Query psy2494
Match_columns 166
No_of_seqs 175 out of 1111
Neff 6.0
Searched_HMMs 46136
Date Fri Aug 16 17:39:25 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2494.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2494hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0295 Cdd Cytidine deaminase 100.0 2.4E-48 5.2E-53 297.4 16.2 128 17-155 6-133 (134)
2 PRK12411 cytidine deaminase; P 100.0 2.1E-46 4.6E-51 286.7 16.3 130 16-156 3-132 (132)
3 PRK05578 cytidine deaminase; V 100.0 2.2E-46 4.8E-51 286.3 15.9 128 16-154 3-130 (131)
4 PRK08298 cytidine deaminase; V 100.0 1E-44 2.2E-49 278.7 15.0 121 15-144 3-129 (136)
5 PRK06848 hypothetical protein; 100.0 7.7E-44 1.7E-48 274.7 16.8 126 12-143 3-133 (139)
6 TIGR01354 cyt_deam_tetra cytid 100.0 1.8E-42 3.9E-47 263.0 16.1 126 18-154 2-127 (127)
7 TIGR01355 cyt_deam_dimer cytid 100.0 2.5E-40 5.5E-45 280.1 14.6 133 8-158 15-149 (283)
8 PLN02402 cytidine deaminase 100.0 2.4E-39 5.3E-44 275.7 14.6 133 9-157 19-163 (303)
9 PLN02182 cytidine deaminase 100.0 1.9E-37 4.2E-42 266.9 15.2 122 18-144 47-172 (339)
10 PRK09027 cytidine deaminase; P 100.0 1.6E-35 3.6E-40 252.1 14.6 120 19-158 53-174 (295)
11 KOG0833|consensus 100.0 3.5E-35 7.7E-40 231.7 14.7 112 13-129 18-129 (173)
12 PRK09027 cytidine deaminase; P 100.0 8.9E-33 1.9E-37 235.4 14.4 104 15-123 188-293 (295)
13 TIGR01355 cyt_deam_dimer cytid 100.0 3.2E-29 6.8E-34 212.5 13.5 97 14-113 172-272 (283)
14 cd01283 cytidine_deaminase Cyt 100.0 4.5E-27 9.9E-32 173.6 15.4 110 21-136 2-111 (112)
15 PLN02402 cytidine deaminase 99.9 4.5E-25 9.8E-30 188.4 13.8 106 15-124 191-300 (303)
16 PF08211 dCMP_cyt_deam_2: Cyti 99.8 6.2E-21 1.3E-25 144.5 8.9 75 16-90 33-109 (124)
17 cd00786 cytidine_deaminase-lik 99.8 1.6E-17 3.5E-22 119.9 11.6 85 21-114 2-88 (96)
18 PF00383 dCMP_cyt_deam_1: Cyti 99.6 2.9E-15 6.3E-20 107.7 10.7 91 15-113 3-94 (102)
19 PLN02182 cytidine deaminase 99.6 1.4E-15 3E-20 131.7 10.3 109 16-127 201-313 (339)
20 cd01285 nucleoside_deaminase N 99.2 1.1E-10 2.3E-15 85.9 10.7 85 21-113 2-88 (109)
21 PF14421 LmjF365940-deam: A di 99.2 1.3E-10 2.9E-15 93.0 8.5 93 35-127 35-182 (193)
22 cd01286 deoxycytidylate_deamin 99.2 6.5E-10 1.4E-14 84.7 11.4 87 17-113 2-109 (131)
23 TIGR02571 ComEB ComE operon pr 98.9 1.5E-08 3.3E-13 79.2 10.8 87 16-113 6-108 (151)
24 PRK10860 tRNA-specific adenosi 98.9 3.7E-08 8E-13 78.6 12.1 89 16-113 13-103 (172)
25 PHA02588 cd deoxycytidylate de 98.9 4.1E-08 8.8E-13 78.0 12.1 87 16-113 3-122 (168)
26 COG0590 CumB Cytosine/adenosin 98.8 1E-07 2.2E-12 74.6 10.9 94 12-113 4-99 (152)
27 cd01284 Riboflavin_deaminase-r 98.7 1.4E-07 3E-12 70.6 10.3 78 21-113 2-88 (115)
28 KOG1018|consensus 98.4 2.8E-06 6.1E-11 67.7 9.8 97 9-113 4-106 (169)
29 PRK10786 ribD bifunctional dia 98.1 3.6E-05 7.9E-10 67.8 10.7 82 16-113 3-92 (367)
30 TIGR00326 eubact_ribD riboflav 98.0 3.8E-05 8.2E-10 66.8 9.9 77 21-113 2-86 (344)
31 PLN02807 diaminohydroxyphospho 98.0 6.5E-05 1.4E-09 66.7 11.0 83 16-114 32-122 (380)
32 PF14431 YwqJ-deaminase: YwqJ- 97.9 6.4E-05 1.4E-09 56.9 8.2 75 39-113 17-124 (125)
33 COG0117 RibD Pyrimidine deamin 97.7 0.00076 1.6E-08 52.7 11.3 100 15-127 5-107 (146)
34 COG2131 ComEB Deoxycytidylate 97.6 0.0007 1.5E-08 53.8 9.4 87 16-113 8-118 (164)
