Query 034889
Match_columns 80
No_of_seqs 90 out of 108
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 07:23:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034889.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034889hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0013 Uncharacterized conser 100.0 1.1E-33 2.5E-38 212.6 3.6 77 2-79 46-126 (231)
2 KOG0013 Uncharacterized conser 99.7 1.1E-17 2.4E-22 126.3 3.3 76 2-79 154-229 (231)
3 PF10414 CysG_dimeriser: Siroh 70.5 2.8 6.1E-05 24.7 1.3 33 2-42 25-57 (60)
4 TIGR03836 termin_org_HMW1 cyta 70.5 2.9 6.2E-05 27.8 1.5 30 41-75 23-53 (82)
5 PF15051 FAM198: FAM198 protei 69.3 8.1 0.00018 31.3 4.0 36 5-48 285-323 (326)
6 PF08004 DUF1699: Protein of u 68.8 4.1 8.8E-05 29.2 2.0 38 34-71 58-95 (131)
7 PF04298 Zn_peptidase_2: Putat 67.2 7.5 0.00016 29.6 3.3 40 32-71 39-83 (222)
8 PF13605 DUF4141: Domain of un 57.8 3.9 8.4E-05 25.3 0.3 12 67-78 21-32 (55)
9 COG3571 Predicted hydrolase of 55.5 3 6.5E-05 31.8 -0.6 35 43-77 139-173 (213)
10 cd07233 Glyoxalase_I Glyoxalas 53.7 28 0.0006 20.9 3.6 33 32-64 80-119 (121)
11 COG2738 Predicted Zn-dependent 47.3 16 0.00034 28.3 2.1 36 32-67 42-82 (226)
12 PF07011 DUF1313: Protein of u 47.2 29 0.00062 23.3 3.2 23 15-42 2-24 (87)
13 PF05424 Duffy_binding: Duffy 44.1 13 0.00029 26.1 1.3 24 2-31 120-143 (182)
14 cd08344 MhqB_like_N N-terminal 43.2 46 0.001 20.3 3.5 20 31-50 66-85 (112)
15 PF09498 DUF2388: Protein of u 41.2 19 0.00041 23.4 1.5 10 32-41 62-71 (72)
16 PF03993 DUF349: Domain of Unk 40.4 39 0.00084 19.9 2.8 32 20-51 2-51 (77)
17 PF13467 RHH_4: Ribbon-helix-h 37.2 47 0.001 20.8 2.9 21 18-39 20-41 (67)
18 PF07615 Ykof: YKOF-related Fa 37.0 22 0.00048 22.5 1.3 18 14-31 43-60 (81)
19 PRK14839 undecaprenyl pyrophos 36.9 22 0.00047 27.3 1.5 18 12-30 135-152 (239)
20 cd08351 ChaP_like ChaP, an enz 35.4 79 0.0017 19.5 3.7 34 31-64 69-117 (123)
21 PF01126 Heme_oxygenase: Heme 35.3 78 0.0017 21.9 4.0 28 16-44 163-193 (205)
22 PF13276 HTH_21: HTH-like doma 35.3 49 0.0011 19.0 2.6 41 6-48 13-55 (60)
23 TIGR01643 YD_repeat_2x YD repe 35.0 33 0.00071 18.1 1.7 20 44-63 9-29 (42)
24 PF07559 FlaE: Flagellar basal 34.9 18 0.00039 23.3 0.7 18 54-71 16-33 (130)
25 PF14908 DUF4496: Domain of un 34.6 41 0.00088 22.5 2.4 47 20-72 3-55 (140)
26 cd07261 Glo_EDI_BRP_like_11 Th 34.5 79 0.0017 18.9 3.5 19 32-50 72-90 (114)
27 cd08193 HVD 5-hydroxyvalerate 33.7 35 0.00076 26.3 2.2 32 45-76 129-174 (376)
28 PRK14837 undecaprenyl pyrophos 33.7 64 0.0014 24.5 3.6 19 12-31 132-150 (230)
29 TIGR01293 Kv_beta voltage-depe 33.5 16 0.00034 27.4 0.3 13 6-18 44-57 (317)
30 PF12417 DUF3669: Zinc finger 33.4 81 0.0018 19.5 3.5 34 6-43 25-65 (72)
31 PLN02587 L-galactose dehydroge 33.4 17 0.00037 27.1 0.4 11 6-16 46-56 (314)
32 COG2445 Uncharacterized conser 32.7 47 0.001 23.3 2.6 43 5-51 25-67 (138)
33 COG1447 CelC Phosphotransferas 32.5 45 0.00097 22.9 2.4 28 17-45 20-47 (105)
34 TIGR00055 uppS undecaprenyl di 31.3 80 0.0017 23.8 3.8 18 12-30 125-142 (226)
35 PF01687 Flavokinase: Riboflav 31.0 58 0.0012 22.3 2.7 19 23-41 107-125 (125)
36 cd07252 BphC1-RGP6_N_like N-te 30.8 95 0.0021 19.1 3.5 33 32-64 70-113 (120)
37 cd07242 Glo_EDI_BRP_like_6 Thi 30.8 90 0.0019 19.0 3.4 35 31-65 80-125 (128)
38 PRK10625 tas putative aldo-ket 30.4 19 0.00041 27.3 0.3 10 6-15 45-54 (346)
39 TIGR02448 conserverd hypotheti 30.3 51 0.0011 22.7 2.3 10 32-41 91-100 (101)
40 PF04198 Sugar-bind: Putative 30.1 60 0.0013 24.0 2.9 20 22-41 228-255 (255)
41 PF04439 Adenyl_transf: Strept 30.0 85 0.0018 24.1 3.7 35 16-50 234-268 (282)
42 PF05593 RHS_repeat: RHS Repea 29.8 47 0.001 17.8 1.7 20 45-64 10-30 (38)
43 PF06849 DUF1246: Protein of u 29.5 11 0.00025 26.5 -1.0 36 33-68 56-93 (124)
44 PF05731 TROVE: TROVE domain; 29.1 37 0.00081 26.9 1.7 22 7-28 271-292 (385)
45 PF04402 SIMPL: Protein of unk 28.9 76 0.0016 21.5 3.0 25 23-47 128-152 (210)
46 PF01832 Glucosaminidase: Mann 28.6 87 0.0019 20.3 3.2 13 32-44 17-29 (136)
47 PF02519 Auxin_inducible: Auxi 28.2 26 0.00056 23.2 0.6 30 45-74 34-63 (100)
48 cd08345 Fosfomycin_RP Fosfomyc 27.8 92 0.002 18.4 3.0 34 32-65 67-108 (113)
49 cd07247 SgaA_N_like N-terminal 27.3 1.1E+02 0.0024 18.2 3.3 34 32-65 71-112 (114)
50 COG0667 Tas Predicted oxidored 27.0 28 0.0006 26.7 0.7 13 6-18 48-61 (316)
51 PF12645 HTH_16: Helix-turn-he 27.0 25 0.00053 21.6 0.3 41 24-64 3-43 (65)
52 PRK09591 celC cellobiose phosp 26.7 72 0.0016 21.3 2.5 26 20-45 23-48 (104)
53 PRK15418 transcriptional regul 26.3 72 0.0016 24.6 2.8 23 21-43 287-317 (318)
54 TIGR00823 EIIA-LAC phosphotran 26.3 70 0.0015 21.2 2.4 28 20-47 20-47 (99)
55 cd00475 CIS_IPPS Cis (Z)-Isopr 25.6 1.1E+02 0.0023 22.9 3.6 17 13-30 127-143 (221)
56 cd00215 PTS_IIA_lac PTS_IIA, P 25.4 65 0.0014 21.2 2.1 28 20-47 18-45 (97)
57 cd07265 2_3_CTD_N N-terminal d 25.1 1.1E+02 0.0024 18.6 3.1 33 32-64 74-115 (122)
58 PF01255 Prenyltransf: Putativ 24.9 56 0.0012 24.0 1.9 37 13-53 123-170 (223)
59 COG2968 Uncharacterized conser 24.8 90 0.002 24.2 3.1 27 21-47 163-189 (243)
60 cd09013 BphC-JF8_N_like N-term 24.4 1.1E+02 0.0024 18.6 3.0 18 31-48 74-91 (121)
61 PHA00435 capsid assembly prote 23.8 77 0.0017 25.6 2.6 16 32-47 228-243 (306)
62 PF12714 TILa: TILa domain 23.8 43 0.00093 19.8 0.9 19 54-72 1-19 (56)
63 cd07235 MRD Mitomycin C resist 23.7 1.1E+02 0.0024 18.4 2.9 17 32-48 79-95 (122)
64 PLN03090 auxin-responsive fami 23.6 31 0.00068 23.6 0.4 30 45-74 38-67 (104)
65 PRK09912 L-glyceraldehyde 3-ph 23.6 26 0.00056 26.7 -0.1 15 6-21 58-75 (346)
66 cd07885 RHD-n_RelA N-terminal 23.5 63 0.0014 23.9 2.0 30 44-74 133-165 (169)
67 cd07238 Glo_EDI_BRP_like_5 Thi 23.4 1.6E+02 0.0035 17.5 3.5 18 32-49 67-84 (112)
68 PRK10376 putative oxidoreducta 23.3 31 0.00067 25.5 0.3 13 6-18 55-68 (290)
69 PRK14836 undecaprenyl pyrophos 23.2 1.4E+02 0.0029 22.9 3.8 18 12-30 140-157 (253)
70 COG0152 PurC Phosphoribosylami 23.2 2.3E+02 0.0049 22.0 5.0 43 20-62 146-188 (247)
71 PF10875 DUF2670: Protein of u 23.0 56 0.0012 23.6 1.6 26 32-57 60-87 (139)
72 COG0020 UppS Undecaprenyl pyro 23.0 1.2E+02 0.0026 23.2 3.5 38 13-53 143-191 (245)
73 PF12949 HeH: HeH/LEM domain; 23.0 53 0.0012 18.3 1.2 17 35-51 8-24 (35)
74 PRK14840 undecaprenyl pyrophos 22.9 1.3E+02 0.0029 23.1 3.7 18 12-30 148-165 (250)
75 PRK04101 fosfomycin resistance 22.8 51 0.0011 21.1 1.2 47 31-77 74-128 (139)
76 cd08510 PBP2_Lactococcal_OppA_ 22.7 1.2E+02 0.0026 23.8 3.5 34 32-66 342-375 (516)
77 PRK14832 undecaprenyl pyrophos 22.3 1.4E+02 0.003 23.0 3.7 18 12-30 144-161 (253)
78 PLN03086 PRLI-interacting fact 22.2 78 0.0017 27.2 2.5 34 38-72 69-103 (567)
79 PRK14831 undecaprenyl pyrophos 21.8 1.4E+02 0.0031 22.7 3.7 17 13-30 147-163 (249)
80 PRK14827 undecaprenyl pyrophos 21.5 1.5E+02 0.0033 23.4 3.8 18 12-30 193-210 (296)
81 PRK10454 PTS system N,N'-diace 21.4 1.1E+02 0.0024 21.0 2.7 27 20-46 34-60 (115)
82 COG4747 ACT domain-containing 21.3 2.7E+02 0.0058 20.2 4.7 49 16-64 12-85 (142)
83 cd08490 PBP2_NikA_DppA_OppA_li 21.1 1E+02 0.0022 23.5 2.7 31 32-65 293-323 (470)
84 PRK10240 undecaprenyl pyrophos 21.0 1.7E+02 0.0037 22.1 3.8 18 12-30 119-136 (229)
85 cd01612 APG12_C Ubiquitin-like 20.9 17 0.00036 23.5 -1.4 14 51-64 65-78 (87)
86 cd08350 BLMT_like BLMT, a bleo 20.8 1.6E+02 0.0034 18.0 3.1 34 32-65 68-116 (120)
87 COG3867 Arabinogalactan endo-1 20.8 76 0.0016 26.4 2.1 32 33-64 65-97 (403)
88 cd07266 HPCD_N_class_II N-term 20.8 1.5E+02 0.0032 17.9 3.0 35 31-65 72-115 (121)
89 PHA03357 Alkaline exonuclease; 20.7 60 0.0013 21.6 1.2 26 52-77 42-67 (81)
90 PF12441 DUF3680: Protein of u 20.6 36 0.00078 19.7 0.1 9 3-11 13-21 (42)
91 PF03793 PASTA: PASTA domain; 20.5 1.1E+02 0.0025 17.2 2.3 17 32-48 10-26 (63)
92 cd08520 PBP2_NikA_DppA_OppA_li 20.5 1.1E+02 0.0023 23.7 2.7 20 32-51 303-322 (468)
93 PRK13277 5-formaminoimidazole- 20.4 66 0.0014 26.2 1.7 36 33-68 76-113 (366)
94 COG2390 DeoR Transcriptional r 20.4 1E+02 0.0022 24.3 2.7 23 21-43 290-320 (321)
95 cd08189 Fe-ADH5 Iron-containin 20.3 91 0.002 24.1 2.3 33 45-77 130-177 (374)
96 PRK11087 oxidative stress defe 20.3 1.3E+02 0.0028 22.0 3.1 34 23-58 152-186 (231)
97 cd08357 Glo_EDI_BRP_like_18 Th 20.3 1.8E+02 0.0039 17.3 3.3 35 31-65 76-122 (125)
98 TIGR00081 purC phosphoribosyla 20.2 3E+02 0.0064 20.9 5.0 43 20-62 148-190 (237)
99 PF14134 DUF4301: Domain of un 20.1 53 0.0012 28.1 1.1 34 36-69 420-453 (513)
No 1
>KOG0013 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.98 E-value=1.1e-33 Score=212.58 Aligned_cols=77 Identities=55% Similarity=0.935 Sum_probs=73.0
Q ss_pred hhhhhhhhcCcCCCCchhhHHHHHHHHHH----hcHHHHHHHHHHcCceeecCCeeeeeccCCCccccCceeeeCCCCcc
Q 034889 2 QLRDEFWDTAPHYGGRKGKIWDALRAAAE----ADLSLAQAIVDSAGVIVQSADLTICYDERGAKYELPKYVLSEPTNLI 77 (80)
Q Consensus 2 ~~R~EFwdT~~~~~Gr~~EIW~aLraA~e----~dl~tAq~ildaA~itlp~g~L~~~YDe~G~~Y~lP~~v~s~P~Nl~ 77 (80)
.+|+|||||+|+|+||+ |||+|||+|.- .|.+.||+|||+|+||+|+|+|+.|||++|+.|.+|.||++-|.|++
T Consensus 46 skRdEFWdTapAf~GrK-EIWDaL~aa~ta~e~~d~e~Aqai~dgA~~tiP~g~l~ecydelg~~y~~p~ycls~p~n~~ 124 (231)
T KOG0013|consen 46 SKRDEFWDTAPAFGGRK-EIWDALHAAVTAAEEGDAEAAQAILDGADLTIPEGDLSECYDELGGTYYEPIYCLSRPPNAF 124 (231)
T ss_pred hhhhhhhhcccccCCcH-HHHHHHHHHHHHHhcccHHHHHHHHhccccccCCcchHHHHHhhCCeEeecceeeccCchHH
Confidence 58999999999999999 99999999875 39999999999999999999999999999999999999999999987
Q ss_pred cC
Q 034889 78 RE 79 (80)
Q Consensus 78 ~~ 79 (80)
.+
T Consensus 125 ~E 126 (231)
T KOG0013|consen 125 AE 126 (231)
T ss_pred Hh
Confidence 43
No 2
>KOG0013 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.69 E-value=1.1e-17 Score=126.32 Aligned_cols=76 Identities=46% Similarity=0.689 Sum_probs=73.1
Q ss_pred hhhhhhhhcCcCCCCchhhHHHHHHHHHHhcHHHHHHHHHHcCceeecCCeeeeeccCCCccccCceeeeCCCCcccC
Q 034889 2 QLRDEFWDTAPHYGGRKGKIWDALRAAAEADLSLAQAIVDSAGVIVQSADLTICYDERGAKYELPKYVLSEPTNLIRE 79 (80)
Q Consensus 2 ~~R~EFwdT~~~~~Gr~~EIW~aLraA~e~dl~tAq~ildaA~itlp~g~L~~~YDe~G~~Y~lP~~v~s~P~Nl~~~ 79 (80)
+.|++||+|.+|++|.. |||.+||||.+.| ..+|.|+.++++.+-+-+|+.|||+.|.+|.||.+|+++|.|+...
