 0.0058 23.3 5.4 75 86-176 18-96 (98)
67 KOG4634 Mitochondrial F1F0-ATP 20.3 1.4E+02 0.0031 25.2 3.6 32 98-129 34-69 (105)
68 cd07141 ALDH_F1AB_F2_RALDH1 NA 20.3 3.6E+02 0.0078 26.6 7.0 68 116-183 264-358 (481)
69 cd07119 ALDH_BADH-GbsA Bacillu 20.0 3.5E+02 0.0075 26.6 6.8 68 116-183 252-346 (482)
No 1
>PRK08097 ligB NAD-dependent DNA ligase LigB; Reviewed
Probab=94.52 E-value=0.046 Score=55.95 Aligned_cols=49 Identities=35% Similarity=0.467 Sum_probs=33.3
Q ss_pred HHHhhhcCC---eeEEeChhh-HH---HHH-----HHHhhhc-CCCCCCHHHHHHHHHHHHh
Q 023879 126 KEELMWEGS---SVVMLSSAE-QK---FLE-----ASMAYVA-GKPIMSDEEYDKLKQKLKM 174 (276)
Q Consensus 126 kEeL~weGS---svv~L~~~E-q~---fLE-----A~~aY~~-GkPimsDeeFD~LK~kLk~ 174 (276)
-.-|.|..| .|.+++..+ ++ .|. +-.+||. |+|+|||+|||+|..+|+.
T Consensus 9 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~L~~~l~~~~~~YY~~~~p~IsD~eYD~L~~eL~~ 70 (562)
T PRK08097 9 ISLLLWSSSAWAVCPDWSPARAQEEIAALQQQLAQWDDAYWRQGKSEVDDEVYDQLRARLTQ 70 (562)
T ss_pred HHHHHhcccccccCCCCCHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHH
Confidence 344678777 455666554 11 222 2346665 9999999999999999974
No 2
>PF01653 DNA_ligase_aden: NAD-dependent DNA ligase adenylation domain; InterPro: IPR013839 DNA ligase (polydeoxyribonucleotide synthase) is the enzyme that joins two DNA fragments by catalyzing the formation of an internucleotide ester bond between phosphate and deoxyribose. It is active during DNA replication, DNA repair and DNA recombination. There are two forms of DNA ligase: one requires ATP (6.5.1.1 from EC), the other NAD (6.5.1.2 from EC). This entry represents the N-terminal adenylation domain of NAD-dependent DNA ligases. These are proteins of about 75 to 85 Kd whose sequence is well conserved [, ]. They also show similarity to yicF, an Escherichia coli hypothetical protein of 63 Kd. Despite a complete lack of detectable sequence similarity, the fold of the central core of this adenyaltion domain shares homology with the equivalent region of ATP-dependent DNA ligases [, ].; GO: 0003911 DNA ligase (NAD+) activity; PDB: 1ZAU_A 3SGI_A 1B04_A 3JSL_A 3JSN_A 1DGS_A 1V9P_A 3PN1_A 3BAC_A 3UQ8_A ....
Probab=94.49 E-value=0.07 Score=50.55 Aligned_cols=27 Identities=48% Similarity=0.807 Sum_probs=22.2
Q ss_pred HHHHhhhc-CCCCCCHHHHHHHHHHHHh
Q 023879 148 EASMAYVA-GKPIMSDEEYDKLKQKLKM 174 (276)
Q Consensus 148 EA~~aY~~-GkPimsDeeFD~LK~kLk~ 174 (276)
++-.+||. |+|+|||+|||+|..+|+.
T Consensus 16 ~~~~~YY~~~~p~isD~eYD~l~~~L~~ 43 (315)
T PF01653_consen 16 RHNYAYYNLGEPIISDAEYDQLFRELKA 43 (315)
T ss_dssp HHHHHHHTTSSSSSSHHHHHHHHHHHHH
T ss_pred HHHHHHhcCCCCCCCHHHHHHHHHHHHH
Confidence 34557766 8999999999999999863
No 3
>cd00114 LIGANc NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction mechanism. The enzyme reacts with the cofactor to form a phosphoamide-linked AMP with the amino group of a conserved Lysine in the KXDG motif, and subsequently transfers it to the DNA substrate to yield adenylated DNA. This alignment contains members of the NAD+ dependent subfamily only.
Probab=94.06 E-value=0.058 Score=50.99 Aligned_cols=27 Identities=33% Similarity=0.641 Sum_probs=22.9
Q ss_pred HHHHhhhc-CCCCCCHHHHHHHHHHHHh
Q 023879 148 EASMAYVA-GKPIMSDEEYDKLKQKLKM 174 (276)
Q Consensus 148 EA~~aY~~-GkPimsDeeFD~LK~kLk~ 174 (276)
++-.+||. |+|+|||+|||+|..+|+.
T Consensus 12 ~~~~~YY~~~~p~IsD~eYD~L~~~L~~ 39 (307)
T cd00114 12 KHDYRYYVLDEPSVSDAEYDRLYRELRA 39 (307)
T ss_pred HHHHHHHhCCCCCCChHHHHHHHHHHHH
Confidence 34556776 9999999999999999975
No 4
>PRK07956 ligA NAD-dependent DNA ligase LigA; Validated
Probab=93.86 E-value=0.09 Score=54.55 Aligned_cols=27 Identities=37% Similarity=0.597 Sum_probs=23.4
Q ss_pred HHHHhhh-cCCCCCCHHHHHHHHHHHHh
Q 023879 148 EASMAYV-AGKPIMSDEEYDKLKQKLKM 174 (276)
Q Consensus 148 EA~~aY~-~GkPimsDeeFD~LK~kLk~ 174 (276)
++-.+|| .|+|+|||+|||+|..+|+.
T Consensus 18 ~~~~~YY~~~~p~IsD~eYD~L~~~L~~ 45 (665)
T PRK07956 18 HHAYAYYVLDAPSISDAEYDRLYRELVA 45 (665)
T ss_pred HHHHHHHhCCCCCCChHHHHHHHHHHHH
Confidence 3455777 99999999999999999984
No 5
>smart00532 LIGANc Ligase N family.
Probab=92.32 E-value=0.15 Score=50.69 Aligned_cols=26 Identities=42% Similarity=0.714 Sum_probs=22.2
Q ss_pred HHHhhhc-CCCCCCHHHHHHHHHHHHh
Q 023879 149 ASMAYVA-GKPIMSDEEYDKLKQKLKM 174 (276)
Q Consensus 149 A~~aY~~-GkPimsDeeFD~LK~kLk~ 174 (276)
+-.+||. |+|+|||+|||+|..+|+.
T Consensus 15 ~~~~YY~~~~p~IsD~eYD~L~~eL~~ 41 (441)
T smart00532 15 HDYRYYVLDAPIISDAEYDRLMRELKE 41 (441)
T ss_pred HHHHHHhcCCCCCChHHHHHHHHHHHH
Confidence 3556775 9999999999999999974
No 6
>TIGR00575 dnlj DNA ligase, NAD-dependent. The member of this family from Treponema pallidum differs in having three rather than just one copy of the BRCT (BRCA1 C Terminus) domain (pfam00533) at the C-terminus. It is included in the seed.
Probab=91.93 E-value=0.18 Score=52.23 Aligned_cols=28 Identities=32% Similarity=0.564 Sum_probs=23.8
Q ss_pred HHHHHhhhc-CCCCCCHHHHHHHHHHHHh
Q 023879 147 LEASMAYVA-GKPIMSDEEYDKLKQKLKM 174 (276)
Q Consensus 147 LEA~~aY~~-GkPimsDeeFD~LK~kLk~ 174 (276)
-++-.+||. |+|+|||+|||+|.++|+.
T Consensus 6 ~~~~~~YY~~~~p~IsD~eYD~L~~~L~~ 34 (652)
T TIGR00575 6 RHHDYRYYVLDEPSISDAEYDRLYRELQE 34 (652)
T ss_pred HHHHHHHHhCCCCCCChHHHHHHHHHHHH
Confidence 345667876 9999999999999999985
No 7
>cd00114 LIGANc NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction mechanism. The enzyme reacts with the cofactor to form a phosphoamide-linked AMP with the amino group of a conserved Lysine in the KXDG motif, and subsequently transfers it to the DNA substrate to yield adenylated DNA. This alignment contains members of the NAD+ dependent subfamily only.
Probab=91.80 E-value=0.23 Score=47.01 Aligned_cols=36 Identities=25% Similarity=0.382 Sum_probs=28.6
Q ss_pred hhHHHHHHHHHHHHhhhcCccccChHHHHhHHHHhh
Q 023879 95 LGELEQEFLQALQAFYYEGKAVMSNEEFDNLKEELM 130 (276)
Q Consensus 95 lge~E~~fl~Al~sfY~~gk~~~sdeEfd~LkEeL~ 130 (276)
+.++...--.+-..||..|.|++||+|||.|.++|.
T Consensus 3 i~~L~~~i~~~~~~YY~~~~p~IsD~eYD~L~~~L~ 38 (307)
T cd00114 3 IAELRELLNKHDYRYYVLDEPSVSDAEYDRLYRELR 38 (307)
T ss_pred HHHHHHHHHHHHHHHHhCCCCCCChHHHHHHHHHHH
Confidence 344555555666778888999999999999999985
No 8
>PRK14351 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=91.15 E-value=0.34 Score=50.76 Aligned_cols=27 Identities=30% Similarity=0.600 Sum_probs=22.7
Q ss_pred HHHHhhh-cCCCCCCHHHHHHHHHHHHh
Q 023879 148 EASMAYV-AGKPIMSDEEYDKLKQKLKM 174 (276)
Q Consensus 148 EA~~aY~-~GkPimsDeeFD~LK~kLk~ 174 (276)
++-.+|| .|+|+|||++||+|.++|+.
T Consensus 45 ~~~~~YY~~~~p~IsD~eYD~L~~eL~~ 72 (689)
T PRK14351 45 EHDHRYYVEADPVIADRAYDALFARLQA 72 (689)
T ss_pred HHHHHHHhCCCCCCChHHHHHHHHHHHH
Confidence 4455777 68999999999999999984
No 9
>PF01653 DNA_ligase_aden: NAD-dependent DNA ligase adenylation domain; InterPro: IPR013839 DNA ligase (polydeoxyribonucleotide synthase) is the enzyme that joins two DNA fragments by catalyzing the formation of an internucleotide ester bond between phosphate and deoxyribose. It is active during DNA replication, DNA repair and DNA recombination. There are two forms of DNA ligase: one requires ATP (6.5.1.1 from EC), the other NAD (6.5.1.2 from EC). This entry represents the N-terminal adenylation domain of NAD-dependent DNA ligases. These are proteins of about 75 to 85 Kd whose sequence is well conserved [, ]. They also show similarity to yicF, an Escherichia coli hypothetical protein of 63 Kd. Despite a complete lack of detectable sequence similarity, the fold of the central core of this adenyaltion domain shares homology with the equivalent region of ATP-dependent DNA ligases [, ].; GO: 0003911 DNA ligase (NAD+) activity; PDB: 1ZAU_A 3SGI_A 1B04_A 3JSL_A 3JSN_A 1DGS_A 1V9P_A 3PN1_A 3BAC_A 3UQ8_A ....
Probab=91.02 E-value=0.28 Score=46.54 Aligned_cols=37 Identities=32% Similarity=0.537 Sum_probs=29.6
Q ss_pred chhHHHHHHHHHHHHhhhcCccccChHHHHhHHHHhh
Q 023879 94 SLGELEQEFLQALQAFYYEGKAVMSNEEFDNLKEELM 130 (276)
Q Consensus 94 slge~E~~fl~Al~sfY~~gk~~~sdeEfd~LkEeL~ 130 (276)
-+.++...--++-..||..|.|+|||+|||.|.++|.
T Consensus 6 ~i~~L~~~i~~~~~~YY~~~~p~isD~eYD~l~~~L~ 42 (315)
T PF01653_consen 6 RIEELRKEINRHNYAYYNLGEPIISDAEYDQLFRELK 42 (315)
T ss_dssp HHHHHHHHHHHHHHHHHTTSSSSSSHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHH
Confidence 3445555666667788999999999999999999874
No 10
>smart00532 LIGANc Ligase N family.
Probab=90.77 E-value=0.3 Score=48.59 Aligned_cols=36 Identities=25% Similarity=0.420 Sum_probs=29.5
Q ss_pred hhHHHHHHHHHHHHhhhcCccccChHHHHhHHHHhh
Q 023879 95 LGELEQEFLQALQAFYYEGKAVMSNEEFDNLKEELM 130 (276)
Q Consensus 95 lge~E~~fl~Al~sfY~~gk~~~sdeEfd~LkEeL~ 130 (276)
+.++...--.+-..||..+.|++||+|||.|.++|.
T Consensus 5 i~~L~~~i~~~~~~YY~~~~p~IsD~eYD~L~~eL~ 40 (441)
T smart00532 5 ISELRKLLNKHDYRYYVLDAPIISDAEYDRLMRELK 40 (441)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHH
Confidence 445555566667778889999999999999999986
No 11
>PRK08097 ligB NAD-dependent DNA ligase LigB; Reviewed
Probab=89.26 E-value=0.43 Score=49.09 Aligned_cols=37 Identities=27% Similarity=0.522 Sum_probs=30.2
Q ss_pred chhHHHHHHHHHHHHhhhcCccccChHHHHhHHHHhh
Q 023879 94 SLGELEQEFLQALQAFYYEGKAVMSNEEFDNLKEELM 130 (276)
Q Consensus 94 slge~E~~fl~Al~sfY~~gk~~~sdeEfd~LkEeL~ 130 (276)
.+.++..+--.+-..||..+.|++||+|||.|.+||.