35 KOG3127|consensus 97.3 0.0012 2.7E-08 54.7 8.1 86 17-114 68-174 (230)
36 PF14437 MafB19-deam: MafB19-l 96.4 0.027 5.9E-07 44.1 8.3 68 40-114 30-123 (146)
37 PF14439 Bd3614-deam: Bd3614-l 94.4 0.19 4E-06 38.3 6.6 80 37-126 8-114 (136)
38 PF14440 XOO_2897-deam: Xantho 91.7 0.13 2.8E-06 39.0 2.1 60 55-126 36-100 (118)
39 PF14424 Toxin-deaminase: The 91.6 0.74 1.6E-05 35.3 6.4 59 61-126 70-132 (133)
40 PRK13663 hypothetical protein; 88.8 1.4 3.1E-05 40.2 6.6 61 6-78 330-390 (493)
41 PF08903 DUF1846: Domain of un 83.4 1.5 3.2E-05 40.2 3.9 61 6-78 329-389 (491)
42 PF14428 SCP1201-deam: SCP1.20 74.6 16 0.00035 28.0 6.7 60 61-129 65-127 (135)
43 COG4868 Uncharacterized protei 74.1 5.4 0.00012 35.7 4.5 59 7-73 331-389 (493)
44 PF11372 DUF3173: Domain of un 70.7 4.9 0.00011 26.9 2.6 38 4-42 7-46 (59)
45 PF14441 OTT_1508_deam: OTT_15 68.9 11 0.00024 28.6 4.7 45 60-113 63-107 (142)
46 cd03026 AhpF_NTD_C TRX-GRX-lik 68.3 22 0.00047 24.8 5.8 48 74-127 5-52 (89)
47 PRK09732 hypothetical protein; 67.4 39 0.00084 25.9 7.4 62 8-78 3-65 (134)
48 PF14427 Pput2613-deam: Pput_2 60.6 17 0.00038 27.3 4.2 30 98-128 74-103 (118)
49 PF08210 APOBEC_N: APOBEC-like 60.1 50 0.0011 26.5 7.2 83 32-123 18-112 (188)
50 PF03652 UPF0081: Uncharacteri 55.8 50 0.0011 25.0 6.2 97 34-140 8-106 (135)
51 PF13540 RCC1_2: Regulator of 49.1 20 0.00043 20.0 2.3 15 41-55 11-26 (30)
52 cd01659 TRX_superfamily Thiore 45.1 32 0.00069 19.5 3.0 29 101-129 8-39 (69)
53 COG3019 Predicted metal-bindin 41.5 50 0.0011 25.9 4.2 25 100-126 34-58 (149)
54 PF03928 DUF336: Domain of unk 41.2 1.1E+02 0.0023 22.7 5.9 52 16-72 8-59 (132)
55 COG0421 SpeE Spermidine syntha 39.2 31 0.00067 29.6 3.0 71 68-161 64-134 (282)
56 PF00319 SRF-TF: SRF-type tran 39.0 85 0.0018 20.1 4.3 32 16-52 17-48 (51)
57 COG1010 CobJ Precorrin-3B meth 37.7 73 0.0016 27.1 4.9 41 100-142 171-215 (249)
58 cd02961 PDI_a_family Protein D 36.3 76 0.0017 20.6 4.1 13 101-113 26-38 (101)
59 PF01614 IclR: Bacterial trans 33.9 94 0.002 22.2 4.5 44 16-60 53-103 (129)
60 cd02975 PfPDO_like_N Pyrococcu 33.1 38 0.00082 24.4 2.3 26 102-127 34-62 (113)
61 COG1414 IclR Transcriptional r 30.7 1.2E+02 0.0027 25.0 5.2 49 16-64 168-222 (246)
62 cd00884 beta_CA_cladeB Carboni 30.3 1.5E+02 0.0032 23.8 5.5 55 47-111 48-106 (190)
63 PF14432 DYW_deaminase: DYW fa 29.5 96 0.0021 22.8 4.0 52 62-127 59-110 (116)
64 KOG2501|consensus 29.4 58 0.0013 25.8 2.9 30 100-129 43-79 (157)
65 TIGR02196 GlrX_YruB Glutaredox 29.4 70 0.0015 19.7 2.9 24 101-126 9-32 (74)
66 PLN00416 carbonate dehydratase 27.5 3.8E+02 0.0083 22.7 9.7 66 35-110 77-158 (258)
67 cd03008 TryX_like_RdCVF Trypar 27.1 70 0.0015 24.6 3.0 30 100-129 35-76 (146)
68 cd06222 RnaseH RNase H (RNase 27.0 1.9E+02 0.0042 19.1 5.1 54 36-90 14-68 (130)
69 PTZ00051 thioredoxin; Provisio 26.5 72 0.0016 21.4 2.7 12 101-112 29-40 (98)
70 PRK14584 hmsS hemin storage sy 24.5 1.1E+02 0.0024 24.1 3.7 44 97-143 103-146 (153)
71 PF08046 IlvGEDA_leader: IlvGE 24.1 84 0.0018 18.3 2.1 7 99-105 20-26 (32)
72 PRK10424 ilvG operon leader pe 24.1 85 0.0018 18.2 2.1 7 99-105 20-26 (32)
73 PRK06090 DNA polymerase III su 24.0 30 0.00064 30.2 0.4 37 101-140 58-97 (319)
74 PRK15090 DNA-binding transcrip 22.7 2.2E+02 0.0048 23.3 5.3 45 16-61 177-228 (257)
75 PRK07276 DNA polymerase III su 22.7 28 0.0006 30.0 -0.0 41 100-142 55-95 (290)
