Query 026445
Match_columns 238
No_of_seqs 70 out of 72
Neff 3.0
Searched_HMMs 46136
Date Fri Mar 29 08:07:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026445.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026445hhsearch_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 94.9 0.034 7.3E-07 55.6 4.6 49 126-174 9-70 (562)
2 cd00114 LIGANc NAD+ dependent 94.3 0.05 1.1E-06 50.2 4.0 27 148-174 12-39 (307)
3 PRK07956 ligA NAD-dependent DN 93.9 0.09 1.9E-06 53.2 5.3 27 148-174 18-45 (665)
4 PF01653 DNA_ligase_aden: NAD- 93.6 0.089 1.9E-06 48.7 4.1 27 148-174 16-43 (315)
5 smart00532 LIGANc Ligase N fam 92.7 0.13 2.8E-06 49.9 3.9 26 149-174 15-41 (441)
6 TIGR00575 dnlj DNA ligase, NAD 92.4 0.15 3.2E-06 51.5 4.1 28 147-174 6-34 (652)
7 cd00114 LIGANc NAD+ dependent 91.8 0.24 5.2E-06 45.8 4.5 36 95-130 3-38 (307)
8 PF01653 DNA_ligase_aden: NAD- 90.9 0.3 6.6E-06 45.2 4.3 36 95-130 7-42 (315)
9 smart00532 LIGANc Ligase N fam 90.7 0.32 6.9E-06 47.2 4.3 36 95-130 5-40 (441)
10 PRK08097 ligB NAD-dependent DN 89.1 0.47 1E-05 47.7 4.2 37 94-130 33-69 (562)
11 PRK14351 ligA NAD-dependent DN 89.0 0.46 1E-05 48.6 4.2 37 94-130 35-71 (689)
12 PRK14351 ligA NAD-dependent DN 89.0 0.5 1.1E-05 48.3 4.4 27 148-174 45-72 (689)
13 PRK14350 ligA NAD-dependent DN 88.6 0.6 1.3E-05 47.7 4.6 24 150-173 20-44 (669)
14 PRK07956 ligA NAD-dependent DN 88.5 0.52 1.1E-05 47.8 4.1 36 95-130 9-44 (665)
15 PRK14350 ligA NAD-dependent DN 86.0 0.8 1.7E-05 46.8 3.8 36 95-130 9-44 (669)
16 TIGR00575 dnlj DNA ligase, NAD 85.3 0.89 1.9E-05 46.1 3.7 27 104-130 7-33 (652)
17 COG0272 Lig NAD-dependent DNA 75.8 3.2 6.9E-05 43.0 3.9 26 150-175 22-48 (667)
18 PF09851 SHOCT: Short C-termin 74.4 5.1 0.00011 25.6 3.3 26 103-130 5-30 (31)
19 COG0272 Lig NAD-dependent DNA 70.5 4.9 0.00011 41.6 3.9 39 92-130 8-46 (667)
20 PLN02919 haloacid dehalogenase 55.7 1.1E+02 0.0024 32.9 10.7 17 166-182 167-183 (1057)
21 TIGR00097 HMP-P_kinase phospho 54.3 61 0.0013 28.0 7.1 57 120-184 115-172 (254)
22 PF07508 Recombinase: Recombin 52.4 13 0.00027 27.3 2.3 19 156-174 83-101 (102)
23 PRK13992 minC septum formation 50.2 12 0.00025 32.8 2.1 36 190-227 108-143 (205)
24 PF11746 DUF3303: Protein of u 48.8 8.6 0.00019 29.8 1.0 69 97-165 12-89 (91)
25 PF02274 Amidinotransf: Amidin 44.1 7.4 0.00016 33.9 -0.1 63 119-181 197-259 (281)
26 cd07110 ALDH_F10_BADH Arabidop 41.3 98 0.0021 29.2 6.9 70 116-185 238-334 (456)
27 PF09863 DUF2090: Uncharacteri 38.2 97 0.0021 29.8 6.3 65 95-159 189-264 (311)
28 cd01169 HMPP_kinase 4-amino-5- 35.9 2.1E+02 0.0046 23.9 7.4 53 123-183 119-172 (242)
29 PF04380 BMFP: Membrane fusoge 34.9 66 0.0014 24.4 3.9 37 94-131 25-61 (79)
30 PRK12412 pyridoxal kinase; Rev 34.9 1.8E+02 0.0039 25.5 7.1 56 120-183 120-176 (268)
31 PF02829 3H: 3H domain; Inter 34.8 93 0.002 24.8 4.8 33 144-177 50-96 (98)
32 PF08278 DnaG_DnaB_bind: DNA p 34.3 85 0.0018 24.3 4.5 48 94-150 79-126 (127)
33 cd07114 ALDH_DhaS Uncharacteri 34.1 1.4E+02 0.0031 28.2 6.8 69 116-184 237-332 (457)
34 TIGR00777 ahpD alkylhydroperox 32.5 22 0.00049 31.3 1.1 29 147-175 76-105 (177)
35 PTZ00381 aldehyde dehydrogenas 31.3 1.3E+02 0.0029 29.3 6.2 67 116-183 224-314 (493)
36 cd07120 ALDH_PsfA-ACA09737 Pse 31.1 1.8E+02 0.0039 27.9 7.0 70 116-185 236-332 (455)
37 PRK08176 pdxK pyridoxal-pyrido 31.0 1.6E+02 0.0035 26.1 6.3 53 123-183 143-196 (281)
38 cd07092 ALDH_ABALDH-YdcW Esche 30.9 1.9E+02 0.0041 27.2 6.9 68 116-183 235-328 (450)
39 PRK15398 aldehyde dehydrogenas 30.7 1.3E+02 0.0027 29.4 5.9 59 116-176 247-316 (465)
40 PRK13696 hypothetical protein; 30.0 79 0.0017 23.9 3.5 49 116-172 7-62 (62)
41 TIGR01496 DHPS dihydropteroate 29.4 1.3E+02 0.0029 27.0 5.4 104 119-229 57-176 (257)
42 PF05416 Peptidase_C37: Southa 28.9 19 0.0004 36.5 0.0 90 117-214 253-372 (535)
43 cd07105 ALDH_SaliADH Salicylal 27.6 2.2E+02 0.0047 26.8 6.8 70 116-185 219-310 (432)
44 COG4443 Uncharacterized protei 27.0 44 0.00096 26.0 1.7 18 113-130 52-70 (72)
45 PF04280 Tim44: Tim44-like dom 26.7 33 0.00071 27.0 1.1 36 140-175 22-62 (147)
46 PLN02278 succinic semialdehyde 26.6 2.3E+02 0.0051 27.5 7.0 68 116-183 278-372 (498)
47 PF08976 DUF1880: Domain of un 26.5 34 0.00073 28.8 1.1 14 158-171 2-15 (118)
48 KOG1372 GDP-mannose 4,6 dehydr 26.4 31 0.00067 33.3 1.0 39 99-137 257-309 (376)
49 PRK06427 bifunctional hydroxy- 26.4 3.1E+02 0.0068 23.5 7.0 54 123-184 124-179 (266)
50 cd07115 ALDH_HMSADH_HapE Pseud 25.9 2.5E+02 0.0054 26.5 6.9 68 116-183 235-329 (453)
51 PLN02766 coniferyl-aldehyde de 25.9 2.2E+02 0.0049 27.7 6.7 69 116-184 277-372 (501)
52 PRK12413 phosphomethylpyrimidi 25.6 3.4E+02 0.0073 23.1 7.1 54 123-183 117-173 (253)
53 cd07143 ALDH_AldA_AN0554 Asper 25.6 2.5E+02 0.0055 27.1 6.9 68 116-183 263-357 (481)
54 cd07135 ALDH_F14-YMR110C Sacch 25.0 2.6E+02 0.0057 26.7 6.9 70 116-185 223-315 (436)
55 PLN02428 lipoic acid synthase 24.7 1E+02 0.0022 29.6 4.0 29 157-185 295-323 (349)
56 cd07144 ALDH_ALD2-YMR170C Sacc 24.6 3E+02 0.0064 26.4 7.2 68 116-183 262-357 (484)
57 PF05120 GvpG: Gas vesicle pro 24.4 1.3E+02 0.0028 23.4 3.9 27 144-172 34-61 (79)
58 PF05193 Peptidase_M16_C: Pept 23.9 1.6E+02 0.0035 22.1 4.3 33 94-129 152-184 (184)
59 PF12162 STAT1_TAZ2bind: STAT1 23.5 62 0.0013 20.4 1.6 12 160-171 10-21 (23)
60 PRK14562 haloacid dehalogenase 23.4 1.3E+02 0.0029 26.3 4.3 42 120-165 58-107 (204)
61 cd07098 ALDH_F15-22 Aldehyde d 23.3 3.1E+02 0.0068 26.0 7.0 68 116-183 241-335 (465)
62 cd07078 ALDH NAD(P)+ dependent 22.9 2.3E+02 0.005 26.1 5.9 67 117-183 215-308 (432)
63 cd07141 ALDH_F1AB_F2_RALDH1 NA 22.7 3.2E+02 0.0069 26.3 7.0 68 116-183 264-358 (481)
64 COG0074 SucD Succinyl-CoA synt 22.6 1.8E+02 0.0039 27.8 5.2 63 119-186 51-124 (293)
65 cd07119 ALDH_BADH-GbsA Bacillu 22.4 3.1E+02 0.0066 26.3 6.8 69 116-184 252-347 (482)
66 PF03965 Penicillinase_R: Peni 22.1 2.2E+02 0.0047 22.0 4.8 33 95-131 1-33 (115)
67 COG2960 Uncharacterized protei 21.9 1.2E+02 0.0026 25.1 3.4 36 94-130 34-69 (103)
68 PF15640 Tox-MPTase4: Metallop 21.5 90 0.002 26.8 2.7 27 155-181 14-40 (132)
69 TIGR01222 minC septum site-det 21.5 1.3E+02 0.0028 26.3 3.8 31 190-222 122-153 (217)
70 cd07139 ALDH_AldA-Rv0768 Mycob 21.5 4E+02 0.0087 25.3 7.3 69 116-184 254-349 (471)
71 cd07145 ALDH_LactADH_F420-Bios 21.1 3.5E+02 0.0076 25.6 6.8 68 117-184 242-336 (456)
72 cd07099 ALDH_DDALDH Methylomon 21.0 4.4E+02 0.0095 24.8 7.4 74 112-185 228-331 (453)
73 PRK11613 folP dihydropteroate 20.6 4.6E+02 0.0099 24.4 7.3 104 119-229 72-191 (282)
74 PLN02953 phosphatidate cytidyl 20.5 47 0.001 32.8 1.0 32 47-78 49-80 (403)
75 cd07100 ALDH_SSADH1_GabD1 Myco 20.4 3.7E+02 0.0081 25.3 6.9 68 116-183 213-307 (429)
76 PRK10090 aldehyde dehydrogenas 20.4 3.4E+02 0.0073 25.8 6.6 70 116-185 189-286 (409)
77 PF12207 DUF3600: Domain of un 20.0 88 0.0019 27.6 2.4 64 113-176 36-122 (162)
78 cd07089 ALDH_CddD-AldA-like Rh 20.0 3.8E+02 0.0083 25.6 6.9 68 116-183 241-335 (459)
No 1
>PRK08097 ligB NAD-dependent DNA ligase LigB; Reviewed
Probab=94.89 E-value=0.034 Score=55.58 Aligned_cols=49 Identities=35% Similarity=0.479 Sum_probs=33.9
Q ss_pred HHHhhhcCC---eeEEeChhh-H---HHHHH-----HHhhhc-CCCCCChHHHHHHHHHHHh
Q 026445 126 KEELMWEGS---SVVMLSSAE-Q---KFLEA-----SMAYVA-GKPIMSDEEYDKLKQKLKM 174 (238)
Q Consensus 126 KEeL~WEGS---svv~L~~~E-q---~fLEA-----~~AY~s-GkPimsDeeFD~LK~eLk~ 174 (238)
---|.|..| .|.++++.+ + +.|.+ -.+||. |+|+|+|+|||+|..+|+.
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 345678777 566666664 1 12222 336664 9999999999999999974
No 2
>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=94.31 E-value=0.05 Score=50.17 Aligned_cols=27 Identities=33% Similarity=0.641 Sum_probs=22.8
Q ss_pred HHHHhhhc-CCCCCChHHHHHHHHHHHh
Q 026445 148 EASMAYVA-GKPIMSDEEYDKLKQKLKM 174 (238)
Q Consensus 148 EA~~AY~s-GkPimsDeeFD~LK~eLk~ 174 (238)
.+-.+||. |+|+|||+|||+|..+|+.