T Consensus 33 ~i~~L~~~l~~~~~~YY~~~~p~IsD~eYD~L~~eL~ 69 (562)
T PRK08097 33 EIAALQQQLAQWDDAYWRQGKSEVDDEVYDQLRARLT 69 (562)
T ss_pred HHHHHHHHHHHHHHHHHhCCCCCCChHHHHHHHHHHH
Confidence 3555555666667789999999999999999999985
No 12
>PRK14351 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=89.21 E-value=0.42 Score=50.04 Aligned_cols=37 Identities=19% Similarity=0.381 Sum_probs=31.3
Q ss_pred chhHHHHHHHHHHHHhhhcCccccChHHHHhHHHHhh
Q 023879 94 SLGELEQEFLQALQAFYYEGKAVMSNEEFDNLKEELM 130 (276)
Q Consensus 94 slge~E~~fl~Al~sfY~~gk~~~sdeEfd~LkEeL~ 130 (276)
.+.++..+--.+-..||..+.|++||+|||.|.++|.
T Consensus 35 ~i~~L~~~i~~~~~~YY~~~~p~IsD~eYD~L~~eL~ 71 (689)
T PRK14351 35 QAEQLREAIREHDHRYYVEADPVIADRAYDALFARLQ 71 (689)
T ss_pred HHHHHHHHHHHHHHHHHhCCCCCCChHHHHHHHHHHH
Confidence 3566666666777789999999999999999999996
No 13
>PRK07956 ligA NAD-dependent DNA ligase LigA; Validated
Probab=88.65 E-value=0.49 Score=49.23 Aligned_cols=36 Identities=31% Similarity=0.504 Sum_probs=29.2
Q ss_pred hhHHHHHHHHHHHHhhhcCccccChHHHHhHHHHhh
Q 023879 95 LGELEQEFLQALQAFYYEGKAVMSNEEFDNLKEELM 130 (276)
Q Consensus 95 lge~E~~fl~Al~sfY~~gk~~~sdeEfd~LkEeL~ 130 (276)
+-++..+--.+-..||..+.|++||+|||.|.++|.
T Consensus 9 i~~L~~~i~~~~~~YY~~~~p~IsD~eYD~L~~~L~ 44 (665)
T PRK07956 9 IEELREELNHHAYAYYVLDAPSISDAEYDRLYRELV 44 (665)
T ss_pred HHHHHHHHHHHHHHHHhCCCCCCChHHHHHHHHHHH
Confidence 445555555666778889999999999999999986
No 14
>PRK14350 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=88.42 E-value=0.62 Score=48.74 Aligned_cols=24 Identities=29% Similarity=0.463 Sum_probs=20.7
Q ss_pred HHhhh-cCCCCCCHHHHHHHHHHHH
Q 023879 150 SMAYV-AGKPIMSDEEYDKLKQKLK 173 (276)
Q Consensus 150 ~~aY~-~GkPimsDeeFD~LK~kLk 173 (276)
-.+|| .|+|+|||++||+|..+|+
T Consensus 20 ~~~YY~~~~p~IsD~~YD~L~~eL~ 44 (669)
T PRK14350 20 DKEYYVDSSPSVEDFTYDKALLRLQ 44 (669)
T ss_pred HHHHHhCCCCCCChHHHHHHHHHHH
Confidence 44666 5899999999999999996
No 15
>PRK14350 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=86.41 E-value=0.71 Score=48.29 Aligned_cols=36 Identities=11% Similarity=0.200 Sum_probs=28.4
Q ss_pred hhHHHHHHHHHHHHhhhcCccccChHHHHhHHHHhh
Q 023879 95 LGELEQEFLQALQAFYYEGKAVMSNEEFDNLKEELM 130 (276)
Q Consensus 95 lge~E~~fl~Al~sfY~~gk~~~sdeEfd~LkEeL~ 130 (276)
+.++..+--..=..||..+.|++||+|||.|.+||.
T Consensus 9 i~~L~~~i~~~~~~YY~~~~p~IsD~~YD~L~~eL~ 44 (669)
T PRK14350 9 ILDLKKLIRKWDKEYYVDSSPSVEDFTYDKALLRLQ 44 (669)
T ss_pred HHHHHHHHHHHHHHHHhCCCCCCChHHHHHHHHHHH
Confidence 445555555556678889999999999999999985
No 16
>TIGR00575 dnlj DNA ligase, NAD-dependent. The member of this family from Treponema pallidum differs in having three rather than just one copy of the BRCT (BRCA1 C Terminus) domain (pfam00533) at the C-terminus. It is included in the seed.
Probab=85.35 E-value=0.85 Score=47.38 Aligned_cols=27 Identities=26% Similarity=0.411 Sum_probs=23.2
Q ss_pred HHHHHhhhcCccccChHHHHhHHHHhh
Q 023879 104 QALQAFYYEGKAVMSNEEFDNLKEELM 130 (276)
Q Consensus 104 ~Al~sfY~~gk~~~sdeEfd~LkEeL~ 130 (276)
.+-..||..+.|++||+|||.|.++|.
T Consensus 7 ~~~~~YY~~~~p~IsD~eYD~L~~~L~ 33 (652)
T TIGR00575 7 HHDYRYYVLDEPSISDAEYDRLYRELQ 33 (652)
T ss_pred HHHHHHHhCCCCCCChHHHHHHHHHHH
Confidence 345668888999999999999999985
No 17
>COG0272 Lig NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]
Probab=83.03 E-value=1.9 Score=45.53 Aligned_cols=26 Identities=35% Similarity=0.557 Sum_probs=21.8
Q ss_pred HHhhhc-CCCCCCHHHHHHHHHHHHhh
Q 023879 150 SMAYVA-GKPIMSDEEYDKLKQKLKME 175 (276)
Q Consensus 150 ~~aY~~-GkPimsDeeFD~LK~kLk~~ 175 (276)
...||. ++|+|+|+|||+|.++|...
T Consensus 22 ~~~Yyv~d~P~VsD~eYD~L~reL~~l 48 (667)
T COG0272 22 DYRYYVLDAPSVSDAEYDQLYRELQEL 48 (667)
T ss_pred HHHHhccCCCCCChHHHHHHHHHHHHH
Confidence 446555 99999999999999999764
No 18
>PF09851 SHOCT: Short C-terminal domain; InterPro: IPR018649 This family of hypothetical prokaryotic proteins has no known function.
Probab=74.44 E-value=4.9 Score=26.24 Aligned_cols=26 Identities=35% Similarity=0.684 Sum_probs=21.0
Q ss_pred HHHHHHhhhcCccccChHHHHhHHHHhh
Q 023879 103 LQALQAFYYEGKAVMSNEEFDNLKEELM 130 (276)
Q Consensus 103 l~Al~sfY~~gk~~~sdeEfd~LkEeL~ 130 (276)
++.|...|..| .+|+|||+..|.+|.
T Consensus 5 L~~L~~l~~~G--~IseeEy~~~k~~ll 30 (31)
T PF09851_consen 5 LEKLKELYDKG--EISEEEYEQKKARLL 30 (31)
T ss_pred HHHHHHHHHcC--CCCHHHHHHHHHHHh
Confidence 45677777777 699999999999874
No 19
>COG0272 Lig NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]
Probab=72.21 E-value=4.1 Score=43.10 Aligned_cols=39 Identities=23% Similarity=0.362 Sum_probs=31.9
Q ss_pred ccchhHHHHHHHHHHHHhhhcCccccChHHHHhHHHHhh
Q 023879 92 KKSLGELEQEFLQALQAFYYEGKAVMSNEEFDNLKEELM 130 (276)
Q Consensus 92 ~~slge~E~~fl~Al~sfY~~gk~~~sdeEfd~LkEeL~ 130 (276)
++.+.++.+.--+.-.+||..+.|.++|.|||.|.+||.
T Consensus 8 ~~~i~~L~~~L~~~~~~Yyv~d~P~VsD~eYD~L~reL~ 46 (667)
T COG0272 8 QEEIEELRELLNKHDYRYYVLDAPSVSDAEYDQLYRELQ 46 (667)
T ss_pred HHHHHHHHHHHHHHHHHHhccCCCCCChHHHHHHHHHHH
Confidence 345666666666777889999999999999999999875
No 20
>TIGR00097 HMP-P_kinase phosphomethylpyrimidine kinase. This model represents phosphomethylpyrimidine kinase, the ThiD protein of thiamine biosynthesis. The protein is commonly observed within operons containing other thiamine biosynthesis genes. Numerous examples are fusion proteins with other thiamine-biosynthetic domains. Saccaromyces has three recent paralogs, two of which are isofunctional and score above the trusted cutoff. The third shows a longer branch length in a phylogenetic tree and scores below the trusted cutoff, as do putative second copies in a number of species.
Probab=54.49 E-value=55 Score=29.04 Aligned_cols=57 Identities=21% Similarity=0.378 Sum_probs=40.2
Q ss_pred HHHHhHHHHhhhcCCeeEEeChhhHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhhCCc-eeeecC
Q 023879 120 EEFDNLKEELMWEGSSVVMLSSAEQKFLEASMAYVAGKPIMSDEEYDKLKQKLKMEGSE-IVVEGP 184 (276)
Q Consensus 120 eEfd~LkEeL~weGSsvv~L~~~Eq~fLEA~~aY~~GkPimsDeeFD~LK~kLk~~GS~-Vvvk~P 184 (276)
+..+.++++| .....+++.+..|-+.|. |.++-+.++..+.-.+|...|.+ |++++-
T Consensus 115 ~~~~~~~~~l-l~~~dvitpN~~Ea~~L~-------g~~~~~~~~~~~~a~~l~~~g~~~Vvvt~G 172 (254)
T TIGR00097 115 EAIEALRKRL-LPLATLITPNLPEAEALL-------GTKIRTEQDMIKAAKKLRELGPKAVLIKGG 172 (254)
T ss_pred HHHHHHHHhc-cccccEecCCHHHHHHHh-------CCCCCCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 3345566655 346689999999988773 56666777777777888888876 666654
No 21
>PF07508 Recombinase: Recombinase; InterPro: IPR011109 This domain is usually found associated with IPR006119 from INTERPRO in putative integrases/recombinases of mobile genetic elements of diverse bacteria and phages.
Probab=52.86 E-value=12 Score=28.23 Aligned_cols=20 Identities=35% Similarity=0.717 Sum_probs=17.1
Q ss_pred cCCCCCCHHHHHHHHHHHHh
Q 023879 155 AGKPIMSDEEYDKLKQKLKM 174 (276)
Q Consensus 155 ~GkPimsDeeFD~LK~kLk~ 174 (276)
.-.|||++++|+++...|+.
T Consensus 82 ~~~~IIs~~~f~~vq~~l~~ 101 (102)
T PF07508_consen 82 YHPPIISEEEFERVQKKLDE 101 (102)
T ss_pred CCCCccCHHHHHHHHHHHhc
Confidence 34699999999999999864
No 22
>PF11746 DUF3303: Protein of unknown function (DUF3303); InterPro: IPR021734 Several members are annotated as being LysM domain-like proteins, but these did not match any LysM domains reported in the literature.
Probab=51.92 E-value=7.6 Score=30.84 Aligned_cols=69 Identities=26% Similarity=0.279 Sum_probs=50.6
Q ss_pred HHHHHHHHHHHHhhhcCccccChHHHHhHHHHhhh-cCCeeEEeChhhHHHHHHHHh-hhcC-------CCCCCHHHH
Q 023879 97 ELEQEFLQALQAFYYEGKAVMSNEEFDNLKEELMW-EGSSVVMLSSAEQKFLEASMA-YVAG-------KPIMSDEEY 165 (276)
Q Consensus 97 e~E~~fl~Al~sfY~~gk~~~sdeEfd~LkEeL~w-eGSsvv~L~~~Eq~fLEA~~a-Y~~G-------kPimsDeeF 165 (276)
+..+.--+++.+|+..|.+...-|.|..|.+=..= .|..++.+..+..+-|-+-.+ ..+. .|+|+|+|+
T Consensus 12 ~~~~~~~~~~~~~~~~G~~~~~peG~~~l~rw~~~~~g~g~~i~eadd~~~l~~~~~~W~~~fg~~~ei~Pv~~d~e~ 89 (91)
T PF11746_consen 12 ESQQEAYKAFERFMESGAPGDPPEGFKVLGRWHDPGGGRGFAIVEADDAKALFKHFAPWRDLFGMEFEITPVMTDEEA 89 (91)
T ss_pred ccchhHHHHHHHHHhcCCCCCCCCCEEEEEEEEecCCCcEEEEEEeCCHHHHHHHHhhhhhccCceEEEEecccHHHh
Confidence 44556678899999999887777777666553333 677888888888777777555 4444 699999997
No 23
>PLN02919 haloacid dehalogenase-like hydrolase family protein
Probab=44.69 E-value=1.9e+02 Score=32.03 Aligned_cols=17 Identities=24% Similarity=0.268 Sum_probs=11.2
Q ss_pred HHHHHHHHhhCCceeee
Q 023879 166 DKLKQKLKMEGSEIVVE 182 (276)
Q Consensus 166 D~LK~kLk~~GS~Vvvk 182 (276)
..+=..||..|-++++-
T Consensus 167 ~elL~~Lk~~G~~l~Iv 183 (1057)
T PLN02919 167 LELITQCKNKGLKVAVA 183 (1057)
T ss_pred HHHHHHHHhCCCeEEEE
Confidence 33445777888887774
No 24
>PRK12412 pyridoxal kinase; Reviewed
Probab=38.93 E-value=1.3e+02 Score=27.17 Aligned_cols=56 Identities=27% Similarity=0.345 Sum_probs=41.8
Q ss_pred HHHHhHHHHhhhcCCeeEEeChhhHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhhCCc-eeeec
Q 023879 120 EEFDNLKEELMWEGSSVVMLSSAEQKFLEASMAYVAGKPIMSDEEYDKLKQKLKMEGSE-IVVEG 183 (276)
Q Consensus 120 eEfd~LkEeL~weGSsvv~L~~~Eq~fLEA~~aY~~GkPimsDeeFD~LK~kLk~~GS~-Vvvk~ 183 (276)
+..+.++++|. ....+++.+..|-+.| .|.++-+.++..+.-.+|...|.+ |++++
T Consensus 120 ~~~~~~~~~ll-~~advitpN~~Ea~~L-------~g~~~~~~~~~~~aa~~l~~~g~~~ViIt~ 176 (268)
T PRK12412 120 ETNDCLRDVLV-PKALVVTPNLFEAYQL-------SGVKINSLEDMKEAAKKIHALGAKYVLIKG 176 (268)
T ss_pred HHHHHHHHhhh-ccceEEcCCHHHHHHH-------hCcCCCCHHHHHHHHHHHHhcCCCEEEEec
Confidence 44567777764 5688999999998877 377777777777777888888875 55554
No 25
>PF09863 DUF2090: Uncharacterized protein conserved in bacteria (DUF2090); InterPro: IPR018659 This domain, found in various prokaryotic carbohydrate kinases, has no known function.