76 cd02959 ERp19 Endoplasmic reti 22.5 1.6E+02 0.0035 21.3 4.0 14 100-113 29-42 (117)
77 cd02986 DLP Dim1 family, Dim1- 22.4 80 0.0017 23.6 2.4 29 100-128 24-56 (114)
78 PF02887 PK_C: Pyruvate kinase 22.3 1.8E+02 0.0038 20.9 4.2 37 80-129 14-50 (117)
79 TIGR02431 pcaR_pcaU beta-ketoa 21.4 3.5E+02 0.0077 21.9 6.3 47 16-62 171-223 (248)
80 PRK02487 hypothetical protein; 21.2 3.9E+02 0.0085 20.6 7.5 61 9-75 20-81 (163)
81 PF14438 SM-ATX: Ataxin 2 SM d 21.2 1E+02 0.0023 20.6 2.6 16 41-56 15-30 (77)
82 PF08671 SinI: Anti-repressor 21.1 98 0.0021 17.8 2.0 14 12-25 1-14 (30)
83 COG4448 AnsA L-asparaginase II 20.9 78 0.0017 27.7 2.3 29 35-63 24-53 (339)
84 PRK10163 DNA-binding transcrip 20.9 2.3E+02 0.0051 23.5 5.2 46 16-62 189-241 (271)
85 TIGR01052 top6b DNA topoisomer 20.8 2.6E+02 0.0056 26.0 5.8 41 103-143 181-221 (488)
86 PF15626 mono-CXXC: single CXX 20.8 29 0.00062 22.1 -0.3 9 100-108 3-11 (46)
87 cd03020 DsbA_DsbC_DsbG DsbA fa 20.5 2E+02 0.0044 22.4 4.5 23 100-122 87-109 (197)
88 cd02997 PDI_a_PDIR PDIa family 20.2 1.9E+02 0.0042 19.2 3.9 12 101-112 28-39 (104)
No 1
>COG0295 Cdd Cytidine deaminase [Nucleotide transport and metabolism]
Probab=100.00 E-value=2.4e-48 Score=297.36 Aligned_cols=128 Identities=49% Similarity=0.759 Sum_probs=122.5
Q ss_pred HHHHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEEEEeeecccCCCCCCCHHHHHHHHHHHcCCCceeEEEEEeeeCCCC
Q psy2494 17 QNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAISEGQTKFKRIAVSAILPDSN 96 (166)
Q Consensus 17 ~~L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~~G~NvEnas~~~s~CAEr~Ai~~a~~~G~~~i~~i~vv~~~~~~~ 96 (166)
++|+.+|.+++++||+|||+|+|||+++++||++|+|+||||++|+.|+||||+||++|++.|.++|+.|+++. +++
T Consensus 6 ~~l~~~a~~a~~~ay~PYS~F~VGAa~~t~~G~i~tG~NiEnasy~~t~CAErsAI~~ais~G~~~~~~v~v~~---~~~ 82 (134)
T COG0295 6 LELFALAPEAAANAYAPYSKFKVGAALRTKDGRIYTGANVENASYGLTVCAERSAIFKAISEGKRKFDAVVVVA---DTG 82 (134)
T ss_pred HHHHHHHHHHHHhccCcccCCcEEEEEEeCCCCEEEEEeeecccccchhhHHHHHHHHHHHcCCCcEEEEEEEc---CCC
Confidence 38999999999999999999999999999999999999999999999999999999999999999999999999 888
Q ss_pred CccCCCHHHHHHHHHhcCCCCCcEEEEEcCCCceEEEeecccccCCcccCCCCCCCCCC
Q psy2494 97 KFVSPCGSCRQVIAEFSSPACDIQVLIVKSDRSQVGLITIDGMYLTLHCCWERGNLVLP 155 (166)
Q Consensus 97 ~~~~PCG~CRQ~L~E~~~~~~~~~Vi~~~~~g~~~~~~~l~eLLP~~~~~~~~~~~~~~ 155 (166)
.+++|||+|||+|.||+. +|.+|++.+.+|. ++.+||+||||++ |++.+|.
T Consensus 83 ~~~sPCG~CRQ~i~Ef~~--~d~~ii~~~~~~~-~~~~tl~eLLP~~-----F~~~~l~ 133 (134)
T COG0295 83 KPVSPCGACRQVLAEFCG--DDTLIILLPKDGI-VKTMTLGELLPDA-----FGPKDLE 133 (134)
T ss_pred CCcCCcHHHHHHHHHhcC--CCceEEEecCCCc-EEEEEHHHhCccc-----CCccccc
Confidence 999999999999999997 8999999988888 8999999999998 8888875
No 2
>PRK12411 cytidine deaminase; Provisional
Probab=100.00 E-value=2.1e-46 Score=286.74 Aligned_cols=130 Identities=45% Similarity=0.707 Sum_probs=122.0
Q ss_pred HHHHHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEEEEeeecccCCCCCCCHHHHHHHHHHHcCCCceeEEEEEeeeCCC
Q psy2494 16 EQNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAISEGQTKFKRIAVSAILPDS 95 (166)
Q Consensus 16 ~~~L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~~G~NvEnas~~~s~CAEr~Ai~~a~~~G~~~i~~i~vv~~~~~~ 95 (166)
.++|+++|++++++||+|||+|+||||++++||+||+|+|+||++|++|+||||+||++|++.|+++|++|+|++ +.