T Consensus 154 tT~~d~~lta~~~Dtv~-eik~~L~Aaeg~D-~~sQrif~Sg~~l~dkt~LeEc~iekg~rYvlqviVlq~~~Nl~~q 229 (231)
T KOG0013|consen 154 TTREDFWLTAPHYDTVG-EIKRALRAAEGVD-PLSQRIFFSGGVLVDKTDLEECKIEKGQRYVLQVIVLQEPKNLSPQ 229 (231)
T ss_pred hhhhheeecccCcCcHH-HHHHHHHHhhccc-hhhheeeccCCceeccccceeeeecCCCEEEEEEEeccCCCCCCCC
Confidence 57999999999999998 9999999999899 9999999999999999999999999999999999999999999864
No 3
>PF10414 CysG_dimeriser: Sirohaem synthase dimerisation region; InterPro: IPR019478 Bacterial sulphur metabolism depends on the iron-containing porphinoid sirohaem. CysG is a multi-functional enzyme with S-adenosyl-L-methionine (SAM)-dependent bismethyltransferase, dehydrogenase and ferrochelatase activities. CysG synthesizes sirohaem from uroporphyrinogen III via reactions which encompass two branchpoint intermediates in tetrapyrrole biosynthesis, diverting flux first from protoporphyrin IX biosynthesis and then from cobalamin (vitamin B12) biosynthesis. CysG is a dimer. Its dimerisation region is 74 residues long, and acts to hold the two structurally similar protomers held together asymmetrically through a number of salt-bridges across complementary residues within the dimerisation region []. CysG dimerisation produces a series of active sites, accounting for CysG's multi-functionality, catalysing four diverse reactions: Two SAM-dependent methylations NAD+-dependent tetrapyrrole dehydrogenation Metal chelation ; GO: 0006779 porphyrin-containing compound biosynthetic process, 0055114 oxidation-reduction process; PDB: 1PJT_A 1PJS_A 1PJQ_A.
Probab=70.53 E-value=2.8 Score=24.74 Aligned_cols=33 Identities=21% Similarity=0.396 Sum_probs=19.9
Q ss_pred hhhhhhhhcCcCCCCchhhHHHHHHHHHHhcHHHHHHHHHH
Q 034889 2 QLRDEFWDTAPHYGGRKGKIWDALRAAAEADLSLAQAIVDS 42 (80)
Q Consensus 2 ~~R~EFwdT~~~~~Gr~~EIW~aLraA~e~dl~tAq~ilda 42 (80)
.+|..||++- +.|.- - ......+.+.|+.+|+.
T Consensus 25 ~~RR~FWe~~--~~g~~---~---~~~~~g~~~~A~~~l~~ 57 (60)
T PF10414_consen 25 AERRRFWERF--FDGPF---A---ELVLAGDEEEAEALLEQ 57 (60)
T ss_dssp HHHHHHHHHH--T-HHH---H---HHHHTT-HHHHHHHHHH
T ss_pred hHHHHHHHHH--HcCHH---H---HHHHCCCHHHHHHHHHH
Confidence 4688899988 54433 3 33334577778777764
No 4
>TIGR03836 termin_org_HMW1 cytadherence high molecular weight protein 1 N-terminal region. This model describes the N-terminal region of the Mycoplasma cytadherence protein HMW1, up to but not including the first EAGR box domain. The apparent orthologs in different Mycoplasma species differ profoundly in archictecture C-terminally to the region described here.
Probab=70.52 E-value=2.9 Score=27.78 Aligned_cols=30 Identities=23% Similarity=0.473 Sum_probs=22.4
Q ss_pred HHcCceee-cCCeeeeeccCCCccccCceeeeCCCC
Q 034889 41 DSAGVIVQ-SADLTICYDERGAKYELPKYVLSEPTN 75 (80)
Q Consensus 41 daA~itlp-~g~L~~~YDe~G~~Y~lP~~v~s~P~N 75 (80)
|.+ .+|| .|++.++||..||-|- +.-+|.|
T Consensus 23 DGk-~tv~eDg~ikvAyDaDgNgYY----Iafn~Et 53 (82)
T TIGR03836 23 DGK-GTVPEDGSIKVAYDADGNGYY----IAFNPET 53 (82)
T ss_pred cCc-cccCCCCcEEEEEecCCCEEE----EEecCCC
Confidence 344 4777 8999999999999985 4445544
No 5
>PF15051 FAM198: FAM198 protein
Probab=69.28 E-value=8.1 Score=31.27 Aligned_cols=36 Identities=25% Similarity=0.503 Sum_probs=25.4
Q ss_pred hhhhhcCcCCCCchhhHHHHHHHHHHhcHHHHHH---HHHHcCceee
Q 034889 5 DEFWDTAPHYGGRKGKIWDALRAAAEADLSLAQA---IVDSAGVIVQ 48 (80)
Q Consensus 5 ~EFwdT~~~~~Gr~~EIW~aLraA~e~dl~tAq~---ildaA~itlp 48 (80)
.+|||++ ||++ -|...|... ..-||. -|++.||+|-
T Consensus 285 ~~~WeSq---GG~~-Gi~~li~~i----e~R~kiLl~yi~~h~~~~~ 323 (326)
T PF15051_consen 285 QVFWESQ---GGRQ-GIEKLIDVI----ERRAKILLTYINAHGLKVL 323 (326)
T ss_pred hhHhhhc---Cchh-hHHHHHHHH----HHHHHHHHHHHHHcCCeec
Confidence 5899999 9999 787777654 233443 3578888874
No 6
>PF08004 DUF1699: Protein of unknown function (DUF1699); InterPro: IPR012546 This family contains many archaeal proteins which have very conserved sequences.
Probab=68.76 E-value=4.1 Score=29.20 Aligned_cols=38 Identities=16% Similarity=0.281 Sum_probs=31.9
Q ss_pred HHHHHHHHHcCceeecCCeeeeeccCCCccccCceeee
Q 034889 34 SLAQAIVDSAGVIVQSADLTICYDERGAKYELPKYVLS 71 (80)
Q Consensus 34 ~tAq~ildaA~itlp~g~L~~~YDe~G~~Y~lP~~v~s 71 (80)
..+|..|+-.||.|-.||.+|---..-.+|.+|..++.
T Consensus 58 ksi~mfL~mqgI~LleGDVwGHRKDinEYy~i~~~vi~ 95 (131)
T PF08004_consen 58 KSIKMFLEMQGIELLEGDVWGHRKDINEYYEIPESVIE 95 (131)
T ss_pred HHHHHHHHhcCceeeccccccccCCCcccccCCHHHHH
Confidence 46789999999999999999766668888888887754
No 7
>PF04298 Zn_peptidase_2: Putative neutral zinc metallopeptidase; InterPro: IPR007395 Members of this family of bacterial proteins are described as hypothetical proteins or zinc-dependent proteases. The majority have a HExxH zinc-binding motif characteristic of neutral zinc metallopeptidases, however there is no evidence to support their function as metallopeptidases.
Probab=67.19 E-value=7.5 Score=29.64 Aligned_cols=40 Identities=28% Similarity=0.364 Sum_probs=31.2
Q ss_pred cHHHHHHHHHHcCce-----eecCCeeeeeccCCCccccCceeee
Q 034889 32 DLSLAQAIVDSAGVI-----VQSADLTICYDERGAKYELPKYVLS 71 (80)
Q Consensus 32 dl~tAq~ildaA~it-----lp~g~L~~~YDe~G~~Y~lP~~v~s 71 (80)
--+.|+.|||..||. ...|.|+..||-.-+--+|-+-+.+
T Consensus 39 Gae~Ar~iL~~~gl~~V~Ve~~~G~LtDHYdP~~k~vrLS~~vy~ 83 (222)
T PF04298_consen 39 GAEVARHILDRNGLSDVRVERVPGELTDHYDPRNKVVRLSEDVYN 83 (222)
T ss_pred HHHHHHHHHHHCCCCCeeEEEeCCCCCCCcCCCCCEEEeCCccCC
Confidence 357899999999983 3359999999998887777655544
No 8
>PF13605 DUF4141: Domain of unknown function (DUF4141)
Probab=57.78 E-value=3.9 Score=25.26 Aligned_cols=12 Identities=33% Similarity=0.833 Sum_probs=10.1
Q ss_pred ceeeeCCCCccc
Q 034889 67 KYVLSEPTNLIR 78 (80)
Q Consensus 67 ~~v~s~P~Nl~~ 78 (80)
.|++.||.|+..
T Consensus 21 QWvV~DP~NlAQ 32 (55)
T PF13605_consen 21 QWVVTDPGNLAQ 32 (55)
T ss_pred EEEEeCchHHHH
Confidence 589999999863
No 9
>COG3571 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]
Probab=55.47 E-value=3 Score=31.80 Aligned_cols=35 Identities=26% Similarity=0.396 Sum_probs=31.6
Q ss_pred cCceeecCCeeeeeccCCCccccCceeeeCCCCcc
Q 034889 43 AGVIVQSADLTICYDERGAKYELPKYVLSEPTNLI 77 (80)
Q Consensus 43 A~itlp~g~L~~~YDe~G~~Y~lP~~v~s~P~Nl~ 77 (80)
+||..|+=-.++.-|+.|++=++-.|.+|+|+.++
T Consensus 139 ~gl~tPtli~qGtrD~fGtr~~Va~y~ls~~iev~ 173 (213)
T COG3571 139 TGLKTPTLITQGTRDEFGTRDEVAGYALSDPIEVV 173 (213)
T ss_pred cCCCCCeEEeecccccccCHHHHHhhhcCCceEEE
Confidence 58888887667999999999999999999999876
No 10
>cd07233 Glyoxalase_I Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione. Glyoxalase I (also known as lactoylglutathione lyase; EC 4.4.1.5) is part of the glyoxalase system, a two-step system for detoxifying methylglyoxal, a side product of glycolysis. This system is responsible for the conversion of reactive, acyclic alpha-oxoaldehydes into the corresponding alpha-hydroxyacids and involves 2 enzymes, glyoxalase I and II. Glyoxalase I catalyses an intramolecular redox reaction of the hemithioacetal (formed from methylglyoxal and glutathione) to form the thioester, S-D-lactoylglutathione. This reaction involves the transfer of two hydrogen atoms from C1 to C2 of the methylglyoxal, and proceeds via an ene-diol intermediate. Glyoxalase I has a requirement for bound metal ions for catalysis. Eukaryotic glyoxalase I prefers the divalent cation zinc as cofactor, whereas Escherichia coil and other prokaryotic gly
Probab=53.67 E-value=28 Score=20.90 Aligned_cols=33 Identities=24% Similarity=0.255 Sum_probs=21.8
Q ss_pred cHHHHHHHHHHcCceeecC-------CeeeeeccCCCccc
Q 034889 32 DLSLAQAIVDSAGVIVQSA-------DLTICYDERGAKYE 64 (80)
Q Consensus 32 dl~tAq~ildaA~itlp~g-------~L~~~YDe~G~~Y~ 64 (80)
|++.+..-|.++|+++-.+ .+.-.+|-.|++.+
T Consensus 80 did~~~~~l~~~G~~~~~~~~~~~~~~~~~~~DpdG~~iE 119 (121)
T cd07233 80 DVYAACERLEEMGVEVTKPPGDGGMKGIAFIKDPDGYWIE 119 (121)
T ss_pred CHHHHHHHHHHCCCEEeeCCccCCCceEEEEECCCCCEEE
Confidence 7888888888999987643 22234555555544
No 11
>COG2738 Predicted Zn-dependent protease [General function prediction only]
Probab=47.29 E-value=16 Score=28.30 Aligned_cols=36 Identities=28% Similarity=0.368 Sum_probs=28.2
Q ss_pred cHHHHHHHHHHcCce-----eecCCeeeeeccCCCccccCc
Q 034889 32 DLSLAQAIVDSAGVI-----VQSADLTICYDERGAKYELPK 67 (80)
Q Consensus 32 dl~tAq~ildaA~it-----lp~g~L~~~YDe~G~~Y~lP~ 67 (80)
--+.|+.|||..|+. ...|+|+.-||..-.--+|.+
T Consensus 42 GaevAr~iLd~nGl~dV~Ve~v~G~LTDHYDP~~kvvrLSe 82 (226)
T COG2738 42 GAEVARMILDENGLYDVPVEEVPGTLTDHYDPRRKVVRLSE 82 (226)
T ss_pred HHHHHHHHHhhcCCccceeeeecCCcccccChhhheeeccc
Confidence 578999999999984 335999999998766655544
No 12
>PF07011 DUF1313: Protein of unknown function (DUF1313); InterPro: IPR009741 This family consists of several hypothetical plant proteins of around 100 residues in length. The function of this family is unknown.
Probab=47.21 E-value=29 Score=23.34 Aligned_cols=23 Identities=26% Similarity=0.644 Sum_probs=16.7
Q ss_pred CCchhhHHHHHHHHHHhcHHHHHHHHHH
Q 034889 15 GGRKGKIWDALRAAAEADLSLAQAIVDS 42 (80)
Q Consensus 15 ~Gr~~EIW~aLraA~e~dl~tAq~ilda 42 (80)
+|+. ++|+++..- +..+|.|||-
T Consensus 2 ~~d~-~~~~tf~~s----F~qVQ~iLDq 24 (87)
T PF07011_consen 2 QGDG-KVWQTFQKS----FVQVQSILDQ 24 (87)
T ss_pred CccH-HHHHHHHHH----HHHHHHHHHH
Confidence 4676 999998765 5667777764
No 13
>PF05424 Duffy_binding: Duffy binding domain; InterPro: IPR008602 This family contains several Plasmodium Duffy binding proteins. Plasmodium vivax and Plasmodium knowlesi merozoites invade Homo sapiens erythrocytes that express Duffy blood group surface determinants. The Duffy receptor family is localised in micronemes, an organelle found in all organisms of the phylum Apicomplexa [].; GO: 0004872 receptor activity, 0009405 pathogenesis, 0016021 integral to membrane; PDB: 2WAU_B 3CML_A 3CPZ_A 3BQL_A 3BQK_A 3BQI_A 3RRC_B 2XU0_A 2YK0_A 2C6J_A ....
Probab=44.15 E-value=13 Score=26.11 Aligned_cols=24 Identities=38% Similarity=0.904 Sum_probs=19.5
Q ss_pred hhhhhhhhcCcCCCCchhhHHHHHHHHHHh
Q 034889 2 QLRDEFWDTAPHYGGRKGKIWDALRAAAEA 31 (80)
Q Consensus 2 ~~R~EFwdT~~~~~Gr~~EIW~aLraA~e~ 31 (80)
+.|++||+.- ++ .||.|+--|+..
T Consensus 120 ~~Re~WW~~n-----r~-~IWkaM~C~l~~ 143 (182)
T PF05424_consen 120 KLREDWWEEN-----RK-HIWKAMICALTY 143 (182)
T ss_dssp HHHHHHHHHH-----HH-HHHHHHHHHHHH
T ss_pred hHHHHHHHHh-----HH-HhhcceecCCCC
Confidence 4699999965 55 899999988764
No 14
>cd08344 MhqB_like_N N-terminal domain of MhqB, a type I extradiol dioxygenase, and similar proteins. This subfamily contains the N-terminal, non-catalytic, domain of Burkholderia sp. NF100 MhqB and similar proteins. MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion. The purified enzyme has shown extradiol ring cleavage activity toward 3-methylcatechol. Fe2+ was suggested as a cofactor, the same as most other enzymes in the family. Burkholderia sp. NF100 MhqB is encoded on the plasmid pNF1. The type I family of extradiol dioxygenases contains two structurally homologous barrel-shaped domains at the N- and C-terminal. The active-site metal is located in the C-terminal barrel and plays an essential role in the catalytic mechanism.
Probab=43.17 E-value=46 Score=20.26 Aligned_cols=20 Identities=25% Similarity=0.390 Sum_probs=16.3
Q ss_pred hcHHHHHHHHHHcCceeecC
Q 034889 31 ADLSLAQAIVDSAGVIVQSA 50 (80)
Q Consensus 31 ~dl~tAq~ildaA~itlp~g 50 (80)
.|++.+..-|.++||++..+
T Consensus 66 ~d~~~~~~~l~~~Gi~~~~~ 85 (112)
T cd08344 66 DDFAAFARHLEAAGVALAAA 85 (112)
T ss_pred hhHHHHHHHHHHcCCceecC
Confidence 47888999999999987544
No 15
>PF09498 DUF2388: Protein of unknown function (DUF2388); InterPro: IPR012661 This family consists of small hypothetical proteins, about 100 amino acids in length. The family includes five members (three in tandem) in Pseudomonas aeruginosa PAO1, and also in Pseudomonas putida (strain KT2440), four in Pseudomonas syringae pv. tomato str. DC3000, and single members in several other Proteobacteria. The function is unknown.