Probab=38.54 E-value=92 Score=30.58 Aligned_cols=65 Identities=22% Similarity=0.357 Sum_probs=49.3
Q ss_pred hhHHHHHHHHHHHHhhhcCc-------cccChHHHHhHHHHhhhcCC---eeEEeChhh-HHHHHHHHhhhcCCCC
Q 023879 95 LGELEQEFLQALQAFYYEGK-------AVMSNEEFDNLKEELMWEGS---SVVMLSSAE-QKFLEASMAYVAGKPI 159 (276)
Q Consensus 95 lge~E~~fl~Al~sfY~~gk-------~~~sdeEfd~LkEeL~weGS---svv~L~~~E-q~fLEA~~aY~~GkPi 159 (276)
....+.-|..+++.||+-|- +-||.+.|.++-+-+.=.++ .||+|+.+- .+.|.+.-+=..+.|+
T Consensus 189 ~~~~~~~~~~ai~r~Y~lGI~PDWWKLep~s~~~W~~i~~~I~~~Dp~crGvVvLGLdAP~e~L~~~F~~Aa~~p~ 264 (311)
T PF09863_consen 189 MPVDDDTYARAIERFYNLGIKPDWWKLEPLSAAAWQAIEALIEERDPYCRGVVVLGLDAPEEELAAGFAAAAGSPL 264 (311)
T ss_pred CCCChHHHHHHHHHHHHcCCCCCeeccCCCCHHHHHHHHHHHHHhCCCceeEEEecCCCCHHHHHHHHHHhhCCCc
Confidence 34457889999999999873 45699999999999888888 689999874 5566665544444444
No 26
>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=38.17 E-value=10 Score=34.05 Aligned_cols=63 Identities=16% Similarity=0.249 Sum_probs=44.5
Q ss_pred hHHHHhHHHHhhhcCCeeEEeChhhHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhhCCceee
Q 023879 119 NEEFDNLKEELMWEGSSVVMLSSAEQKFLEASMAYVAGKPIMSDEEYDKLKQKLKMEGSEIVV 181 (276)
Q Consensus 119 deEfd~LkEeL~weGSsvv~L~~~Eq~fLEA~~aY~~GkPimsDeeFD~LK~kLk~~GS~Vvv 181 (276)
.++.+.|++.|.=.|..+|-++.+|+...-+=.-+....-++..+.++.+..+|++.|-+|+.
T Consensus 197 ~~~~~~l~~~l~~~~~~iI~v~~~e~~~~~~N~l~l~~~~vi~~~~~~~~~~~L~~~G~~v~~ 259 (281)
T PF02274_consen 197 PEEEEELEQALKERGFEIIEVPEEEQWNFACNVLSLGPGKVIAYASNPRTNEQLEKAGIEVIE 259 (281)
T ss_dssp THHHHHHHHHHSSSTCEEEEESSCSCSGGGGS-EEECTTEEEEETTHHHHHHHHHHTT-EEEE
T ss_pred hHHHHHHHHHhcccCcEEEEeccchhhhccCCEEEecCCEEEECCCCHHHHHHHHhcCCeEEE
Confidence 345666777777678888888888776443322244546667777899999999999999887
No 27
>cd07110 ALDH_F10_BADH Arabidopsis betaine aldehyde dehydrogenase 1 and 2, ALDH family 10A8 and 10A9-like. Present in this CD are the Arabidopsis betaine aldehyde dehydrogenase (BADH) 1 (chloroplast) and 2 (mitochondria), also known as, aldehyde dehydrogenase family 10 member A8 and aldehyde dehydrogenase family 10 member A9, respectively, and are putative dehydration- and salt-inducible BADHs (EC 1.2.1.8) that catalyze the oxidation of betaine aldehyde to the compatible solute glycine betaine.
Probab=37.83 E-value=1.1e+02 Score=29.64 Aligned_cols=69 Identities=23% Similarity=0.462 Sum_probs=46.2
Q ss_pred ccChHHHHhHHHHhhhc-----CC------eeEEeChhhHHHHHHHHh----hhcCC---------CCCCHHHHHHHHHH
Q 023879 116 VMSNEEFDNLKEELMWE-----GS------SVVMLSSAEQKFLEASMA----YVAGK---------PIMSDEEYDKLKQK 171 (276)
Q Consensus 116 ~~sdeEfd~LkEeL~we-----GS------svv~L~~~Eq~fLEA~~a----Y~~Gk---------PimsDeeFD~LK~k 171 (276)
++.|.+.|..-+.+.|. |. ++++-...-.+|++++.. +.-|. |+++.+++++++.-
T Consensus 238 V~~dadl~~aa~~i~~~~~~~~GQ~C~a~~rv~V~~~i~d~f~~~l~~~~~~~~~g~p~~~~~~~Gpli~~~~~~~~~~~ 317 (456)
T cd07110 238 VFDDADLEKAVEWAMFGCFWNNGQICSATSRLLVHESIADAFLERLATAAEAIRVGDPLEEGVRLGPLVSQAQYEKVLSF 317 (456)
T ss_pred ECCCCCHHHHHHHHHHHHHhcCCCCCCCCceEEEcHHHHHHHHHHHHHHHHhcCCCCCCCCCCCcCCCCCHHHHHHHHHH
Confidence 45577888888877773 43 333333435678887654 33343 68899999999988
Q ss_pred HHh---hCCceeeecC
Q 023879 172 LKM---EGSEIVVEGP 184 (276)
Q Consensus 172 Lk~---~GS~Vvvk~P 184 (276)
+++ .|.+++.-|.
T Consensus 318 v~~a~~~Ga~~~~gg~ 333 (456)
T cd07110 318 IARGKEEGARLLCGGR 333 (456)
T ss_pred HHHHHhCCCEEEeCCC
Confidence 865 6878776554
No 28
>cd01169 HMPP_kinase 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of the hydroxyl group of HMP to form 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate (HMP-P) and then the phophorylation of HMP-P to form 4-amino-5-hydroxymethyl-2-methyl-pyrimidine pyrophosphate (HMP-PP), which is the substrate for the thiamine synthase coupling reaction.
Probab=37.43 E-value=1.8e+02 Score=25.12 Aligned_cols=53 Identities=23% Similarity=0.397 Sum_probs=37.0
Q ss_pred HhHHHHhhhcCCeeEEeChhhHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhhCCc-eeeec
Q 023879 123 DNLKEELMWEGSSVVMLSSAEQKFLEASMAYVAGKPIMSDEEYDKLKQKLKMEGSE-IVVEG 183 (276)
Q Consensus 123 d~LkEeL~weGSsvv~L~~~Eq~fLEA~~aY~~GkPimsDeeFD~LK~kLk~~GS~-Vvvk~ 183 (276)
+.+++++ +....+++.+..|-+.|. |.++-++++-.+...+|...|.+ |++++
T Consensus 119 ~~~~~~l-l~~~dvitpN~~Ea~~L~-------g~~~~~~~~~~~~~~~l~~~g~~~Vvit~ 172 (242)
T cd01169 119 EALRELL-LPLATLITPNLPEAELLT-------GLEIATEEDMMKAAKALLALGAKAVLIKG 172 (242)
T ss_pred HHHHHHh-hccCeEEeCCHHHHHHHh-------CCCCCCHHHHHHHHHHHHhcCCCEEEEec
Confidence 4566654 677899999999988773 66666666555666777777765 55554
No 29
>PF05416 Peptidase_C37: Southampton virus-type processing peptidase; InterPro: IPR001665 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C37, (clan PA(C)). The type example is calicivirin from Southampton virus, an endopeptidase that cleaves the polyprotein at sites N-terminal to itself, liberating the polyprotein helicase. Southampton virus is a positive-stranded ssRNA virus belonging to the Caliciviruses, which are viruses that cause gastroenteritis. The calicivirus genome contains two open reading frames, ORF1 and ORF2. ORF1 encodes a non-structural polypeptide, which has RNA helicase, cysteine protease and RNA polymerase activity []. The regions of the polyprotein in which these activities lie are similar to proteins produced by the picornaviruses []. ORF2 encodes a structural, capsid protein. Two different families of caliciviruses can be distinguished on the basis of sequence similarity, namely the Norwalk-like viruses or small round structured viruses (SRSVs), and those classed as non-SRSVs.; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis; PDB: 2FYQ_A 2FYR_A 1WQS_D 4ASH_A 2IPH_B.
Probab=36.69 E-value=12 Score=38.63 Aligned_cols=42 Identities=26% Similarity=0.395 Sum_probs=0.0
Q ss_pred cChHHHHhH---HHHhhhcCCeeEEeChhhHHHHHHHHhhhcCCCCCCHHHHH
Q 023879 117 MSNEEFDNL---KEELMWEGSSVVMLSSAEQKFLEASMAYVAGKPIMSDEEYD 166 (276)
Q Consensus 117 ~sdeEfd~L---kEeL~weGSsvv~L~~~Eq~fLEA~~aY~~GkPimsDeeFD 166 (276)
|||||||+- +|| |.|.-- =|+|||.++-|+..-....-.++|
T Consensus 253 LSDEEYDEyKkiREe--r~g~YS------IeEYLqdReRy~Eela~~~a~~~~ 297 (535)
T PF05416_consen 253 LSDEEYDEYKKIREE--RGGKYS------IEEYLQDRERYEEELAEAQATEED 297 (535)
T ss_dssp -----------------------------------------------------
T ss_pred CChhHHHHHHHHHHH--hcCCcc------HHHHHHHHHHHHHHhhhhhhhhcc
Confidence 999999975 455 777731 268999998888766655444433
No 30
>TIGR00777 ahpD alkylhydroperoxidase, AhpD family. Members of this family are alkylhydroperoxidases, which catalyze the reduction of peroxides to their corresponding alcohols via oxidation of cysteine residues. In these alkylhydroperoxidases, the cysteines are located in a conserved -CXXC- motif located towards the COOH terminus. In Mycobacterium tuberculosis, two non-homologous alkylhydroperoxidases, AhpD and AhpC, are found in the same operon.
Probab=35.94 E-value=18 Score=32.60 Aligned_cols=29 Identities=24% Similarity=0.547 Sum_probs=24.2
Q ss_pred HHHHHh-hhcCCCCCCHHHHHHHHHHHHhh
Q 023879 147 LEASMA-YVAGKPIMSDEEYDKLKQKLKME 175 (276)
Q Consensus 147 LEA~~a-Y~~GkPimsDeeFD~LK~kLk~~ 175 (276)
+.|+.- ||+...+++|++|+.++.+||..
T Consensus 76 ~MamnNv~Yr~~hl~~~~~y~~~pa~lrmn 105 (177)
T TIGR00777 76 IMAMNNVFYRGRHLLEGARYDDLRPGLRMN 105 (177)
T ss_pred HHhhhhHHHHhHhhcccchhhcCCccchhH
Confidence 334444 99999999999999999998776
No 31
>PF02829 3H: 3H domain; InterPro: IPR004173 The 3H domain is named after its three highly conserved histidine residues. The 3H domain appears to be a small molecule-binding domain, based on its occurrence with other domains []. Several proteins carrying this domain are transcriptional regulators from the biotin repressor family. The transcription regulator TM1602 from Thermotoga maritima is a DNA-binding protein thought to belong to a family of de novo NAD synthesis pathway regulators. TM1602 has an N-terminal DNA-binding domain and a C-terminal 3H regulatory domain. The N-terminal domain appears to bind to the NAD promoter region and repress the de novo NAD biosynthesis operon, while the C-terminal 3H domain may bind to nicotinamide, nicotinic acid, or other substrate/products []. The 3H domain has a 2-layer alpha/beta sandwich fold.; GO: 0005488 binding; PDB: 1J5Y_A.