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 3
>PRK07956 ligA NAD-dependent DNA ligase LigA; Validated
Probab=93.93 E-value=0.09 Score=53.22 Aligned_cols=27 Identities=37% Similarity=0.597 Sum_probs=23.3
Q ss_pred HHHHhhh-cCCCCCChHHHHHHHHHHHh
Q 026445 148 EASMAYV-AGKPIMSDEEYDKLKQKLKM 174 (238)
Q Consensus 148 EA~~AY~-sGkPimsDeeFD~LK~eLk~ 174 (238)
++-.+|| .|+|+|||+|||+|..+|+.
T Consensus 18 ~~~~~YY~~~~p~IsD~eYD~L~~~L~~ 45 (665)
T PRK07956 18 HHAYAYYVLDAPSISDAEYDRLYRELVA 45 (665)
T ss_pred HHHHHHHhCCCCCCChHHHHHHHHHHHH
Confidence 3455777 99999999999999999974
No 4
>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=93.55 E-value=0.089 Score=48.65 Aligned_cols=27 Identities=48% Similarity=0.807 Sum_probs=22.1
Q ss_pred HHHHhhhc-CCCCCChHHHHHHHHHHHh
Q 026445 148 EASMAYVA-GKPIMSDEEYDKLKQKLKM 174 (238)
Q Consensus 148 EA~~AY~s-GkPimsDeeFD~LK~eLk~ 174 (238)
.+-.+||. |+|+|||++||+|..+|+.
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 34457766 8999999999999999863
No 5
>smart00532 LIGANc Ligase N family.
Probab=92.67 E-value=0.13 Score=49.91 Aligned_cols=26 Identities=42% Similarity=0.714 Sum_probs=22.2
Q ss_pred HHHhhhc-CCCCCChHHHHHHHHHHHh
Q 026445 149 ASMAYVA-GKPIMSDEEYDKLKQKLKM 174 (238)
Q Consensus 149 A~~AY~s-GkPimsDeeFD~LK~eLk~ 174 (238)
+-.+||. |+|+|+|+|||+|..+|+.
T Consensus 15 ~~~~YY~~~~p~IsD~eYD~L~~eL~~ 41 (441)
T smart00532 15 HDYRYYVLDAPIISDAEYDRLMRELKE 41 (441)
T ss_pred HHHHHHhcCCCCCChHHHHHHHHHHHH
Confidence 3556765 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=92.40 E-value=0.15 Score=51.54 Aligned_cols=28 Identities=32% Similarity=0.564 Sum_probs=23.8
Q ss_pred HHHHHhhhc-CCCCCChHHHHHHHHHHHh
Q 026445 147 LEASMAYVA-GKPIMSDEEYDKLKQKLKM 174 (238)
Q Consensus 147 LEA~~AY~s-GkPimsDeeFD~LK~eLk~ 174 (238)
-.+-.+||. |+|+|||+|||+|..+|+.
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=91.85 E-value=0.24 Score=45.77 Aligned_cols=36 Identities=25% Similarity=0.382 Sum_probs=28.4
Q ss_pred hhHHHHHHHHHHHHHhhcCccccChHHHHhHHHHhh
Q 026445 95 LGELEQEFLQALQAFYYEGKAVMSNEEFDNLKEELM 130 (238)
Q Consensus 95 lge~E~~Fl~Al~sfY~~gk~~msdeEfd~LKEeL~ 130 (238)
+.++...--.+-..||..|.|++||+|||.|.++|.
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
>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=90.95 E-value=0.3 Score=45.19 Aligned_cols=36 Identities=33% Similarity=0.553 Sum_probs=29.1
Q ss_pred hhHHHHHHHHHHHHHhhcCccccChHHHHhHHHHhh
Q 026445 95 LGELEQEFLQALQAFYYEGKAVMSNEEFDNLKEELM 130 (238)
Q Consensus 95 lge~E~~Fl~Al~sfY~~gk~~msdeEfd~LKEeL~ 130 (238)
+.++...--++-..||..|.|+|||+|||.|.++|.
T Consensus 7 i~~L~~~i~~~~~~YY~~~~p~isD~eYD~l~~~L~ 42 (315)
T PF01653_consen 7 IEELRKEINRHNYAYYNLGEPIISDAEYDQLFRELK 42 (315)
T ss_dssp HHHHHHHHHHHHHHHHTTSSSSSSHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHH
Confidence 445555566667788999999999999999999874
No 9
>smart00532 LIGANc Ligase N family.
Probab=90.67 E-value=0.32 Score=47.23 Aligned_cols=36 Identities=25% Similarity=0.420 Sum_probs=29.3
Q ss_pred hhHHHHHHHHHHHHHhhcCccccChHHHHhHHHHhh
Q 026445 95 LGELEQEFLQALQAFYYEGKAVMSNEEFDNLKEELM 130 (238)
Q Consensus 95 lge~E~~Fl~Al~sfY~~gk~~msdeEfd~LKEeL~ 130 (238)
+-++...--.+-..||..+.|++||+|||.|.++|.
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 445555556666778888999999999999999986
No 10
>PRK08097 ligB NAD-dependent DNA ligase LigB; Reviewed
Probab=89.07 E-value=0.47 Score=47.67 Aligned_cols=37 Identities=27% Similarity=0.522 Sum_probs=30.2
Q ss_pred chhHHHHHHHHHHHHHhhcCccccChHHHHhHHHHhh
Q 026445 94 SLGELEQEFLQALQAFYYEGKAVMSNEEFDNLKEELM 130 (238)
Q Consensus 94 slge~E~~Fl~Al~sfY~~gk~~msdeEfd~LKEeL~ 130 (238)
.+.++..+--.+-..||..+.|++||+|||.|.++|.
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 11
>PRK14351 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=89.04 E-value=0.46 Score=48.57 Aligned_cols=37 Identities=19% Similarity=0.381 Sum_probs=31.2
Q ss_pred chhHHHHHHHHHHHHHhhcCccccChHHHHhHHHHhh
Q 026445 94 SLGELEQEFLQALQAFYYEGKAVMSNEEFDNLKEELM 130 (238)
Q Consensus 94 slge~E~~Fl~Al~sfY~~gk~~msdeEfd~LKEeL~ 130 (238)
.+.++..+--.+-..||..+.|++||+|||.|.++|.
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 12
>PRK14351 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=89.03 E-value=0.5 Score=48.30 Aligned_cols=27 Identities=30% Similarity=0.600 Sum_probs=22.6
Q ss_pred HHHHhhh-cCCCCCChHHHHHHHHHHHh
Q 026445 148 EASMAYV-AGKPIMSDEEYDKLKQKLKM 174 (238)
Q Consensus 148 EA~~AY~-sGkPimsDeeFD~LK~eLk~ 174 (238)
++-.+|| .|+|+|||++||+|.++|+.
T Consensus 45 ~~~~~YY~~~~p~IsD~eYD~L~~eL~~ 72 (689)
T PRK14351 45 EHDHRYYVEADPVIADRAYDALFARLQA 72 (689)
T ss_pred HHHHHHHhCCCCCCChHHHHHHHHHHHH
Confidence 3455677 68999999999999999984
No 13
>PRK14350 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=88.64 E-value=0.6 Score=47.68 Aligned_cols=24 Identities=29% Similarity=0.463 Sum_probs=20.7
Q ss_pred HHhhh-cCCCCCChHHHHHHHHHHH
Q 026445 150 SMAYV-AGKPIMSDEEYDKLKQKLK 173 (238)
Q Consensus 150 ~~AY~-sGkPimsDeeFD~LK~eLk 173 (238)
-.+|| .|+|+|||++||+|..+|+
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 14
>PRK07956 ligA NAD-dependent DNA ligase LigA; Validated
Probab=88.52 E-value=0.52 Score=47.85 Aligned_cols=36 Identities=31% Similarity=0.504 Sum_probs=29.1
Q ss_pred hhHHHHHHHHHHHHHhhcCccccChHHHHhHHHHhh
Q 026445 95 LGELEQEFLQALQAFYYEGKAVMSNEEFDNLKEELM 130 (238)
Q Consensus 95 lge~E~~Fl~Al~sfY~~gk~~msdeEfd~LKEeL~ 130 (238)
+-++..+--.+-..||..+.|++||+|||.|.++|.
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 15
>PRK14350 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=85.98 E-value=0.8 Score=46.78 Aligned_cols=36 Identities=11% Similarity=0.200 Sum_probs=28.2
Q ss_pred hhHHHHHHHHHHHHHhhcCccccChHHHHhHHHHhh
Q 026445 95 LGELEQEFLQALQAFYYEGKAVMSNEEFDNLKEELM 130 (238)
Q Consensus 95 lge~E~~Fl~Al~sfY~~gk~~msdeEfd~LKEeL~ 130 (238)
+.++-.+--..=..||..+.|++||+|||.|.++|.
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=85.32 E-value=0.89 Score=46.08 Aligned_cols=27 Identities=26% Similarity=0.411 Sum_probs=23.2
Q ss_pred HHHHHHhhcCccccChHHHHhHHHHhh
Q 026445 104 QALQAFYYEGKAVMSNEEFDNLKEELM 130 (238)
Q Consensus 104 ~Al~sfY~~gk~~msdeEfd~LKEeL~ 130 (238)
.+-..||..+.|++||+|||.|.++|.
T Consensus 7 ~~~~~YY~~~~p~IsD~eYD~L~~~L~ 33 (652)
T TIGR00575 7 HHDYRYYVLDEPSISDAEYDRLYRELQ 33 (652)
T ss_pred HHHHHHHhCCCCCCChHHHHHHHHHHH
Confidence 345667888999999999999999985
No 17
>COG0272 Lig NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]
Probab=75.82 E-value=3.2 Score=42.98 Aligned_cols=26 Identities=35% Similarity=0.557 Sum_probs=21.8
Q ss_pred HHhhhc-CCCCCChHHHHHHHHHHHhc
Q 026445 150 SMAYVA-GKPIMSDEEYDKLKQKLKME 175 (238)
Q Consensus 150 ~~AY~s-GkPimsDeeFD~LK~eLk~~ 175 (238)
...||. ++|+|+|+|||+|.++|...
T Consensus 22 ~~~Yyv~d~P~VsD~eYD~L~reL~~l 48 (667)
T COG0272 22 DYRYYVLDAPSVSDAEYDQLYRELQEL 48 (667)
T ss_pred HHHHhccCCCCCChHHHHHHHHHHHHH
Confidence 346555 99999999999999999754
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=5.1 Score=25.60 Aligned_cols=26 Identities=35% Similarity=0.684 Sum_probs=21.1
Q ss_pred HHHHHHHhhcCccccChHHHHhHHHHhh
Q 026445 103 LQALQAFYYEGKAVMSNEEFDNLKEELM 130 (238)
Q Consensus 103 l~Al~sfY~~gk~~msdeEfd~LKEeL~ 130 (238)
++.|...|..| .+|+|||...|.+|.
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 45677778777 699999999999874
No 19
>COG0272 Lig NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]
Probab=70.53 E-value=4.9 Score=41.64 Aligned_cols=39 Identities=23% Similarity=0.362 Sum_probs=31.7
Q ss_pred ccchhHHHHHHHHHHHHHhhcCccccChHHHHhHHHHhh
Q 026445 92 KKSLGELEQEFLQALQAFYYEGKAVMSNEEFDNLKEELM 130 (238)
Q Consensus 92 k~slge~E~~Fl~Al~sfY~~gk~~msdeEfd~LKEeL~ 130 (238)
++.+.++.+.--+.-..||..+.|.++|.|||.|.++|.