Probab=41.24 E-value=19 Score=23.40 Aligned_cols=10 Identities=70% Similarity=0.863 Sum_probs=9.0
Q ss_pred cHHHHHHHHH
Q 034889 32 DLSLAQAIVD 41 (80)
Q Consensus 32 dl~tAq~ild 41 (80)
|+++||+||-
T Consensus 62 D~~LA~AILa 71 (72)
T PF09498_consen 62 DLQLAQAILA 71 (72)
T ss_pred HHHHHHHHHc
Confidence 9999999983
No 16
>PF03993 DUF349: Domain of Unknown Function (DUF349); InterPro: IPR007139 This motif is found singly or as up to five tandem repeats in a small set of bacterial proteins. There are two or three alpha-helices, and possibly a beta-strand.
Probab=40.44 E-value=39 Score=19.92 Aligned_cols=32 Identities=31% Similarity=0.680 Sum_probs=22.6
Q ss_pred hHHHHHHHHHHh------------------cHHHHHHHHHHcCceeecCC
Q 034889 20 KIWDALRAAAEA------------------DLSLAQAIVDSAGVIVQSAD 51 (80)
Q Consensus 20 EIW~aLraA~e~------------------dl~tAq~ildaA~itlp~g~ 51 (80)
++|...++||+. .++.-++||+.+.=.+.+.+
T Consensus 2 ~Lw~~F~~a~~~~~~~~~~~~~~~~~~~~~n~~~K~~Li~~~~~l~~~~d 51 (77)
T PF03993_consen 2 ELWKRFRAACDAFFDRRKEFFEEQDAEREENLEKKEALIEEAEALAESED 51 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence 678888888762 57777888887765555554
No 17
>PF13467 RHH_4: Ribbon-helix-helix domain; PDB: 3KK4_C.
Probab=37.20 E-value=47 Score=20.85 Aligned_cols=21 Identities=43% Similarity=0.624 Sum_probs=13.8
Q ss_pred hhhHHHHHHHHHHh-cHHHHHHH
Q 034889 18 KGKIWDALRAAAEA-DLSLAQAI 39 (80)
Q Consensus 18 ~~EIW~aLraA~e~-dl~tAq~i 39 (80)
+ +.|++|+..++. .+.+++-|
T Consensus 20 ~-~FW~~L~eiA~~~g~s~~~li 41 (67)
T PF13467_consen 20 P-AFWDALEEIAAREGLSLNALI 41 (67)
T ss_dssp H-HHHHHHHHHHHHTT--HHHHH
T ss_pred H-HHHHHHHHHHHHcCCCHHHHH
Confidence 5 899999998875 45444433
No 18
>PF07615 Ykof: YKOF-related Family; InterPro: IPR011522 This entry represents YkoF-related proteins. YkoF is involved in the hydroxymethyl pyrimidine (HMP) salvage pathway []. The domain is found in pairs in these proteins.; PDB: 1S7H_A 1S99_A 1SBR_B.
Probab=36.97 E-value=22 Score=22.54 Aligned_cols=18 Identities=39% Similarity=0.554 Sum_probs=15.5
Q ss_pred CCCchhhHHHHHHHHHHh
Q 034889 14 YGGRKGKIWDALRAAAEA 31 (80)
Q Consensus 14 ~~Gr~~EIW~aLraA~e~ 31 (80)
+.|+..++|++|+++.+.
T Consensus 43 l~G~~~~Vf~~l~~~~~~ 60 (81)
T PF07615_consen 43 LRGDEEDVFDALEAAFER 60 (81)
T ss_dssp EECBHHHHHHHHHHHHHH
T ss_pred EECCHHHHHHHHHHHHHH
Confidence 789988999999998763
No 19
>PRK14839 undecaprenyl pyrophosphate synthase; Provisional
Probab=36.87 E-value=22 Score=27.25 Aligned_cols=18 Identities=28% Similarity=0.292 Sum_probs=14.9
Q ss_pred cCCCCchhhHHHHHHHHHH
Q 034889 12 PHYGGRKGKIWDALRAAAE 30 (80)
Q Consensus 12 ~~~~Gr~~EIW~aLraA~e 30 (80)
..||||. ||-+|.+..+.
T Consensus 135 ~~Yggr~-EI~~A~k~~~~ 152 (239)
T PRK14839 135 VDYSARD-AILAAAAKALG 152 (239)
T ss_pred ecCCCHH-HHHHHHHHhcC
Confidence 3599999 99999998653
No 20
>cd08351 ChaP_like ChaP, an enzyme involved in the biosynthesis of the antitumor agent chartreusin (cha); and similar proteins. ChaP is an enzyme involved in the biosynthesis of the potent antitumor agent chartreusin (cha). Cha is an aromatic polyketide glycoside produced by Streptomyces chartreusis. ChaP may play a role as a meta-cleavage dioxygenase in the oxidative rearrangement of the anthracyclic polyketide. ChaP belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases.
Probab=35.41 E-value=79 Score=19.53 Aligned_cols=34 Identities=15% Similarity=0.137 Sum_probs=23.6
Q ss_pred hcHHHHHHHHHHcCcee---ecC-----------Ce-eeeeccCCCccc
Q 034889 31 ADLSLAQAIVDSAGVIV---QSA-----------DL-TICYDERGAKYE 64 (80)
Q Consensus 31 ~dl~tAq~ildaA~itl---p~g-----------~L-~~~YDe~G~~Y~ 64 (80)
.|++.+..-|.++|+++ |.. -- .-++|-.||..+
T Consensus 69 ~dl~~~~~~l~~~G~~~~~~~~~~~~~~~~~~~g~~~~~f~DPdG~~iE 117 (123)
T cd08351 69 EEFDRIFARIRERGIDYWADPQRTEPGQINTNDGGRGVYFLDPDGHLLE 117 (123)
T ss_pred HHHHHHHHHHHHcCCceecCCcccccccccCCCCeeEEEEECCCCCEEE
Confidence 36888888889999986 221 11 257777777776
No 21
>PF01126 Heme_oxygenase: Heme oxygenase; InterPro: IPR016053 Haem oxygenase (1.14.99.3 from EC) (HO) [] is the microsomal enzyme that, in animals, carries out the oxidation of haem, it cleaves the haem ring at the alpha-methene bridge to form biliverdin and carbon monoxide []. Biliverdin is subsequently converted to bilirubin by biliverdin reductase. In mammals there are three isozymes of haem oxygenase: HO-1 to HO-3. The first two isozymes differ in their tissue expression and their inducibility: HO-1 is highly inducible by its substrate haem and by various non-haem substances, while HO-2 is non-inducible. It has been suggested [] that HO-2 could be implicated in the production of carbon monoxide in the brain where it is said to act as a neurotransmitter. In the genome of the chloroplast of red algae as well as in cyanobacteria, there is a haem oxygenase (gene pbsA) that is the key enzyme in the synthesis of the chromophoric part of the photosynthetic antennae []. A haem oxygenase is also present in the bacteria Corynebacterium diphtheriae (gene hmuO), where it is involved in the acquisition of iron from the host haem []. There is, in the central section of these enzymes, a well-conserved region centred on a histidine residue.; GO: 0004392 heme oxygenase (decyclizing) activity, 0006788 heme oxidation, 0055114 oxidation-reduction process; PDB: 1J77_A 1P3U_A 1P3V_A 1P3T_A 1WNW_B 1WNX_B 1IW1_B 1WNV_C 1V8X_A 1WZG_B ....
Probab=35.32 E-value=78 Score=21.91 Aligned_cols=28 Identities=29% Similarity=0.467 Sum_probs=20.9
Q ss_pred CchhhHHHHHHHHHHh---cHHHHHHHHHHcC
Q 034889 16 GRKGKIWDALRAAAEA---DLSLAQAIVDSAG 44 (80)
Q Consensus 16 Gr~~EIW~aLraA~e~---dl~tAq~ildaA~ 44 (80)
+.. ..|+..++++++ +.+.-+.||++|.
T Consensus 163 ~~~-~~w~~f~~~l~~~~l~~~~~~~ii~~A~ 193 (205)
T PF01126_consen 163 DTG-ALWRAFRAALDAAALTEEERDEIIEEAK 193 (205)
T ss_dssp SHH-HHHHHHHHHHHHS---HHHHHHHHHHHH
T ss_pred cHH-HHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence 455 999999999875 5566678887764
No 22
>PF13276 HTH_21: HTH-like domain
Probab=35.25 E-value=49 Score=18.96 Aligned_cols=41 Identities=22% Similarity=0.523 Sum_probs=29.8
Q ss_pred hhhhcCcCCCCchhhHHHHHHHHH--HhcHHHHHHHHHHcCceee
Q 034889 6 EFWDTAPHYGGRKGKIWDALRAAA--EADLSLAQAIVDSAGVIVQ 48 (80)
Q Consensus 6 EFwdT~~~~~Gr~~EIW~aLraA~--e~dl~tAq~ildaA~itlp 48 (80)
-|=++.+.| |.+ -||..|+.-- .....+.+.|+...||..+
T Consensus 13 i~~~~~~~y-G~r-ri~~~L~~~~~~~v~~krV~RlM~~~gL~~~ 55 (60)
T PF13276_consen 13 IFKESKPTY-GYR-RIWAELRREGGIRVSRKRVRRLMREMGLRSK 55 (60)
T ss_pred HHHHcCCCe-ehh-HHHHHHhccCcccccHHHHHHHHHHcCCccc
Confidence 344555656 444 5999999762 3478899999999999765
No 23
>TIGR01643 YD_repeat_2x YD repeat (two copies). This model describes two tandem copies of a 21-residue extracellular repeat found in Gram-negative, Gram-positive, and animal proteins. The repeat is named for a YD dipeptide, the most strongly conserved motif of the repeat. These repeats appear in general to be involved in binding carbohydrate; the chicken teneurin-1 YD-repeat region has been shown to bind heparin.
Probab=34.98 E-value=33 Score=18.12 Aligned_cols=20 Identities=25% Similarity=0.295 Sum_probs=15.4
Q ss_pred CceeecCCee-eeeccCCCcc
Q 034889 44 GVIVQSADLT-ICYDERGAKY 63 (80)
Q Consensus 44 ~itlp~g~L~-~~YDe~G~~Y 63 (80)
.++-|.|.-+ -.||+.|+.-
T Consensus 9 ~~~~p~G~~~~~~YD~~Grl~ 29 (42)
T TIGR01643 9 GSTDADGTTTRYTYDAAGRLV 29 (42)
T ss_pred EEECCCCCEEEEEECCCCCEE
Confidence 4677888665 8999999874
No 24
>PF07559 FlaE: Flagellar basal body protein FlaE; InterPro: IPR011491 This domain is found in several bacterial FlaE flagellar proteins. These proteins are part of the flagellar basal body rod complex.; GO: 0030694 bacterial-type flagellum basal body, rod; PDB: 2BGY_A 1WLG_B 2BGZ_A 3A69_A.
Probab=34.94 E-value=18 Score=23.32 Aligned_cols=18 Identities=28% Similarity=0.420 Sum_probs=12.7
Q ss_pred eeeccCCCccccCceeee
Q 034889 54 ICYDERGAKYELPKYVLS 71 (80)
Q Consensus 54 ~~YDe~G~~Y~lP~~v~s 71 (80)
.+||.+|+.+.|-.+...
T Consensus 16 ~vYDSlG~~h~lt~~f~k 33 (130)
T PF07559_consen 16 TVYDSLGNAHTLTVYFTK 33 (130)
T ss_dssp EEE-TT--EEEEEEEEEE
T ss_pred EEECCCCCEEEEEEEEEE
Confidence 699999999999887765
No 25
>PF14908 DUF4496: Domain of unknown function (DUF4496)
Probab=34.63 E-value=41 Score=22.49 Aligned_cols=47 Identities=28% Similarity=0.466 Sum_probs=31.4
Q ss_pred hHHHHHHHHHHhcHHHHHHHHHHcCceeec-CCee--eeeccCCC---ccccCceeeeC
Q 034889 20 KIWDALRAAAEADLSLAQAIVDSAGVIVQS-ADLT--ICYDERGA---KYELPKYVLSE 72 (80)
Q Consensus 20 EIW~aLraA~e~dl~tAq~ildaA~itlp~-g~L~--~~YDe~G~---~Y~lP~~v~s~ 72 (80)
.||+++..=++. .+....|+.+|+ |.++ ..=+.+|+ .-+-|.|++++
T Consensus 3 ~vW~a~~~~i~~------qL~~~kgV~Ip~fGtFtf~~~~~~~~~~~~~~~rPvF~l~~ 55 (140)
T PF14908_consen 3 RVWNALSEYIER------QLSLGKGVSIPGFGTFTFSRQKVDSGGNKNQIRRPVFVLSE 55 (140)
T ss_pred HHHHHHHHHHHH------HHhcCCCEEeCCCcEEEEEEEeeccCCccccccceEEEECH
Confidence 699999887664 455566999986 6666 23333333 66778887765
No 26
>cd07261 Glo_EDI_BRP_like_11 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping.
Probab=34.47 E-value=79 Score=18.92 Aligned_cols=19 Identities=16% Similarity=0.106 Sum_probs=13.8
Q ss_pred cHHHHHHHHHHcCceeecC
Q 034889 32 DLSLAQAIVDSAGVIVQSA 50 (80)
Q Consensus 32 dl~tAq~ildaA~itlp~g 50 (80)
+++.+.+=+.++|+++..+
T Consensus 72 ~~~~~~~~~~~~g~~v~~~ 90 (114)
T cd07261 72 AVDALYAEWQAKGVKIIQE 90 (114)
T ss_pred HHHHHHHHHHHCCCeEecC
Confidence 5677777777899887653
No 27
>cd08193 HVD 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor. 5-hydroxyvalerate dehydrogenase (HVD) is an iron-containing (type III) NAD-dependent alcohol dehydrogenase. It plays a role in the cyclopentanol metabolism biochemical pathway. It catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor. This cyclopentanol (cpn) degradation pathway is present in some bacteria which can use cyclopentanol as sole carbon source. In Comamonas sp. strain NCIMB 9872, this enzyme is encoded by the CpnD gene.
Probab=33.67 E-value=35 Score=26.33 Aligned_cols=32 Identities=16% Similarity=0.334 Sum_probs=23.5
Q ss_pred ceeecCC--------eeeeeccCCCcccc------CceeeeCCCCc
Q 034889 45 VIVQSAD--------LTICYDERGAKYEL------PKYVLSEPTNL 76 (80)
Q Consensus 45 itlp~g~--------L~~~YDe~G~~Y~l------P~~v~s~P~Nl 76 (80)
|.+||-. ++++||+.|.|+.+ |..++-||.=+
T Consensus 129 i~IPTTagtgSe~t~~avi~~~~~~K~~~~~~~~~P~~ai~Dp~l~ 174 (376)
T cd08193 129 ILVPTTAGTGSEVTPIAIVTTPETLKVGVVSPHLLPDLAILDPELT 174 (376)
T ss_pred EEeCCCCcchHhhCCeEEEEcCCCceEEeeCccccCCEEEEChHHH
Confidence 5678764 67889887877544 88899888643
No 28
>PRK14837 undecaprenyl pyrophosphate synthase; Provisional
Probab=33.65 E-value=64 Score=24.53 Aligned_cols=19 Identities=32% Similarity=0.557 Sum_probs=15.8
Q ss_pred cCCCCchhhHHHHHHHHHHh
Q 034889 12 PHYGGRKGKIWDALRAAAEA 31 (80)
Q Consensus 12 ~~~~Gr~~EIW~aLraA~e~ 31 (80)
..||||. ||=+|.+..++.
T Consensus 132 ~~Yggr~-EI~~A~~~~~~~ 150 (230)
T PRK14837 132 INYGGRN-EIVRAVKKFLSS 150 (230)
T ss_pred ecCCCHH-HHHHHHHHHHhc
Confidence 3599999 999999988753
No 29
>TIGR01293 Kv_beta voltage-dependent potassium channel beta subunit, animal. Plant beta subunits and their closely related bacterial homologs (in Deinococcus radiudurans, Xylella fastidiosa, etc.) appear more closely related to each other than to animal forms. However, the bacterial species lack convincing counterparts the Kv alpha subunit and the Kv beta homolog may serve as an enzyme. Cutoffs are set for this model such that yeast and plant forms and bacterial close homologs score between trusted and noise cutoffs.