T Consensus 3 ~~~L~~~a~~~~~~ay~pyS~~~VgAa~~t~~G~i~~G~nvEn~s~~~s~CAE~~Ai~~av~~g~~~i~~i~v~~---~~ 79 (132)
T PRK12411 3 SKQLIQEAIEARKQAYVPYSKFQVGAALLTQDGKVYRGCNVENASYGLCNCAERTALFKAVSEGDKEFVAIAIVA---DT 79 (132)
T ss_pred HHHHHHHHHHHHHhcCCCccCCceEEEEEeCCCCEEEEEEeecCCCCcCcCHHHHHHHHHHHCCCCceEEEEEEe---CC
Confidence 358999999999999999999999999999999999999999999999999999999999999999999999999 77
Q ss_pred CCccCCCHHHHHHHHHhcCCCCCcEEEEEcCCCceEEEeecccccCCcccCCCCCCCCCCC
Q psy2494 96 NKFVSPCGSCRQVIAEFSSPACDIQVLIVKSDRSQVGLITIDGMYLTLHCCWERGNLVLPD 156 (166)
Q Consensus 96 ~~~~~PCG~CRQ~L~E~~~~~~~~~Vi~~~~~g~~~~~~~l~eLLP~~~~~~~~~~~~~~~ 156 (166)
+.+++|||+|||+|.||.+ ++++|++.+.+|. ++.++|+||||++ |++.+|+|
T Consensus 80 ~~~~sPCG~CRQ~l~Ef~~--~~~~v~i~~~~~~-~~~~~l~eLLP~~-----f~~~~l~~ 132 (132)
T PRK12411 80 KRPVPPCGACRQVMVELCK--QDTKVYLSNLHGD-VQETTVGELLPGA-----FLAEDLHE 132 (132)
T ss_pred CCCcCCchhHHHHHHHhCC--CCcEEEEEcCCCC-EEEEEHHHhCcCc-----CCHhhcCC
Confidence 8889999999999999985 6899999998887 8899999999998 78877753
No 3
>PRK05578 cytidine deaminase; Validated
Probab=100.00 E-value=2.2e-46 Score=286.31 Aligned_cols=128 Identities=47% Similarity=0.729 Sum_probs=120.8
Q ss_pred HHHHHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEEEEeeecccCCCCCCCHHHHHHHHHHHcCCCceeEEEEEeeeCCC
Q psy2494 16 EQNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAISEGQTKFKRIAVSAILPDS 95 (166)
Q Consensus 16 ~~~L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~~G~NvEnas~~~s~CAEr~Ai~~a~~~G~~~i~~i~vv~~~~~~ 95 (166)
.++|+++|+++++++|+|||+|+||||++++||++|+|+|+||++|++++||||+||++|++.|+++|++|++++ +.
T Consensus 3 ~~~L~~~a~~~~~~ay~PyS~f~Vgaa~~~~~G~i~~G~nvEna~~~~~~CAE~~Ai~~av~~G~~~i~~i~vv~---~~ 79 (131)
T PRK05578 3 WKELIEAAIEASEKAYAPYSKFPVGAALLTDDGRIYTGCNIENASYGLTNCAERTAIFKAISEGGGRLVAIACVG---ET 79 (131)
T ss_pred HHHHHHHHHHHHHhcCCCcCCCceEEEEEeCCCCEEEEEEeeCccccCCcCHHHHHHHHHHHcCCCceEEEEEEe---cC
Confidence 568999999999999999999999999999999999999999999999999999999999999999999999999 77
Q ss_pred CCccCCCHHHHHHHHHhcCCCCCcEEEEEcCCCceEEEeecccccCCcccCCCCCCCCC
Q psy2494 96 NKFVSPCGSCRQVIAEFSSPACDIQVLIVKSDRSQVGLITIDGMYLTLHCCWERGNLVL 154 (166)
Q Consensus 96 ~~~~~PCG~CRQ~L~E~~~~~~~~~Vi~~~~~g~~~~~~~l~eLLP~~~~~~~~~~~~~ 154 (166)
+.+++|||+|||+|.||.. ++++|++.+.+|. .+.++|+||||++ |++.+|
T Consensus 80 ~~~~sPCG~CRQ~l~e~~~--~~~~v~l~~~~~~-~~~~~l~eLLP~~-----f~~~~l 130 (131)
T PRK05578 80 GEPLSPCGRCRQVLAEFGG--PDLLVTLVAKDGP-TGEMTLGELLPYA-----FTPDDL 130 (131)
T ss_pred CCccCccHHHHHHHHHhCC--CCcEEEEEcCCCC-EEEEEHHHhCcCc-----CChhhc
Confidence 7789999999999999986 7999999999888 8999999999997 677665
No 4
>PRK08298 cytidine deaminase; Validated
Probab=100.00 E-value=1e-44 Score=278.75 Aligned_cols=121 Identities=23% Similarity=0.318 Sum_probs=112.3
Q ss_pred HHHHHHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEEEEeeecccCCCCCCCHHHHHHHHHHHcCCCceeEEEEEeeeCC
Q psy2494 15 IEQNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAISEGQTKFKRIAVSAILPD 94 (166)