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 345566666666777889999999999999999998875
No 20
>PLN02919 haloacid dehalogenase-like hydrolase family protein
Probab=55.72 E-value=1.1e+02 Score=32.93 Aligned_cols=17 Identities=24% Similarity=0.268 Sum_probs=11.4
Q ss_pred HHHHHHHHhcCCceeee
Q 026445 166 DKLKQKLKMEGSEIVVE 182 (238)
Q Consensus 166 D~LK~eLk~~GS~VVvk 182 (238)
..+=..|+..|-++++-
T Consensus 167 ~elL~~Lk~~G~~l~Iv 183 (1057)
T PLN02919 167 LELITQCKNKGLKVAVA 183 (1057)
T ss_pred HHHHHHHHhCCCeEEEE
Confidence 34445777888887773
No 21
>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=54.28 E-value=61 Score=27.96 Aligned_cols=57 Identities=21% Similarity=0.378 Sum_probs=40.2
Q ss_pred HHHHhHHHHhhhcCCeeEEeChhhHHHHHHHHhhhcCCCCCChHHHHHHHHHHHhcCCc-eeeecC
Q 026445 120 EEFDNLKEELMWEGSSVVMLSSAEQKFLEASMAYVAGKPIMSDEEYDKLKQKLKMEGSE-IVVEGP 184 (238)
Q Consensus 120 eEfd~LKEeL~WEGSsvv~L~~~Eq~fLEA~~AY~sGkPimsDeeFD~LK~eLk~~GS~-VVvk~P 184 (238)
+..+.++++| .....+++.+..|-+.|. |.++-+.++..+.-.+|...|.+ |++++.
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 3345566654 346689999999988773 56666777777787888888876 666664
No 22
>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=52.45 E-value=13 Score=27.34 Aligned_cols=19 Identities=37% Similarity=0.793 Sum_probs=16.7
Q ss_pred CCCCCChHHHHHHHHHHHh
Q 026445 156 GKPIMSDEEYDKLKQKLKM 174 (238)
Q Consensus 156 GkPimsDeeFD~LK~eLk~ 174 (238)
-.|||++++|+++...|+.
T Consensus 83 ~~~IIs~~~f~~vq~~l~~ 101 (102)
T PF07508_consen 83 HPPIISEEEFERVQKKLDE 101 (102)
T ss_pred CCCccCHHHHHHHHHHHhc
Confidence 3699999999999999864
No 23
>PRK13992 minC septum formation inhibitor; Provisional
Probab=50.18 E-value=12 Score=32.84 Aligned_cols=36 Identities=17% Similarity=0.170 Sum_probs=26.8
Q ss_pred CCceeecchhhHHHHhhhccchhhhhhhhhhheecccc
Q 026445 190 SRKVYSDLSVDYLKMLLLNVPATVVALGLFFFLDDITG 227 (238)
Q Consensus 190 s~~vySDae~D~lKm~lL~~pa~vvalG~~f~~d~~tg 227 (238)
|+.+|++- |..=+--.|.+|.|+|-|=.+..=-|-|
T Consensus 108 GQ~I~~~g--dlvIlGdVn~GAeViA~GnI~V~G~LrG 143 (205)
T PRK13992 108 GQTVVHSG--DVIVFGNVHKGAEILAGGSVVIFGKAQG 143 (205)
T ss_pred CCEEEeCC--CEEEEccCCCCCEEEeCCCEEEEEEecc
Confidence 88999874 7777788888999998886655444444
No 24
>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=48.77 E-value=8.6 Score=29.81 Aligned_cols=69 Identities=26% Similarity=0.279 Sum_probs=50.0
Q ss_pred HHHHHHHHHHHHHhhcCccccChHHHHhHHHHhhh-cCCeeEEeChhhHHHHHHHHh-hhcC-------CCCCChHHH
Q 026445 97 ELEQEFLQALQAFYYEGKAVMSNEEFDNLKEELMW-EGSSVVMLSSAEQKFLEASMA-YVAG-------KPIMSDEEY 165 (238)
Q Consensus 97 e~E~~Fl~Al~sfY~~gk~~msdeEfd~LKEeL~W-EGSsvv~L~~~Eq~fLEA~~A-Y~sG-------kPimsDeeF 165 (238)
+..+.--+++.+|+..|.+...-|.|..|.+=..= .|..++.+..+..+-|-+-.+ ..+. .|+|+|+|+
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 34456668899999999877777777666543333 667888888887777777555 4444 699999987
No 25
>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=44.09 E-value=7.4 Score=33.90 Aligned_cols=63 Identities=16% Similarity=0.249 Sum_probs=44.0
Q ss_pred hHHHHhHHHHhhhcCCeeEEeChhhHHHHHHHHhhhcCCCCCChHHHHHHHHHHHhcCCceee
Q 026445 119 NEEFDNLKEELMWEGSSVVMLSSAEQKFLEASMAYVAGKPIMSDEEYDKLKQKLKMEGSEIVV 181 (238)
Q Consensus 119 deEfd~LKEeL~WEGSsvv~L~~~Eq~fLEA~~AY~sGkPimsDeeFD~LK~eLk~~GS~VVv 181 (238)
.++.+.|++.|.=.|..+|-++.+|+...-+=.-+....-++..+.+..+..+|+..|-+|+.
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 345666777766678888888877766443322244546667777899999999999999887
No 26
>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=41.26 E-value=98 Score=29.24 Aligned_cols=70 Identities=24% Similarity=0.478 Sum_probs=46.9
Q ss_pred ccChHHHHhHHHHhhhc-----CC------eeEEeChhhHHHHHHHHh----hhcCC---------CCCChHHHHHHHHH
Q 026445 116 VMSNEEFDNLKEELMWE-----GS------SVVMLSSAEQKFLEASMA----YVAGK---------PIMSDEEYDKLKQK 171 (238)
Q Consensus 116 ~msdeEfd~LKEeL~WE-----GS------svv~L~~~Eq~fLEA~~A----Y~sGk---------PimsDeeFD~LK~e 171 (238)
++.|.+.|..-+.+.|. |. ++++-.+.-.+|++++.. +.-|. |+++.+.+++++.-
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 44577888877777773 43 333334445678887654 33343 68899999999988
Q ss_pred HHh---cCCceeeecCc
Q 026445 172 LKM---EGSEIVVEGPR 185 (238)
Q Consensus 172 Lk~---~GS~VVvk~Pr 185 (238)
+.+ .|.+|+.-|.+
T Consensus 318 v~~a~~~Ga~~~~gg~~ 334 (456)
T cd07110 318 IARGKEEGARLLCGGRR 334 (456)
T ss_pred HHHHHhCCCEEEeCCCc
Confidence 865 68887775543
No 27
>PF09863 DUF2090: Uncharacterized protein conserved in bacteria (DUF2090); InterPro: IPR018659 This domain, found in various prokaryotic carbohydrate kinases, has no known function.
Probab=38.23 E-value=97 Score=29.78 Aligned_cols=65 Identities=22% Similarity=0.357 Sum_probs=49.3
Q ss_pred hhHHHHHHHHHHHHHhhcCc-------cccChHHHHhHHHHhhhcCC---eeEEeChhh-HHHHHHHHhhhcCCCC
Q 026445 95 LGELEQEFLQALQAFYYEGK-------AVMSNEEFDNLKEELMWEGS---SVVMLSSAE-QKFLEASMAYVAGKPI 159 (238)
Q Consensus 95 lge~E~~Fl~Al~sfY~~gk-------~~msdeEfd~LKEeL~WEGS---svv~L~~~E-q~fLEA~~AY~sGkPi 159 (238)
....+.-|..+++.||+-|- +-||.+.|.++-+-+.=.++ .||+||-+- .+.|.+.-+=..+.|+
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 34457889999999999883 45699999999999888888 689999773 5556665554445444
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=35.90 E-value=2.1e+02 Score=23.89 Aligned_cols=53 Identities=23% Similarity=0.397 Sum_probs=37.0
Q ss_pred HhHHHHhhhcCCeeEEeChhhHHHHHHHHhhhcCCCCCChHHHHHHHHHHHhcCCc-eeeec
Q 026445 123 DNLKEELMWEGSSVVMLSSAEQKFLEASMAYVAGKPIMSDEEYDKLKQKLKMEGSE-IVVEG 183 (238)
Q Consensus 123 d~LKEeL~WEGSsvv~L~~~Eq~fLEA~~AY~sGkPimsDeeFD~LK~eLk~~GS~-VVvk~ 183 (238)
+.++++| +....+++.+..|-+.|. |.++-++++-.+...+|...|.+ |++++
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 55555
No 29
>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=34.90 E-value=66 Score=24.35 Aligned_cols=37 Identities=27% Similarity=0.300 Sum_probs=30.0
Q ss_pred chhHHHHHHHHHHHHHhhcCccccChHHHHhHHHHhhh
Q 026445 94 SLGELEQEFLQALQAFYYEGKAVMSNEEFDNLKEELMW 131 (238)
Q Consensus 94 slge~E~~Fl~Al~sfY~~gk~~msdeEfd~LKEeL~W 131 (238)
.-.|.|..+-..+++.+. +-..+|.||||.+++.|.-
T Consensus 25 ~~~e~e~~~r~~l~~~l~-kldlVtREEFd~q~~~L~~ 61 (79)
T PF04380_consen 25 PREEIEKNIRARLQSALS-KLDLVTREEFDAQKAVLAR 61 (79)
T ss_pred hHHHHHHHHHHHHHHHHH-HCCCCcHHHHHHHHHHHHH
Confidence 346788888899999654 5889999999999998654
No 30
>PRK12412 pyridoxal kinase; Reviewed
Probab=34.86 E-value=1.8e+02 Score=25.54 Aligned_cols=56 Identities=27% Similarity=0.345 Sum_probs=41.7
Q ss_pred HHHHhHHHHhhhcCCeeEEeChhhHHHHHHHHhhhcCCCCCChHHHHHHHHHHHhcCCc-eeeec
Q 026445 120 EEFDNLKEELMWEGSSVVMLSSAEQKFLEASMAYVAGKPIMSDEEYDKLKQKLKMEGSE-IVVEG 183 (238)
Q Consensus 120 eEfd~LKEeL~WEGSsvv~L~~~Eq~fLEA~~AY~sGkPimsDeeFD~LK~eLk~~GS~-VVvk~ 183 (238)
+..+.++++|. ....+++.+..|-+.| .|.++-+.++..+.-.+|...|.+ |++++
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 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=34.76 E-value=93 Score=24.83 Aligned_cols=33 Identities=33% Similarity=0.571 Sum_probs=24.7
Q ss_pred HHHHHHHHhhhcCCCCC--------------ChHHHHHHHHHHHhcCC
Q 026445 144 QKFLEASMAYVAGKPIM--------------SDEEYDKLKQKLKMEGS 177 (238)
Q Consensus 144 q~fLEA~~AY~sGkPim--------------sDeeFD~LK~eLk~~GS 177 (238)
++|++.+..+ +++|+. +.+.+|+++.+|+++|.
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 47899999999999985
No 32
>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=34.33 E-value=85 Score=24.31 Aligned_cols=48 Identities=25% Similarity=0.329 Sum_probs=34.4
Q ss_pred chhHHHHHHHHHHHHHhhcCccccChHHHHhHHHHhhhcCCeeEEeChhhHHHHHHH
Q 026445 94 SLGELEQEFLQALQAFYYEGKAVMSNEEFDNLKEELMWEGSSVVMLSSAEQKFLEAS 150 (238)
Q Consensus 94 slge~E~~Fl~Al~sfY~~gk~~msdeEfd~LKEeL~WEGSsvv~L~~~Eq~fLEA~ 150 (238)
+-.+.+++|.+++....... -+.+++.||....-+| |+..|++.|-.+
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 56789999999999977664 5778899988855433 778887766544
No 33
>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=34.09 E-value=1.4e+02 Score=28.16 Aligned_cols=69 Identities=17% Similarity=0.409 Sum_probs=47.2
Q ss_pred ccChHHHHhHHHHhhh-----cCCee------EEeChhhHHHHHHHHhhh----cC---------CCCCChHHHHHHHHH
Q 026445 116 VMSNEEFDNLKEELMW-----EGSSV------VMLSSAEQKFLEASMAYV----AG---------KPIMSDEEYDKLKQK 171 (238)
Q Consensus 116 ~msdeEfd~LKEeL~W-----EGSsv------v~L~~~Eq~fLEA~~AY~----sG---------kPimsDeeFD~LK~e 171 (238)
++.|.+.+.-=+.+.| .|.+| ++-.+.-.+|++++.... -| -|+++.+.+++++..
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 333334467888866543 23 378899999999998
Q ss_pred HHhc---CCceeeecC
Q 026445 172 LKME---GSEIVVEGP 184 (238)
Q Consensus 172 Lk~~---GS~VVvk~P 184 (238)
+... |.+++.-|.