Probab=33.50 E-value=16 Score=27.36 Aligned_cols=13 Identities=38% Similarity=0.790 Sum_probs=9.7
Q ss_pred hhhhcCcCCC-Cch
Q 034889 6 EFWDTAPHYG-GRK 18 (80)
Q Consensus 6 EFwdT~~~~~-Gr~ 18 (80)
-||||++.|+ |+.
T Consensus 44 ~~~DTA~~Yg~g~s 57 (317)
T TIGR01293 44 NLFDTAEVYAAGKA 57 (317)
T ss_pred CeEECccccCCCcc
Confidence 3788888887 555
No 30
>PF12417 DUF3669: Zinc finger protein ; InterPro: IPR022137 This domain family is found in eukaryotes, and is typically between 64 and 80 amino acids in length.
Probab=33.37 E-value=81 Score=19.48 Aligned_cols=34 Identities=26% Similarity=0.644 Sum_probs=23.2
Q ss_pred hhhhcCcCCCCchh-------hHHHHHHHHHHhcHHHHHHHHHHc
Q 034889 6 EFWDTAPHYGGRKG-------KIWDALRAAAEADLSLAQAIVDSA 43 (80)
Q Consensus 6 EFwdT~~~~~Gr~~-------EIW~aLraA~e~dl~tAq~ildaA 43 (80)
-||.+.| |-=|++ +.|+.++..- +.++..|+...
T Consensus 25 af~~Ndp-y~PRp~~~~~~~~~lW~~F~~~Y---l~~s~~il~~~ 65 (72)
T PF12417_consen 25 AFWRNDP-YYPRPLDCEKTDKELWNQFRSRY---LETSTLILEYG 65 (72)
T ss_pred HhccCCC-CCCCCCccchHHHHHHHHHHHHH---HHHHHHHHHhh
Confidence 4888887 455554 8999999873 45566666544
No 31
>PLN02587 L-galactose dehydrogenase
Probab=33.36 E-value=17 Score=27.08 Aligned_cols=11 Identities=64% Similarity=1.398 Sum_probs=8.6
Q ss_pred hhhhcCcCCCC
Q 034889 6 EFWDTAPHYGG 16 (80)
Q Consensus 6 EFwdT~~~~~G 16 (80)
.||||++.||.
T Consensus 46 n~~DTA~~Yg~ 56 (314)
T PLN02587 46 NFFDTSPYYGG 56 (314)
T ss_pred CEEECcCccCC
Confidence 48899998873
No 32
>COG2445 Uncharacterized conserved protein [Function unknown]
Probab=32.67 E-value=47 Score=23.27 Aligned_cols=43 Identities=16% Similarity=0.204 Sum_probs=32.9
Q ss_pred hhhhhcCcCCCCchhhHHHHHHHHHHhcHHHHHHHHHHcCceeecCC
Q 034889 5 DEFWDTAPHYGGRKGKIWDALRAAAEADLSLAQAIVDSAGVIVQSAD 51 (80)
Q Consensus 5 ~EFwdT~~~~~Gr~~EIW~aLraA~e~dl~tAq~ildaA~itlp~g~ 51 (80)
.|||+|- ..+- -+=-+|..|+|+-++.+..+++..|...|...
T Consensus 25 ~e~~~~~---~~~~-av~~~lq~~ies~~Di~~~li~~~~~~~p~~y 67 (138)
T COG2445 25 VEFLKSK---HERY-AVERILQVAIESLIDIGNMLISKFGLRDPGTY 67 (138)
T ss_pred HHhhccH---HHHH-HHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCH
Confidence 3788887 3443 55667777888899999999999999877654
No 33
>COG1447 CelC Phosphotransferase system cellobiose-specific component IIA [Carbohydrate transport and metabolism]
Probab=32.54 E-value=45 Score=22.90 Aligned_cols=28 Identities=36% Similarity=0.557 Sum_probs=23.3
Q ss_pred chhhHHHHHHHHHHhcHHHHHHHHHHcCc
Q 034889 17 RKGKIWDALRAAAEADLSLAQAIVDSAGV 45 (80)
Q Consensus 17 r~~EIW~aLraA~e~dl~tAq~ildaA~i 45 (80)
|. .+-.||++|-+.+.+.|+..|..|+=
T Consensus 20 rS-~~~eAl~~Ak~g~f~~A~~~i~eA~~ 47 (105)
T COG1447 20 RS-KAYEALKAAKEGDFEEAEELIQEAND 47 (105)
T ss_pred hH-HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 45 89999999999899888888877653
No 34
>TIGR00055 uppS undecaprenyl diphosphate synthase. Alternate name: undecaprenyl pyrophosphate synthetase. Activity has been demonstrated experimentally for members of this family from Micrococcus luteus, E. coli, Haemophilus influenzae, and Streptococcus pneumoniae.
Probab=31.30 E-value=80 Score=23.85 Aligned_cols=18 Identities=44% Similarity=0.754 Sum_probs=15.3
Q ss_pred cCCCCchhhHHHHHHHHHH
Q 034889 12 PHYGGRKGKIWDALRAAAE 30 (80)
Q Consensus 12 ~~~~Gr~~EIW~aLraA~e 30 (80)
..||||. ||=+|.|..++
T Consensus 125 ~~Yggr~-EI~~A~~~~~~ 142 (226)
T TIGR00055 125 FNYGGRN-EILHAVKQIAE 142 (226)
T ss_pred ecCCCHH-HHHHHHHHHHH
Confidence 3599999 99999998775
No 35
>PF01687 Flavokinase: Riboflavin kinase; InterPro: IPR015865 Riboflavin is converted into catalytically active cofactors (FAD and FMN) by the actions of riboflavin kinase (2.7.1.26 from EC), which converts it into FMN, and FAD synthetase (2.7.7.2 from EC), which adenylates FMN to FAD. Eukaryotes usually have two separate enzymes, while most prokaryotes have a single bifunctional protein that can carry out both catalyses, although exceptions occur in both cases. While eukaryotic monofunctional riboflavin kinase is orthologous to the bifunctional prokaryotic enzyme [], the monofunctional FAD synthetase differs from its prokaryotic counterpart, and is instead related to the PAPS-reductase family []. The bacterial FAD synthetase that is part of the bifunctional enzyme has remote similarity to nucleotidyl transferases and, hence, it may be involved in the adenylylation reaction of FAD synthetases []. This entry represents the riboflavin kinase domains from bacteria and eukaryotes.; GO: 0008531 riboflavin kinase activity, 0009231 riboflavin biosynthetic process; PDB: 1Q9S_A 1NB9_A 1P4M_A 1NB0_A 3OP1_B 1T6Z_A 2I1L_A 1T6Y_B 1T6X_B 1S4M_A ....
Probab=31.03 E-value=58 Score=22.25 Aligned_cols=19 Identities=16% Similarity=0.366 Sum_probs=16.5
Q ss_pred HHHHHHHHhcHHHHHHHHH
Q 034889 23 DALRAAAEADLSLAQAIVD 41 (80)
Q Consensus 23 ~aLraA~e~dl~tAq~ild 41 (80)
++|+++++.|.+.|+.++.
T Consensus 107 e~L~~qI~~D~~~a~~~lq 125 (125)
T PF01687_consen 107 EELKEQIKKDIEQARKYLQ 125 (125)
T ss_dssp HHHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHhcC
Confidence 6899999999999999874
No 36
>cd07252 BphC1-RGP6_N_like N-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins. This subfamily contains the N-terminal, non-catalytic, domain of BphC1-RGP6 and similar proteins. BphC catalyzes the extradiol ring cleavage reaction of 2,3-dihydroxybiphenyl, the third step in the polychlorinated biphenyls (PCBs) degradation pathway (bph pathway). This subfamily of BphCs belongs to the type I extradiol dioxygenase family, which require a metal in the active site in its catalytic mechanism. Polychlorinated biphenyl degrading bacteria demonstrate a multiplicity of 2,3-dihydroxybiphenyl 1,2-dioxygenases. For example, three types of BphC enzymes have been found in Rhodococcus globerulus (BphC1-RGP6 - BphC3-RGP6), all three enzymes are type I extradiol dioxygenases. BphC1-RGP6 has an internal duplication, it is a two-domain dioxygenase which forms octamers, and has Fe(II) at the catalytic site. Its N-
Probab=30.85 E-value=95 Score=19.15 Aligned_cols=33 Identities=30% Similarity=0.345 Sum_probs=24.8
Q ss_pred cHHHHHHHHHHcCceeecC-----------CeeeeeccCCCccc
Q 034889 32 DLSLAQAIVDSAGVIVQSA-----------DLTICYDERGAKYE 64 (80)
Q Consensus 32 dl~tAq~ildaA~itlp~g-----------~L~~~YDe~G~~Y~ 64 (80)
|++....-|.++||.+..+ ...-++|-.||..+
T Consensus 70 dl~~~~~~l~~~Gv~~~~~~~~~~~~~~~~~~~~~~DPdG~~iE 113 (120)
T cd07252 70 ALDALAARLRAAGVAVEEGSAELAAERGVEGLIRFADPDGNRHE 113 (120)
T ss_pred HHHHHHHHHHHcCCeEEEcCHHHHhhCCCcEEEEEECCCCCEEE
Confidence 7888889999999977532 12367888888776
No 37
>cd07242 Glo_EDI_BRP_like_6 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping. The proteins of this family share three conserved metal binding amino acids with the type I extradiol dioxygenases, which shows no domain swapping.
Probab=30.77 E-value=90 Score=19.01 Aligned_cols=35 Identities=20% Similarity=0.160 Sum_probs=24.1
Q ss_pred hcHHHHHHHHHHcCceeecCCe-----------eeeeccCCCcccc
Q 034889 31 ADLSLAQAIVDSAGVIVQSADL-----------TICYDERGAKYEL 65 (80)
Q Consensus 31 ~dl~tAq~ildaA~itlp~g~L-----------~~~YDe~G~~Y~l 65 (80)
+|++.+..-|.++|+++...-- .-.+|-.|+.++|
T Consensus 80 ~d~~~~~~~l~~~g~~~~~~~~~~~~~~~~~~~~~~~DpdG~~ie~ 125 (128)
T cd07242 80 EAVDELYARLAKRGAEILYAPREPYAGGPGYYALFFEDPDGIRLEL 125 (128)
T ss_pred HHHHHHHHHHHHcCCeEecCCcccccCCCcEEEEEEECCCCcEEEE
Confidence 3688888889999998764321 1457777777653
No 38
>PRK10625 tas putative aldo-keto reductase; Provisional
Probab=30.36 E-value=19 Score=27.26 Aligned_cols=10 Identities=30% Similarity=0.421 Sum_probs=8.6
Q ss_pred hhhhcCcCCC
Q 034889 6 EFWDTAPHYG 15 (80)
Q Consensus 6 EFwdT~~~~~ 15 (80)
-||||++.|+
T Consensus 45 ~~~DTA~~Yg 54 (346)
T PRK10625 45 NLIDVAEMYP 54 (346)
T ss_pred CEEECccccC
Confidence 3899999997
No 39
>TIGR02448 conserverd hypothetical protein. This family consists of small hypothetical proteins, about 100 amino acids in length. The family includes five members (three in tandem) in Pseudomonas aeruginosa PAO1, and also in Pseudomonas putida KT2440, four in Pseudomonas syringae DC3000, and single members in several other Proteobacteria. The function is unknown.
Probab=30.31 E-value=51 Score=22.70 Aligned_cols=10 Identities=60% Similarity=0.823 Sum_probs=9.0
Q ss_pred cHHHHHHHHH
Q 034889 32 DLSLAQAIVD 41 (80)
Q Consensus 32 dl~tAq~ild 41 (80)
|+++||+||-
T Consensus 91 D~eLA~AILa 100 (101)
T TIGR02448 91 DMELAQAILA 100 (101)
T ss_pred HHHHHHHHHc
Confidence 9999999983
No 40
>PF04198 Sugar-bind: Putative sugar-binding domain; InterPro: IPR007324 This probable domain is found in bacterial transcriptional regulators such as DeoR and SorC. One of these proteins, Q8U7I7 from SWISSPROT, has an N-terminal helix-turn-helix IPR000792 from INTERPRO that binds to DNA. This domain is probably the ligand regulator binding region. SorC is regulated by sorbose and other members of this family are likely to be regulated by other sugar substrates.; GO: 0030246 carbohydrate binding; PDB: 3KV1_A 3EFB_C 2W48_A 3BXH_A 3BXE_A 2OKG_A 3BXF_A 3BXG_A 2R5F_A 2O0M_A ....
Probab=30.08 E-value=60 Score=24.05 Aligned_cols=20 Identities=35% Similarity=0.385 Sum_probs=16.5
Q ss_pred HHHHHHHHHh--------cHHHHHHHHH
Q 034889 22 WDALRAAAEA--------DLSLAQAIVD 41 (80)
Q Consensus 22 W~aLraA~e~--------dl~tAq~ild 41 (80)
=+|+++|+.. |..||+.||.
T Consensus 228 ~~aI~aALr~g~i~~LItDe~tA~~lL~ 255 (255)
T PF04198_consen 228 AEAILAALRGGYINVLITDESTARALLE 255 (255)
T ss_dssp HHHHHHHHHTTSTSEEEEEHHHHHHHHH
T ss_pred HHHHHHHHhcCCCCEEEECHHHHHHHhC
Confidence 4688888874 9999999984
No 41
>PF04439 Adenyl_transf: Streptomycin adenylyltransferase; InterPro: IPR007530 Also known as aminoglycoside 6-adenylyltransferase (2.7.7 from EC), this protein confers resistance to aminoglycoside antibiotics.; PDB: 2PBE_A.
Probab=29.96 E-value=85 Score=24.08 Aligned_cols=35 Identities=23% Similarity=0.314 Sum_probs=25.0
Q ss_pred CchhhHHHHHHHHHHhcHHHHHHHHHHcCceeecC
Q 034889 16 GRKGKIWDALRAAAEADLSLAQAIVDSAGVIVQSA 50 (80)
Q Consensus 16 Gr~~EIW~aLraA~e~dl~tAq~ildaA~itlp~g 50 (80)
+...+||+||.++|+-=.++|+.+-...|.+-|..
T Consensus 234 ~~~~~iw~aL~~~~~LF~~~A~evA~~~~f~Ype~ 268 (282)
T PF04439_consen 234 SDYEDIWQALFAMCDLFRELAKEVAEKLGFEYPEE 268 (282)
T ss_dssp SSHHHHHHHHHHHHHHHHHHHHHHHHHHT----SH
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCcHH
Confidence 44449999999999987788888888888877743
No 42
>PF05593 RHS_repeat: RHS Repeat; InterPro: IPR006530 These sequences contain two tandem copies of a 21-residue extracellular repeat that is found in Gram-negative, Gram-positive, and animal proteins. The repeat is named for a YD dipeptide, the most strongly conserved motif of the repeat. These repeats appear in general to be involved in binding carbohydrate; the chicken teneurin-1 YD-repeat region has been shown to bind heparin [, , ].
Probab=29.80 E-value=47 Score=17.80 Aligned_cols=20 Identities=25% Similarity=0.243 Sum_probs=15.5
Q ss_pred ceeecCCee-eeeccCCCccc
Q 034889 45 VIVQSADLT-ICYDERGAKYE 64 (80)
Q Consensus 45 itlp~g~L~-~~YDe~G~~Y~ 64 (80)
++-|.|..+ -.||+.|+.-.
T Consensus 10 ~~d~~G~~~~y~YD~~g~l~~ 30 (38)
T PF05593_consen 10 VTDPDGRTTRYTYDAAGRLTS 30 (38)
T ss_pred EEcCCCCEEEEEECCCCCEEE
Confidence 566888887 79999998644
No 43
>PF06849 DUF1246: Protein of unknown function (DUF1246); InterPro: IPR010672 The last two steps of de novo purine biosynthesis are: i) conversion of 5-aminoimidazole-4-carboxamide-1-beta-D-ribofuranosyl 5'-monophosphate (AICAR) to 5-formaminoimidazole-4-carboxamide-1-beta-D-ribofuranosyl 5'-monophosphate (FAICAR) ii) conversion of FAICAR to inosine5'-monophopsphate (IMP) In bacteria and eukaryotes, these steps are catalysed by the well-characterised bifunctional enzyme PurH []. Archaea do not appear to posses PurH, however, and perform these reactions by a different mecahnism []. In archaea, step i) is catalysed by the well-conserved PurP protein, while step ii) is catalysed by the PurO enzyme in some (though not all) species [, ]. This entry represents the N-terminal domain of PurP. Its function is not known, though it is almost always found in association with IPR009720 from INTERPRO.; GO: 0000287 magnesium ion binding, 0005524 ATP binding, 0016879 ligase activity, forming carbon-nitrogen bonds, 0006188 IMP biosynthetic process; PDB: 2PBZ_C 2R85_B 2R87_E 2R84_A 2R86_A 2R7L_A 2R7N_A 2R7K_A 2R7M_A.