Q Consensus 15 ~~~~L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~~G~NvEnas~~~s~CAEr~Ai~~a~~~G~~~i~~i~vv~~~~~ 94 (166)
.+++|+++|+++++++|+||| +||||++++||+||+|+||||++|++|+||||+||++|+++|.+.|+.|+|++ +
T Consensus 3 ~~~~L~~~A~~a~~~aY~PYS--~VgAAllt~dG~i~tG~NvEnas~~~t~CAEr~Ai~~av~~G~~~~~~i~v~~---~ 77 (136)
T PRK08298 3 IEQALYDVAKQLIEQRYPNGW--GGAAAMRVEDGTILTSVAPEVINASTELCMETGAICEAHKLQKRVTHSICVAR---E 77 (136)
T ss_pred HHHHHHHHHHHHHHhccCCCC--ceeEEEEeCCCCEEEEEeecCCCCCcchhHHHHHHHHHHHCCCceEEEEEEEc---C
Confidence 467899999999999999999 99999999999999999999999999999999999999999999999999988 5
Q ss_pred CC----CccCCCHHHHHHHHHhcCCCCCcEEEEEcCCC--ceEEEeecccccCCcc
Q psy2494 95 SN----KFVSPCGSCRQVIAEFSSPACDIQVLIVKSDR--SQVGLITIDGMYLTLH 144 (166)
Q Consensus 95 ~~----~~~~PCG~CRQ~L~E~~~~~~~~~Vi~~~~~g--~~~~~~~l~eLLP~~~ 144 (166)
.+ .+++|||+|||+|+||. ++++|++.+.+| + ++.++|+||||++|
T Consensus 78 ~~~~~~~~~sPCG~CRQvl~Ef~---~~~~v~~~~~~g~~~-~~~~~l~eLLP~~F 129 (136)
T PRK08298 78 NEHSELKVLSPCGVCQERLFYWG---PDVMCAVTNADDPTD-IIFKPLKELQPYHW 129 (136)
T ss_pred CCcCCCcccCCChhHHHHHHHhC---CCCEEEEECCCCCce-EEEEEHHHhCchhh
Confidence 44 26899999999999995 899999999888 5 78999999999973
No 5
>PRK06848 hypothetical protein; Validated
Probab=100.00 E-value=7.7e-44 Score=274.72 Aligned_cols=126 Identities=27% Similarity=0.421 Sum_probs=114.1
Q ss_pred CCHHHHHHHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEEEEeeecccCCCCCCCHHHHHHHHHHHcCCCceeEEEEEee
Q psy2494 12 LDPIEQNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAISEGQTKFKRIAVSAI 91 (166)
Q Consensus 12 l~~~~~~L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~~G~NvEnas~~~s~CAEr~Ai~~a~~~G~~~i~~i~vv~~ 91 (166)
+++++++|+++|+++++++|+| |+|+||||++++||+||+|+|+||++|+.|+||||+||++|+++|+++|++|++++.
T Consensus 3 ~~~~~~~L~~~A~~a~~~ay~p-s~f~VgAa~l~~~G~i~~G~NvEnas~~~tiCAEr~Ai~~av~~g~~~i~~i~~v~~ 81 (139)
T PRK06848 3 LNSEDYELIKAAEKVIEKRYRN-DWHHVGAALRTKTGRIYAAVHLEAYVGRITVCAEAIAIGKAISEGDHEIDTIVAVRH 81 (139)
T ss_pred cCHHHHHHHHHHHHHHHhccCC-CCCcEEEEEEeCCCCEEEEEEeecCCCCcccCHHHHHHHHHHHcCCCceEEEEEEec
Confidence 6678889999999999999998 999999999999999999999999999999999999999999999999999988872
Q ss_pred eCC-----CCCccCCCHHHHHHHHHhcCCCCCcEEEEEcCCCceEEEeecccccCCc
Q psy2494 92 LPD-----SNKFVSPCGSCRQVIAEFSSPACDIQVLIVKSDRSQVGLITIDGMYLTL 143 (166)
Q Consensus 92 ~~~-----~~~~~~PCG~CRQ~L~E~~~~~~~~~Vi~~~~~g~~~~~~~l~eLLP~~ 143 (166)
... ...+++|||+|||+|.||. ++++|++.+.++ ++.++|+||||++
T Consensus 82 ~~~~~~~~~~~~~~PCG~CRQvl~E~~---~~~~v~v~~~~~--~~~~~l~eLLP~~ 133 (139)
T PRK06848 82 PKPHEDDREIWVVSPCGACRELISDYG---KNTNVIVPYNDE--LVKVNIMELLPNK 133 (139)
T ss_pred CcccccccCCCccCCChhhHHHHHHhC---CCCEEEEECCCC--eEEEEHHHhCccc
Confidence 110 0247899999999999996 799999988776 6889999999997
No 6
>TIGR01354 cyt_deam_tetra cytidine deaminase, homotetrameric. This small, homotetrameric zinc metalloprotein is found in humans and most bacteria. A related, homodimeric form with a much larger subunit is found in E. coli and in Arabidopsis. Both types may act on deoxycytidine as well as cytidine.