T Consensus 317 i~~a~~~ga~~l~gg~ 332 (457)
T cd07114 317 VARAREEGARVLTGGE 332 (457)
T ss_pred HHHHHHCCCEEEeCCC
Confidence 8754 888776543
No 34
>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=32.53 E-value=22 Score=31.33 Aligned_cols=29 Identities=24% Similarity=0.547 Sum_probs=24.5
Q ss_pred HHHHHh-hhcCCCCCChHHHHHHHHHHHhc
Q 026445 147 LEASMA-YVAGKPIMSDEEYDKLKQKLKME 175 (238)
Q Consensus 147 LEA~~A-Y~sGkPimsDeeFD~LK~eLk~~ 175 (238)
+.|+.- ||+...+++|++|+.++..|+..
T Consensus 76 ~MamnNv~Yr~~hl~~~~~y~~~pa~lrmn 105 (177)
T TIGR00777 76 IMAMNNVFYRGRHLLEGARYDDLRPGLRMN 105 (177)
T ss_pred HHhhhhHHHHhHhhcccchhhcCCccchhH
Confidence 334444 99999999999999999999887
No 35
>PTZ00381 aldehyde dehydrogenase family protein; Provisional
Probab=31.27 E-value=1.3e+02 Score=29.33 Aligned_cols=67 Identities=22% Similarity=0.439 Sum_probs=47.4
Q ss_pred ccChHHHHhHHHHhhhc-----CCee------EEeChhhHHHHHHHHh----hhcCC---------CCCChHHHHHHHHH
Q 026445 116 VMSNEEFDNLKEELMWE-----GSSV------VMLSSAEQKFLEASMA----YVAGK---------PIMSDEEYDKLKQK 171 (238)
Q Consensus 116 ~msdeEfd~LKEeL~WE-----GSsv------v~L~~~Eq~fLEA~~A----Y~sGk---------PimsDeeFD~LK~e 171 (238)
++.|.+.|.--+.+.|. |..| ++-.+...+|++++.. ++ |. |++++..|++++.-
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 6543 3334445778877543 33 43 67999999999999
Q ss_pred HHhcCCceeeec
Q 026445 172 LKMEGSEIVVEG 183 (238)
Q Consensus 172 Lk~~GS~VVvk~ 183 (238)
++..|.+++.-|
T Consensus 303 i~~~ga~~~~gG 314 (493)
T PTZ00381 303 IKDHGGKVVYGG 314 (493)
T ss_pred HHhCCCcEEECC
Confidence 988898887643
No 36
>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=31.11 E-value=1.8e+02 Score=27.86 Aligned_cols=70 Identities=20% Similarity=0.382 Sum_probs=48.6
Q ss_pred ccChHHHHhHHHHhhh-----cCC------eeEEeChhhHHHHHHHHhh----hcCC---------CCCChHHHHHHHHH
Q 026445 116 VMSNEEFDNLKEELMW-----EGS------SVVMLSSAEQKFLEASMAY----VAGK---------PIMSDEEYDKLKQK 171 (238)
Q Consensus 116 ~msdeEfd~LKEeL~W-----EGS------svv~L~~~Eq~fLEA~~AY----~sGk---------PimsDeeFD~LK~e 171 (238)
++.|.+.|..-+.+.| .|- +|++-...-.+|++++... .-|. |+++.+.+++++.-
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---cCCceeeecCc
Q 026445 172 LKM---EGSEIVVEGPR 185 (238)
Q Consensus 172 Lk~---~GS~VVvk~Pr 185 (238)
+.. .|.+++.-|.+
T Consensus 316 i~~a~~~ga~~~~~g~~ 332 (455)
T cd07120 316 VERAIAAGAEVVLRGGP 332 (455)
T ss_pred HHHHHHCCCEEEeCCcc
Confidence 665 68888876643
No 37
>PRK08176 pdxK pyridoxal-pyridoxamine kinase/hydroxymethylpyrimidine kinase; Reviewed
Probab=31.00 E-value=1.6e+02 Score=26.11 Aligned_cols=53 Identities=15% Similarity=0.177 Sum_probs=39.3
Q ss_pred HhHHHHhhhcCCeeEEeChhhHHHHHHHHhhhcCCCCCChHHHHHHHHHHHhcCCc-eeeec
Q 026445 123 DNLKEELMWEGSSVVMLSSAEQKFLEASMAYVAGKPIMSDEEYDKLKQKLKMEGSE-IVVEG 183 (238)
Q Consensus 123 d~LKEeL~WEGSsvv~L~~~Eq~fLEA~~AY~sGkPimsDeeFD~LK~eLk~~GS~-VVvk~ 183 (238)
+.+|++| .....+++.+..|.++| .|.++-++++..+.-.+|...|.+ |++++
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 4566555 46778999999998887 377877888777777778778865 56655
No 38
>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=30.89 E-value=1.9e+02 Score=27.20 Aligned_cols=68 Identities=16% Similarity=0.309 Sum_probs=46.4
Q ss_pred ccChHHHHhHHHHhhh-----cCCe------eEEeChhhHHHHHHHHh----hhcCC---------CCCChHHHHHHHHH
Q 026445 116 VMSNEEFDNLKEELMW-----EGSS------VVMLSSAEQKFLEASMA----YVAGK---------PIMSDEEYDKLKQK 171 (238)
Q Consensus 116 ~msdeEfd~LKEeL~W-----EGSs------vv~L~~~Eq~fLEA~~A----Y~sGk---------PimsDeeFD~LK~e 171 (238)
++.|.+.|..=+.+.| .|.+ +++-.+.-.+|++++.. +.-|. |+++.+.+++++.-
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 4457888888888888 4543 33444455788888665 33453 57888999999986
Q ss_pred HHhc--CCceeeec
Q 026445 172 LKME--GSEIVVEG 183 (238)
Q Consensus 172 Lk~~--GS~VVvk~ 183 (238)
+... |.+++.-|
T Consensus 315 i~~a~~ga~~~~gg 328 (450)
T cd07092 315 VERAPAHARVLTGG 328 (450)
T ss_pred HHHHHcCCEEEeCC
Confidence 6554 77776644
No 39
>PRK15398 aldehyde dehydrogenase EutE; Provisional
Probab=30.75 E-value=1.3e+02 Score=29.37 Aligned_cols=59 Identities=14% Similarity=0.312 Sum_probs=44.6
Q ss_pred ccChHHHHhHHHHhhh-----cCC------eeEEeChhhHHHHHHHHhhhcCCCCCChHHHHHHHHHHHhcC
Q 026445 116 VMSNEEFDNLKEELMW-----EGS------SVVMLSSAEQKFLEASMAYVAGKPIMSDEEYDKLKQKLKMEG 176 (238)
Q Consensus 116 ~msdeEfd~LKEeL~W-----EGS------svv~L~~~Eq~fLEA~~AY~sGkPimsDeeFD~LK~eLk~~G 176 (238)
++.|.+.|.--+.+.| .|. ++++=.+.-.+|++++.+. +.|+++.+++++++.-+...|
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 454 4455555567899998887 789999999999998877544
No 40
>PRK13696 hypothetical protein; Provisional
Probab=30.03 E-value=79 Score=23.86 Aligned_cols=49 Identities=24% Similarity=0.398 Sum_probs=30.1
Q ss_pred ccChHHHHhHHHHhhhcCCeeEEeChhhHHHH-------HHHHhhhcCCCCCChHHHHHHHHHH
Q 026445 116 VMSNEEFDNLKEELMWEGSSVVMLSSAEQKFL-------EASMAYVAGKPIMSDEEYDKLKQKL 172 (238)
Q Consensus 116 ~msdeEfd~LKEeL~WEGSsvv~L~~~Eq~fL-------EA~~AY~sGkPimsDeeFD~LK~eL 172 (238)
+++++.|..|+ -.++|.|+ |+-=.+.+ ..++.|+ -+++|+|-+.++.++
T Consensus 7 tI~dd~Y~~L~--~kk~~~SF---Sevi~~L~~~~~~~~~~l~~~~---Gil~dee~~e~~~~~ 62 (62)
T PRK13696 7 TISDDVYEKLL--EIKGDKSF---SEVIRELIEKKKGNLDKLMKAF---GILSEEEAEELKKEL 62 (62)
T ss_pred EeCHHHHHHHH--HHhCCCCH---HHHHHHHHHHhhccHHHHHHHH---CCCCHHHHHHHHhhC
Confidence 68999999999 45688762 11111111 2222232 478999999888653
No 41
>TIGR01496 DHPS dihydropteroate synthase. This model represents dihydropteroate synthase, the enzyme that catalyzes the second to last step in folic acid biosynthesis. The gene is usually designated folP (folic acid biosynthsis) or sul (sulfanilamide resistance). This model represents one branch of the family of pterin-binding enzymes (pfam00809) and of a cluster of dihydropteroate synthase and related enzymes (COG0294). Other members of pfam00809 and COG0294 are represented by TIGR00284.
Probab=29.38 E-value=1.3e+02 Score=27.00 Aligned_cols=104 Identities=20% Similarity=0.285 Sum_probs=55.0
Q ss_pred hHHHHhHH---HHhhhcCCeeEEeChhhHHHHHHHHhhhcCCCCCChHH---HHHHHHHHHhcCCceeeecCceeecCCc
Q 026445 119 NEEFDNLK---EELMWEGSSVVMLSSAEQKFLEASMAYVAGKPIMSDEE---YDKLKQKLKMEGSEIVVEGPRCSLRSRK 192 (238)
Q Consensus 119 deEfd~LK---EeL~WEGSsvv~L~~~Eq~fLEA~~AY~sGkPimsDee---FD~LK~eLk~~GS~VVvk~PrCslrs~~ 192 (238)
+||+++|+ +++...-...+.+-...-+-+++.... |.+++.|-- ++++-.-++++|-.||+.. .+|.+
T Consensus 57 ~~E~~rl~~~v~~~~~~~~~plsiDT~~~~vi~~al~~--G~~iINsis~~~~~~~~~l~~~~~~~vV~m~----~~g~p 130 (257)
T TIGR01496 57 EEELNRVVPVIKALRDQPDVPISVDTYRAEVARAALEA--GADIINDVSGGQDPAMLEVAAEYGVPLVLMH----MRGTP 130 (257)
T ss_pred HHHHHHHHHHHHHHHhcCCCeEEEeCCCHHHHHHHHHc--CCCEEEECCCCCCchhHHHHHHcCCcEEEEe----CCCCC
Confidence 44666666 444444123345555555555554444 888887522 2334445788999999832 22322
Q ss_pred -------eeecchhhHHHHhhhccchhhhhhhh---hhheeccccce
Q 026445 193 -------VYSDLSVDYLKMLLLNVPATVVALGL---FFFLDDITGFE 229 (238)
Q Consensus 193 -------vySDae~D~lKm~lL~~pa~vvalG~---~f~~d~~tgfe 229 (238)
-|.|.-.+..+ ++.+.=......|. .+.+|=..||-
T Consensus 131 ~~~~~~~~~~~~~~~~~~-~~~~~i~~~~~~Gi~~~~iilDPg~gf~ 176 (257)
T TIGR01496 131 RTMQENPHYEDVVEEVLR-FLEARAEELVAAGVAAERIILDPGIGFG 176 (257)
T ss_pred cccccCCCcccHHHHHHH-HHHHHHHHHHHcCCCHHHEEEECCCCcc
Confidence 23332232332 22222234556666 67888877773
No 42
>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=28.91 E-value=19 Score=36.51 Aligned_cols=90 Identities=26% Similarity=0.366 Sum_probs=1.8
Q ss_pred cChHHHHhH---HHHhhhcCCeeEEeChhhHHHHHHHHhhhcCCCCCChHHHHH-------HHHHHH------h------
Q 026445 117 MSNEEFDNL---KEELMWEGSSVVMLSSAEQKFLEASMAYVAGKPIMSDEEYDK-------LKQKLK------M------ 174 (238)
Q Consensus 117 msdeEfd~L---KEeL~WEGSsvv~L~~~Eq~fLEA~~AY~sGkPimsDeeFD~-------LK~eLk------~------ 174 (238)
|||||||+- +|| |.|.-- =|+||+.++-|+..-.+..-.+++- ++.+.= +
T Consensus 253 LSDEEYDEyKkiREe--r~g~YS------IeEYLqdReRy~Eela~~~a~~~~~~~e~e~~IR~~~f~~~~t~k~rkeeR 324 (535)
T PF05416_consen 253 LSDEEYDEYKKIREE--RGGKYS------IEEYLQDRERYEEELAEAQATEEDFCEEEEMKIRQRVFGKRPTRKQRKEER 324 (535)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred CChhHHHHHHHHHHH--hcCCcc------HHHHHHHHHHHHHHhhhhhhhhccccccccccchhhccccCchhhccHHHH
Confidence 999999975 455 777731 2689999988887766554444333 222211 1
Q ss_pred ------cCCceeeecCceeecCCceeec--chhhHHHHhhhccchhhh
Q 026445 175 ------EGSEIVVEGPRCSLRSRKVYSD--LSVDYLKMLLLNVPATVV 214 (238)
Q Consensus 175 ------~GS~VVvk~PrCslrs~~vySD--ae~D~lKm~lL~~pa~vv 214 (238)
.||+|-..-|.-..--++..+| -++||-.-.-...|+.|-
T Consensus 325 ~~LGLVtGs~irkRkp~D~~p~g~~WADD~R~VdYne~i~FEAPpSiW 372 (535)
T PF05416_consen 325 AQLGLVTGSDIRKRKPIDWNPKGKLWADDDRSVDYNEKIDFEAPPSIW 372 (535)
T ss_dssp --------------------------------------------HHHH
T ss_pred hhcccccccchhccCCcccCCCCCcccCccccccccceecccCCchHH
Confidence 2555555545444434445554 578886554444555443
No 43
>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=27.61 E-value=2.2e+02 Score=26.81 Aligned_cols=70 Identities=23% Similarity=0.447 Sum_probs=46.8
Q ss_pred ccChHHHHhHHHHhhh-----cCC------eeEEeChhhHHHHHHHHhhh----cC----CCCCChHHHHHHHHHHHh--
Q 026445 116 VMSNEEFDNLKEELMW-----EGS------SVVMLSSAEQKFLEASMAYV----AG----KPIMSDEEYDKLKQKLKM-- 174 (238)
Q Consensus 116 ~msdeEfd~LKEeL~W-----EGS------svv~L~~~Eq~fLEA~~AY~----sG----kPimsDeeFD~LK~eLk~-- 174 (238)
++.|.+.|.-=+.+.| .|- .|++-...-.+|++++.... -| -|+++...+++++.-+..