Probab=29.47 E-value=11 Score=26.53 Aligned_cols=36 Identities=11% Similarity=0.400 Sum_probs=24.0
Q ss_pred HHHHHHHHHHcCceeecCCee--eeeccCCCccccCce
Q 034889 33 LSLAQAIVDSAGVIVQSADLT--ICYDERGAKYELPKY 68 (80)
Q Consensus 33 l~tAq~ildaA~itlp~g~L~--~~YDe~G~~Y~lP~~ 68 (80)
-...+.+++.-.|.+|+|++. .-||..=+...+|.|
T Consensus 56 ~~~q~~L~~~N~I~VPhgSfv~Y~G~d~ie~~~~vP~F 93 (124)
T PF06849_consen 56 EEVQEKLREMNAIFVPHGSFVAYVGYDRIENEFKVPIF 93 (124)
T ss_dssp HHHHHHHHHTTEEE--BTTHHHHH-HHHHHHT-SS-EE
T ss_pred HHHHHHHHHCCeEEecCCCeeEeecHHHHhhcCCCCee
Confidence 467778889999999999997 677776666666654
No 44
>PF05731 TROVE: TROVE domain; InterPro: IPR008858 The TROVE (Telomerase, Ro and Vault) domain is a module of ~300-500 residues that is found in TEP1 and Ro60 the protein components of three ribonucleoprotein particles. The TROVE domain is also found in bacterial ribonucleoproteins suggesting an ancient origin of these ribonucleoproteins. The TROVE domain can be found associated with other domains, such as the VWFA domain, the TEP1 N-terminal domain, the NACHT-NTPase domain, and WD-40 repeats. The TROVE domain may be involved in binding the RNA components of the three RNPs, which are telomerase RNA, Y RNA and vault RNA []. The TROVE domain contains a few absolutely conserved residues. As none of these conserved residues are the polar type of amino acids found in active sites, it seems unlikely that this region has an enzymatic function [].; GO: 0003723 RNA binding, 0030529 ribonucleoprotein complex; PDB: 2NVO_A 2I91_B 1YVP_A 1YVR_A.
Probab=29.11 E-value=37 Score=26.94 Aligned_cols=22 Identities=23% Similarity=0.557 Sum_probs=17.2
Q ss_pred hhhcCcCCCCchhhHHHHHHHH
Q 034889 7 FWDTAPHYGGRKGKIWDALRAA 28 (80)
Q Consensus 7 FwdT~~~~~Gr~~EIW~aLraA 28 (80)
=||+.+.-.|..+++|++|=.-
T Consensus 271 twE~~~s~~~~~~~vW~~Li~~ 292 (385)
T PF05731_consen 271 TWERLLSALGNSKEVWEALIPS 292 (385)
T ss_dssp -GGGCSTCGGG-HHHHHHHHTT
T ss_pred cHHHHcCCcCCCHHHHHHHHHh
Confidence 4999998889888999998544
No 45
>PF04402 SIMPL: Protein of unknown function (DUF541); InterPro: IPR007497 Members of this family have so far been found in bacteria and mouse UniProtKB/Swiss-Prot or UniProtKB/TrEMBL entries. However possible family members have also been identified in translated rat (GenBank:AW144450) and human (GenBank:AI478629) ESTs. A mouse family member has been named SIMPL (signalling molecule that associates with mouse pelle-like kinase). SIMPL appears to facilitate and/or regulate complex formation between IRAK/mPLK (IL-1 receptor-associated kinase) and IKK (inhibitor of kappa-B kinase) containing complexes, and thus regulate NF-kappa-B activity []. Separate experiments demonstrate that a mouse family member (named LaXp180) binds the Listeria monocytogenes surface protein ActA, which is a virulence factor that induces actin polymerisation. It may also bind stathmin, a protein involved in signal transduction and in the regulation of microtubule dynamics []. In bacteria its function is unknown, but it is thought to be located in the periplasm or outer membrane.
Probab=28.87 E-value=76 Score=21.54 Aligned_cols=25 Identities=28% Similarity=0.395 Sum_probs=21.7
Q ss_pred HHHHHHHHhcHHHHHHHHHHcCcee
Q 034889 23 DALRAAAEADLSLAQAIVDSAGVIV 47 (80)
Q Consensus 23 ~aLraA~e~dl~tAq~ildaA~itl 47 (80)
++++.|.+...+.|+.|..+.|.+|
T Consensus 128 e~~~~A~~~A~~kA~~lA~~~g~kl 152 (210)
T PF04402_consen 128 EALKEAIKDAKEKAEALAKALGVKL 152 (210)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCc
Confidence 4777788888999999999999886
No 46
>PF01832 Glucosaminidase: Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; InterPro: IPR002901 This domain is found in many different proteins including mannosyl-glycoprotein endo-beta-N-acetylglucosamidase (3.2.1.96 from EC).It is also found in flagellar protein J (P75942 from SWISSPROT), which has been shown to hydrolyse peptidoglycan [].; GO: 0004040 amidase activity, 0009253 peptidoglycan catabolic process; PDB: 3FI7_A 2ZYC_A 3K3T_A.
Probab=28.62 E-value=87 Score=20.29 Aligned_cols=13 Identities=54% Similarity=0.549 Sum_probs=11.3
Q ss_pred cHHHHHHHHHHcC
Q 034889 32 DLSLAQAIVDSAG 44 (80)
Q Consensus 32 dl~tAq~ildaA~ 44 (80)
.+..||+||++.-
T Consensus 17 ~~~laQa~lESg~ 29 (136)
T PF01832_consen 17 SLILAQAILESGW 29 (136)
T ss_dssp HHHHHHHHHHHTT
T ss_pred HHHHHHHHHHhcC
Confidence 8999999999863
No 47
>PF02519 Auxin_inducible: Auxin responsive protein; InterPro: IPR003676 This family consists of the protein products of a gene cluster that encodes a group of auxin-regulated RNAs (small auxin up RNAs, SAURs) []. Proteins from this ARG7 auxin responsive genes family have no identified functional role [].
Probab=28.16 E-value=26 Score=23.23 Aligned_cols=30 Identities=17% Similarity=0.315 Sum_probs=26.5
Q ss_pred ceeecCCeeeeeccCCCccccCceeeeCCC
Q 034889 45 VIVQSADLTICYDERGAKYELPKYVLSEPT 74 (80)
Q Consensus 45 itlp~g~L~~~YDe~G~~Y~lP~~v~s~P~ 74 (80)
..+|.|-+.+.--+...+|.||.-+++.|.
T Consensus 34 ~~vp~G~~~VyVG~~~~Rfvvp~~~L~hp~ 63 (100)
T PF02519_consen 34 SDVPKGHFAVYVGEERRRFVVPVSYLNHPL 63 (100)
T ss_pred CCCCCCeEEEEeCccceEEEechHHcCchh
Confidence 778999999777778889999999999985
No 48
>cd08345 Fosfomycin_RP Fosfomycin resistant protein; inhibits the biological function of fosfomycin. This family contains three types of fosfomycin resistant protein. Fosfomycin inhibits the enzyme UDP-N-acetylglucosamine-3-enolpyruvyltransferase (MurA), which catalyzes the first committed step in bacterial cell wall biosynthesis. The three types of fosfomycin resistance proteins, employ different mechanisms to render fosfomycin [(1R,2S)-epoxypropylphosphonic acid] inactive. FosB catalyzes the addition of L-cysteine to the epoxide ring of fosfomycin. FosX catalyzes the addition of a water molecule to the C1 position of the antibiotic with inversion of configuration at C1. FosA catalyzes the addition of glutathione to the antibiotic fosfomycin, making it inactive. Catalytic activities of both FosX and FosA are Mn(II)-dependent, but FosB is activated by Mg(II). Fosfomycin resistant proteins are evolutionarily related to glyoxalase I and type I extradiol dioxygenases.
Probab=27.77 E-value=92 Score=18.44 Aligned_cols=34 Identities=21% Similarity=0.289 Sum_probs=22.3
Q ss_pred cHHHHHHHHHHcCceeecC--------CeeeeeccCCCcccc
Q 034889 32 DLSLAQAIVDSAGVIVQSA--------DLTICYDERGAKYEL 65 (80)
Q Consensus 32 dl~tAq~ildaA~itlp~g--------~L~~~YDe~G~~Y~l 65 (80)
|++.+..-|.++|+++-.. .-..++|-.|+.++|
T Consensus 67 d~~~~~~~l~~~G~~~~~~~~~~~~~~~~~~~~DPdG~~iEi 108 (113)
T cd08345 67 EFDEYTERLKALGVEMKPERPRVQGEGRSIYFYDPDGHLLEL 108 (113)
T ss_pred HHHHHHHHHHHcCCccCCCccccCCCceEEEEECCCCCEEEE
Confidence 7888888888999886321 111466666766653
No 49
>cd07247 SgaA_N_like N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains. SgaA suppresses the growth disturbances caused by high osmolarity and a high concentration of A-factor, a microbial hormone, during the early growth phase in Streptomyces griseus. A-factor (2-isocapryloyl-3R-hydroxymethyl-gamma-butyrolactone) controls morphological differentiation and secondary metabolism in Streptomyces griseus. It is a chemical signaling molecule that at a very low concentration acts as a switch for yellow pigment production, aerial mycelium formation, streptomycin production, and streptomycin resistance. The structure and amino acid sequence of SgaA are closely related to a group of antibiotics resistance proteins, including bleomycin resistance protein, mitomycin resistance protein, and fosfomycin resistance proteins. SgaA might also function as a strep
Probab=27.34 E-value=1.1e+02 Score=18.19 Aligned_cols=34 Identities=32% Similarity=0.418 Sum_probs=21.7
Q ss_pred cHHHHHHHHHHcCceeecC--------CeeeeeccCCCcccc
Q 034889 32 DLSLAQAIVDSAGVIVQSA--------DLTICYDERGAKYEL 65 (80)
Q Consensus 32 dl~tAq~ildaA~itlp~g--------~L~~~YDe~G~~Y~l 65 (80)
|++.+..-|.++|+++-.+ ....++|-.|+...|
T Consensus 71 di~~~~~~l~~~g~~~~~~~~~~~~~~~~~~~~DPdG~~~~l 112 (114)
T cd07247 71 DVDAAAARVEAAGGKVLVPPTDIPGVGRFAVFADPEGAVFGL 112 (114)
T ss_pred CHHHHHHHHHHCCCEEEeCCcccCCcEEEEEEECCCCCEEEe
Confidence 7788888888899876422 112466666665543
No 50
>COG0667 Tas Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]
Probab=27.01 E-value=28 Score=26.71 Aligned_cols=13 Identities=54% Similarity=0.966 Sum_probs=10.4
Q ss_pred hhhhcCcCCCC-ch
Q 034889 6 EFWDTAPHYGG-RK 18 (80)
Q Consensus 6 EFwdT~~~~~G-r~ 18 (80)
-||||++.||. +.
T Consensus 48 n~~DTA~~Yg~g~s 61 (316)
T COG0667 48 NFFDTADVYGDGRS 61 (316)
T ss_pred CEEECccccCCCch
Confidence 48999999986 55
No 51
>PF12645 HTH_16: Helix-turn-helix domain; InterPro: IPR024760 This domain appears to be a helix-turn-helix domain, suggesting a transcriptional regulatory protein. Some proteins with this domain are annotated as conjugative transposon proteins.
Probab=26.99 E-value=25 Score=21.58 Aligned_cols=41 Identities=22% Similarity=0.328 Sum_probs=25.5
Q ss_pred HHHHHHHhcHHHHHHHHHHcCceeecCCeeeeeccCCCccc
Q 034889 24 ALRAAAEADLSLAQAIVDSAGVIVQSADLTICYDERGAKYE 64 (80)
Q Consensus 24 aLraA~e~dl~tAq~ildaA~itlp~g~L~~~YDe~G~~Y~ 64 (80)
.|.+|.++|.+.=+.||.--.=-+-.-++...||+.|+.|-
T Consensus 3 vI~~A~~GD~~A~~~IL~~y~~yI~kls~r~~~d~~g~~~~ 43 (65)
T PF12645_consen 3 VIKAAKQGDPEAMEEILKHYEPYISKLSTRTLYDEYGNVYG 43 (65)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHHHHHHHHhhcccccCCcCc
Confidence 56677777776666666654433333344467888887664
No 52
>PRK09591 celC cellobiose phosphotransferase system IIA component; Reviewed
Probab=26.71 E-value=72 Score=21.34 Aligned_cols=26 Identities=19% Similarity=0.379 Sum_probs=22.0
Q ss_pred hHHHHHHHHHHhcHHHHHHHHHHcCc
Q 034889 20 KIWDALRAAAEADLSLAQAIVDSAGV 45 (80)
Q Consensus 20 EIW~aLraA~e~dl~tAq~ildaA~i 45 (80)
.+-.||++|-+.|.+.|+..|..|.=
T Consensus 23 ~~~eAl~~ak~gdf~~A~~~l~eA~~ 48 (104)
T PRK09591 23 EVHEAFAAMREGNFDLAEQKLNQSNE 48 (104)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 78889999999899999888887753
No 53
>PRK15418 transcriptional regulator LsrR; Provisional
Probab=26.27 E-value=72 Score=24.65 Aligned_cols=23 Identities=30% Similarity=0.209 Sum_probs=18.6
Q ss_pred HHHHHHHHHHh--------cHHHHHHHHHHc
Q 034889 21 IWDALRAAAEA--------DLSLAQAIVDSA 43 (80)
Q Consensus 21 IW~aLraA~e~--------dl~tAq~ildaA 43 (80)
==.||++|+.+ |..||+.||+.+
T Consensus 287 K~~Ai~aALrgg~i~~LITDe~tA~~lL~~~ 317 (318)
T PRK15418 287 KAEAIIAALKGGYINALVTDEKTARAILALL 317 (318)
T ss_pred HHHHHHHHHhcCCCCEEEECHHHHHHHHHhh
Confidence 34788999884 999999999753
No 54
>TIGR00823 EIIA-LAC phosphotransferase system enzyme II, lactose-specific, factor III. operon. While the Lac permeases consist of two polypeptide chains (IIA and IICB), the Chb permease of E. coli consists of three (IIA, IIB and IIC). In B. subtilis, a PTS permease similar to the Chb permease of E. coli is believed to transport lichenan (a b-1,3;1,4 glucan) degradation products, oligosaccharides of 2-4 glucose units. This model is specific for the IIA subunit of the Lac PTS family.
Probab=26.25 E-value=70 Score=21.18 Aligned_cols=28 Identities=39% Similarity=0.605 Sum_probs=23.2
Q ss_pred hHHHHHHHHHHhcHHHHHHHHHHcCcee
Q 034889 20 KIWDALRAAAEADLSLAQAIVDSAGVIV 47 (80)
Q Consensus 20 EIW~aLraA~e~dl~tAq~ildaA~itl 47 (80)
.+-.||+.|-+.|.+.|+..|..|.=.+
T Consensus 20 ~~~eAl~~a~~gdfe~A~~~l~eA~~~l 47 (99)
T TIGR00823 20 KALEALKAAKAGDFAKARALVEQAGMCL 47 (99)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence 7888999999999999998888776443
No 55
>cd00475 CIS_IPPS Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl diphosphates. A few can also catalyze the condensation of IPP to trans-geranyl diphosphate to form the short-chain cis,trans- FPP. In prokaryotes, the cis-IPPS, undecaprenyl diphosphate synthase (UPP synthase) catalyzes the formation of the carrier lipid UPP in bacterial cell wall peptidooglycan biosynthesis. Similarly, in eukaryotes, the cis-IPPS, dehydrodolichyl diphosphate (dedol-PP) synthase catalyzes the formation of the polyisoprenoid glycosyl carrier lipid dolichyl monophosphate. cis-IPPS are mechanistically and structurally distinct from trans-IPPS, lacking the DDXXD motifs, yet requiring Mg2+ for activity.