Probab=35.43 E-value=86 Score=25.60 Aligned_cols=33 Identities=33% Similarity=0.571 Sum_probs=24.7
Q ss_pred HHHHHHHHhhhcCCCCC--------------CHHHHHHHHHHHHhhCC
Q 023879 144 QKFLEASMAYVAGKPIM--------------SDEEYDKLKQKLKMEGS 177 (276)
Q Consensus 144 q~fLEA~~aY~~GkPim--------------sDeeFD~LK~kLk~~GS 177 (276)
++|++.+..+ +++|+. +++.+|+++.+|+++|-
T Consensus 50 ~~Fi~~l~~~-~~~~Ls~LT~GvH~HtI~a~~~e~l~~I~~~L~~~G~ 96 (98)
T PF02829_consen 50 DKFIEKLEKS-KAKPLSSLTGGVHYHTIEAPDEEDLDKIEEALKKKGF 96 (98)
T ss_dssp HHHHHHHHH---S--STTGGGGEEEEEEEESSHHHHHHHHHHHHHTT-
T ss_pred HHHHHHHhcc-CCcchHHhcCCEeeEEEEECCHHHHHHHHHHHHHCCC
Confidence 8899988877 788875 47899999999999984
No 32
>PF04380 BMFP: Membrane fusogenic activity; InterPro: IPR007475 BMFP consists of two structural domains, a coiled-coil C-terminal domain via which the protein self-associates as a trimer, and an N-terminal domain disordered at neutral pH but adopting an amphipathic alpha-helical structure in the presence of phospholipid vesicles, high ionic strength, acidic pH or SDS. BMFP interacts with phospholipid vesicles though the predicted amphipathic alpha-helix induced in the N-terminal half of the protein and promotes aggregation and fusion of vesicles in vitro.
Probab=35.41 E-value=62 Score=25.11 Aligned_cols=38 Identities=26% Similarity=0.282 Sum_probs=30.7
Q ss_pred cchhHHHHHHHHHHHHhhhcCccccChHHHHhHHHHhhh
Q 023879 93 KSLGELEQEFLQALQAFYYEGKAVMSNEEFDNLKEELMW 131 (276)
Q Consensus 93 ~slge~E~~fl~Al~sfY~~gk~~~sdeEfd~LkEeL~w 131 (276)
..-.|.|..+-..+++.+. +-..+|.||||.+++.|.=
T Consensus 24 ~~~~e~e~~~r~~l~~~l~-kldlVtREEFd~q~~~L~~ 61 (79)
T PF04380_consen 24 GPREEIEKNIRARLQSALS-KLDLVTREEFDAQKAVLAR 61 (79)
T ss_pred hhHHHHHHHHHHHHHHHHH-HCCCCcHHHHHHHHHHHHH
Confidence 3446789999999999554 5889999999999998654
No 33
>PF08278 DnaG_DnaB_bind: DNA primase DnaG DnaB-binding ; InterPro: IPR013173 Eubacterial DnaG primases interact with several factors to form the replisome. One of these factors is DnaB, a helicase. This domain has been demonstrated to be responsible for the interaction between DnaG and DnaB []. This domain has a multi-helical structure that forms an orthogonal bundle [].; GO: 0003896 DNA primase activity, 0006269 DNA replication, synthesis of RNA primer; PDB: 2HAJ_A 1T3W_B.
Probab=34.37 E-value=79 Score=25.18 Aligned_cols=48 Identities=25% Similarity=0.329 Sum_probs=34.4
Q ss_pred chhHHHHHHHHHHHHhhhcCccccChHHHHhHHHHhhhcCCeeEEeChhhHHHHHHH
Q 023879 94 SLGELEQEFLQALQAFYYEGKAVMSNEEFDNLKEELMWEGSSVVMLSSAEQKFLEAS 150 (276)
Q Consensus 94 slge~E~~fl~Al~sfY~~gk~~~sdeEfd~LkEeL~weGSsvv~L~~~Eq~fLEA~ 150 (276)
+-.+.|++|.+++....... -+.+++.||....-+| ++.+|++.|-.+
T Consensus 79 ~~~~~~~ef~d~l~~L~~~~----~~~~i~~L~~k~~~~~-----Lt~eEk~el~~L 126 (127)
T PF08278_consen 79 DEEDIEQEFQDALARLQEQA----LERRIEELKAKPRRGG-----LTDEEKQELRRL 126 (127)
T ss_dssp HHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHTTT--------HHHHHHHHHH
T ss_pred CchhHHHHHHHHHHHHHHHH----HHHHHHHHHHhhccCC-----cCHHHHHHHHHh
Confidence 66789999999999977664 5778899988855433 777887766544
No 34
>PRK08176 pdxK pyridoxal-pyridoxamine kinase/hydroxymethylpyrimidine kinase; Reviewed
Probab=33.10 E-value=1.3e+02 Score=27.43 Aligned_cols=53 Identities=15% Similarity=0.177 Sum_probs=39.4
Q ss_pred HhHHHHhhhcCCeeEEeChhhHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhhCCc-eeeec
Q 023879 123 DNLKEELMWEGSSVVMLSSAEQKFLEASMAYVAGKPIMSDEEYDKLKQKLKMEGSE-IVVEG 183 (276)
Q Consensus 123 d~LkEeL~weGSsvv~L~~~Eq~fLEA~~aY~~GkPimsDeeFD~LK~kLk~~GS~-Vvvk~ 183 (276)
+.+|++| .....+++.+..|.++| .|.++-++++..+.-.+|...|.+ |++++
T Consensus 143 ~~~~~~L-l~~advitPN~~Ea~~L-------~g~~~~~~~~~~~~~~~l~~~g~~~VvIT~ 196 (281)
T PRK08176 143 EAYRQHL-LPLAQGLTPNIFELEIL-------TGKPCRTLDSAIAAAKSLLSDTLKWVVITS 196 (281)
T ss_pred HHHHHHh-HhhcCEeCCCHHHHHHH-------hCCCCCCHHHHHHHHHHHHhcCCCEEEEee
Confidence 4566655 46778999999998887 377777888777777788778865 56664
No 35
>cd07114 ALDH_DhaS Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like. Uncharacterized aldehyde dehydrogenase from Candidatus pelagibacter (DhaS) and other related sequences are present in this CD.
Probab=31.39 E-value=1.7e+02 Score=28.52 Aligned_cols=68 Identities=18% Similarity=0.440 Sum_probs=46.5
Q ss_pred ccChHHHHhHHHHhhh-----cCCee-----EEe-ChhhHHHHHHHHhhh----cC---------CCCCCHHHHHHHHHH
Q 023879 116 VMSNEEFDNLKEELMW-----EGSSV-----VML-SSAEQKFLEASMAYV----AG---------KPIMSDEEYDKLKQK 171 (276)
Q Consensus 116 ~~sdeEfd~LkEeL~w-----eGSsv-----v~L-~~~Eq~fLEA~~aY~----~G---------kPimsDeeFD~LK~k 171 (276)
++.|.+.|.-=+.+.| .|.+| +.+ ...-.+|++++.... -| -|+++.+++|+++..
T Consensus 237 V~~dAdl~~aa~~i~~~~~~~~GQ~C~a~~~v~V~~~v~~~f~~~l~~~~~~~~~g~p~~~~~~~gpli~~~~~~~~~~~ 316 (457)
T cd07114 237 VFDDADLDAAVNGVVAGIFAAAGQTCVAGSRLLVQRSIYDEFVERLVARARAIRVGDPLDPETQMGPLATERQLEKVERY 316 (457)
T ss_pred ECCCCCHHHHHHHHHHHHHhccCCCCCCCceEEEcHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCCCcCHHHHHHHHHH
Confidence 4567888887777777 55544 333 333467888866543 23 378899999999998
Q ss_pred HHhh---CCceeeec
Q 023879 172 LKME---GSEIVVEG 183 (276)
Q Consensus 172 Lk~~---GS~Vvvk~ 183 (276)
+... |.+++.-|
T Consensus 317 i~~a~~~ga~~l~gg 331 (457)
T cd07114 317 VARAREEGARVLTGG 331 (457)
T ss_pred HHHHHHCCCEEEeCC
Confidence 8754 88876644
No 36
>PRK13696 hypothetical protein; Provisional
Probab=30.54 E-value=74 Score=24.48 Aligned_cols=50 Identities=24% Similarity=0.385 Sum_probs=30.3
Q ss_pred cccChHHHHhHHHHhhhcCCeeEEeChhhHHHH-------HHHHhhhcCCCCCCHHHHHHHHHHH
Q 023879 115 AVMSNEEFDNLKEELMWEGSSVVMLSSAEQKFL-------EASMAYVAGKPIMSDEEYDKLKQKL 172 (276)
Q Consensus 115 ~~~sdeEfd~LkEeL~weGSsvv~L~~~Eq~fL-------EA~~aY~~GkPimsDeeFD~LK~kL 172 (276)
-++++|.|+.|+ -.++|.|+ |+-=.+.+ ..++.|+ -+++|+|-+.++.++
T Consensus 6 ItI~dd~Y~~L~--~kk~~~SF---Sevi~~L~~~~~~~~~~l~~~~---Gil~dee~~e~~~~~ 62 (62)
T PRK13696 6 ITISDDVYEKLL--EIKGDKSF---SEVIRELIEKKKGNLDKLMKAF---GILSEEEAEELKKEL 62 (62)
T ss_pred EEeCHHHHHHHH--HHhCCCCH---HHHHHHHHHHhhccHHHHHHHH---CCCCHHHHHHHHhhC
Confidence 368999999999 45677762 11111111 2222332 478999999887653
No 37
>PTZ00381 aldehyde dehydrogenase family protein; Provisional
Probab=28.66 E-value=1.6e+02 Score=29.62 Aligned_cols=67 Identities=22% Similarity=0.439 Sum_probs=47.1
Q ss_pred ccChHHHHhHHHHhhhc-----CCee------EEeChhhHHHHHHHHh----hhcCC---------CCCCHHHHHHHHHH
Q 023879 116 VMSNEEFDNLKEELMWE-----GSSV------VMLSSAEQKFLEASMA----YVAGK---------PIMSDEEYDKLKQK 171 (276)
Q Consensus 116 ~~sdeEfd~LkEeL~we-----GSsv------v~L~~~Eq~fLEA~~a----Y~~Gk---------PimsDeeFD~LK~k 171 (276)
++.|.+.|.--+.+.|. |..| ++-.....+|++++.. ++ |. |+++++.|++++.-
T Consensus 224 V~~dAdl~~Aa~~i~~g~~~naGQ~C~A~~~vlV~~~i~d~f~~~l~~~~~~~~-g~~~~~~~~~gpli~~~~~~ri~~~ 302 (493)
T PTZ00381 224 VDKSCNLKVAARRIAWGKFLNAGQTCVAPDYVLVHRSIKDKFIEALKEAIKEFF-GEDPKKSEDYSRIVNEFHTKRLAEL 302 (493)
T ss_pred EcCCCCHHHHHHHHHHHHHhhcCCcCCCCCEEEEeHHHHHHHHHHHHHHHHHHh-CCCCccCCCcCCCCCHHHHHHHHHH
Confidence 45578888888888883 5443 3334445678877543 33 43 67999999999999
Q ss_pred HHhhCCceeeec
Q 023879 172 LKMEGSEIVVEG 183 (276)
Q Consensus 172 Lk~~GS~Vvvk~ 183 (276)
++..|.+++.-|
T Consensus 303 i~~~ga~~~~gG 314 (493)
T PTZ00381 303 IKDHGGKVVYGG 314 (493)
T ss_pred HHhCCCcEEECC
Confidence 988898887643
No 38
>cd07120 ALDH_PsfA-ACA09737 Pseudomonas putida aldehyde dehydrogenase PsfA (ACA09737)-like. Included in this CD is the aldehyde dehydrogenase (PsfA, locus ACA09737) of Pseudomonas putida involved in furoic acid metabolism. Transcription of psfA was induced in response to 2-furoic acid, furfuryl alcohol, and furfural.
Probab=28.07 E-value=2.1e+02 Score=28.20 Aligned_cols=70 Identities=20% Similarity=0.382 Sum_probs=48.2
Q ss_pred ccChHHHHhHHHHhhh-----cCC------eeEEeChhhHHHHHHHHhh----hcCC---------CCCCHHHHHHHHHH
Q 023879 116 VMSNEEFDNLKEELMW-----EGS------SVVMLSSAEQKFLEASMAY----VAGK---------PIMSDEEYDKLKQK 171 (276)
Q Consensus 116 ~~sdeEfd~LkEeL~w-----eGS------svv~L~~~Eq~fLEA~~aY----~~Gk---------PimsDeeFD~LK~k 171 (276)
++.|.+.|..-+.+.| .|- +|++-...-.+|++++... .-|. |+++.+.+++++.-
T Consensus 236 V~~daDl~~aa~~i~~~~~~~~GQ~C~a~~rv~V~~~i~~~f~~~l~~~~~~l~~G~p~~~~~~~gpli~~~~~~~~~~~ 315 (455)
T cd07120 236 VFDDADLDAALPKLERALTIFAGQFCMAGSRVLVQRSIADEVRDRLAARLAAVKVGPGLDPASDMGPLIDRANVDRVDRM 315 (455)
T ss_pred ECCCCCHHHHHHHHHHHHHHhCCCCCCCCeEEEEcHHHHHHHHHHHHHHHHhcCcCCCCCCCCCcCCccCHHHHHHHHHH
Confidence 4567788888888887 353 3444444457788886543 3343 68999999999977
Q ss_pred HHh---hCCceeeecCc
Q 023879 172 LKM---EGSEIVVEGPR 185 (276)
Q Consensus 172 Lk~---~GS~Vvvk~Pr 185 (276)
+.. .|.+++..|.+
T Consensus 316 i~~a~~~ga~~~~~g~~ 332 (455)
T cd07120 316 VERAIAAGAEVVLRGGP 332 (455)
T ss_pred HHHHHHCCCEEEeCCcc
Confidence 665 68888876643
No 39
>PRK06427 bifunctional hydroxy-methylpyrimidine kinase/ hydroxy-phosphomethylpyrimidine kinase; Reviewed
Probab=27.98 E-value=2.5e+02 Score=24.78 Aligned_cols=54 Identities=22% Similarity=0.413 Sum_probs=36.2
Q ss_pred HhHHHHhhhcCCeeEEeChhhHHHHHHHHhhhcCCCCCCHHH-HHHHHHHHHhhCCc-eeeecC
Q 023879 123 DNLKEELMWEGSSVVMLSSAEQKFLEASMAYVAGKPIMSDEE-YDKLKQKLKMEGSE-IVVEGP 184 (276)
Q Consensus 123 d~LkEeL~weGSsvv~L~~~Eq~fLEA~~aY~~GkPimsDee-FD~LK~kLk~~GS~-Vvvk~P 184 (276)
+.++++|. ....+++.+..|-+.|. |.++-++++ ..+.-.+|...|.+ |++++-
T Consensus 124 ~~~~~~ll-~~~dvitpN~~Ea~~L~-------g~~~~~~~~~~~~~a~~l~~~g~~~Vvit~g 179 (266)
T PRK06427 124 AALRERLL-PLATLITPNLPEAEALT-------GLPIADTEDEMKAAARALHALGCKAVLIKGG 179 (266)
T ss_pred HHHHHhhh-CcCeEEcCCHHHHHHHh-------CCCCCCcHHHHHHHHHHHHhcCCCEEEEcCC
Confidence 45666543 55789999999988773 666655554 55666777777865 566653
No 40
>cd07092 ALDH_ABALDH-YdcW Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like. NAD+-dependent, tetrameric, gamma-aminobutyraldehyde dehydrogenase (ABALDH), YdcW of Escherichia coli K12, catalyzes the oxidation of gamma-aminobutyraldehyde to gamma-aminobutyric acid. ABALDH can also oxidize n-alkyl medium-chain aldehydes, but with a lower catalytic efficiency.