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 3457778877777777 353 33334444567888866532 22 389999999999988764
Q ss_pred -cCCceeeecCc
Q 026445 175 -EGSEIVVEGPR 185 (238)
Q Consensus 175 -~GS~VVvk~Pr 185 (238)
.|.+++.-|.+
T Consensus 299 ~~ga~~~~gg~~ 310 (432)
T cd07105 299 SKGAKLVVGGLA 310 (432)
T ss_pred HCCCEEEeCCCc
Confidence 58888775543
No 44
>COG4443 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.03 E-value=44 Score=25.98 Aligned_cols=18 Identities=50% Similarity=0.772 Sum_probs=14.7
Q ss_pred Ccc-ccChHHHHhHHHHhh
Q 026445 113 GKA-VMSNEEFDNLKEELM 130 (238)
Q Consensus 113 gk~-~msdeEfd~LKEeL~ 130 (238)
||- ++|||||..|++.|.
T Consensus 52 GKGiTLt~eE~~~l~d~l~ 70 (72)
T COG4443 52 GKGITLTNEEFKALKDLLN 70 (72)
T ss_pred cCceeecHHHHHHHHHHHh
Confidence 444 899999999999874
No 45
>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=26.71 E-value=33 Score=26.97 Aligned_cols=36 Identities=28% Similarity=0.649 Sum_probs=28.5
Q ss_pred ChhhHHHHHHHHhhhcCC-----CCCChHHHHHHHHHHHhc
Q 026445 140 SSAEQKFLEASMAYVAGK-----PIMSDEEYDKLKQKLKME 175 (238)
Q Consensus 140 ~~~Eq~fLEA~~AY~sGk-----PimsDeeFD~LK~eLk~~ 175 (238)
...++.|+....||.+|. ++++++.|..++.++++.
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 345667777777899884 899999999999999988
No 46
>PLN02278 succinic semialdehyde dehydrogenase
Probab=26.64 E-value=2.3e+02 Score=27.52 Aligned_cols=68 Identities=19% Similarity=0.430 Sum_probs=47.0
Q ss_pred ccChHHHHhHHHHhhh-----cC------CeeEEeChhhHHHHHHHHhhh----cCC---------CCCChHHHHHHHHH
Q 026445 116 VMSNEEFDNLKEELMW-----EG------SSVVMLSSAEQKFLEASMAYV----AGK---------PIMSDEEYDKLKQK 171 (238)
Q Consensus 116 ~msdeEfd~LKEeL~W-----EG------Ssvv~L~~~Eq~fLEA~~AY~----sGk---------PimsDeeFD~LK~e 171 (238)
++.|.+.|.--+.+.| .| +++++-...-.+|++++.... -|. |+++...+++++.-
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 5567788887777776 34 344555555678998866533 343 68999999999876
Q ss_pred HH---hcCCceeeec
Q 026445 172 LK---MEGSEIVVEG 183 (238)
Q Consensus 172 Lk---~~GS~VVvk~ 183 (238)
+. ..|.+++.-|
T Consensus 358 i~~a~~~Ga~vl~gG 372 (498)
T PLN02278 358 VQDAVSKGAKVLLGG 372 (498)
T ss_pred HHHHHhCCCEEEeCC
Confidence 65 4788887644
No 47
>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=26.51 E-value=34 Score=28.75 Aligned_cols=14 Identities=36% Similarity=0.786 Sum_probs=8.3
Q ss_pred CCCChHHHHHHHHH
Q 026445 158 PIMSDEEYDKLKQK 171 (238)
Q Consensus 158 PimsDeeFD~LK~e 171 (238)
.|++||+||+|=.+
T Consensus 2 qiLtDeQFdrLW~e 15 (118)
T PF08976_consen 2 QILTDEQFDRLWNE 15 (118)
T ss_dssp ----HHHHHHHHTT
T ss_pred ccccHHHhhhhhhh
Confidence 58999999999544
No 48
>KOG1372 consensus GDP-mannose 4,6 dehydratase [Carbohydrate transport and metabolism]
Probab=26.40 E-value=31 Score=33.29 Aligned_cols=39 Identities=28% Similarity=0.444 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHhhcCccc---------cChHHHHh-----HHHHhhhcCCeeE
Q 026445 99 EQEFLQALQAFYYEGKAV---------MSNEEFDN-----LKEELMWEGSSVV 137 (238)
Q Consensus 99 E~~Fl~Al~sfY~~gk~~---------msdeEfd~-----LKEeL~WEGSsvv 137 (238)
-.+|++|+|.--...+|. -|-+||++ +-|.|+|+|..|=
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 358999999988777662 24556665 5789999987653
No 49
>PRK06427 bifunctional hydroxy-methylpyrimidine kinase/ hydroxy-phosphomethylpyrimidine kinase; Reviewed
Probab=26.37 E-value=3.1e+02 Score=23.52 Aligned_cols=54 Identities=22% Similarity=0.391 Sum_probs=36.1
Q ss_pred HhHHHHhhhcCCeeEEeChhhHHHHHHHHhhhcCCCCCChHH-HHHHHHHHHhcCCc-eeeecC
Q 026445 123 DNLKEELMWEGSSVVMLSSAEQKFLEASMAYVAGKPIMSDEE-YDKLKQKLKMEGSE-IVVEGP 184 (238)
Q Consensus 123 d~LKEeL~WEGSsvv~L~~~Eq~fLEA~~AY~sGkPimsDee-FD~LK~eLk~~GS~-VVvk~P 184 (238)
+.++++| .....+++.+..|-+.|. |.++-+.++ ..+.-.+|...|.+ |++++-
T Consensus 124 ~~~~~~l-l~~~dvitpN~~Ea~~L~-------g~~~~~~~~~~~~~a~~l~~~g~~~Vvit~g 179 (266)
T PRK06427 124 AALRERL-LPLATLITPNLPEAEALT-------GLPIADTEDEMKAAARALHALGCKAVLIKGG 179 (266)
T ss_pred HHHHHhh-hCcCeEEcCCHHHHHHHh-------CCCCCCcHHHHHHHHHHHHhcCCCEEEEcCC
Confidence 4566554 355789999999988773 666655554 56666677777865 566654
No 50
>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=25.92 E-value=2.5e+02 Score=26.54 Aligned_cols=68 Identities=21% Similarity=0.454 Sum_probs=45.7
Q ss_pred ccChHHHHhHHHHhhh-----cCCe------eEEeChhhHHHHHHHHhhh----cC---------CCCCChHHHHHHHHH
Q 026445 116 VMSNEEFDNLKEELMW-----EGSS------VVMLSSAEQKFLEASMAYV----AG---------KPIMSDEEYDKLKQK 171 (238)
Q Consensus 116 ~msdeEfd~LKEeL~W-----EGSs------vv~L~~~Eq~fLEA~~AY~----sG---------kPimsDeeFD~LK~e 171 (238)
++.|.+.|..=+.+.| .|.. |++-.....+|++++.... -| -|+++.+.+++++.-
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 5557788887777777 3543 3444444567888866533 23 368999999999977
Q ss_pred HHh---cCCceeeec
Q 026445 172 LKM---EGSEIVVEG 183 (238)
Q Consensus 172 Lk~---~GS~VVvk~ 183 (238)
+.. .|.+|+.-|
T Consensus 315 i~~a~~~Ga~v~~gg 329 (453)
T cd07115 315 VDVGREEGARLLTGG 329 (453)
T ss_pred HHHHHHCCCEEEeCC
Confidence 754 588877644
No 51
>PLN02766 coniferyl-aldehyde dehydrogenase
Probab=25.89 E-value=2.2e+02 Score=27.71 Aligned_cols=69 Identities=16% Similarity=0.431 Sum_probs=44.1
Q ss_pred ccChHHHHhHHHHhhh-----cCC------eeEEeChhhHHHHHHHHh----hhcCC---------CCCChHHHHHHHHH
Q 026445 116 VMSNEEFDNLKEELMW-----EGS------SVVMLSSAEQKFLEASMA----YVAGK---------PIMSDEEYDKLKQK 171 (238)
Q Consensus 116 ~msdeEfd~LKEeL~W-----EGS------svv~L~~~Eq~fLEA~~A----Y~sGk---------PimsDeeFD~LK~e 171 (238)
++.|.+.|..=+.+.| .|- ++++-.+.-.+|++++.+ ++-|. |+++.+.+++++.-
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 3346666666566655 333 344444555677777544 44454 68999999999987
Q ss_pred HHh---cCCceeeecC
Q 026445 172 LKM---EGSEIVVEGP 184 (238)
Q Consensus 172 Lk~---~GS~VVvk~P 184 (238)
+.. .|.+|+.-|.
T Consensus 357 i~~a~~~Ga~v~~gG~ 372 (501)
T PLN02766 357 IEHGKREGATLLTGGK 372 (501)
T ss_pred HHHHHhCCCEEEeCCC
Confidence 754 5888876553
No 52
>PRK12413 phosphomethylpyrimidine kinase; Provisional
Probab=25.64 E-value=3.4e+02 Score=23.14 Aligned_cols=54 Identities=28% Similarity=0.473 Sum_probs=37.0
Q ss_pred HhHHHHhh--hcCCeeEEeChhhHHHHHHHHhhhcCCCCCChHHHHHHHHHHHhcCCc-eeeec
Q 026445 123 DNLKEELM--WEGSSVVMLSSAEQKFLEASMAYVAGKPIMSDEEYDKLKQKLKMEGSE-IVVEG 183 (238)
Q Consensus 123 d~LKEeL~--WEGSsvv~L~~~Eq~fLEA~~AY~sGkPimsDeeFD~LK~eLk~~GS~-VVvk~ 183 (238)
+.+++.+. .....+++.+..|-+.| .|.++-+.++..+.-.+|...|.+ |++++
T Consensus 117 ~~~~~~l~~ll~~~dli~pN~~E~~~L-------~g~~~~~~~~~~~~a~~l~~~g~~~Vvvt~ 173 (253)
T PRK12413 117 SELRQELIQFFPYVTVITPNLVEAELL-------SGKEIKTLEDMKEAAKKLYDLGAKAVVIKG 173 (253)
T ss_pred HHHHHHHHHHhccCcEECCCHHHHHHH-------hCcCCCCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 34444442 34457888888887776 378887778887877888888876 44443
No 53
>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=25.56 E-value=2.5e+02 Score=27.12 Aligned_cols=68 Identities=16% Similarity=0.351 Sum_probs=46.6
Q ss_pred ccChHHHHhHHHHhhh-----cCC------eeEEeChhhHHHHHHHHhh----hcCC---------CCCChHHHHHHHHH
Q 026445 116 VMSNEEFDNLKEELMW-----EGS------SVVMLSSAEQKFLEASMAY----VAGK---------PIMSDEEYDKLKQK 171 (238)
Q Consensus 116 ~msdeEfd~LKEeL~W-----EGS------svv~L~~~Eq~fLEA~~AY----~sGk---------PimsDeeFD~LK~e 171 (238)
++.|.+.|.--+.+.| .|. .|++-.+.-.+|++++... .-|. |+++...|+++...