Probab=100.00 E-value=1.8e-42 Score=262.98 Aligned_cols=126 Identities=48% Similarity=0.737 Sum_probs=118.4
Q ss_pred HHHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEEEEeeecccCCCCCCCHHHHHHHHHHHcCCCceeEEEEEeeeCCCCC
Q psy2494 18 NLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAISEGQTKFKRIAVSAILPDSNK 97 (166)
Q Consensus 18 ~L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~~G~NvEnas~~~s~CAEr~Ai~~a~~~G~~~i~~i~vv~~~~~~~~ 97 (166)
+|+++|++++++||+|||+|+|||+++++||+||+|+|+||++|++++||||+||.+|++.|.++|++|++++ +.+.
T Consensus 2 ~l~~~a~~a~~~ay~PyS~~~vgAa~~~~~G~i~~G~n~e~~~~~~s~~AE~~Ai~~a~~~g~~~i~~i~vv~---~~~~ 78 (127)
T TIGR01354 2 KLFKAAQEARKNAYAPYSNFKVGAALLTKDGRIFTGVNVENASYPLTICAERSAIGKAISAGYRKFVAIAVAD---SADD 78 (127)
T ss_pred HHHHHHHHHHHhcCCCcCCCeEEEEEEeCCCCEEEEEeecccCCCCCcCHHHHHHHHHHHcCCCCeEEEEEEe---CCCC
Confidence 6899999999999999999999999999999999999999999999999999999999999999999999999 6677
Q ss_pred ccCCCHHHHHHHHHhcCCCCCcEEEEEcCCCceEEEeecccccCCcccCCCCCCCCC
Q psy2494 98 FVSPCGSCRQVIAEFSSPACDIQVLIVKSDRSQVGLITIDGMYLTLHCCWERGNLVL 154 (166)
Q Consensus 98 ~~~PCG~CRQ~L~E~~~~~~~~~Vi~~~~~g~~~~~~~l~eLLP~~~~~~~~~~~~~ 154 (166)
+++|||+|||+|.||+. ++++|++.+.+|. ++.++|+||||++ |++.+|
T Consensus 79 ~~sPCG~Crq~l~e~~~--~~~~v~~~~~~~~-~~~~~l~eLLP~~-----f~~~~l 127 (127)
T TIGR01354 79 PVSPCGACRQVLAEFAG--PDTPIYMTNNDGT-YKVYTVGELLPFG-----FGPSDL 127 (127)
T ss_pred CcCccHHHHHHHHHhCC--CCcEEEEECCCCC-EEEEEHHHhCcCc-----CCcCcC
Confidence 88999999999999986 7999999999998 8899999999997 566553
No 7
>TIGR01355 cyt_deam_dimer cytidine deaminase, homodimeric. This homodimeric zinc metalloprotein is found in Arabidopis and some Proteobacteria. A related, homotetrameric form with a much smaller subunit is found most bacteria and in animals. Both types may act on deoxycytidine as well as cytidine.
Probab=100.00 E-value=2.5e-40 Score=280.13 Aligned_cols=133 Identities=26% Similarity=0.313 Sum_probs=119.0
Q ss_pred ccCCCCHHHHHHHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEEEEeeec--ccCCCCCCCHHHHHHHHHHHcCCCceeE
Q psy2494 8 EFSALDPIEQNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVE--NASYGMTICAEKTAISKAISEGQTKFKR 85 (166)
Q Consensus 8 ~~~~l~~~~~~L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~~G~NvE--nas~~~s~CAEr~Ai~~a~~~G~~~i~~ 85 (166)
....++ +++.|+++|.+++++||+|||+|+|||+++++||+||+|+|+| |++|+.|+||||+||++|+++|+++|++
T Consensus 15 ~~~~~~-~~~~L~~~a~~a~~~AyaPYS~F~VGAall~~~G~iy~GvNvE~~nas~~~tiCAEr~Ai~~Av~~Ge~~i~~ 93 (283)
T TIGR01355 15 HNFGVT-DPKLLPKLIPKAASYARAPISKFNVGAVGRGSSGRFYLGVNVEFPGLPLHHSIHAEQFLISHLALNNERGLND 93 (283)
T ss_pred HHhCCC-hHHHHHHHHHHHHhcCcCCccCCeeeEEEEeCCCCEEEEEEeccCCCCCCccccHHHHHHHHHHHcCCCceEE
Confidence 345566 4458999999999999999999999999999999999999999 9999999999999999999999999999
Q ss_pred EEEEeeeCCCCCccCCCHHHHHHHHHhcCCCCCcEEEEEcCCCceEEEeecccccCCcccCCCCCCCCCCCCc
Q psy2494 86 IAVSAILPDSNKFVSPCGSCRQVIAEFSSPACDIQVLIVKSDRSQVGLITIDGMYLTLHCCWERGNLVLPDPK 158 (166)
Q Consensus 86 i~vv~~~~~~~~~~~PCG~CRQ~L~E~~~~~~~~~Vi~~~~~g~~~~~~~l~eLLP~~~~~~~~~~~~~~~~~ 158 (166)
|+|+. +|||+|||+|.||.+ .++++|++.+.+|. +.++|+||||++ |+|.+|....