Probab=27.54 E-value=2.3e+02 Score=27.40 Aligned_cols=68 Identities=16% Similarity=0.309 Sum_probs=46.1
Q ss_pred ccChHHHHhHHHHhhh-----cCCe------eEEeChhhHHHHHHHHh----hhcCC---------CCCCHHHHHHHHHH
Q 023879 116 VMSNEEFDNLKEELMW-----EGSS------VVMLSSAEQKFLEASMA----YVAGK---------PIMSDEEYDKLKQK 171 (276)
Q Consensus 116 ~~sdeEfd~LkEeL~w-----eGSs------vv~L~~~Eq~fLEA~~a----Y~~Gk---------PimsDeeFD~LK~k 171 (276)
++.|.+.|..=+.+.| .|.+ +++-...-.+|++++.. +.-|. |+++.+.+++++.-
T Consensus 235 V~~dAdl~~aa~~iv~~~~~~~GQ~C~a~~~v~V~~~i~~~f~~~l~~~~~~~~~g~p~~~~~~~gpli~~~~~~~i~~~ 314 (450)
T cd07092 235 VFDDADLDAAVAGIATAGYYNAGQDCTAACRVYVHESVYDEFVAALVEAVSAIRVGDPDDEDTEMGPLNSAAQRERVAGF 314 (450)
T ss_pred ECCCCCHHHHHHHHHHHHHhhCCCCCCCCcEEEEeHHHHHHHHHHHHHHHhhCCcCCCCCCCCccCcccCHHHHHHHHHH
Confidence 4567888888888888 4443 33444445788888665 33453 57888999999986
Q ss_pred HHhh--CCceeeec
Q 023879 172 LKME--GSEIVVEG 183 (276)
Q Consensus 172 Lk~~--GS~Vvvk~ 183 (276)
+... |.+++.-|
T Consensus 315 i~~a~~ga~~~~gg 328 (450)
T cd07092 315 VERAPAHARVLTGG 328 (450)
T ss_pred HHHHHcCCEEEeCC
Confidence 6654 77776544
No 41
>PRK15398 aldehyde dehydrogenase EutE; Provisional
Probab=27.48 E-value=1.5e+02 Score=29.65 Aligned_cols=59 Identities=14% Similarity=0.312 Sum_probs=43.9
Q ss_pred ccChHHHHhHHHHhhh-----cCC------eeEEeChhhHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhhC
Q 023879 116 VMSNEEFDNLKEELMW-----EGS------SVVMLSSAEQKFLEASMAYVAGKPIMSDEEYDKLKQKLKMEG 176 (276)
Q Consensus 116 ~~sdeEfd~LkEeL~w-----eGS------svv~L~~~Eq~fLEA~~aY~~GkPimsDeeFD~LK~kLk~~G 176 (276)
++.|.+.|.--+.+.| .|. ++++=...-.+|++++.+. +.|+++.+++|+++.-+...|
T Consensus 247 V~~dADld~Aa~~i~~g~~~n~GQ~C~A~~rvlV~~si~d~f~~~l~~~--~~~li~~~~~~~v~~~l~~~~ 316 (465)
T PRK15398 247 VDETADIEKAARDIVKGASFDNNLPCIAEKEVIVVDSVADELMRLMEKN--GAVLLTAEQAEKLQKVVLKNG 316 (465)
T ss_pred EecCCCHHHHHHHHHHhcccCCCCcCCCCceEEEeHHHHHHHHHHHHHc--CCccCCHHHHHHHHHHHhhcc
Confidence 3447778888888888 354 4445555567889988877 779999999999998776544
No 42
>PRK12413 phosphomethylpyrimidine kinase; Provisional
Probab=27.26 E-value=2.8e+02 Score=24.32 Aligned_cols=53 Identities=26% Similarity=0.416 Sum_probs=36.9
Q ss_pred HhHHHHhh--hcCCeeEEeChhhHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHhhCCce-eee
Q 023879 123 DNLKEELM--WEGSSVVMLSSAEQKFLEASMAYVAGKPIMSDEEYDKLKQKLKMEGSEI-VVE 182 (276)
Q Consensus 123 d~LkEeL~--weGSsvv~L~~~Eq~fLEA~~aY~~GkPimsDeeFD~LK~kLk~~GS~V-vvk 182 (276)
+.+++.+. .....+++.+..|-+.| .|.++-+.++..+.-.+|...|.+. +++
T Consensus 117 ~~~~~~l~~ll~~~dli~pN~~E~~~L-------~g~~~~~~~~~~~~a~~l~~~g~~~Vvvt 172 (253)
T PRK12413 117 SELRQELIQFFPYVTVITPNLVEAELL-------SGKEIKTLEDMKEAAKKLYDLGAKAVVIK 172 (253)
T ss_pred HHHHHHHHHHhccCcEECCCHHHHHHH-------hCcCCCCHHHHHHHHHHHHHcCCCEEEEe
Confidence 34454442 34457899999888776 3788877788878778888888864 444
No 43
>COG4443 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.98 E-value=44 Score=26.47 Aligned_cols=18 Identities=50% Similarity=0.772 Sum_probs=14.7
Q ss_pred Ccc-ccChHHHHhHHHHhh
Q 023879 113 GKA-VMSNEEFDNLKEELM 130 (276)
Q Consensus 113 gk~-~~sdeEfd~LkEeL~ 130 (276)
||- ++|||||..||+.|+
T Consensus 52 GKGiTLt~eE~~~l~d~l~ 70 (72)
T COG4443 52 GKGITLTNEEFKALKDLLN 70 (72)
T ss_pred cCceeecHHHHHHHHHHHh
Confidence 444 899999999999874
No 44
>PF04280 Tim44: Tim44-like domain; InterPro: IPR007379 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane []. Tim44 is thought to bind phospholipids of the mitochondrial inner membrane both by electrostatic interactions and by penetrating the polar head group region [].; GO: 0015450 P-P-bond-hydrolysis-driven protein transmembrane transporter activity, 0006886 intracellular protein transport, 0005744 mitochondrial inner membrane presequence translocase complex; PDB: 2CW9_A 2FXT_A 3QK9_A.
Probab=26.58 E-value=41 Score=27.17 Aligned_cols=36 Identities=28% Similarity=0.649 Sum_probs=28.6
Q ss_pred ChhhHHHHHHHHhhhcCC-----CCCCHHHHHHHHHHHHhh
Q 023879 140 SSAEQKFLEASMAYVAGK-----PIMSDEEYDKLKQKLKME 175 (276)
Q Consensus 140 ~~~Eq~fLEA~~aY~~Gk-----PimsDeeFD~LK~kLk~~ 175 (276)
...++.|+....||.+|+ ++++++.|..++.+++..
T Consensus 22 ~~ak~~f~~i~~A~~~~D~~~l~~~~t~~~~~~~~~~i~~~ 62 (147)
T PF04280_consen 22 EEAKEAFLPIQEAWAKGDLEALRPLLTEELYERLQAEIKAR 62 (147)
T ss_dssp HHHHHTHHHHHHHHHHT-HHHHHHHB-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHcCCHHHHHHHhCHHHHHHHHHHHHHH
Confidence 445667777777899884 899999999999999988
No 45
>PF12207 DUF3600: Domain of unknown function (DUF3600); InterPro: IPR022019 This family of proteins is found in bacteria. Proteins in this family are approximately 230 amino acids in length. This domain is the C-terminal of the putative ecf-type sigma factor negative effector. ; PDB: 3FGG_A 3FH3_A.
Probab=26.09 E-value=56 Score=29.36 Aligned_cols=63 Identities=30% Similarity=0.429 Sum_probs=39.5
Q ss_pred CccccChHHHHhHHHHhhh-----------cCC-eeEEeChhhHHHHHHHH----hhhc-------CCCCCCHHHHHHHH
Q 023879 113 GKAVMSNEEFDNLKEELMW-----------EGS-SVVMLSSAEQKFLEASM----AYVA-------GKPIMSDEEYDKLK 169 (276)
Q Consensus 113 gk~~~sdeEfd~LkEeL~w-----------eGS-svv~L~~~Eq~fLEA~~----aY~~-------GkPimsDeeFD~LK 169 (276)
-|..|+.+||..-++.|.= +|- --=-|++.||+.+..+. -|++ -|.||+++|||+-+
T Consensus 36 AK~~lgeeEfeef~~lLK~lt~~kLkygD~NGnidye~ls~~eqee~k~~~~eLqPYFdKLN~~~SsK~vlt~~E~d~y~ 115 (162)
T PF12207_consen 36 AKGELGEEEFEEFKELLKKLTNAKLKYGDKNGNIDYEKLSKEEQEEYKKLTMELQPYFDKLNGHKSSKEVLTQEEYDQYI 115 (162)
T ss_dssp HHHCS-HHHHHHHHHHHHHHHHHHHHHB-TTS-B-GGGS-HHHHHHHHHHHHHHHHHHHHHTT---HHHHS-HHHHHHHH
T ss_pred HHHhhhHHHHHHHHHHHHHHHHhHHhhcccCCCcCHHhCCHHHHHHHHHHHHhcchHHHHhcCCcchhhhcCHHHHHHHH
Confidence 5778999999998887753 332 11236677777776632 3653 45688888888877
Q ss_pred HHHHhh
Q 023879 170 QKLKME 175 (276)
Q Consensus 170 ~kLk~~ 175 (276)
.-|..+
T Consensus 116 eALm~~ 121 (162)
T PF12207_consen 116 EALMTY 121 (162)
T ss_dssp HHHHHH
T ss_pred HHHhhh
Confidence 777554
No 46
>PF08976 DUF1880: Domain of unknown function (DUF1880); InterPro: IPR015070 This entry represents EF-hand calcium-binding domain-containing protein 6 that negatively regulates the androgen receptor by recruiting histone deacetylase complex, and protein DJ-1 antagonises this inhibition by abrogation of this complex [].; PDB: 1WLZ_C.
Probab=25.73 E-value=36 Score=29.21 Aligned_cols=15 Identities=33% Similarity=0.796 Sum_probs=8.8
Q ss_pred CCCCHHHHHHHHHHH
Q 023879 158 PIMSDEEYDKLKQKL 172 (276)
Q Consensus 158 PimsDeeFD~LK~kL 172 (276)
.|++||+||+|=.+|
T Consensus 2 qiLtDeQFdrLW~e~ 16 (118)
T PF08976_consen 2 QILTDEQFDRLWNEM 16 (118)
T ss_dssp ----HHHHHHHHTTS
T ss_pred ccccHHHhhhhhhhC
Confidence 589999999985554
No 47
>PF05120 GvpG: Gas vesicle protein G ; InterPro: IPR007804 Gas vesicles are intracellular, protein-coated, and hollow organelles found in cyanobacteria and halophilic archaea. They are permeable to ambient gases by diffusion and provide buoyancy, enabling cells to move upwards in water to access oxygen and/or light. Proteins containing this family are involved in the formation of gas vesicles [].