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 4557788887776666 344 3444455567788886653 2343 68999999999988
Q ss_pred HH---hcCCceeeec
Q 026445 172 LK---MEGSEIVVEG 183 (238)
Q Consensus 172 Lk---~~GS~VVvk~ 183 (238)
+. ..|.+|+.-|
T Consensus 343 i~~a~~~ga~v~~gg 357 (481)
T cd07143 343 IESGKAEGATVETGG 357 (481)
T ss_pred HHHHHhCCCEEEeCC
Confidence 75 4688887654
No 54
>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=24.97 E-value=2.6e+02 Score=26.70 Aligned_cols=70 Identities=21% Similarity=0.465 Sum_probs=48.8
Q ss_pred ccChHHHHhHHHHhhh-----cCC------eeEEeChhhHHHHHHHHh----hhcCC--------CCCChHHHHHHHHHH
Q 026445 116 VMSNEEFDNLKEELMW-----EGS------SVVMLSSAEQKFLEASMA----YVAGK--------PIMSDEEYDKLKQKL 172 (238)
Q Consensus 116 ~msdeEfd~LKEeL~W-----EGS------svv~L~~~Eq~fLEA~~A----Y~sGk--------PimsDeeFD~LK~eL 172 (238)
++.|.+.|.--+.+.| .|- +|++-...-.+|++++.+ +.-|. |+++...++++..-+
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 333334444678887654 44465 789999999999988
Q ss_pred HhcCCceeeecCc
Q 026445 173 KMEGSEIVVEGPR 185 (238)
Q Consensus 173 k~~GS~VVvk~Pr 185 (238)
...|.+|+.-|++
T Consensus 303 ~~ag~~v~~gg~~ 315 (436)
T cd07135 303 DTTKGKVVIGGEM 315 (436)
T ss_pred HhcCCeEEECCCc
Confidence 8878887766544
No 55
>PLN02428 lipoic acid synthase
Probab=24.65 E-value=1e+02 Score=29.63 Aligned_cols=29 Identities=21% Similarity=0.315 Sum_probs=25.7
Q ss_pred CCCCChHHHHHHHHHHHhcCCceeeecCc
Q 026445 157 KPIMSDEEYDKLKQKLKMEGSEIVVEGPR 185 (238)
Q Consensus 157 kPimsDeeFD~LK~eLk~~GS~VVvk~Pr 185 (238)
++-+.++||+.+|..=...|-.-|.-||-
T Consensus 295 ~~~v~p~~f~~~~~~~~~~gf~~v~sgp~ 323 (349)
T PLN02428 295 KEYVTPEKFEFWREYGEEMGFRYVASGPL 323 (349)
T ss_pred ecccCHHHHHHHHHHHHHcCCceEEecCc
Confidence 45789999999999999999999998884
No 56
>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=24.65 E-value=3e+02 Score=26.44 Aligned_cols=68 Identities=24% Similarity=0.409 Sum_probs=44.3
Q ss_pred ccChHHHHhHHHHhhh-----cCCe------eEEeChhhHHHHHHHHhh-----hcCC---------CCCChHHHHHHHH
Q 026445 116 VMSNEEFDNLKEELMW-----EGSS------VVMLSSAEQKFLEASMAY-----VAGK---------PIMSDEEYDKLKQ 170 (238)
Q Consensus 116 ~msdeEfd~LKEeL~W-----EGSs------vv~L~~~Eq~fLEA~~AY-----~sGk---------PimsDeeFD~LK~ 170 (238)
++.|.+.|.--+.+.| .|.+ |++-.+.-.+|++++... .-|. |+++.+.++++..
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 4456677776666655 3443 333334456777775543 3365 4789999999998
Q ss_pred HHHh---cCCceeeec
Q 026445 171 KLKM---EGSEIVVEG 183 (238)
Q Consensus 171 eLk~---~GS~VVvk~ 183 (238)
.+.. .|.+|+.-|
T Consensus 342 ~i~~a~~~ga~v~~gg 357 (484)
T cd07144 342 YIEKGKKEGAKLVYGG 357 (484)
T ss_pred HHHHHHHCCCEEEeCC
Confidence 8876 688887644
No 57
>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=24.44 E-value=1.3e+02 Score=23.41 Aligned_cols=27 Identities=30% Similarity=0.521 Sum_probs=21.6
Q ss_pred HHHHHHHH-hhhcCCCCCChHHHHHHHHHH
Q 026445 144 QKFLEASM-AYVAGKPIMSDEEYDKLKQKL 172 (238)
Q Consensus 144 q~fLEA~~-AY~sGkPimsDeeFD~LK~eL 172 (238)
|+.|.+++ +|-.|. ||.++|++-+.+|
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 44566665 499997 8999999999887
No 58
>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=23.87 E-value=1.6e+02 Score=22.06 Aligned_cols=33 Identities=33% Similarity=0.493 Sum_probs=24.4
Q ss_pred chhHHHHHHHHHHHHHhhcCccccChHHHHhHHHHh
Q 026445 94 SLGELEQEFLQALQAFYYEGKAVMSNEEFDNLKEEL 129 (238)
Q Consensus 94 slge~E~~Fl~Al~sfY~~gk~~msdeEfd~LKEeL 129 (238)
.+.+....+++-+...=..| ++++||++.|+.|
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 59
>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=23.53 E-value=62 Score=20.40 Aligned_cols=12 Identities=42% Similarity=0.839 Sum_probs=9.1
Q ss_pred CChHHHHHHHHH
Q 026445 160 MSDEEYDKLKQK 171 (238)
Q Consensus 160 msDeeFD~LK~e 171 (238)
||.|+|++|+.-
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 60
>PRK14562 haloacid dehalogenase superfamily protein; Provisional
Probab=23.38 E-value=1.3e+02 Score=26.31 Aligned_cols=42 Identities=33% Similarity=0.443 Sum_probs=31.0
Q ss_pred HHHHhHHHHh------hhcCCeeEEeChhhHHHHHHHH--hhhcCCCCCChHHH
Q 026445 120 EEFDNLKEEL------MWEGSSVVMLSSAEQKFLEASM--AYVAGKPIMSDEEY 165 (238)
Q Consensus 120 eEfd~LKEeL------~WEGSsvv~L~~~Eq~fLEA~~--AY~sGkPimsDeeF 165 (238)
+.++.|++.+ .|.| ..+...|+++||+. .|..++.+++.++|
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 4566666655 3444 35778899999944 59999999999885
No 61
>cd07098 ALDH_F15-22 Aldehyde dehydrogenase family 15A1 and 22A1-like. Aldehyde dehydrogenase family members ALDH15A1 (Saccharomyces cerevisiae YHR039C) and ALDH22A1 (Arabidopsis thaliana, EC=1.2.1.3), and similar sequences, are in this CD. Significant improvement of stress tolerance in tobacco plants was observed by overexpressing the ALDH22A1 gene from maize (Zea mays) and was accompanied by a reduction of malondialdehyde derived from cellular lipid peroxidation.
Probab=23.28 E-value=3.1e+02 Score=26.00 Aligned_cols=68 Identities=22% Similarity=0.481 Sum_probs=48.0
Q ss_pred ccChHHHHhHHHHhhh-----cC------CeeEEeChhhHHHHHHHHh----hhcCCC---------CCChHHHHHHHHH
Q 026445 116 VMSNEEFDNLKEELMW-----EG------SSVVMLSSAEQKFLEASMA----YVAGKP---------IMSDEEYDKLKQK 171 (238)
Q Consensus 116 ~msdeEfd~LKEeL~W-----EG------Ssvv~L~~~Eq~fLEA~~A----Y~sGkP---------imsDeeFD~LK~e 171 (238)
++.|.++|..-+.+.| .| ++|++-.+.-.+|++++.. +.-|.| +++.+.+++++.-
T Consensus 241 V~~dadl~~a~~~i~~~~~~~~GQ~C~a~~rv~V~~~i~d~f~~~L~~~~~~l~~G~p~~~~~~~Gpli~~~~~~~~~~~ 320 (465)
T cd07098 241 VLDDADLDQIASIIMRGTFQSSGQNCIGIERVIVHEKIYDKLLEILTDRVQALRQGPPLDGDVDVGAMISPARFDRLEEL 320 (465)
T ss_pred ECCCCCHHHHHHHHHHHHHhcCCCCCcCCcEEEEcHHHHHHHHHHHHHHHHhcCCCCCCCCCCCcCCCCCHHHHHHHHHH
Confidence 4568888888888876 34 3444444455667777554 556765 7999999999988
Q ss_pred HHh---cCCceeeec
Q 026445 172 LKM---EGSEIVVEG 183 (238)
Q Consensus 172 Lk~---~GS~VVvk~ 183 (238)
+.. .|.+++.-|
T Consensus 321 i~~a~~~Ga~~~~gg 335 (465)
T cd07098 321 VADAVEKGARLLAGG 335 (465)
T ss_pred HHHHHHCCCEEEeCC
Confidence 764 588888754
No 62
>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=22.93 E-value=2.3e+02 Score=26.12 Aligned_cols=67 Identities=18% Similarity=0.439 Sum_probs=43.7
Q ss_pred cChHHHHhHHHHhhh-----cCC------eeEEeChhhHHHHHHHHh----hhcCC---------CCCChHHHHHHHHHH
Q 026445 117 MSNEEFDNLKEELMW-----EGS------SVVMLSSAEQKFLEASMA----YVAGK---------PIMSDEEYDKLKQKL 172 (238)
Q Consensus 117 msdeEfd~LKEeL~W-----EGS------svv~L~~~Eq~fLEA~~A----Y~sGk---------PimsDeeFD~LK~eL 172 (238)
+.+.+++..-+.+.| .|. .+++....-.+|++++.. +.-|. |+++.+.+++++..+
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 456667766665554 453 334444444678777543 55454 488999999999888
Q ss_pred Hh---cCCceeeec
Q 026445 173 KM---EGSEIVVEG 183 (238)
Q Consensus 173 k~---~GS~VVvk~ 183 (238)
.. .|.+|+.-|
T Consensus 295 ~~~~~~g~~~~~gg 308 (432)
T cd07078 295 EDAKAEGAKLLCGG 308 (432)
T ss_pred HHHHhCCCEEEeCC
Confidence 76 677787644
No 63
>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=22.70 E-value=3.2e+02 Score=26.26 Aligned_cols=68 Identities=24% Similarity=0.440 Sum_probs=46.8
Q ss_pred ccChHHHHhHHHHhhh-----cC------CeeEEeChhhHHHHHHHHh----hhcCC---------CCCChHHHHHHHHH
Q 026445 116 VMSNEEFDNLKEELMW-----EG------SSVVMLSSAEQKFLEASMA----YVAGK---------PIMSDEEYDKLKQK 171 (238)
Q Consensus 116 ~msdeEfd~LKEeL~W-----EG------Ssvv~L~~~Eq~fLEA~~A----Y~sGk---------PimsDeeFD~LK~e 171 (238)
++.|.+++.--+.+.| .| ++|++-.+.-.+|++++.. +.-|. |+++.+.+++++..