T Consensus 94 Iav~~---------~PCG~CRQ~l~Ef~~-~~~~~i~l~~~~~~--~~~~l~eLLP~~-----F~~~dL~~~~ 149 (283)
T TIGR01355 94 LAVSY---------APCGHCRQFLNEIRN-ASSIKILLPDPHNN--RDMSLHSYLPDR-----FGPDDLLIKA 149 (283)
T ss_pred EEEEe---------CCcchhHHHHHHhcC-CCCcEEEEEcCCCc--EEeeHHHhCcCc-----CChhhcCccc
Confidence 99876 899999999999974 25899999988775 668999999998 7888876654
No 8
>PLN02402 cytidine deaminase
Probab=100.00 E-value=2.4e-39 Score=275.74 Aligned_cols=133 Identities=32% Similarity=0.403 Sum_probs=117.4
Q ss_pred cCCCCHHHHHHHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEEEEeeecccCCCC--CCCHHHHHHHHHHHcCCCceeEE
Q psy2494 9 FSALDPIEQNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGM--TICAEKTAISKAISEGQTKFKRI 86 (166)
Q Consensus 9 ~~~l~~~~~~L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~~G~NvEnas~~~--s~CAEr~Ai~~a~~~G~~~i~~i 86 (166)
...++ +++-|...+.+++++||+|||+|+||||++++||+||+|+||||++|++ |+||||+||++|+++|+++|++|
T Consensus 19 ~~g~~-~~~ll~~l~~~A~~~AyaPYS~F~VGAa~l~~~G~i~~GvNVEnasy~l~~tiCAEr~Ai~~av~~G~~~i~~i 97 (303)
T PLN02402 19 QSGLT-VLQLLPSLVKSAQSLARPPISKYHVGAVGLGSSGRIFLGVNLEFPGLPLHHSVHAEQFLITNLTLNAEPHLKYV 97 (303)
T ss_pred HhCCC-HHHHHHHHHHHHHHhcCCCCCCCeeeEEEEeCCCCEEEEEeeecCCCCCCCcccHHHHHHHHHHHcCCCceEEE
Confidence 34455 3456788899999999999999999999999999999999999999987 99999999999999999999999
Q ss_pred EEEeeeCCCCCccCCCHHHHHHHHHhcCCCCCcEEEEEcCCCc----------eEEEeecccccCCcccCCCCCCCCCCC
Q psy2494 87 AVSAILPDSNKFVSPCGSCRQVIAEFSSPACDIQVLIVKSDRS----------QVGLITIDGMYLTLHCCWERGNLVLPD 156 (166)
Q Consensus 87 ~vv~~~~~~~~~~~PCG~CRQ~L~E~~~~~~~~~Vi~~~~~g~----------~~~~~~l~eLLP~~~~~~~~~~~~~~~ 156 (166)
+|+. +|||+|||+|.||.. .++++|++.+.++. ..+.++|+||||++ |+|.+|.+
T Consensus 98 aV~~---------sPCG~CRQ~l~Ef~~-~~~~~I~i~~~~~~~~~~~~~~~~~~~~~~l~eLLP~~-----Fgp~dL~~ 162 (303)
T PLN02402 98 AVSA---------APCGHCRQFFQEIRD-APDIKILITGDSNSNDSYKNSLADSQQFEPLSCLLPHR-----FGPDDLLD 162 (303)
T ss_pred EEEe---------CCCcccHHHHHHhcC-CCCcEEEEECCCCCccccccccccceeeeeHHHhCcCc-----CChhhccc
Confidence 8877 799999999999962 26899999887773 14568999999998 89999977
Q ss_pred C
Q psy2494 157 P 157 (166)
Q Consensus 157 ~ 157 (166)
+
T Consensus 163 ~ 163 (303)
T PLN02402 163 K 163 (303)
T ss_pred c
Confidence 7
No 9
>PLN02182 cytidine deaminase
Probab=100.00 E-value=1.9e-37 Score=266.90 Aligned_cols=122 Identities=26% Similarity=0.407 Sum_probs=105.9
Q ss_pred HHHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEEEEeeecccCCCC--CCCHHHHHHHHHHHcCCCcee--EEEEEeeeC
Q psy2494 18 NLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGM--TICAEKTAISKAISEGQTKFK--RIAVSAILP 93 (166)
Q Consensus 18 ~L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~~G~NvEnas~~~--s~CAEr~Ai~~a~~~G~~~i~--~i~vv~~~~ 93 (166)
-+...+..++++||+|||+|+|||+++++||+||+|+|+||++|++ |+||||+||++|+++|+++|+ +|+|++
T Consensus 47 ll~~Ll~~A~~~AyaPyS~F~VGAa~l~~sG~iy~GvNVEnas~pl~~tICAEr~AI~~A~~~Ge~~i~~iaVaV~~--- 123 (339)
T PLN02182 47 RLPNLIRKAMCLARAPISKYKVGAVGRASSGRVYLGVNVDFPGLPLHHSIHAEQFLVTNLALNSEKDLCELAVAIST--- 123 (339)
T ss_pred HHHHHHHHHHhcCcCCccCCeeeEEEEeCCCCEEEEEEeecCCCccCCccCHHHHHHHHHHHCCCCceEEEEEEEec---
Confidence 3444667789999999999999999999999999999999999999 999999999999999999999 555556