Probab=25.64 E-value=1.1e+02 Score=22.91 Aligned_cols=17 Identities=53% Similarity=0.907 Sum_probs=15.1
Q ss_pred CCCCchhhHHHHHHHHHH
Q 034889 13 HYGGRKGKIWDALRAAAE 30 (80)
Q Consensus 13 ~~~Gr~~EIW~aLraA~e 30 (80)
.|+||. ||=+|.+..++
T Consensus 127 ~Y~gr~-eI~~a~~~~~~ 143 (221)
T cd00475 127 NYGGRQ-EIIHAVREIAE 143 (221)
T ss_pred cCCCHH-HHHHHHHHHHH
Confidence 599999 99999998875
No 56
>cd00215 PTS_IIA_lac PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four structurally and functionally distinct group IIA PTS system cytoplasmic enzymes, necessary for the uptake of carbohydrates across the cytoplasmic membrane and their phosphorylation. This family of proteins normally function as a homotrimer, stabilized by a centrally located metal ion. Separation into subunits is thought to occur after phosphorylation.
Probab=25.39 E-value=65 Score=21.24 Aligned_cols=28 Identities=32% Similarity=0.459 Sum_probs=23.0
Q ss_pred hHHHHHHHHHHhcHHHHHHHHHHcCcee
Q 034889 20 KIWDALRAAAEADLSLAQAIVDSAGVIV 47 (80)
Q Consensus 20 EIW~aLraA~e~dl~tAq~ildaA~itl 47 (80)
.+-.||+.|-+.|.+.|+..|..|+=.+
T Consensus 18 ~~~eAl~~a~~g~fe~A~~~l~ea~~~l 45 (97)
T cd00215 18 KALEALKAAKEGDFAEAEELLEEANDSL 45 (97)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence 7788999998889999998888776433
No 57
>cd07265 2_3_CTD_N N-terminal domain of catechol 2,3-dioxygenase. This subfamily contains the N-terminal, non-catalytic, domain of catechol 2,3-dioxygenase. Catechol 2,3-dioxygenase (2,3-CTD, catechol:oxygen 2,3-oxidoreductase) catalyzes an extradiol cleavage of catechol to form 2-hydroxymuconate semialdehyde with the insertion of two atoms of oxygen. The enzyme is a homotetramer and contains catalytically essential Fe(II) . The reaction proceeds by an ordered bi-unit mechanism. First, catechol binds to the enzyme, this is then followed by the binding of dioxygen to form a tertiary complex, and then the aromatic ring is cleaved to produce 2-hydroxymuconate semialdehyde. Catechol 2,3-dioxygenase belongs to the type I extradiol dioxygenase family. The subunit comprises the N- and C-terminal domains of similar structure fold, resulting from an ancient gene duplication. The active site is located in a funnel-shaped space of the C-terminal domain. This subfamily represents the N-terminal do
Probab=25.12 E-value=1.1e+02 Score=18.63 Aligned_cols=33 Identities=24% Similarity=0.205 Sum_probs=23.3
Q ss_pred cHHHHHHHHHHcCcee---ec------CCeeeeeccCCCccc
Q 034889 32 DLSLAQAIVDSAGVIV---QS------ADLTICYDERGAKYE 64 (80)
Q Consensus 32 dl~tAq~ildaA~itl---p~------g~L~~~YDe~G~~Y~ 64 (80)
|++.+.+-|.++|+.+ |. |...-++|-.||..+
T Consensus 74 dv~~~~~~l~~~G~~~~~~~~~~~~~~~~~~~~~DPdG~~iE 115 (122)
T cd07265 74 DLEKLEARLQAYGVAVERIPAGELPGVGRRVRFQLPSGHTME 115 (122)
T ss_pred HHHHHHHHHHHCCCcEEEcccCCCCCCceEEEEECCCCCEEE
Confidence 7888888899999875 32 122356788887765
No 58
>PF01255 Prenyltransf: Putative undecaprenyl diphosphate synthase; InterPro: IPR001441 Synonym(s): Di-trans-poly-cis-undecaprenyl-diphosphate synthase, Undecaprenyl pyrophosphate synthetase, Undecaprenyl pyrophosphate synthase, UPP synthetase Di-trans-poly-cis-decaprenylcistransferase (2.5.1.31 from EC) (UPP synthetase) generates undecaprenyl pyrophosphate (UPP) from isopentenyl pyrophosphate (IPP) []. This bacterial enzyme is also found in archaebacteria and in a number of uncharacterised proteins including some from yeasts. This entry also matches related enzymes that transfer alkyl groups, such as dehydrodolichyl diphosphate synthase.; GO: 0016765 transferase activity, transferring alkyl or aryl (other than methyl) groups; PDB: 2D2R_B 2DTN_B 1F75_B 1X07_A 2E9D_A 1JP3_A 3QAS_A 1X09_A 1V7U_B 2E9A_A ....
Probab=24.93 E-value=56 Score=23.98 Aligned_cols=37 Identities=38% Similarity=0.538 Sum_probs=24.1
Q ss_pred CCCCchhhHHHHHHHHHHh-----------cHHHHHHHHHHcCceeecCCee
Q 034889 13 HYGGRKGKIWDALRAAAEA-----------DLSLAQAIVDSAGVIVQSADLT 53 (80)
Q Consensus 13 ~~~Gr~~EIW~aLraA~e~-----------dl~tAq~ildaA~itlp~g~L~ 53 (80)
.|+||. ||=+|.+..++. +.++-..-|..+++ | .||-
T Consensus 123 ~Yggr~-eI~~a~~~~~~~~~~~~~~~~~i~~~~i~~~L~~~~~--P-pDLl 170 (223)
T PF01255_consen 123 NYGGRD-EIVDAARKLAEEVQSGKLSPEDIDEELISSHLYTPDL--P-PDLL 170 (223)
T ss_dssp CE-HHH-HHHHHHHHHHHHHHTTSSGGGG-SHHHHHHTSTTTTS-----SEE
T ss_pred cCCcHH-HHHHHHHHhhhhhccCccccccCCHHHHHhhccccCC--C-CCEE
Confidence 599999 999999999862 34444555555555 6 7775
No 59
>COG2968 Uncharacterized conserved protein [Function unknown]
Probab=24.83 E-value=90 Score=24.25 Aligned_cols=27 Identities=30% Similarity=0.382 Sum_probs=23.3
Q ss_pred HHHHHHHHHHhcHHHHHHHHHHcCcee
Q 034889 21 IWDALRAAAEADLSLAQAIVDSAGVIV 47 (80)
Q Consensus 21 IW~aLraA~e~dl~tAq~ildaA~itl 47 (80)
+=+|+++|.+.....||++.++.|+.|
T Consensus 163 ~~~Ar~~Av~dA~~kA~~lA~a~gv~l 189 (243)
T COG2968 163 VQQARKAAVADAIAKAQALASALGVKL 189 (243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCcc
Confidence 346788888889999999999999987
No 60
>cd09013 BphC-JF8_N_like N-terminal, non-catalytic, domain of BphC_JF8, (2,3-dihydroxybiphenyl 1,2-dioxygenase) from Bacillus sp. JF8 and similar proteins. 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC) catalyzes the extradiol ring cleavage reaction of 2,3-dihydroxybiphenyl, a key step in the polychlorinated biphenyls (PCBs) degradation pathway (bph pathway). BphC belongs to the type I extradiol dioxygenase family, which requires a metal ion in the active site in its catalytic mechanism. Polychlorinated biphenyl degrading bacteria demonstrate a multiplicity of BphCs. This subfamily of BphC is represented by the enzyme purified from the thermophilic biphenyl and naphthalene degrader, Bacillus sp. JF8. The members in this family of BphC enzymes may use either Mn(II) or Fe(II) as cofactors. The enzyme purified from Bacillus sp. JF8 is Mn(II)-dependent, however, the enzyme from Rhodococcus jostii RHAI has Fe(II) bound to it. BphC_JF8 is thermostable and its optimum activity is at 85 degrees C
Probab=24.36 E-value=1.1e+02 Score=18.63 Aligned_cols=18 Identities=17% Similarity=0.259 Sum_probs=14.8
Q ss_pred hcHHHHHHHHHHcCceee
Q 034889 31 ADLSLAQAIVDSAGVIVQ 48 (80)
Q Consensus 31 ~dl~tAq~ildaA~itlp 48 (80)
+|++.+..-|.++|+.+.
T Consensus 74 ~~v~~~~~~l~~~G~~~~ 91 (121)
T cd09013 74 EALERRVAALEASGLGIG 91 (121)
T ss_pred HHHHHHHHHHHHcCCccc
Confidence 378888889999999863
No 61
>PHA00435 capsid assembly protein
Probab=23.84 E-value=77 Score=25.59 Aligned_cols=16 Identities=38% Similarity=0.522 Sum_probs=14.5
Q ss_pred cHHHHHHHHHHcCcee
Q 034889 32 DLSLAQAIVDSAGVIV 47 (80)
Q Consensus 32 dl~tAq~ildaA~itl 47 (80)
|+.|+++||+.+|-+.
T Consensus 228 dl~t~K~ivnl~~~sy 243 (306)
T PHA00435 228 DLATVKAIINLAGASR 243 (306)
T ss_pred CHHHHHHHHHHHHHHH
Confidence 9999999999998765
No 62
>PF12714 TILa: TILa domain
Probab=23.77 E-value=43 Score=19.76 Aligned_cols=19 Identities=21% Similarity=0.263 Sum_probs=15.2
Q ss_pred eeeccCCCccccCceeeeC
Q 034889 54 ICYDERGAKYELPKYVLSE 72 (80)
Q Consensus 54 ~~YDe~G~~Y~lP~~v~s~ 72 (80)
||.|..|++|.+=+..+++
T Consensus 1 GC~d~~G~yy~~Ge~~~~~ 19 (56)
T PF12714_consen 1 GCTDYNGRYYPPGESWWTD 19 (56)
T ss_pred CCcCcCCEEECCCCEEeCC
Confidence 5788899999988876654
No 63
>cd07235 MRD Mitomycin C resistance protein (MRD). Mitomycin C (MC) is a naturally occurring antibiotic, and antitumor agent used in the treatment of cancer. Its antitumor activity is exerted primarily through monofunctional and bifunctional alkylation of DNA. MRD binds to MC and functions as a component of the MC exporting system. MC is bound to MRD by a stacking interaction between a His and a Trp. MRD adopts a structural fold similar to bleomycin resistance protein, glyoxalase I, and extradiol dioxygenases; and it has binding sites at an identical location to binding sites in these evolutionarily related enzymes.
Probab=23.74 E-value=1.1e+02 Score=18.45 Aligned_cols=17 Identities=18% Similarity=0.063 Sum_probs=13.8
Q ss_pred cHHHHHHHHHHcCceee
Q 034889 32 DLSLAQAIVDSAGVIVQ 48 (80)
Q Consensus 32 dl~tAq~ildaA~itlp 48 (80)
|++.+..-|.++|+++.
T Consensus 79 dvd~~~~~l~~~G~~~~ 95 (122)
T cd07235 79 EVDALYAELVGAGYPGH 95 (122)
T ss_pred HHHHHHHHHHHCCCCcC
Confidence 78888888889998754
No 64
>PLN03090 auxin-responsive family protein; Provisional
Probab=23.64 E-value=31 Score=23.55 Aligned_cols=30 Identities=20% Similarity=0.408 Sum_probs=24.8
Q ss_pred ceeecCCeeeeeccCCCccccCceeeeCCC
Q 034889 45 VIVQSADLTICYDERGAKYELPKYVLSEPT 74 (80)
Q Consensus 45 itlp~g~L~~~YDe~G~~Y~lP~~v~s~P~ 74 (80)
..+|.|-+...--+...+|.+|.-+++.|.
T Consensus 38 ~~vpkG~~aVyVG~~~~RfvVp~~~L~hP~ 67 (104)
T PLN03090 38 LDVPKGHFPVYVGENRSRYIVPISFLTHPE 67 (104)
T ss_pred CCCCCCcEEEEECCCCEEEEEEHHHcCCHH
Confidence 467999998765566789999999999985
No 65
>PRK09912 L-glyceraldehyde 3-phosphate reductase; Provisional
Probab=23.61 E-value=26 Score=26.73 Aligned_cols=15 Identities=33% Similarity=0.632 Sum_probs=11.2
Q ss_pred hhhhcCcCCC---CchhhH
Q 034889 6 EFWDTAPHYG---GRKGKI 21 (80)
Q Consensus 6 EFwdT~~~~~---Gr~~EI 21 (80)
-||||++.|| |+. |-
T Consensus 58 n~~DTA~~YG~~~g~s-E~ 75 (346)
T PRK09912 58 THFDLANNYGPPPGSA-EE 75 (346)
T ss_pred CEEEChhhhCCCCCCc-HH
Confidence 3789999887 666 53
No 66
>cd07885 RHD-n_RelA N-terminal sub-domain of the Rel homology domain (RHD) of RelA. Proteins containing the Rel homology domain (RHD) are metazoan transcription factors. The RHD is composed of two structural sub-domains; this model characterizes the N-terminal RHD domain of the RelA family of transcription factors, categorized as a class II member of the NF-kappa B family. In class II NF-kappa Bs, the RHD domain co-occurs with a C-terminal transactivation domain (TAD). NF-kappa B proteins are part of a protein complex that acts as a transcription factor, which is responsible for regulating a host of cellular responses to a variety of stimuli. This complex tightly regulates the expression of a large number of genes, and is involved in processes such as adaptive and innate immunity, stress response, inflammation, cell adhesion, proliferation and apoptosis. The cytosolic NF-kappa B complex is activated via phosphorylation of the ankyrin-repeat containing inhibitory protein I-kappa B, which
Probab=23.53 E-value=63 Score=23.94 Aligned_cols=30 Identities=30% Similarity=0.362 Sum_probs=20.4
Q ss_pred CceeecCCee-eee--ccCCCccccCceeeeCCC
Q 034889 44 GVIVQSADLT-ICY--DERGAKYELPKYVLSEPT 74 (80)
Q Consensus 44 ~itlp~g~L~-~~Y--De~G~~Y~lP~~v~s~P~ 74 (80)
.|-|=.=.|+ -+| |+.|....|| -|+|+|+
T Consensus 133 ~iDLn~VRLcFqafl~d~~G~~~~l~-PVvS~pI 165 (169)
T cd07885 133 DYDLNAVRLCFQVTVRDPSGRLLPLP-PVLSQPI 165 (169)
T ss_pred ccchhhEEEEEEEEEECCCCCEEeCC-Ceecccc
Confidence 4444334454 333 9999998886 7999996
No 67
>cd07238 Glo_EDI_BRP_like_5 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping. The structure of this family is a that of a strand-swapped dimer.
Probab=23.41 E-value=1.6e+02 Score=17.49 Aligned_cols=18 Identities=28% Similarity=0.241 Sum_probs=15.2
Q ss_pred cHHHHHHHHHHcCceeec
Q 034889 32 DLSLAQAIVDSAGVIVQS 49 (80)
Q Consensus 32 dl~tAq~ildaA~itlp~ 49 (80)
|++.+..-|.++|+++..
T Consensus 67 d~~~~~~~l~~~G~~~~~ 84 (112)
T cd07238 67 DVDAALARAVAAGFAIVY 84 (112)
T ss_pred CHHHHHHHHHhcCCeEec
Confidence 788888889999998755
No 68
>PRK10376 putative oxidoreductase; Provisional
Probab=23.30 E-value=31 Score=25.52 Aligned_cols=13 Identities=31% Similarity=0.452 Sum_probs=10.1
Q ss_pred hhhhcCcCCC-Cch
Q 034889 6 EFWDTAPHYG-GRK 18 (80)
Q Consensus 6 EFwdT~~~~~-Gr~ 18 (80)
-||||++.|| |..