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 44 3455555556778888654 33343 68999999999986
Q ss_pred HH---hcCCceeeec
Q 026445 172 LK---MEGSEIVVEG 183 (238)
Q Consensus 172 Lk---~~GS~VVvk~ 183 (238)
++ ..|.+|+.-|
T Consensus 344 i~~a~~~Ga~v~~gg 358 (481)
T cd07141 344 IESGKKEGAKLECGG 358 (481)
T ss_pred HHHHHHCCCEEEeCC
Confidence 65 4688887655
No 64
>COG0074 SucD Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]
Probab=22.62 E-value=1.8e+02 Score=27.82 Aligned_cols=63 Identities=27% Similarity=0.432 Sum_probs=46.0
Q ss_pred hHHHHhHHHHhhhcCC--eeEEeChhh--HHHHHHHHh-------hhcCCCCCChHHHHHHHHHHHhcCCceeeecCce
Q 026445 119 NEEFDNLKEELMWEGS--SVVMLSSAE--QKFLEASMA-------YVAGKPIMSDEEYDKLKQKLKMEGSEIVVEGPRC 186 (238)
Q Consensus 119 deEfd~LKEeL~WEGS--svv~L~~~E--q~fLEA~~A-------Y~sGkPimsDeeFD~LK~eLk~~GS~VVvk~PrC 186 (238)
---|+.++|.+.-.|. +|+.+.+.= -.-+||+++ ...|=|+.|- =++|.++++.| +.+-||.|
T Consensus 51 ~PVf~tV~EA~~~~~a~~svI~Vp~~~aadai~EAida~i~liv~ITEgIP~~D~---~~~~~~a~~~g--~~iiGPnc 124 (293)
T COG0074 51 LPVFNTVEEAVKETGANASVIFVPPPFAADAILEAIDAGIKLVVIITEGIPVLDM---LELKRYAREKG--TRLIGPNC 124 (293)
T ss_pred ccHHHHHHHHHHhhCCCEEEEecCcHHHHHHHHHHHhCCCcEEEEEeCCCCHHHH---HHHHHHHHhcC--CEEECCCC
Confidence 3458889998888877 788887763 345677665 6788887643 35788888888 67778775
No 65
>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=22.37 E-value=3.1e+02 Score=26.26 Aligned_cols=69 Identities=23% Similarity=0.471 Sum_probs=44.4
Q ss_pred ccChHHHHhHHHHhhh-----cCCe------eEEeChhhHHHHHHHHh----hhcCC---------CCCChHHHHHHHHH
Q 026445 116 VMSNEEFDNLKEELMW-----EGSS------VVMLSSAEQKFLEASMA----YVAGK---------PIMSDEEYDKLKQK 171 (238)
Q Consensus 116 ~msdeEfd~LKEeL~W-----EGSs------vv~L~~~Eq~fLEA~~A----Y~sGk---------PimsDeeFD~LK~e 171 (238)
++.|.+.|.--+.+.| .|-+ |++-...-.+|++++.. +.-|. |+++.+.+++++.-
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 4456777766666665 4543 34444445678887654 33343 68899999999986
Q ss_pred HHh---cCCceeeecC
Q 026445 172 LKM---EGSEIVVEGP 184 (238)
Q Consensus 172 Lk~---~GS~VVvk~P 184 (238)
+.. .|.+|+.-|.
T Consensus 332 i~~a~~~Ga~v~~gg~ 347 (482)
T cd07119 332 IQLGKEEGARLVCGGK 347 (482)
T ss_pred HHHHHHCCCEEEeCCc
Confidence 654 5888776553
No 66
>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=22.06 E-value=2.2e+02 Score=22.03 Aligned_cols=33 Identities=33% Similarity=0.545 Sum_probs=22.5
Q ss_pred hhHHHHHHHHHHHHHhhcCccccChHHHHhHHHHhhh
Q 026445 95 LGELEQEFLQALQAFYYEGKAVMSNEEFDNLKEELMW 131 (238)
Q Consensus 95 lge~E~~Fl~Al~sfY~~gk~~msdeEfd~LKEeL~W 131 (238)
|++.|.+.++.+|. .|. .-..|=.+.|++...|
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 67
>COG2960 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.89 E-value=1.2e+02 Score=25.07 Aligned_cols=36 Identities=31% Similarity=0.403 Sum_probs=30.2
Q ss_pred chhHHHHHHHHHHHHHhhcCccccChHHHHhHHHHhh
Q 026445 94 SLGELEQEFLQALQAFYYEGKAVMSNEEFDNLKEELM 130 (238)
Q Consensus 94 slge~E~~Fl~Al~sfY~~gk~~msdeEfd~LKEeL~ 130 (238)
.-+|.|..|-+-+|+.+ .....++.||||..++-|-
T Consensus 34 ~~~evE~~~r~~~q~~l-nkLDlVsREEFdvq~qvl~ 69 (103)
T COG2960 34 VRAEVEKAFRAQLQRQL-NKLDLVSREEFDVQRQVLL 69 (103)
T ss_pred hHHHHHHHHHHHHHHHH-hhhhhhhHHHHHHHHHHHH
Confidence 44789999999999955 5688999999999988754
No 68
>PF15640 Tox-MPTase4: Metallopeptidase toxin 4
Probab=21.55 E-value=90 Score=26.80 Aligned_cols=27 Identities=22% Similarity=0.471 Sum_probs=25.6
Q ss_pred cCCCCCChHHHHHHHHHHHhcCCceee
Q 026445 155 AGKPIMSDEEYDKLKQKLKMEGSEIVV 181 (238)
Q Consensus 155 sGkPimsDeeFD~LK~eLk~~GS~VVv 181 (238)
.|+-||+-.++..+|.+|...|.+|++
T Consensus 14 ~G~ri~s~~d~k~~kk~m~~~gIkV~I 40 (132)
T PF15640_consen 14 DGQRIMSVKDIKNFKKEMGKRGIKVKI 40 (132)
T ss_pred CCcEeeeHHHHHHHHHHHHhCCcEEEE
Confidence 588999999999999999999999988
No 69
>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=21.52 E-value=1.3e+02 Score=26.33 Aligned_cols=31 Identities=19% Similarity=0.269 Sum_probs=17.9
Q ss_pred CCceeec-chhhHHHHhhhccchhhhhhhhhhhe
Q 026445 190 SRKVYSD-LSVDYLKMLLLNVPATVVALGLFFFL 222 (238)
Q Consensus 190 s~~vySD-ae~D~lKm~lL~~pa~vvalG~~f~~ 222 (238)
|+.+|++ .++ +=+--.|-+|.|+|-|=.+..
T Consensus 122 GQ~i~~~~gDl--iilG~Vn~GAeViA~GnI~V~ 153 (217)
T TIGR01222 122 GQQIYAKHGDL--IVLGNVNAGAEVLADGNIHVY 153 (217)
T ss_pred CCEEEecCCCE--EEECCCCCCCEEEeCCCEEEE
Confidence 7777776 333 334444557777776654443
No 70
>cd07139 ALDH_AldA-Rv0768 Mycobacterium tuberculosis aldehyde dehydrogenase AldA-like. The Mycobacterium tuberculosis NAD+-dependent, aldehyde dehydrogenase PDB structure, 3B4W, and the Mycobacterium tuberculosis H37Rv aldehyde dehydrogenase AldA (locus Rv0768) sequence, as well as the Rhodococcus rhodochrous ALDH involved in haloalkane catabolism, and other similar sequences, are included in this CD.
Probab=21.45 E-value=4e+02 Score=25.34 Aligned_cols=69 Identities=22% Similarity=0.384 Sum_probs=47.0
Q ss_pred ccChHHHHhHHHHhhh-----cCC------eeEEeChhhHHHHHHHHh----hhcC---------CCCCChHHHHHHHHH
Q 026445 116 VMSNEEFDNLKEELMW-----EGS------SVVMLSSAEQKFLEASMA----YVAG---------KPIMSDEEYDKLKQK 171 (238)
Q Consensus 116 ~msdeEfd~LKEeL~W-----EGS------svv~L~~~Eq~fLEA~~A----Y~sG---------kPimsDeeFD~LK~e 171 (238)
++.|.+.|.--+.+.| .|. +|++-...-.+|++++.. +.-| -|+++...+++++.-
T Consensus 254 V~~dADl~~aa~~i~~~~~~~~GQ~C~a~~~v~V~~~i~d~f~~~l~~~~~~~~~g~p~~~~~~~gpli~~~~~~~~~~~ 333 (471)
T cd07139 254 VLDDADLDAAVPGLVPASLMNNGQVCVALTRILVPRSRYDEVVEALAAAVAALKVGDPLDPATQIGPLASARQRERVEGY 333 (471)
T ss_pred ECCCCCHHHHHHHHHHHHHhcCCCCCcCCcEEEEeHhHHHHHHHHHHHHHHhCCcCCCCCCCCCCCCCCCHHHHHHHHHH
Confidence 5567888888888888 244 344455545667777543 3333 378899999999987
Q ss_pred HH---hcCCceeeecC
Q 026445 172 LK---MEGSEIVVEGP 184 (238)
Q Consensus 172 Lk---~~GS~VVvk~P 184 (238)
+. ..|.+|+.-|.
T Consensus 334 i~~a~~~ga~v~~gg~ 349 (471)
T cd07139 334 IAKGRAEGARLVTGGG 349 (471)
T ss_pred HHHHHHCCCEEEeCCC
Confidence 64 46888876553
No 71
>cd07145 ALDH_LactADH_F420-Bios Methanocaldococcus jannaschii NAD+-dependent lactaldehyde dehydrogenase-like. NAD+-dependent, lactaldehyde dehydrogenase (EC=1.2.1.22) involved the biosynthesis of coenzyme F(420) in Methanocaldococcus jannaschii through the oxidation of lactaldehyde to lactate and generation of NAPH, and similar sequences are included in this CD.
Probab=21.06 E-value=3.5e+02 Score=25.59 Aligned_cols=68 Identities=16% Similarity=0.385 Sum_probs=45.9
Q ss_pred cChHHHHhHHHHhhh-----cCC------eeEEeChhhHHHHHHHHh----hhcCC---------CCCChHHHHHHHHHH
Q 026445 117 MSNEEFDNLKEELMW-----EGS------SVVMLSSAEQKFLEASMA----YVAGK---------PIMSDEEYDKLKQKL 172 (238)
Q Consensus 117 msdeEfd~LKEeL~W-----EGS------svv~L~~~Eq~fLEA~~A----Y~sGk---------PimsDeeFD~LK~eL 172 (238)
+.|.+.|..-+.+.| .|- +|++-...-.+|++++.. +.-|. |+++.+.+++++.-+
T Consensus 242 ~~dAdl~~aa~~i~~~~f~~~GQ~C~a~~rv~V~~~i~d~f~~~l~~~~~~~~~g~p~~~~~~~gpli~~~~~~~~~~~i 321 (456)
T cd07145 242 LKDADLERAVSIAVRGRFENAGQVCNAVKRILVEEEVYDKFLKLLVEKVKKLKVGDPLDESTDLGPLISPEAVERMENLV 321 (456)
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCccCeeEEEcHHHHHHHHHHHHHHHhcCCcCCCCCCCCCcCCCcCHHHHHHHHHHH
Confidence 457778877777776 342 344444556688888654 44454 488999999999887
Q ss_pred Hh---cCCceeeecC
Q 026445 173 KM---EGSEIVVEGP 184 (238)
Q Consensus 173 k~---~GS~VVvk~P 184 (238)
.. .|.+|+.-|.
T Consensus 322 ~~a~~~ga~vl~gg~ 336 (456)
T cd07145 322 NDAVEKGGKILYGGK 336 (456)
T ss_pred HHHHHCCCEEEeCCC
Confidence 64 5888776553
No 72
>cd07099 ALDH_DDALDH Methylomonas sp. 4,4'-diapolycopene-dialdehyde dehydrogenase-like. The 4,4'-diapolycopene-dialdehyde dehydrogenase (DDALDH) involved in C30 carotenoid synthesis in Methylomonas sp. strain 16a and other similar sequences are present in this CD. DDALDH converts 4,4'-diapolycopene-dialdehyde into 4,4'-diapolycopene-diacid.
Probab=21.02 E-value=4.4e+02 Score=24.83 Aligned_cols=74 Identities=19% Similarity=0.487 Sum_probs=49.1
Q ss_pred cCcc---ccChHHHHhHHHHhhh-----cCCee------EEeChhhHHHHHHHHh----hhcCC---------CCCChHH
Q 026445 112 EGKA---VMSNEEFDNLKEELMW-----EGSSV------VMLSSAEQKFLEASMA----YVAGK---------PIMSDEE 164 (238)
Q Consensus 112 ~gk~---~msdeEfd~LKEeL~W-----EGSsv------v~L~~~Eq~fLEA~~A----Y~sGk---------PimsDee 164 (238)
.|+. ++.|.+.|.--+.+.| .|..| ++-.+.-.+|++++.. ++-|. |+++...