Probab=25.42 E-value=1.2e+02 Score=24.15 Aligned_cols=27 Identities=30% Similarity=0.521 Sum_probs=21.5
Q ss_pred HHHHHHHH-hhhcCCCCCCHHHHHHHHHHH
Q 023879 144 QKFLEASM-AYVAGKPIMSDEEYDKLKQKL 172 (276)
Q Consensus 144 q~fLEA~~-aY~~GkPimsDeeFD~LK~kL 172 (276)
|+.|.+++ +|-.|+ ||.++||+-+.+|
T Consensus 34 ~~~L~~L~~~~e~GE--IseeEf~~~E~eL 61 (79)
T PF05120_consen 34 RRELAELQEALEAGE--ISEEEFERREDEL 61 (79)
T ss_pred HHHHHHHHHHHHcCC--CCHHHHHHHHHHH
Confidence 34566665 499998 8999999998887
No 48
>PLN00049 carboxyl-terminal processing protease; Provisional
Probab=25.28 E-value=1.7e+02 Score=28.42 Aligned_cols=68 Identities=18% Similarity=0.343 Sum_probs=45.1
Q ss_pred hhHHHHHHHHH---HHHhhhcCccccChHHHHhHHHHhhhcCCeeEEeChhhHHHHHH---HHh-----hhcCCCCCCHH
Q 023879 95 LGELEQEFLQA---LQAFYYEGKAVMSNEEFDNLKEELMWEGSSVVMLSSAEQKFLEA---SMA-----YVAGKPIMSDE 163 (276)
Q Consensus 95 lge~E~~fl~A---l~sfY~~gk~~~sdeEfd~LkEeL~weGSsvv~L~~~Eq~fLEA---~~a-----Y~~GkPimsDe 163 (276)
+-|..|+|.+| +..+||+.+ |...+|+.++|+..|.-. +...+ ++..| +.+ |.. .++.+
T Consensus 2 ~~~~~~~f~e~w~~v~~~~~d~~--~~g~dW~~~~e~y~~~~~----~~~~~-~~~~~i~~ml~~L~D~hs~---y~~~~ 71 (389)
T PLN00049 2 LTEENLLFLEAWRTVDRAYVDKT--FNGQSWFRYRENALKNEP----MNTRE-ETYAAIRKMLATLDDPFTR---FLEPE 71 (389)
T ss_pred CccHHHHHHHHHHHHHHHHcCcc--ccccCHHHHHHHHhhccC----CCcHH-HHHHHHHHHHhhCCCCccc---CcCHH
Confidence 34678999998 566787764 899999999999999642 22222 22233 222 222 67888
Q ss_pred HHHHHHHHH
Q 023879 164 EYDKLKQKL 172 (276)
Q Consensus 164 eFD~LK~kL 172 (276)
+|..+....
T Consensus 72 ~~~~~~~~~ 80 (389)
T PLN00049 72 KFKSLRSGT 80 (389)
T ss_pred HHHHHHHhc
Confidence 998776543
No 49
>KOG1372 consensus GDP-mannose 4,6 dehydratase [Carbohydrate transport and metabolism]
Probab=25.09 E-value=33 Score=33.66 Aligned_cols=39 Identities=28% Similarity=0.444 Sum_probs=28.2
Q ss_pred HHHHHHHHHHhhhcCccc---------cChHHHHh-----HHHHhhhcCCeeE
Q 023879 99 EQEFLQALQAFYYEGKAV---------MSNEEFDN-----LKEELMWEGSSVV 137 (276)
Q Consensus 99 E~~fl~Al~sfY~~gk~~---------~sdeEfd~-----LkEeL~weGSsvv 137 (276)
-.+|++|+|.--...+|. -|-+||++ +-|+|+|+|..|=
T Consensus 257 A~dYVEAMW~mLQ~d~PdDfViATge~hsVrEF~~~aF~~ig~~l~Weg~gv~ 309 (376)
T KOG1372|consen 257 AGDYVEAMWLMLQQDSPDDFVIATGEQHSVREFCNLAFAEIGEVLNWEGEGVD 309 (376)
T ss_pred hHHHHHHHHHHHhcCCCCceEEecCCcccHHHHHHHHHHhhCcEEeecccccc
Confidence 357999999988777662 24456655 5789999988653
No 50
>cd07105 ALDH_SaliADH Salicylaldehyde dehydrogenase, DoxF-like. Salicylaldehyde dehydrogenase (DoxF, SaliADH, EC=1.2.1.65) involved in the upper naphthalene catabolic pathway of Pseudomonas strain C18 and other similar sequences are present in this CD.
Probab=24.96 E-value=2.6e+02 Score=27.08 Aligned_cols=70 Identities=23% Similarity=0.447 Sum_probs=46.5
Q ss_pred ccChHHHHhHHHHhhh-----cCC------eeEEeChhhHHHHHHHHhhh----cC----CCCCCHHHHHHHHHHHHh--
Q 023879 116 VMSNEEFDNLKEELMW-----EGS------SVVMLSSAEQKFLEASMAYV----AG----KPIMSDEEYDKLKQKLKM-- 174 (276)
Q Consensus 116 ~~sdeEfd~LkEeL~w-----eGS------svv~L~~~Eq~fLEA~~aY~----~G----kPimsDeeFD~LK~kLk~-- 174 (276)
++.|.+.|.--+.+.| .|- .+++-...-.+|++++.... -| -|+++...+++++.-+..
T Consensus 219 V~~dadl~~aa~~i~~~~~~~~GQ~C~a~~~v~V~~~i~~~f~~~l~~~~~~~~~g~~~~gp~i~~~~~~~~~~~i~~a~ 298 (432)
T cd07105 219 VLEDADLDAAANAALFGAFLNSGQICMSTERIIVHESIADEFVEKLKAAAEKLFAGPVVLGSLVSAAAADRVKELVDDAL 298 (432)
T ss_pred ECCCCCHHHHHHHHHHHHHhcCCCCCcCCceEEEcHHHHHHHHHHHHHHHHhhcCCCCcccccCCHHHHHHHHHHHHHHH
Confidence 4557778877777777 343 33333344467888866532 22 389999999999988764
Q ss_pred -hCCceeeecCc
Q 023879 175 -EGSEIVVEGPR 185 (276)
Q Consensus 175 -~GS~Vvvk~Pr 185 (276)
.|.+++.-|.+
T Consensus 299 ~~ga~~~~gg~~ 310 (432)
T cd07105 299 SKGAKLVVGGLA 310 (432)
T ss_pred HCCCEEEeCCCc
Confidence 58888775543
No 51
>PLN02278 succinic semialdehyde dehydrogenase
Probab=24.21 E-value=2.6e+02 Score=27.92 Aligned_cols=68 Identities=19% Similarity=0.426 Sum_probs=46.7
Q ss_pred ccChHHHHhHHHHhhh-----cCC------eeEEeChhhHHHHHHHHhhh----cCC---------CCCCHHHHHHHHHH
Q 023879 116 VMSNEEFDNLKEELMW-----EGS------SVVMLSSAEQKFLEASMAYV----AGK---------PIMSDEEYDKLKQK 171 (276)
Q Consensus 116 ~~sdeEfd~LkEeL~w-----eGS------svv~L~~~Eq~fLEA~~aY~----~Gk---------PimsDeeFD~LK~k 171 (276)
++.|.+.|.--+.+.| .|- ++++-...-.+|++++.... -|. |+++...+|+++.-
T Consensus 278 V~~dAdl~~aa~~i~~~~f~~~GQ~C~a~~rv~V~~~i~~~f~~~L~~~~~~l~~G~p~~~~~~~Gpli~~~~~~~v~~~ 357 (498)
T PLN02278 278 VFDDADLDVAVKGALASKFRNSGQTCVCANRILVQEGIYDKFAEAFSKAVQKLVVGDGFEEGVTQGPLINEAAVQKVESH 357 (498)
T ss_pred ECCCCCHHHHHHHHHHHHhccCCCCCcCCcEEEEeHHHHHHHHHHHHHHHHhcCCCCCCCCCCcCCCccCHHHHHHHHHH
Confidence 5567888887777776 343 44444554678888866533 343 68999999999876
Q ss_pred HH---hhCCceeeec
Q 023879 172 LK---MEGSEIVVEG 183 (276)
Q Consensus 172 Lk---~~GS~Vvvk~ 183 (276)
+. ..|.+++.-|
T Consensus 358 i~~a~~~Ga~vl~gG 372 (498)
T PLN02278 358 VQDAVSKGAKVLLGG 372 (498)
T ss_pred HHHHHhCCCEEEeCC
Confidence 65 4688877644
No 52
>TIGR01222 minC septum site-determining protein MinC. The minC protein assists in correct placement of the septum for cell division by inhibiting septum formation at other sites. Homologs from Deinocoocus, Synechocystis PCC 6803, and Helicobacter pylori do not hit the full length of the model and score between the trusted and noise cutoffs.
Probab=23.98 E-value=99 Score=27.75 Aligned_cols=15 Identities=27% Similarity=0.472 Sum_probs=10.4
Q ss_pred cChHHHHhHHHHhhh
Q 023879 117 MSNEEFDNLKEELMW 131 (276)
Q Consensus 117 ~sdeEfd~LkEeL~w 131 (276)
+.+++|+.|+++|.+
T Consensus 16 L~~~~~~~l~~~L~~ 30 (217)
T TIGR01222 16 LDDQNLDELLQELSE 30 (217)
T ss_pred ECCCCHHHHHHHHHH
Confidence 345688888888764
No 53
>PF12162 STAT1_TAZ2bind: STAT1 TAZ2 binding domain; InterPro: IPR022752 This entry represents the C-terminal domain of STAT1, which selectively binds the TAZ2 domain of CRB (CREB-binding protein) []. This group of eukaryotic proteins is approximately 20 amino acids in length, and is found in association with PF02865 from PFAM, PF00017 from PFAM, PF01017 from PFAM, PF02864 from PFAM. By binding to CRB, it becomes a transcriptional activator and can initiate transcription of certain genes. ; GO: 0003700 sequence-specific DNA binding transcription factor activity; PDB: 2KA6_B.
Probab=23.98 E-value=60 Score=20.81 Aligned_cols=12 Identities=42% Similarity=0.839 Sum_probs=9.2
Q ss_pred CCHHHHHHHHHH
Q 023879 160 MSDEEYDKLKQK 171 (276)
Q Consensus 160 msDeeFD~LK~k 171 (276)
||.|+|++|+.-
T Consensus 10 MSPddy~~l~~~ 21 (23)
T PF12162_consen 10 MSPDDYDELERM 21 (23)
T ss_dssp S-HHHHHHHHHH
T ss_pred CCHHHHHHHHHh
Confidence 899999998763
No 54
>PLN02766 coniferyl-aldehyde dehydrogenase
Probab=23.79 E-value=2.6e+02 Score=28.05 Aligned_cols=69 Identities=16% Similarity=0.431 Sum_probs=43.9
Q ss_pred ccChHHHHhHHHHhhh-----cCC------eeEEeChhhHHHHHHHHh----hhcCC---------CCCCHHHHHHHHHH
Q 023879 116 VMSNEEFDNLKEELMW-----EGS------SVVMLSSAEQKFLEASMA----YVAGK---------PIMSDEEYDKLKQK 171 (276)
Q Consensus 116 ~~sdeEfd~LkEeL~w-----eGS------svv~L~~~Eq~fLEA~~a----Y~~Gk---------PimsDeeFD~LK~k 171 (276)
++.|.+.|..=+.+.| .|- ++++-...-.+|++++.. ++-|. |+++.+.+|+++.-
T Consensus 277 V~~dADl~~Aa~~i~~g~f~n~GQ~C~a~~ri~V~~si~d~f~~~l~~~~~~l~~G~p~~~~~~~Gpli~~~~~~~v~~~ 356 (501)
T PLN02766 277 IFDDADVDMAVDLALLGIFYNKGEICVASSRVYVQEGIYDEFVKKLVEKAKDWVVGDPFDPRARQGPQVDKQQFEKILSY 356 (501)
T ss_pred ECCCCCHHHHHHHHHHHHHhhcCCCCCCCeEEEEcHHHHHHHHHHHHHHHHhccCCCCCCCCCCCCCCCCHHHHHHHHHH
Confidence 3446666666666666 233 334444445677777543 44454 68999999999987
Q ss_pred HHh---hCCceeeecC
Q 023879 172 LKM---EGSEIVVEGP 184 (276)
Q Consensus 172 Lk~---~GS~Vvvk~P 184 (276)
+.. .|.+|+.-|.
T Consensus 357 i~~a~~~Ga~v~~gG~ 372 (501)
T PLN02766 357 IEHGKREGATLLTGGK 372 (501)
T ss_pred HHHHHhCCCEEEeCCC
Confidence 754 5888876553
No 55
>PF05193 Peptidase_M16_C: Peptidase M16 inactive domain; InterPro: IPR007863 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. These metallopeptidases belong to MEROPS peptidase family M16 (clan ME). They include proteins, which are classified as non-peptidase homologues either have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity. The peptidases in this group of sequences include: Insulinase, insulin-degrading enzyme (3.4.24.56 from EC) Mitochondrial processing peptidase alpha subunit, (Alpha-MPP, 3.4.24.64 from EC) Pitrlysin, Protease III precursor (3.4.24.55 from EC) Nardilysin, (3.4.24.61 from EC) Ubiquinol-cytochrome C reductase complex core protein I,mitochondrial precursor (1.10.2.2 from EC) Coenzyme PQQ synthesis protein F (3.4.99 from EC) These proteins do not share many regions of sequence similarity; the most noticeable is in the N-terminal section. This region includes a conserved histidine followed, two residues later by a glutamate and another histidine. In pitrilysin, it has been shown [] that this H-x-x-E-H motif is involved in enzymatic activity; the two histidines bind zinc and the glutamate is necessary for catalytic activity. The mitochondrial processing peptidase consists of two structurally related domains. One is the active peptidase whereas the other, the C-terminal region, is inactive. The two domains hold the substrate like a clamp [].; GO: 0004222 metalloendopeptidase activity, 0008270 zinc ion binding, 0006508 proteolysis; PDB: 1BE3_B 1PP9_B 2A06_B 1SQB_B 1SQP_B 1L0N_B 1SQX_B 1NU1_B 1L0L_B 2FYU_B ....