T Consensus 55 n~~DTA~~Yg~~~s 68 (290)
T PRK10376 55 NHIDTSDFYGPHVT 68 (290)
T ss_pred CeEEChhhcCCCcH
Confidence 3899999998 444
No 69
>PRK14836 undecaprenyl pyrophosphate synthase; Provisional
Probab=23.16 E-value=1.4e+02 Score=22.92 Aligned_cols=18 Identities=50% Similarity=0.593 Sum_probs=15.3
Q ss_pred cCCCCchhhHHHHHHHHHH
Q 034889 12 PHYGGRKGKIWDALRAAAE 30 (80)
Q Consensus 12 ~~~~Gr~~EIW~aLraA~e 30 (80)
..||||. ||=+|.|..++
T Consensus 140 ~~YggR~-EI~~A~k~l~~ 157 (253)
T PRK14836 140 VSYGGRW-DIVTAARALAR 157 (253)
T ss_pred ecCCCHH-HHHHHHHHHHH
Confidence 3599999 99999998874
No 70
>COG0152 PurC Phosphoribosylaminoimidazolesuccinocarboxamide (SAICAR) synthase [Nucleotide transport and metabolism]
Probab=23.15 E-value=2.3e+02 Score=22.01 Aligned_cols=43 Identities=16% Similarity=0.221 Sum_probs=36.1
Q ss_pred hHHHHHHHHHHhcHHHHHHHHHHcCceeecCCeeeeeccCCCc
Q 034889 20 KIWDALRAAAEADLSLAQAIVDSAGVIVQSADLTICYDERGAK 62 (80)
Q Consensus 20 EIW~aLraA~e~dl~tAq~ildaA~itlp~g~L~~~YDe~G~~ 62 (80)
|=|+.|+..+-.=-+.++.++..+||++...-|---+|+.|+.
T Consensus 146 ee~~~i~~~alkin~~l~~~~~~~GiilvD~KlEFG~d~~g~i 188 (247)
T COG0152 146 EEIEEIKELALKINEVLKDLFAKRGIILVDFKLEFGLDEDGEI 188 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCcEEEeeeEEeeEcCCCCE
Confidence 6778888876666778889999999999999999788887765
No 71
>PF10875 DUF2670: Protein of unknown function (DUF2670); InterPro: IPR022714 This bacterial family of proteins has no known function and appears to be restricted to Rickettsiaceae.
Probab=23.01 E-value=56 Score=23.59 Aligned_cols=26 Identities=12% Similarity=0.153 Sum_probs=15.6
Q ss_pred cHHHHHHHHHHcCceee--cCCeeeeec
Q 034889 32 DLSLAQAIVDSAGVIVQ--SADLTICYD 57 (80)
Q Consensus 32 dl~tAq~ildaA~itlp--~g~L~~~YD 57 (80)
-|.++++|-.-+-..|- .|.|..-++
T Consensus 60 iL~~sKAvAqnCt~kL~p~~~~lv~fW~ 87 (139)
T PF10875_consen 60 ILDTSKAVAQNCTSKLGPNWGHLVSFWN 87 (139)
T ss_pred HHHHHHHHHHhcccccCCccchHHHHHH
Confidence 47778888776666665 455543333
No 72
>COG0020 UppS Undecaprenyl pyrophosphate synthase [Lipid metabolism]
Probab=22.97 E-value=1.2e+02 Score=23.15 Aligned_cols=38 Identities=39% Similarity=0.619 Sum_probs=27.4
Q ss_pred CCCCchhhHHHHHHHHHHh-----------cHHHHHHHHHHcCceeecCCee
Q 034889 13 HYGGRKGKIWDALRAAAEA-----------DLSLAQAIVDSAGVIVQSADLT 53 (80)
Q Consensus 13 ~~~Gr~~EIW~aLraA~e~-----------dl~tAq~ildaA~itlp~g~L~ 53 (80)
.||||. ||=+|.|.-++. +.++-..-|..++ +|..||-
T Consensus 143 nYGGR~-eI~~avr~ia~~v~~g~l~~~~I~e~~i~~~L~~~~--~pdpDLl 191 (245)
T COG0020 143 NYGGRD-EIVDAVRKIAEDVAAGKLSPEDIDEELISSHLYTSG--LPDPDLL 191 (245)
T ss_pred CCCCHH-HHHHHHHHHHHHHHcCCCChHHcCHHHHHHhhcccC--CCCCCEE
Confidence 499999 999999998762 5666666666644 3566764
No 73
>PF12949 HeH: HeH/LEM domain; PDB: 2OUT_A.
Probab=22.97 E-value=53 Score=18.30 Aligned_cols=17 Identities=24% Similarity=0.325 Sum_probs=10.5
Q ss_pred HHHHHHHHcCceeecCC
Q 034889 35 LAQAIVDSAGVIVQSAD 51 (80)
Q Consensus 35 tAq~ildaA~itlp~g~ 51 (80)
.=+.||.+.||..|++.
T Consensus 8 ~Lk~iL~~~~I~~ps~A 24 (35)
T PF12949_consen 8 QLKRILDEHGIEFPSNA 24 (35)
T ss_dssp HHHHHHHHHT---SSS-
T ss_pred HHHHHHHHcCCCCCCCC
Confidence 44789999999998763
No 74
>PRK14840 undecaprenyl pyrophosphate synthase; Provisional
Probab=22.94 E-value=1.3e+02 Score=23.07 Aligned_cols=18 Identities=22% Similarity=0.562 Sum_probs=15.4
Q ss_pred cCCCCchhhHHHHHHHHHH
Q 034889 12 PHYGGRKGKIWDALRAAAE 30 (80)
Q Consensus 12 ~~~~Gr~~EIW~aLraA~e 30 (80)
.+||||. ||=+|.+..++
T Consensus 148 ~~Yggr~-EI~~A~~~~~~ 165 (250)
T PRK14840 148 INYGGKD-ELVRAFKKLHQ 165 (250)
T ss_pred ecCCcHH-HHHHHHHHHHH
Confidence 3599999 99999998875
No 75
>PRK04101 fosfomycin resistance protein FosB; Provisional
Probab=22.80 E-value=51 Score=21.14 Aligned_cols=47 Identities=17% Similarity=0.169 Sum_probs=32.7
Q ss_pred hcHHHHHHHHHHcCceeecC--------CeeeeeccCCCccccCceeeeCCCCcc
Q 034889 31 ADLSLAQAIVDSAGVIVQSA--------DLTICYDERGAKYELPKYVLSEPTNLI 77 (80)
Q Consensus 31 ~dl~tAq~ildaA~itlp~g--------~L~~~YDe~G~~Y~lP~~v~s~P~Nl~ 77 (80)
.|++.+.+-|.++|+++-.+ .-.-+.|-.||..+|=..-++|-.|++
T Consensus 74 ~dv~~~~~~l~~~G~~i~~~~~~~~~~~~~~~~~DPdGn~iEl~~~~~~~~~~~~ 128 (139)
T PRK04101 74 EDFDHWYQRLKENDVNILPGRERDERDKKSIYFTDPDGHKFEFHTGTLQDRLNYY 128 (139)
T ss_pred HHHHHHHHHHHHCCceEcCCccccCCCceEEEEECCCCCEEEEEeCCHHHHHHHH
Confidence 48899999999999986321 122577888888887666665555444
No 76
>cd08510 PBP2_Lactococcal_OppA_like The substrate binding component of an ABC-type lactococcal OppA-like transport system contains. This family represents the substrate binding domain of an ATP-binding cassette (ABC)-type oligopeptide import system from Lactococcus lactis and other gram-positive bacteria, as well as its closet homologs from gram-negative bacteria. Oligopeptide-binding protein (OppA) from Lactococcus lactis can bind peptides of length from 4 to at least 35 residues without sequence preference. The oligopeptide import system OppABCDEF is consisting of five subunits: two homologous integral membrane proteins OppB and OppF that form the translocation pore; two homologous nucleotide-binding domains OppD and OppF that drive the transport process through binding and hydrolysis of ATP; and the substrate-binding protein or receptor OppA that determines the substrate specificity of the transport system. The dipeptide (DppA) and oligopeptide (OppA) binding proteins differ in sev
Probab=22.72 E-value=1.2e+02 Score=23.82 Aligned_cols=34 Identities=24% Similarity=0.265 Sum_probs=21.9
Q ss_pred cHHHHHHHHHHcCceeecCCeeeeeccCCCccccC
Q 034889 32 DLSLAQAIVDSAGVIVQSADLTICYDERGAKYELP 66 (80)
Q Consensus 32 dl~tAq~ildaA~itlp~g~L~~~YDe~G~~Y~lP 66 (80)
|++.|+++|+.||.+...|| .......|....|.
T Consensus 342 d~~~Ak~lL~eaG~~~~~~d-g~~~~~~G~~l~i~ 375 (516)
T cd08510 342 DPEKAKKLLDEAGYKDVDGD-GFREDPDGKPLTIN 375 (516)
T ss_pred CHHHHHHHHHHcCCEEcCCC-eeEECCCCcEEEEE
Confidence 68899999999999876553 12233345444443
No 77
>PRK14832 undecaprenyl pyrophosphate synthase; Provisional
Probab=22.34 E-value=1.4e+02 Score=23.01 Aligned_cols=18 Identities=44% Similarity=0.604 Sum_probs=15.0
Q ss_pred cCCCCchhhHHHHHHHHHH
Q 034889 12 PHYGGRKGKIWDALRAAAE 30 (80)
Q Consensus 12 ~~~~Gr~~EIW~aLraA~e 30 (80)
.+||||. ||=+|.|..++
T Consensus 144 ~~Yggr~-EI~~A~k~~~~ 161 (253)
T PRK14832 144 VNYGSRN-EITRACRQVAE 161 (253)
T ss_pred ecCCCHH-HHHHHHHHHHH
Confidence 3599999 99999998764
No 78
>PLN03086 PRLI-interacting factor K; Provisional
Probab=22.23 E-value=78 Score=27.25 Aligned_cols=34 Identities=18% Similarity=0.466 Sum_probs=25.2
Q ss_pred HHHHHcCceeecCCee-eeeccCCCccccCceeeeC
Q 034889 38 AIVDSAGVIVQSADLT-ICYDERGAKYELPKYVLSE 72 (80)
Q Consensus 38 ~ildaA~itlp~g~L~-~~YDe~G~~Y~lP~~v~s~ 72 (80)
..+..-||+.- -.|. .-||..|.|--||.-++..
T Consensus 69 ~~~~~~g~~~~-~~~~~~~~~~~GdKI~LPpSaL~~ 103 (567)
T PLN03086 69 SLQAGRGIVFS-RIFEAVSFQGNGDKIKLPPSCFTE 103 (567)
T ss_pred HHHcCCCeEEE-EEeeccccCCCCCeEEcCHHHHHH
Confidence 34455677774 3444 8999999999999988763
No 79
>PRK14831 undecaprenyl pyrophosphate synthase; Provisional
Probab=21.79 E-value=1.4e+02 Score=22.68 Aligned_cols=17 Identities=53% Similarity=0.853 Sum_probs=14.9
Q ss_pred CCCCchhhHHHHHHHHHH
Q 034889 13 HYGGRKGKIWDALRAAAE 30 (80)
Q Consensus 13 ~~~Gr~~EIW~aLraA~e 30 (80)
.||||. ||=+|.+..++
T Consensus 147 ~Yggr~-EIv~A~~~l~~ 163 (249)
T PRK14831 147 NYGGRQ-EIVQAARAIAQ 163 (249)
T ss_pred cCCCHH-HHHHHHHHHHH
Confidence 599999 99999988875
No 80
>PRK14827 undecaprenyl pyrophosphate synthase; Provisional
Probab=21.51 E-value=1.5e+02 Score=23.38 Aligned_cols=18 Identities=44% Similarity=0.693 Sum_probs=15.1
Q ss_pred cCCCCchhhHHHHHHHHHH
Q 034889 12 PHYGGRKGKIWDALRAAAE 30 (80)
Q Consensus 12 ~~~~Gr~~EIW~aLraA~e 30 (80)
..||||. ||=+|.+..++
T Consensus 193 ~~YgGR~-EI~~A~~~i~~ 210 (296)
T PRK14827 193 VNYGGRT-EITEATREIAR 210 (296)
T ss_pred ecCCCHH-HHHHHHHHHHH
Confidence 3599999 99999988875
No 81
>PRK10454 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIA; Provisional
Probab=21.40 E-value=1.1e+02 Score=20.96 Aligned_cols=27 Identities=26% Similarity=0.455 Sum_probs=22.4
Q ss_pred hHHHHHHHHHHhcHHHHHHHHHHcCce
Q 034889 20 KIWDALRAAAEADLSLAQAIVDSAGVI 46 (80)
Q Consensus 20 EIW~aLraA~e~dl~tAq~ildaA~it 46 (80)
..-.||++|-+.|.+.|+..|..|.=.
T Consensus 34 ~~~eAl~~Ak~gdfe~A~~~l~eA~e~ 60 (115)
T PRK10454 34 LAYAALKQAKQGDFAAAKAMMDQSRMA 60 (115)
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence 778899999999999998888877543
No 82
>COG4747 ACT domain-containing protein [General function prediction only]
Probab=21.32 E-value=2.7e+02 Score=20.23 Aligned_cols=49 Identities=20% Similarity=0.279 Sum_probs=37.1
Q ss_pred CchhhHHHHHHHHHHh-----------------------cHHHHHHHHHHcCceeecCCee--eeeccCCCccc
Q 034889 16 GRKGKIWDALRAAAEA-----------------------DLSLAQAIVDSAGVIVQSADLT--ICYDERGAKYE 64 (80)
Q Consensus 16 Gr~~EIW~aLraA~e~-----------------------dl~tAq~ildaA~itlp~g~L~--~~YDe~G~~Y~ 64 (80)
.+||-.|.+++.-.++ +-+.|.+.|..+|.+|--.|.- ..=|.-|..-.
T Consensus 12 Nk~GRL~~~~~~L~eagINiRA~tiAdt~dFGIiRmvV~~~d~A~~~Lee~gF~Vr~~dVlaVEmeD~PG~l~~ 85 (142)
T COG4747 12 NKPGRLASVANKLKEAGINIRAFTIADTGDFGIIRMVVDRPDEAHSVLEEAGFTVRETDVLAVEMEDVPGGLSR 85 (142)
T ss_pred CCcchHHHHHHHHHHcCCceEEEEeccccCcceEEEEcCChHHHHHHHHHCCcEEEeeeEEEEEecCCCCcHHH
Confidence 3446679988887663 5889999999999999887764 56677665543
No 83
>cd08490 PBP2_NikA_DppA_OppA_like_3 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most s
Probab=21.10 E-value=1e+02 Score=23.52 Aligned_cols=31 Identities=26% Similarity=0.309 Sum_probs=21.9
Q ss_pred cHHHHHHHHHHcCceeecCCeeeeeccCCCcccc
Q 034889 32 DLSLAQAIVDSAGVIVQSADLTICYDERGAKYEL 65 (80)
Q Consensus 32 dl~tAq~ildaA~itlp~g~L~~~YDe~G~~Y~l 65 (80)
|++.|+.+|+.||.+.-.++. ++..|....|
T Consensus 293 d~~~A~~lL~~aG~~~~~~~~---~~~~G~~~~l 323 (470)
T cd08490 293 DPEKAKELLAEAGWTDGDGDG---IEKDGEPLEL 323 (470)
T ss_pred CHHHHHHHHHHcCCCCCCCcc---cccCCceEEE
Confidence 688999999999987644433 3556665544
No 84
>PRK10240 undecaprenyl pyrophosphate synthase; Provisional
Probab=20.96 E-value=1.7e+02 Score=22.08 Aligned_cols=18 Identities=44% Similarity=0.706 Sum_probs=15.3
Q ss_pred cCCCCchhhHHHHHHHHHH
Q 034889 12 PHYGGRKGKIWDALRAAAE 30 (80)
Q Consensus 12 ~~~~Gr~~EIW~aLraA~e 30 (80)
..||||. ||=+|+|..++
T Consensus 119 ~~Yggr~-EI~~A~~~~~~ 136 (229)
T PRK10240 119 ANYGGRW-DIVQGVRQLAE 136 (229)
T ss_pred eccCCHH-HHHHHHHHHHH
Confidence 3599999 99999998875
No 85
>cd01612 APG12_C Ubiquitin-like domain of APG12. APG12_C The carboxy-terminal ubiquitin-like domain of APG12. Autophagy is a process in which cytoplasmic components are delivered to the lysosome/vacuole for degradation. Autophagy requires a ubiquitin-like protein conjugation system, in which APG12 is covalently bound to APG5.