T Consensus 228 gG~~p~iV~~dadl~~a~~~i~~~~~~~~GQ~C~a~~ri~V~~~i~d~f~~~l~~~~~~l~~G~~~~~~~~~gp~i~~~~ 307 (453)
T cd07099 228 GGKDPMIVLADADLERAAAAAVWGAMVNAGQTCISVERVYVHESVYDEFVARLVAKARALRPGADDIGDADIGPMTTARQ 307 (453)
T ss_pred CCCCeEEECCCCCHHHHHHHHHHHHHhcCCCCCCCCcEEEEcHHHHHHHHHHHHHHHHhccCCCCCCCCCcccCCcCHHH
Confidence 3555 6668888887777776 55433 3333334678887553 44465 4688899
Q ss_pred HHHHHHHHH---hcCCceeeecCc
Q 026445 165 YDKLKQKLK---MEGSEIVVEGPR 185 (238)
Q Consensus 165 FD~LK~eLk---~~GS~VVvk~Pr 185 (238)
+++++.-+. ..|.+++.-|.+
T Consensus 308 ~~~~~~~i~~a~~~ga~~~~gg~~ 331 (453)
T cd07099 308 LDIVRRHVDDAVAKGAKALTGGAR 331 (453)
T ss_pred HHHHHHHHHHHHhCCCEEEeCCCc
Confidence 999988655 578888775544
No 73
>PRK11613 folP dihydropteroate synthase; Provisional
Probab=20.62 E-value=4.6e+02 Score=24.41 Aligned_cols=104 Identities=16% Similarity=0.250 Sum_probs=55.0
Q ss_pred hHHHHhHH---HHhhhcCCeeEEeChhhHHHHHHHHhhhcCCCCC-------ChHHHHHHHHHHHhcCCceeeecCc---
Q 026445 119 NEEFDNLK---EELMWEGSSVVMLSSAEQKFLEASMAYVAGKPIM-------SDEEYDKLKQKLKMEGSEIVVEGPR--- 185 (238)
Q Consensus 119 deEfd~LK---EeL~WEGSsvv~L~~~Eq~fLEA~~AY~sGkPim-------sDeeFD~LK~eLk~~GS~VVvk~Pr--- 185 (238)
.||+++|. ++|..+-...+-+-...-+-+++.... |-+|+ ++++++. ++++|..|++.--+
T Consensus 72 eeE~~Rv~pvI~~l~~~~~~~ISIDT~~~~va~~AL~~--GadiINDI~g~~d~~~~~~----~a~~~~~vVlmh~~g~p 145 (282)
T PRK11613 72 EEELDRVIPVVEAIAQRFEVWISVDTSKPEVIRESAKA--GAHIINDIRSLSEPGALEA----AAETGLPVCLMHMQGNP 145 (282)
T ss_pred HHHHHHHHHHHHHHHhcCCCeEEEECCCHHHHHHHHHc--CCCEEEECCCCCCHHHHHH----HHHcCCCEEEEcCCCCC
Confidence 55666655 444433223333433334444443332 88887 3344544 56788888885321
Q ss_pred eeecCCceeecchhhHHHHhhhccchhhhhhhh---hhheeccccce
Q 026445 186 CSLRSRKVYSDLSVDYLKMLLLNVPATVVALGL---FFFLDDITGFE 229 (238)
Q Consensus 186 Cslrs~~vySDae~D~lKm~lL~~pa~vvalG~---~f~~d~~tgfe 229 (238)
-.....+.|.|-..+ ..-++...-......|. .+.+|=..||.
T Consensus 146 ~~~~~~~~y~dv~~~-v~~~l~~~i~~a~~~GI~~~~IilDPGiGF~ 191 (282)
T PRK11613 146 KTMQEAPKYDDVFAE-VNRYFIEQIARCEAAGIAKEKLLLDPGFGFG 191 (282)
T ss_pred CccccCCCcccHHHH-HHHHHHHHHHHHHHcCCChhhEEEeCCCCcC
Confidence 011222334444333 33344444456778888 78999888884
No 74
>PLN02953 phosphatidate cytidylyltransferase
Probab=20.45 E-value=47 Score=32.84 Aligned_cols=32 Identities=25% Similarity=0.363 Sum_probs=21.6
Q ss_pred ccccccccccccccCcccccccCCccCccccc
Q 026445 47 GRQFTVRRRSFVLPSKATTDQQGQVEGDEVVD 78 (238)
Q Consensus 47 ~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~d 78 (238)
-..++++||.....++|..+|-++..+.+++|
T Consensus 49 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (403)
T PLN02953 49 LGPISVKRRFLTAVARAESDQLGDDDHAKEID 80 (403)
T ss_pred CCchhHHHHHHHHHHHhhhhhccCCCccchhh
Confidence 33456788888888888888766655544455
No 75
>cd07100 ALDH_SSADH1_GabD1 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like. Succinate-semialdehyde dehydrogenase 1 (SSADH1, GabD1, EC=1.2.1.16) catalyzes the NADP(+)-dependent oxidation of succinate semialdehyde (SSA) to succinate. SSADH activity in Mycobacterium tuberculosis (Mtb) is encoded by both gabD1 (Rv0234c) and gabD2 (Rv1731). The Mtb GabD1 SSADH1 reportedly is an enzyme of the gamma-aminobutyrate shunt, which forms a functional link between two TCA half-cycles by converting alpha-ketoglutarate to succinate.
Probab=20.42 E-value=3.7e+02 Score=25.32 Aligned_cols=68 Identities=18% Similarity=0.410 Sum_probs=46.6
Q ss_pred ccChHHHHhHHHHhhh-----cC------CeeEEeChhhHHHHHHHHh----hhcCC---------CCCChHHHHHHHHH
Q 026445 116 VMSNEEFDNLKEELMW-----EG------SSVVMLSSAEQKFLEASMA----YVAGK---------PIMSDEEYDKLKQK 171 (238)
Q Consensus 116 ~msdeEfd~LKEeL~W-----EG------Ssvv~L~~~Eq~fLEA~~A----Y~sGk---------PimsDeeFD~LK~e 171 (238)
+..|.+.|..=+.+.| .| ++|++-.+.-.+|++++.+ +.-|. |+++...+++++..
T Consensus 213 V~~daDl~~aa~~i~~~~~~~~GQ~C~a~~rv~v~~~i~~~f~~~l~~~~~~~~~g~p~~~~~~~gpli~~~~~~~v~~~ 292 (429)
T cd07100 213 VLDDADLDKAVKTAVKGRLQNAGQSCIAAKRFIVHEDVYDEFLEKFVEAMAALKVGDPMDEDTDLGPLARKDLRDELHEQ 292 (429)
T ss_pred ECCCCCHHHHHHHHHHHHHhccCCCCCCCeEEEEcHHHHHHHHHHHHHHHHhccCCCCccCCCCccCCCCHHHHHHHHHH
Confidence 4457788887777776 33 3555555656788888654 33354 57899999999975
Q ss_pred H---HhcCCceeeec
Q 026445 172 L---KMEGSEIVVEG 183 (238)
Q Consensus 172 L---k~~GS~VVvk~ 183 (238)
+ +..|.+++.-|
T Consensus 293 i~~a~~~Ga~~~~gg 307 (429)
T cd07100 293 VEEAVAAGATLLLGG 307 (429)
T ss_pred HHHHHHCCCEEEeCC
Confidence 5 45788887644
No 76
>PRK10090 aldehyde dehydrogenase A; Provisional
Probab=20.38 E-value=3.4e+02 Score=25.83 Aligned_cols=70 Identities=19% Similarity=0.371 Sum_probs=47.5
Q ss_pred ccChHHHHhHHHHhhh-----cCC------eeEEeChhhHHHHHHHHh----hhcCC----------CCCChHHHHHHHH
Q 026445 116 VMSNEEFDNLKEELMW-----EGS------SVVMLSSAEQKFLEASMA----YVAGK----------PIMSDEEYDKLKQ 170 (238)
Q Consensus 116 ~msdeEfd~LKEeL~W-----EGS------svv~L~~~Eq~fLEA~~A----Y~sGk----------PimsDeeFD~LK~ 170 (238)
++.|.++|..-+.+.| .|. ++++-.+.-.+|++++.+ +.-|. |+++...+++++.
T Consensus 189 V~~dADld~aa~~iv~~~f~~~GQ~C~a~~rv~V~~~i~~~f~~~l~~~~~~~~~G~p~~~~~~~~gpli~~~~~~~~~~ 268 (409)
T PRK10090 189 VMDDADLDLAVKAIVDSRVINSGQVCNCAERVYVQKGIYDQFVNRLGEAMQAVQFGNPAERNDIAMGPLINAAALERVEQ 268 (409)
T ss_pred EcCCCCHHHHHHHHHHHHHHhcCCCCCCCeEEEEcHHHHHHHHHHHHHHHHhcCCCCCCCcccCccccccCHHHHHHHHH
Confidence 4557888887777777 454 344444455788888653 43453 6678889999988
Q ss_pred HHHh---cCCceeeecCc
Q 026445 171 KLKM---EGSEIVVEGPR 185 (238)
Q Consensus 171 eLk~---~GS~VVvk~Pr 185 (238)
-+.. +|.+++.-|.+
T Consensus 269 ~i~~a~~~Ga~~~~gg~~ 286 (409)
T PRK10090 269 KVARAVEEGARVALGGKA 286 (409)
T ss_pred HHHHHHHCCCEEEeCCCc
Confidence 8764 58888775543
No 77
>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=20.05 E-value=88 Score=27.64 Aligned_cols=64 Identities=30% Similarity=0.425 Sum_probs=41.5
Q ss_pred CccccChHHHHhHHHHhhh-----------cCC-eeEEeChhhHHHHHHHH----hhh-------cCCCCCChHHHHHHH
Q 026445 113 GKAVMSNEEFDNLKEELMW-----------EGS-SVVMLSSAEQKFLEASM----AYV-------AGKPIMSDEEYDKLK 169 (238)
Q Consensus 113 gk~~msdeEfd~LKEeL~W-----------EGS-svv~L~~~Eq~fLEA~~----AY~-------sGkPimsDeeFD~LK 169 (238)
-|..|+.+||..-++.|.= +|- --=-|++.||+.+..+. -|+ +-|.|++++|||+-+
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 12236777887777633 365 346699999999988
Q ss_pred HHHHhcC
Q 026445 170 QKLKMEG 176 (238)
Q Consensus 170 ~eLk~~G 176 (238)
.-|...-
T Consensus 116 eALm~~e 122 (162)
T PF12207_consen 116 EALMTYE 122 (162)
T ss_dssp HHHHHHH
T ss_pred HHHhhhh
Confidence 8776543
No 78
>cd07089 ALDH_CddD-AldA-like Rhodococcus ruber 6-oxolauric acid dehydrogenase-like and related proteins. The 6-oxolauric acid dehydrogenase (CddD) from Rhodococcus ruber SC1 which converts 6-oxolauric acid to dodecanedioic acid; and the aldehyde dehydrogenase (locus SSP0762) from Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305 and also, the Mycobacterium tuberculosis H37Rv ALDH AldA (locus Rv0768) sequence; and other similar sequences, are included in this CD.
Probab=20.03 E-value=3.8e+02 Score=25.57 Aligned_cols=68 Identities=21% Similarity=0.369 Sum_probs=44.9
Q ss_pred ccChHHHHhHHHHhhhc-----CC------eeEEeChhhHHHHHHHHh----hhcCC---------CCCChHHHHHHHHH
Q 026445 116 VMSNEEFDNLKEELMWE-----GS------SVVMLSSAEQKFLEASMA----YVAGK---------PIMSDEEYDKLKQK 171 (238)
Q Consensus 116 ~msdeEfd~LKEeL~WE-----GS------svv~L~~~Eq~fLEA~~A----Y~sGk---------PimsDeeFD~LK~e 171 (238)
++.|.+.|..-+.+.|. |- +|++-...-.+|++++.. +.-|. |+++.+.+++++.-
T Consensus 241 V~~dadl~~aa~~i~~~~~~~sGQ~C~a~~~v~V~~~v~~~f~~~l~~~~~~~~~g~p~~~~~~~gp~i~~~~~~~v~~~ 320 (459)
T cd07089 241 VLDDADLAAAAPAAVGVCMHNAGQGCALTTRLLVPRSRYDEVVEALAAAFEALPVGDPADPGTVMGPLISAAQRDRVEGY 320 (459)
T ss_pred ECCCCCHHHHHHHHHHHHHHhcCCcccCCeEEEEcHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCCCCcCHHHHHHHHHH
Confidence 44577788877777772 44 333344444667777543 44443 58999999999987
Q ss_pred HHh---cCCceeeec
Q 026445 172 LKM---EGSEIVVEG 183 (238)
Q Consensus 172 Lk~---~GS~VVvk~ 183 (238)
+.. .|.+++.-|
T Consensus 321 i~~a~~~Ga~~l~gg 335 (459)
T cd07089 321 IARGRDEGARLVTGG 335 (459)
T ss_pred HHHHHHCCCEEEeCC
Confidence 654 788887654
Done!