Probab=23.64 E-value=1.5e+02 Score=22.90 Aligned_cols=33 Identities=33% Similarity=0.493 Sum_probs=24.3
Q ss_pred chhHHHHHHHHHHHHhhhcCccccChHHHHhHHHHh
Q 023879 94 SLGELEQEFLQALQAFYYEGKAVMSNEEFDNLKEEL 129 (276)
Q Consensus 94 slge~E~~fl~Al~sfY~~gk~~~sdeEfd~LkEeL 129 (276)
.+.+.+..+++-+...=..| ++++||++.|+.|
T Consensus 152 ~~~~~~~~~~~~l~~l~~~~---~s~~el~~~k~~L 184 (184)
T PF05193_consen 152 NLDEAIEAILQELKRLREGG---ISEEELERAKNQL 184 (184)
T ss_dssp GHHHHHHHHHHHHHHHHHHC---S-HHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHHHcC---CCHHHHHHHHhcC
Confidence 56667777777777755554 9999999999876
No 56
>PF03965 Penicillinase_R: Penicillinase repressor; InterPro: IPR005650 Proteins in this entry are transcriptional regulators found in a variety of bacteria and a small number of archaea. Many are BlaI/MecI proteins which regulate resistance to penicillins (beta-lactams), though at least one protein (Q47839 from SWISSPROT) appears to be involved in the regulation of copper homeostasis []. BlaI regulators repress the expression of penicillin-degrading enzymes (penicillinases) until the cell encounters the antiobiotic, at which point repression ceases and penicillinase expression occurs, allowing cell growth []. MecI regulators repress the expression of MecA, a cell-wall biosynthetic enzyme not inhibited by penicillins at clinically achievable concentrations, until the presence of the antibiotic is detected []. At this point repression ends and MecA expression occurs which, together with the switching off of the penicillin-sensitive enzymes, allows the cell to grow despite the presence of antibiotic.; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent; PDB: 2G9W_A 2K4B_A 1XSD_A 1SD4_A 1SD7_A 1SD6_A 2P7C_B 1P6R_A 1OKR_B 2D45_B ....
Probab=23.47 E-value=2e+02 Score=22.89 Aligned_cols=33 Identities=33% Similarity=0.545 Sum_probs=22.5
Q ss_pred hhHHHHHHHHHHHHhhhcCccccChHHHHhHHHHhhh
Q 023879 95 LGELEQEFLQALQAFYYEGKAVMSNEEFDNLKEELMW 131 (276)
Q Consensus 95 lge~E~~fl~Al~sfY~~gk~~~sdeEfd~LkEeL~w 131 (276)
|++.|.+.++.+|. .|. .-..|=.+.|+++..|
T Consensus 1 Ls~~E~~IM~~lW~---~~~-~t~~eI~~~l~~~~~~ 33 (115)
T PF03965_consen 1 LSDLELEIMEILWE---SGE-ATVREIHEALPEERSW 33 (115)
T ss_dssp --HHHHHHHHHHHH---HSS-EEHHHHHHHHCTTSS-
T ss_pred CCHHHHHHHHHHHh---CCC-CCHHHHHHHHHhcccc
Confidence 57888888888887 344 5557778888887666
No 57
>cd07143 ALDH_AldA_AN0554 Aspergillus nidulans aldehyde dehydrogenase, AldA (AN0554)-like. NAD(P)+-dependent aldehyde dehydrogenase (AldA) of Aspergillus nidulans (locus AN0554), and other similar sequences, are present in this CD.
Probab=23.26 E-value=2.8e+02 Score=27.51 Aligned_cols=68 Identities=16% Similarity=0.351 Sum_probs=46.3
Q ss_pred ccChHHHHhHHHHhhh-----cCC------eeEEeChhhHHHHHHHHhh----hcCC---------CCCCHHHHHHHHHH
Q 023879 116 VMSNEEFDNLKEELMW-----EGS------SVVMLSSAEQKFLEASMAY----VAGK---------PIMSDEEYDKLKQK 171 (276)
Q Consensus 116 ~~sdeEfd~LkEeL~w-----eGS------svv~L~~~Eq~fLEA~~aY----~~Gk---------PimsDeeFD~LK~k 171 (276)
++.|.+.|.--+.+.| .|. +|++-.+.-.+|++++... .-|. |+++...+|+++..
T Consensus 263 V~~dADl~~Aa~~i~~~~~~naGQ~C~a~~rv~V~~~i~d~f~~~l~~~~~~~~~G~p~~~~~~~gpli~~~~~~~~~~~ 342 (481)
T cd07143 263 VFDDADLESAVVWTAYGIFFNHGQVCCAGSRIYVQEGIYDKFVKRFKEKAKKLKVGDPFAEDTFQGPQVSQIQYERIMSY 342 (481)
T ss_pred ECCCCCHHHHHHHHHHHHHhccCCCCCCCcEEEEeHhHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCcCHHHHHHHHHH
Confidence 4567788887777666 344 3444455566788886653 3343 68999999999988
Q ss_pred HH---hhCCceeeec
Q 023879 172 LK---MEGSEIVVEG 183 (276)
Q Consensus 172 Lk---~~GS~Vvvk~ 183 (276)
+. ..|.+|+.-|
T Consensus 343 i~~a~~~ga~v~~gg 357 (481)
T cd07143 343 IESGKAEGATVETGG 357 (481)
T ss_pred HHHHHhCCCEEEeCC
Confidence 75 4688887654
No 58
>cd07115 ALDH_HMSADH_HapE Pseudomonas fluorescens 4-hydroxymuconic semialdehyde dehydrogenase-like. 4-hydroxymuconic semialdehyde dehydrogenase (HapE, EC=1.2.1.61) of Pseudomonas fluorescens ACB involved in 4-hydroxyacetophenone degradation, and putative hydroxycaproate semialdehyde dehydrogenase (ChnE) of Brachymonas petroleovorans involved in cyclohexane metabolism, and other similar sequences, are present in this CD.
Probab=23.18 E-value=3e+02 Score=26.77 Aligned_cols=68 Identities=21% Similarity=0.454 Sum_probs=45.4
Q ss_pred ccChHHHHhHHHHhhh-----cCCe------eEEeChhhHHHHHHHHhhh----cC---------CCCCCHHHHHHHHHH
Q 023879 116 VMSNEEFDNLKEELMW-----EGSS------VVMLSSAEQKFLEASMAYV----AG---------KPIMSDEEYDKLKQK 171 (276)
Q Consensus 116 ~~sdeEfd~LkEeL~w-----eGSs------vv~L~~~Eq~fLEA~~aY~----~G---------kPimsDeeFD~LK~k 171 (276)
++.|.+.|.--+.+.| .|.. |++-.....+|++++.... -| -|+++.+.+++++..
T Consensus 235 V~~dAdl~~aa~~i~~~~~~~~GQ~C~a~~~v~V~~~i~~~f~~~l~~~~~~~~~g~p~~~~~~~gpli~~~~~~~~~~~ 314 (453)
T cd07115 235 VFADADLDAAVRAAATGIFYNQGQMCTAGSRLLVHESIYDEFLERFTSLARSLRPGDPLDPKTQMGPLVSQAQFDRVLDY 314 (453)
T ss_pred ECCCCCHHHHHHHHHHHHHhccCCCCCCCeEEEEcHHHHHHHHHHHHHHHhcCCcCCCCCCCCCCCCCcCHHHHHHHHHH
Confidence 5557888887777777 3543 3334444567888765533 23 368999999999977
Q ss_pred HHh---hCCceeeec
Q 023879 172 LKM---EGSEIVVEG 183 (276)
Q Consensus 172 Lk~---~GS~Vvvk~ 183 (276)
+.. .|.+|+.-|
T Consensus 315 i~~a~~~Ga~v~~gg 329 (453)
T cd07115 315 VDVGREEGARLLTGG 329 (453)
T ss_pred HHHHHHCCCEEEeCC
Confidence 754 588877544
No 59
>COG2960 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.95 E-value=1.1e+02 Score=25.84 Aligned_cols=38 Identities=29% Similarity=0.406 Sum_probs=31.2
Q ss_pred ccchhHHHHHHHHHHHHhhhcCccccChHHHHhHHHHhh
Q 023879 92 KKSLGELEQEFLQALQAFYYEGKAVMSNEEFDNLKEELM 130 (276)
Q Consensus 92 ~~slge~E~~fl~Al~sfY~~gk~~~sdeEfd~LkEeL~ 130 (276)
+..-+|.|..|-+-+|+.+ .....++.||||..++-|-
T Consensus 32 ~~~~~evE~~~r~~~q~~l-nkLDlVsREEFdvq~qvl~ 69 (103)
T COG2960 32 QEVRAEVEKAFRAQLQRQL-NKLDLVSREEFDVQRQVLL 69 (103)
T ss_pred hhhHHHHHHHHHHHHHHHH-hhhhhhhHHHHHHHHHHHH
Confidence 3455789999999999955 5688999999999988754
No 60
>PRK14562 haloacid dehalogenase superfamily protein; Provisional
Probab=22.72 E-value=1.3e+02 Score=26.99 Aligned_cols=42 Identities=33% Similarity=0.419 Sum_probs=31.2
Q ss_pred HHHHhHHHHh------hhcCCeeEEeChhhHHHHHHH--HhhhcCCCCCCHHHH
Q 023879 120 EEFDNLKEEL------MWEGSSVVMLSSAEQKFLEAS--MAYVAGKPIMSDEEY 165 (276)
Q Consensus 120 eEfd~LkEeL------~weGSsvv~L~~~Eq~fLEA~--~aY~~GkPimsDeeF 165 (276)
+.++.|++.+ .|.| ..+...|+++||+ ..|..++.+++.+||
T Consensus 58 ~~~~~l~~~~~~~~~~~y~~----~~~~~lQEyvEA~~f~~~l~~~~l~s~eel 107 (204)
T PRK14562 58 ELVKELKELLKDHPELYYAG----YVGTALQEYVEALLVYSLLFENKIPSPEEL 107 (204)
T ss_pred HHHHHHHHHhccCchhhhhh----hcchHHHHHHHHHHHHHHHcCCCCCCHHHc
Confidence 5566666665 3444 3577889999994 459999999999885
No 61
>PF13937 DUF4212: Domain of unknown function (DUF4212)
Probab=22.53 E-value=1.5e+02 Score=23.59 Aligned_cols=33 Identities=24% Similarity=0.468 Sum_probs=19.0
Q ss_pred HHhhchhhHHH-HhhhhhhcccccceeEeeeccCCCCchh
Q 023879 204 MLLLNVPATVV-ALGLFFFLDDITGFEITYLLELPEPFSF 242 (276)
Q Consensus 204 m~lL~~~a~vv-alG~~~~ldd~~GfeIt~~~~lpeP~g~ 242 (276)
..+|.+|..+. +.|+ ++.+++-.+.+ ..-|+|+
T Consensus 15 ~~lL~iW~vvsfg~~~-lfa~~Ln~~~~-----~GfPlgf 48 (81)
T PF13937_consen 15 AILLAIWFVVSFGVGI-LFADELNQITF-----GGFPLGF 48 (81)
T ss_pred HHHHHHHHHHHHHHHH-HHHHHHcCCee-----CCCChHH
Confidence 34466777654 4444 44577766664 2346777
No 62
>cd07144 ALDH_ALD2-YMR170C Saccharomyces cerevisiae aldehyde dehydrogenase 2 (YMR170c)-like. NAD(P)+-dependent Saccharomyces cerevisiae aldehyde dehydrogenase 2 (YMR170c, ALD5, EC=1.2.1.5) and other similar sequences, are present in this CD.
Probab=22.41 E-value=3.3e+02 Score=26.85 Aligned_cols=68 Identities=24% Similarity=0.409 Sum_probs=44.0
Q ss_pred ccChHHHHhHHHHhhh-----cCCe------eEEeChhhHHHHHHHHhh-----hcCC---------CCCCHHHHHHHHH
Q 023879 116 VMSNEEFDNLKEELMW-----EGSS------VVMLSSAEQKFLEASMAY-----VAGK---------PIMSDEEYDKLKQ 170 (276)
Q Consensus 116 ~~sdeEfd~LkEeL~w-----eGSs------vv~L~~~Eq~fLEA~~aY-----~~Gk---------PimsDeeFD~LK~ 170 (276)
++.|.+.|.--+.+.| .|.+ |++-...-.+|++++... .-|. |+++.+.+++++.
T Consensus 262 V~~dADl~~Aa~~i~~~~f~~~GQ~C~a~~rv~V~~~i~d~f~~~l~~~~~~~~~~G~p~~~~~~~gpli~~~~~~~~~~ 341 (484)
T cd07144 262 VFEDADLDQAVKWAAAGIMYNSGQNCTATSRIYVQESIYDKFVEKFVEHVKQNYKVGSPFDDDTVVGPQVSKTQYDRVLS 341 (484)
T ss_pred ECCCCCHHHHHHHHHHHHHhcCCCCCCCCceEEEcHHHHHHHHHHHHHHHHhhCCcCCCCCCCCcCCCCcCHHHHHHHHH
Confidence 4456777777676655 3443 333334446677775543 3365 4789999999998
Q ss_pred HHHh---hCCceeeec
Q 023879 171 KLKM---EGSEIVVEG 183 (276)
Q Consensus 171 kLk~---~GS~Vvvk~ 183 (276)
.+.. .|.+|+.-|
T Consensus 342 ~i~~a~~~ga~v~~gg 357 (484)
T cd07144 342 YIEKGKKEGAKLVYGG 357 (484)
T ss_pred HHHHHHHCCCEEEeCC
Confidence 8876 688877644
No 63
>PLN02428 lipoic acid synthase
Probab=22.32 E-value=1.1e+02 Score=29.98 Aligned_cols=29 Identities=21% Similarity=0.315 Sum_probs=25.2
Q ss_pred CCCCCHHHHHHHHHHHHhhCCceeeecCc
Q 023879 157 KPIMSDEEYDKLKQKLKMEGSEIVVEGPR 185 (276)
Q Consensus 157 kPimsDeeFD~LK~kLk~~GS~Vvvk~Pr 185 (276)
++-+.++||+.+|..=...|-.-|.-||-
T Consensus 295 ~~~v~p~~f~~~~~~~~~~gf~~v~sgp~ 323 (349)
T PLN02428 295 KEYVTPEKFEFWREYGEEMGFRYVASGPL 323 (349)
T ss_pred ecccCHHHHHHHHHHHHHcCCceEEecCc
Confidence 45788999999999999999999998874
No 64
>cd07135 ALDH_F14-YMR110C Saccharomyces cerevisiae aldehyde dehydrogenase family 14 and related proteins. Aldehyde dehydrogenase family 14 (ALDH14), isolated mainly from the mitochondrial outer membrane of Saccharomyces cerevisiae (YMR110C) and most closely related to the plant and animal ALDHs and fatty ALDHs family 3 members, and similar fungal sequences, are present in this CD.