Probab=20.88 E-value=17 Score=23.52 Aligned_cols=14 Identities=21% Similarity=0.494 Sum_probs=10.7
Q ss_pred CeeeeeccCCCccc
Q 034889 51 DLTICYDERGAKYE 64 (80)
Q Consensus 51 ~L~~~YDe~G~~Y~ 64 (80)
+|..|||+.|..|-
T Consensus 65 ~LY~~~~~dGfLyi 78 (87)
T cd01612 65 NLYRCFGTNGELIV 78 (87)
T ss_pred HHHHhcCCCCEEEE
Confidence 45578999998874
No 86
>cd08350 BLMT_like BLMT, a bleomycin resistance protein encoded on the transposon Tn5, and similar proteins. BLMT is a bleomycin (Bm) resistance protein, encoded by the ble gene on the transposon Tn5. This protein confers a survival advantage to Escherichia coli host cells. Bm is a glycopeptide antibiotic produced naturally by actinomycetes. It is a potent anti-cancer drug, which acts as a strong DNA-cutting agent, thereby causing cell death. BLMT has strong binding affinity to Bm and it protects against this lethal compound through drug sequestering. BLMT has two identically-folded subdomains, with the same alpha/beta fold; these two halves have no sequence similarity. BLMT is a dimer with two Bm-binding pockets formed at the dimer interface.
Probab=20.82 E-value=1.6e+02 Score=18.02 Aligned_cols=34 Identities=18% Similarity=0.100 Sum_probs=23.5
Q ss_pred cHHHHHHHHHHcCcee----------e----cCCe-eeeeccCCCcccc
Q 034889 32 DLSLAQAIVDSAGVIV----------Q----SADL-TICYDERGAKYEL 65 (80)
Q Consensus 32 dl~tAq~ildaA~itl----------p----~g~L-~~~YDe~G~~Y~l 65 (80)
|++.+..-|.++|+++ | .|.. ..+.|-.||+..|
T Consensus 68 dvd~~~~~l~~~G~~~~~~~~~~~~~~~~~~~g~~~~~~~DPdG~~ie~ 116 (120)
T cd08350 68 DVAALHAEFRAAGLPETGSGIPRITPPEDQPWGMREFALVDPDGNLLRF 116 (120)
T ss_pred CHHHHHHHHHHhCccccccCCCcccCCcCCCCceeEEEEECCCCCEEEe
Confidence 8999999999999973 1 1222 2677777777654
No 87
>COG3867 Arabinogalactan endo-1,4-beta-galactosidase [Carbohydrate transport and metabolism]
Probab=20.78 E-value=76 Score=26.36 Aligned_cols=32 Identities=25% Similarity=0.215 Sum_probs=24.6
Q ss_pred HHHHHHHHHHcCceeecCCee-eeeccCCCccc
Q 034889 33 LSLAQAIVDSAGVIVQSADLT-ICYDERGAKYE 64 (80)
Q Consensus 33 l~tAq~ildaA~itlp~g~L~-~~YDe~G~~Y~ 64 (80)
.+.|-+||..+||--.-=.+. .-||+.|+.|-
T Consensus 65 ~qD~~~iLK~~GvNyvRlRvwndP~dsngn~yg 97 (403)
T COG3867 65 RQDALQILKNHGVNYVRLRVWNDPYDSNGNGYG 97 (403)
T ss_pred HHHHHHHHHHcCcCeEEEEEecCCccCCCCccC
Confidence 456677888889877666665 67999999884
No 88
>cd07266 HPCD_N_class_II N-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD); belongs to the type I class II family of extradiol dioxygenases. This subfamily contains the N-terminal, non-catalytic, domain of HPCD. HPCD catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate. The aromatic ring of 4-hydroxyphenylacetate is opened by this dioxygenase to yield the 3,4-diol product, 2-hydroxy-5-carboxymethylmuconate semialdehyde. HPCD is a homotetramer and each monomer contains two structurally homologous barrel-shaped domains at the N- and C-terminus. The active-site metal is located in the C-terminal barrel and plays an essential role in the catalytic mechanism. Most extradiol dioxygenases contain Fe(II) in their active site, but HPCD can be activated by either Mn(II) or Fe(II). These enzymes belong to the type I class II family of extradiol dioxygenases. The class III 3,4-dihydroxyphenylacetate 2,3-dioxygenases belong to a differ
Probab=20.75 E-value=1.5e+02 Score=17.86 Aligned_cols=35 Identities=23% Similarity=0.208 Sum_probs=23.2
Q ss_pred hcHHHHHHHHHHcCceeecC---------CeeeeeccCCCcccc
Q 034889 31 ADLSLAQAIVDSAGVIVQSA---------DLTICYDERGAKYEL 65 (80)
Q Consensus 31 ~dl~tAq~ildaA~itlp~g---------~L~~~YDe~G~~Y~l 65 (80)
.|++.+...|.++|+.+-.+ .-..+.|-.|+..++
T Consensus 72 ~dv~~~~~~l~~~g~~~~~~~~~~~~~~~~~~~~~DPdG~~ve~ 115 (121)
T cd07266 72 EDLDKAEAFFQELGLPTEWVEAGEEPGQGRALRVEDPLGFPIEF 115 (121)
T ss_pred HHHHHHHHHHHHcCCCcccccCCcCCCCccEEEEECCCCCEEEE
Confidence 37888888888899876321 222566777777653
No 89
>PHA03357 Alkaline exonuclease; Provisional
Probab=20.71 E-value=60 Score=21.56 Aligned_cols=26 Identities=23% Similarity=0.277 Sum_probs=21.9
Q ss_pred eeeeeccCCCccccCceeeeCCCCcc
Q 034889 52 LTICYDERGAKYELPKYVLSEPTNLI 77 (80)
Q Consensus 52 L~~~YDe~G~~Y~lP~~v~s~P~Nl~ 77 (80)
|-.-.+|.|++-+.|++-+++|.|--
T Consensus 42 lDE~~~e~~~~~~~~~~~~~~~~~k~ 67 (81)
T PHA03357 42 FDENTNEAADKPDFPKPNFIDPKNKK 67 (81)
T ss_pred cccccCccccCcCCCCCcccCCCccc
Confidence 33667899999999999999998843
No 90
>PF12441 DUF3680: Protein of unknown function (DUF3680) ; InterPro: IPR022148 This domain family is found in bacteria and archaea, and is approximately 40 amino acids in length.
Probab=20.64 E-value=36 Score=19.68 Aligned_cols=9 Identities=56% Similarity=1.055 Sum_probs=6.6
Q ss_pred hhhhhhhcC
Q 034889 3 LRDEFWDTA 11 (80)
Q Consensus 3 ~R~EFwdT~ 11 (80)
+=.+||||.
T Consensus 13 Ee~eFW~~h 21 (42)
T PF12441_consen 13 EEREFWDTH 21 (42)
T ss_pred HHHHHHHhc
Confidence 346899985
No 91
>PF03793 PASTA: PASTA domain; InterPro: IPR005543 The PASTA domain is found at the C-termini of several Penicillin-binding proteins (PBP) and bacterial serine/threonine kinases. It binds the beta-lactam stem, which implicates it in sensing D-alanyl-D-alanine - the PBP transpeptidase substrate. In PknB of Mycobacterium tuberculosis (P71584 from SWISSPROT), all of the extracellular portion is predicted to be made up of four PASTA domains, which strongly suggests that it is a signal-binding sensor domain. The domain has also been found in proteins involved in cell wall biosynthesis, where it is implicated in localizing the biosynthesis complex to unlinked peptidoglycan. PASTA is a small globular fold consisting of 3 beta-sheets and an alpha-helix, with a loop region of variable length between the first and second beta-strands. The name PASTA is derived from PBP and Serine/Threonine kinase Associated domain [].; GO: 0008658 penicillin binding; PDB: 2ZC3_C 1QME_A 1RP5_B 2Z2M_C 2Z2L_F 2ZC4_C 1QMF_A 3M9G_A 3PY9_A 1K25_B ....
Probab=20.46 E-value=1.1e+02 Score=17.18 Aligned_cols=17 Identities=29% Similarity=0.522 Sum_probs=13.1
Q ss_pred cHHHHHHHHHHcCceee
Q 034889 32 DLSLAQAIVDSAGVIVQ 48 (80)
Q Consensus 32 dl~tAq~ildaA~itlp 48 (80)
.++.|+.+|.++|+++.
T Consensus 10 ~~~~a~~~l~~~g~~~~ 26 (63)
T PF03793_consen 10 TYDEAKSILEAAGLTVN 26 (63)
T ss_dssp BHHHHHHHHHHTT-EEE
T ss_pred cHHHHHHHHHHCCCEEE
Confidence 57889999999999543
No 92
>cd08520 PBP2_NikA_DppA_OppA_like_21 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most s
Probab=20.46 E-value=1.1e+02 Score=23.66 Aligned_cols=20 Identities=20% Similarity=0.285 Sum_probs=16.3
Q ss_pred cHHHHHHHHHHcCceeecCC
Q 034889 32 DLSLAQAIVDSAGVIVQSAD 51 (80)
Q Consensus 32 dl~tAq~ildaA~itlp~g~ 51 (80)
|++.|+++|+.||.+...|+
T Consensus 303 d~~kAk~lL~eaG~~~~~~~ 322 (468)
T cd08520 303 DPEKAKELLKGLGYTDNGGD 322 (468)
T ss_pred CHHHHHHHHHHcCCcccCCC
Confidence 89999999999998764443
No 93
>PRK13277 5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribofuranosyl 5'-monophosphate synthetase-like protein; Provisional
Probab=20.44 E-value=66 Score=26.20 Aligned_cols=36 Identities=11% Similarity=0.412 Sum_probs=28.2
Q ss_pred HHHHHHHHHHcCceeecCCee--eeeccCCCccccCce
Q 034889 33 LSLAQAIVDSAGVIVQSADLT--ICYDERGAKYELPKY 68 (80)
Q Consensus 33 l~tAq~ildaA~itlp~g~L~--~~YDe~G~~Y~lP~~ 68 (80)
.+..+.+.+.-.|.+|+|++. .-||..=+...+|.|
T Consensus 76 ~~~~~~l~~~n~i~iPh~sf~~y~g~~~ie~~~~vp~f 113 (366)
T PRK13277 76 EKVQDELREENAIFVPNRSFAVYVGYDAIENEFKVPIF 113 (366)
T ss_pred HHHHHHHHHCCeEEecCCCeEEEecHHHHhhcCCCCcc
Confidence 356667777799999999997 778887777777743
No 94
>COG2390 DeoR Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]
Probab=20.41 E-value=1e+02 Score=24.34 Aligned_cols=23 Identities=26% Similarity=0.303 Sum_probs=18.9
Q ss_pred HHHHHHHHHHh--------cHHHHHHHHHHc
Q 034889 21 IWDALRAAAEA--------DLSLAQAIVDSA 43 (80)
Q Consensus 21 IW~aLraA~e~--------dl~tAq~ildaA 43 (80)
==+||++|+.+ |..||+.||...
T Consensus 290 K~~AI~aaL~gg~~n~LITDe~tA~~lL~~~ 320 (321)
T COG2390 290 KAEAILAALRGGYINVLITDEATAEALLEAD 320 (321)
T ss_pred cHHHHHHHHhCCCCCEEEeCHHHHHHHHhcc
Confidence 35789999884 999999999754
No 95
>cd08189 Fe-ADH5 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contains different protein domain. Proteins of this family have not been characterized. Their specific function is unknown.
Probab=20.34 E-value=91 Score=24.10 Aligned_cols=33 Identities=21% Similarity=0.298 Sum_probs=23.4
Q ss_pred ceeecC--------CeeeeeccC-CCcc------ccCceeeeCCCCcc
Q 034889 45 VIVQSA--------DLTICYDER-GAKY------ELPKYVLSEPTNLI 77 (80)
Q Consensus 45 itlp~g--------~L~~~YDe~-G~~Y------~lP~~v~s~P~Nl~ 77 (80)
|.+||- ..+..||+. |.|+ ..|.+++-||.-+.
T Consensus 130 i~VPTtagTGsE~t~~avi~d~~~~~K~~~~~~~~~P~~~i~Dp~l~~ 177 (374)
T cd08189 130 FAIPTTAGTGSEVTIAAVISDPETHEKYAISDPRLLPKAAALDPRLTL 177 (374)
T ss_pred EEEECCCccccccCCeEEEEecCCCeeEEEeCCCccCCEEEEChHhhc
Confidence 788886 356788864 5565 45999999986543
No 96
>PRK11087 oxidative stress defense protein; Provisional
Probab=20.33 E-value=1.3e+02 Score=22.00 Aligned_cols=34 Identities=24% Similarity=0.289 Sum_probs=26.7
Q ss_pred HHHHHHHHhcHHHHHHHHHHcCceeecCCee-eeecc
Q 034889 23 DALRAAAEADLSLAQAIVDSAGVIVQSADLT-ICYDE 58 (80)
Q Consensus 23 ~aLraA~e~dl~tAq~ildaA~itlp~g~L~-~~YDe 58 (80)
++|+.|++..-+.|+.+-.++|.+| |.+- +.++.
T Consensus 152 ~al~~Av~dAr~kA~~~A~~~G~~l--g~v~~I~~~~ 186 (231)
T PRK11087 152 KARKAAIKDAIQQAQSLAKGFGEKL--GPVYSIRYHV 186 (231)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCc--ccEEEEEcCC
Confidence 4677788888999999999999998 6664 55553
No 97
>cd08357 Glo_EDI_BRP_like_18 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping. The proteins of this family share three conserved metal binding amino acids with the type I extradiol dioxygenases, which shows no domain swapping.
Probab=20.28 E-value=1.8e+02 Score=17.32 Aligned_cols=35 Identities=17% Similarity=0.201 Sum_probs=23.4
Q ss_pred hcHHHHHHHHHHcCceeecCC------------eeeeeccCCCcccc
Q 034889 31 ADLSLAQAIVDSAGVIVQSAD------------LTICYDERGAKYEL 65 (80)
Q Consensus 31 ~dl~tAq~ildaA~itlp~g~------------L~~~YDe~G~~Y~l 65 (80)
.|++.+..-|.++|+++-.+. -.-+.|-.||.-+|
T Consensus 76 ~dv~~~~~~l~~~g~~~~~~p~~~~~~~~~~~~~~~~~DPdG~~iE~ 122 (125)
T cd08357 76 EEFDALAERLEAAGVEFLIEPYTRFEGQPGEQETFFLKDPSGNALEF 122 (125)
T ss_pred HHHHHHHHHHHHCCCcEecCcceeccCCcCceeEEEEECCCCCEEEE
Confidence 588889999999999764321 12466666665543
No 98
>TIGR00081 purC phosphoribosylaminoimidazole-succinocarboxamide synthase. Check length. Longer versions may be multifunctional enzymes.
Probab=20.24 E-value=3e+02 Score=20.92 Aligned_cols=43 Identities=19% Similarity=0.248 Sum_probs=34.4
Q ss_pred hHHHHHHHHHHhcHHHHHHHHHHcCceeecCCeeeeeccCCCc
Q 034889 20 KIWDALRAAAEADLSLAQAIVDSAGVIVQSADLTICYDERGAK 62 (80)
Q Consensus 20 EIW~aLraA~e~dl~tAq~ildaA~itlp~g~L~~~YDe~G~~ 62 (80)
+-++.|+..+-.=.+..+.+...+||+|...-|--.+|+.|+.
T Consensus 148 ~e~~~i~~~a~~v~~~l~~~~~~~gl~LvD~K~EFG~~~~g~i 190 (237)
T TIGR00081 148 EELERIKELALKVNEVLKKYFDEKGIILVDFKLEFGLDEEGNL 190 (237)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEeEEeeEcCCCCE
Confidence 4567777777666778889999999999999998557888853
No 99
>PF14134 DUF4301: Domain of unknown function (DUF4301)
Probab=20.12 E-value=53 Score=28.13 Aligned_cols=34 Identities=21% Similarity=0.351 Sum_probs=24.4
Q ss_pred HHHHHHHcCceeecCCeeeeeccCCCccccCcee
Q 034889 36 AQAIVDSAGVIVQSADLTICYDERGAKYELPKYV 69 (80)
Q Consensus 36 Aq~ildaA~itlp~g~L~~~YDe~G~~Y~lP~~v 69 (80)
.+.|+..+==-=|-.=.|++-|=.|++|+||.||
T Consensus 420 q~~if~~~THFNPVDLVCgvkdykG~kFdL~~fv 453 (513)
T PF14134_consen 420 QKEIFKNSTHFNPVDLVCGVKDYKGEKFDLPDFV 453 (513)
T ss_pred HHHHHHcCCCCCccceEeeccCCCCCcCCchhcc
Confidence 3455555544444444479999999999999998
Done!