Probab=22.24 E-value=3e+02 Score=26.99 Aligned_cols=70 Identities=21% Similarity=0.465 Sum_probs=48.4
Q ss_pred ccChHHHHhHHHHhhh-----cCC------eeEEeChhhHHHHHHHHh----hhcCC--------CCCCHHHHHHHHHHH
Q 023879 116 VMSNEEFDNLKEELMW-----EGS------SVVMLSSAEQKFLEASMA----YVAGK--------PIMSDEEYDKLKQKL 172 (276)
Q Consensus 116 ~~sdeEfd~LkEeL~w-----eGS------svv~L~~~Eq~fLEA~~a----Y~~Gk--------PimsDeeFD~LK~kL 172 (276)
++.|.+.|.--+.+.| .|- ++++-...-.+|++++.+ +.-|. |+++...++++..-+
T Consensus 223 V~~dADl~~aa~~i~~~~~~~~GQ~C~a~~rv~V~~~i~d~f~~~l~~~~~~~~~g~p~~~~~~gpli~~~~~~~i~~~v 302 (436)
T cd07135 223 VTKNADLELAAKRILWGKFGNAGQICVAPDYVLVDPSVYDEFVEELKKVLDEFYPGGANASPDYTRIVNPRHFNRLKSLL 302 (436)
T ss_pred ECCCCCHHHHHHHHHHHHhccCCceecCCCEEeccHHHHHHHHHHHHHHHHHhcCCCCCCCCCcCCCCCHHHHHHHHHHH
Confidence 4567888887777766 353 333333344678887554 44465 789999999999988
Q ss_pred HhhCCceeeecCc
Q 023879 173 KMEGSEIVVEGPR 185 (276)
Q Consensus 173 k~~GS~Vvvk~Pr 185 (276)
...|.+|+.-|++
T Consensus 303 ~~ag~~v~~gg~~ 315 (436)
T cd07135 303 DTTKGKVVIGGEM 315 (436)
T ss_pred HhcCCeEEECCCc
Confidence 8878887765544
No 65
>cd07078 ALDH NAD(P)+ dependent aldehyde dehydrogenase family. The aldehyde dehydrogenase family (ALDH) of NAD(P)+ dependent enzymes, in general, oxidize a wide range of endogenous and exogenous aliphatic and aromatic aldehydes to their corresponding carboxylic acids and play an important role in detoxification. Besides aldehyde detoxification, many ALDH isozymes possess multiple additional catalytic and non-catalytic functions such as participating in metabolic pathways, or as binding proteins, or as osmoregulants, to mention a few. The enzyme has three domains, a NAD(P)+ cofactor-binding domain, a catalytic domain, and a bridging domain; and the active enzyme is generally either homodimeric or homotetrameric. The catalytic mechanism is proposed to involve cofactor binding, resulting in a conformational change and activation of an invariant catalytic cysteine nucleophile. The cysteine and aldehyde substrate form an oxyanion thiohemiacetal intermediate resulting in hydride transfer
Probab=22.22 E-value=3.2e+02 Score=25.95 Aligned_cols=67 Identities=18% Similarity=0.439 Sum_probs=43.5
Q ss_pred cChHHHHhHHHHhhh-----cCC------eeEEeChhhHHHHHHHHh----hhcCC---------CCCCHHHHHHHHHHH
Q 023879 117 MSNEEFDNLKEELMW-----EGS------SVVMLSSAEQKFLEASMA----YVAGK---------PIMSDEEYDKLKQKL 172 (276)
Q Consensus 117 ~sdeEfd~LkEeL~w-----eGS------svv~L~~~Eq~fLEA~~a----Y~~Gk---------PimsDeeFD~LK~kL 172 (276)
+.+.+++..-+.+.| .|. .+++.+....+|++++.. +.-|. |+++.+.+++++..+
T Consensus 215 ~~~ad~~~aa~~i~~~~~~~~Gq~C~a~~~i~v~~~~~~~~~~~L~~~l~~~~~g~p~~~~~~~~~~~~~~~~~~~~~~i 294 (432)
T cd07078 215 FDDADLDAAVKGAVFGAFGNAGQVCTAASRLLVHESIYDEFVERLVERVKALKVGNPLDPDTDMGPLISAAQLDRVLAYI 294 (432)
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCccCCceEEEcHHHHHHHHHHHHHHHHccCcCCCCCCCCCCCCCCCHHHHHHHHHHH
Confidence 556677776666554 453 333444444677777543 55454 488999999999888
Q ss_pred Hh---hCCceeeec
Q 023879 173 KM---EGSEIVVEG 183 (276)
Q Consensus 173 k~---~GS~Vvvk~ 183 (276)
.. .|.+++.-|
T Consensus 295 ~~~~~~g~~~~~gg 308 (432)
T cd07078 295 EDAKAEGAKLLCGG 308 (432)
T ss_pred HHHHhCCCEEEeCC
Confidence 76 577777644
No 66
>COG2901 Fis Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]
Probab=21.86 E-value=2.7e+02 Score=23.32 Aligned_cols=75 Identities=27% Similarity=0.384 Sum_probs=50.4
Q ss_pred ccccccccchhHHHHHHHHHHHHhhhcCccccChHHHHhHHHHhhhcCCeeEEeChhhHHHHHHHHhhhcCCCCCCHHHH
Q 023879 86 SIDKKEKKSLGELEQEFLQALQAFYYEGKAVMSNEEFDNLKEELMWEGSSVVMLSSAEQKFLEASMAYVAGKPIMSDEEY 165 (276)
Q Consensus 86 sid~~~~~slge~E~~fl~Al~sfY~~gk~~~sdeEfd~LkEeL~weGSsvv~L~~~Eq~fLEA~~aY~~GkPimsDeeF 165 (276)
+-|.-+++.|++- --+||..||.+=.-.--++-||.. |.+.||-.|+.++-|.+|++----++-
T Consensus 18 t~~~~~~~plRds---V~~~L~~Y~~~L~G~~v~~lY~mV-------------L~evE~PLL~~vM~~~~gNQtrAa~mL 81 (98)
T COG2901 18 SQDQITQKPLRDS---VKQALKNYFADLNGQDVNDLYEMV-------------LAEVEQPLLDMVMQYTRGNQTRAALML 81 (98)
T ss_pred cCCccccccHHHH---HHHHHHHHHHHcCCCChhhHHHHH-------------HHHHHhHHHHHHHHHhcccHHHHHHHH
Confidence 3444556666653 235788876653333335566643 555799999999999999987655554
Q ss_pred ----HHHHHHHHhhC
Q 023879 166 ----DKLKQKLKMEG 176 (276)
Q Consensus 166 ----D~LK~kLk~~G 176 (276)
..|+.|||++|
T Consensus 82 GinR~TLRKKLkqyg 96 (98)
T COG2901 82 GINRGTLRKKLKKYG 96 (98)
T ss_pred cccHHHHHHHHHHhC
Confidence 46888888887
No 67
>KOG4634 consensus Mitochondrial F1F0-ATP synthase, subunit Cf6 (coupling factor 6) [Energy production and conversion]
Probab=20.34 E-value=1.4e+02 Score=25.16 Aligned_cols=32 Identities=41% Similarity=0.664 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHhhh---cCccccChHHHH-hHHHHh
Q 023879 98 LEQEFLQALQAFYY---EGKAVMSNEEFD-NLKEEL 129 (276)
Q Consensus 98 ~E~~fl~Al~sfY~---~gk~~~sdeEfd-~LkEeL 129 (276)
--|.|++.+..|=. .|+++-+|-||+ +|||||
T Consensus 34 IqqlFldKvREy~~ks~~Gklvds~pe~e~eLk~el 69 (105)
T KOG4634|consen 34 IQQLFLDKVREYKKKSPAGKLVDSDPEYEQELKEEL 69 (105)
T ss_pred HHHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHH
Confidence 45788888888433 478899999997 578775
No 68
>cd07141 ALDH_F1AB_F2_RALDH1 NAD+-dependent retinal dehydrogenase 1, ALDH families 1A, 1B, and 2-like. NAD+-dependent retinal dehydrogenase 1 (RALDH 1, ALDH1, EC=1.2.1.36) also known as aldehyde dehydrogenase family 1 member A1 (ALDH1A1) in humans, is a homotetrameric, cytosolic enzyme that catalyzes the oxidation of retinaldehyde to retinoic acid. Human ALDH1B1 and ALDH2 are also in this cluster; both are mitochrondrial homotetramers which play important roles in acetaldehyde oxidation; ALDH1B1 in response to UV light exposure and ALDH2 during ethanol metabolism.
Probab=20.33 E-value=3.6e+02 Score=26.61 Aligned_cols=68 Identities=24% Similarity=0.440 Sum_probs=46.5
Q ss_pred ccChHHHHhHHHHhhh-----cC------CeeEEeChhhHHHHHHHHh----hhcCC---------CCCCHHHHHHHHHH
Q 023879 116 VMSNEEFDNLKEELMW-----EG------SSVVMLSSAEQKFLEASMA----YVAGK---------PIMSDEEYDKLKQK 171 (276)
Q Consensus 116 ~~sdeEfd~LkEeL~w-----eG------Ssvv~L~~~Eq~fLEA~~a----Y~~Gk---------PimsDeeFD~LK~k 171 (276)
++.|.++|.--+.+.| .| ++|++-.+.-.+|++++.. +.-|. |+++.+.+++++..
T Consensus 264 V~~dADl~~A~~~i~~~~~~~~GQ~C~a~~rv~V~~~i~d~f~~~l~~~~~~~~~G~p~~~~~~~gpli~~~~~~~~~~~ 343 (481)
T cd07141 264 VFADADLDYAVEQAHEALFFNMGQCCCAGSRTFVQESIYDEFVKRSVERAKKRVVGNPFDPKTEQGPQIDEEQFKKILEL 343 (481)
T ss_pred ECCCCCHHHHHHHHHHHHHhcCCCcccCCeEEEEcHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCcCCCCHHHHHHHHHH
Confidence 4567788887777766 34 3455555556778888654 33343 68999999999986
Q ss_pred HH---hhCCceeeec
Q 023879 172 LK---MEGSEIVVEG 183 (276)
Q Consensus 172 Lk---~~GS~Vvvk~ 183 (276)
++ ..|.+|+.-|
T Consensus 344 i~~a~~~Ga~v~~gg 358 (481)
T cd07141 344 IESGKKEGAKLECGG 358 (481)
T ss_pred HHHHHHCCCEEEeCC
Confidence 65 4688887654
No 69
>cd07119 ALDH_BADH-GbsA Bacillus subtilis NAD+-dependent betaine aldehyde dehydrogenase-like. Included in this CD is the NAD+-dependent, betaine aldehyde dehydrogenase (BADH, GbsA, EC=1.2.1.8) of Bacillus subtilis involved in the synthesis of the osmoprotectant glycine betaine from choline or glycine betaine aldehyde.
Probab=20.01 E-value=3.5e+02 Score=26.61 Aligned_cols=68 Identities=24% Similarity=0.480 Sum_probs=43.7
Q ss_pred ccChHHHHhHHHHhhh-----cCCe------eEEeChhhHHHHHHHHh----hhcCC---------CCCCHHHHHHHHHH
Q 023879 116 VMSNEEFDNLKEELMW-----EGSS------VVMLSSAEQKFLEASMA----YVAGK---------PIMSDEEYDKLKQK 171 (276)
Q Consensus 116 ~~sdeEfd~LkEeL~w-----eGSs------vv~L~~~Eq~fLEA~~a----Y~~Gk---------PimsDeeFD~LK~k 171 (276)
++.|.+.|.--+.+.| .|-+ |++-...-.+|++++.. +.-|. |+++.+++++++.-
T Consensus 252 V~~dADl~~Aa~~i~~~~~~~~GQ~C~a~~~v~V~~~i~d~f~~~l~~~~~~~~~G~~~~~~~~~gpli~~~~~~~~~~~ 331 (482)
T cd07119 252 VFADADFETAVDQALNGVFFNAGQVCSAGSRLLVEESIHDKFVAALAERAKKIKLGNGLDADTEMGPLVSAEHREKVLSY 331 (482)
T ss_pred ECCCCCHHHHHHHHHHHHHhcCCCCCCCCeEEEEcHHHHHHHHHHHHHHHHhcCCCCCCCCCCcCCCCCCHHHHHHHHHH
Confidence 4557777776666665 4543 33444444678887554 33343 68899999999986
Q ss_pred HHh---hCCceeeec
Q 023879 172 LKM---EGSEIVVEG 183 (276)
Q Consensus 172 Lk~---~GS~Vvvk~ 183 (276)
+.. .|.+++.-|
T Consensus 332 i~~a~~~Ga~v~~gg 346 (482)
T cd07119 332 IQLGKEEGARLVCGG 346 (482)
T ss_pred HHHHHHCCCEEEeCC
Confidence 654 588777654
Done!