Q ss_pred CCCCccCCCHHHHHHHHHhcCCCCCcEEEEEcCCCceEEEeecccccCCcc
Q psy2494 94 DSNKFVSPCGSCRQVIAEFSSPACDIQVLIVKSDRSQVGLITIDGMYLTLH 144 (166)
Q Consensus 94 ~~~~~~~PCG~CRQ~L~E~~~~~~~~~Vi~~~~~g~~~~~~~l~eLLP~~~ 144 (166)
+...+.+|||+|||+|.||.. .++++|++.+.++. .+..+|+||||++|
T Consensus 124 ~~~~~~sPCG~CRQfm~Ef~~-~~di~I~l~~~~~~-~~~~tL~eLLP~~F 172 (339)
T PLN02182 124 DGKEFGTPCGHCLQFLMEMSN-ALDIKILSKPKHEA-GSFSSLRHLLPNVL 172 (339)
T ss_pred CCCCCcCCCchhHHHHHHhCC-CCCeEEEEcCCCCc-eEEeEHHHhCcCcC
Confidence 556678999999999999974 24899987766665 66789999999974
No 10
>PRK09027 cytidine deaminase; Provisional
Probab=100.00 E-value=1.6e-35 Score=252.14 Aligned_cols=120 Identities=29% Similarity=0.369 Sum_probs=106.4
Q ss_pred HHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEEEEeeeccc--CCCCCCCHHHHHHHHHHHcCCCceeEEEEEeeeCCCC
Q psy2494 19 LANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENA--SYGMTICAEKTAISKAISEGQTKFKRIAVSAILPDSN 96 (166)
Q Consensus 19 L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~~G~NvEna--s~~~s~CAEr~Ai~~a~~~G~~~i~~i~vv~~~~~~~ 96 (166)
++.....++++||+|||+|+||||++++||++|+|+|+||+ +|+.|+||||+||++|+++|+++|++|+|+.
T Consensus 53 ~~~ll~~a~~~AyaPyS~F~VGAa~~~~sG~iy~GvNvE~~~~s~~~tiCAEr~Ai~~a~~~Ge~~i~~I~v~~------ 126 (295)
T PRK09027 53 ALALLPLAAACAVTPISHFNVGAIARGVSGNFYFGANMEFAGAALQQTVHAEQSAISHAWLRGEKAIADITVNY------ 126 (295)
T ss_pred HHHHHHHHHHhccCCCCCCcEEEEEEeCCCCEEEEEeeccCCCCCCCCcCHHHHHHHHHHHCCCCceEEEEEEe------
Confidence 44667789999999999999999999999999999999996 8999999999999999999999999999987
Q ss_pred CccCCCHHHHHHHHHhcCCCCCcEEEEEcCCCceEEEeecccccCCcccCCCCCCCCCCCCc
Q psy2494 97 KFVSPCGSCRQVIAEFSSPACDIQVLIVKSDRSQVGLITIDGMYLTLHCCWERGNLVLPDPK 158 (166)
Q Consensus 97 ~~~~PCG~CRQ~L~E~~~~~~~~~Vi~~~~~g~~~~~~~l~eLLP~~~~~~~~~~~~~~~~~ 158 (166)
+|||+|||+|.||.+ .++++|++.+. +.++|+||||++ |||.||....
T Consensus 127 ---sPCG~CRQ~l~E~~~-~~~~~i~~~~~-----~~~~L~elLP~~-----F~~~dl~~~~ 174 (295)
T PRK09027 127 ---TPCGHCRQFMNELNS-ASDLRIHLPGR-----QAHTLHDYLPDA-----FGPKDLNITT 174 (295)
T ss_pred ---cCchhhHHHHHHhCC-CCCeEEEEcCC-----ccccHHHhCcCc-----CChhhcCccc
Confidence 899999999999973 35788877542 357999999998 7888886654
No 11
>KOG0833|consensus
Probab=100.00 E-value=3.5e-35 Score=231.72 Aligned_cols=112 Identities=42% Similarity=0.645 Sum_probs=98.2
Q ss_pred CHHHHHHHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEEEEeeecccCCCCCCCHHHHHHHHHHHcCCCceeEEEEEeee
Q psy2494 13 DPIEQNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAISEGQTKFKRIAVSAIL 92 (166)
Q Consensus 13 ~~~~~~L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~~G~NvEnas~~~s~CAEr~Ai~~a~~~G~~~i~~i~vv~~~ 92 (166)
.++.++|+.++++|++.||+|||+|+|||+++++||+||.||||||++|..++||||.||.+++++|++++.+++|+..
T Consensus 18 ~~~~~~L~~l~~~A~~~AyaPyS~fkVGA~~r~ssGrif~G~NVEn~~~~~sIcAEr~ai~~l~l~g~~k~~~~aV~~~- 96 (173)
T KOG0833|consen 18 VEDPQELLKLARKAMKLAYAPYSKFKVGAAGRASSGRIFLGVNVENASYHHSICAERFAIANLALNGERKFRAIAVVAY- 96 (173)
T ss_pred CCCHHHHHHHHHHHHHhccCCccCCceEEEEEecCCcEEEeeeecccCCCCcccHHHHHHHHHHHcCcccceEEEEEec-
Confidence 3457899999999999999999999999999999999999999999999999999999999999999999999888762
Q ss_pred CCCCCccCCCHHHHHHHHHhcCCCCCcEEEEEcCCCc
Q psy2494 93 PDSNKFVSPCGSCRQVIAEFSSPACDIQVLIVKSDRS 129 (166)
Q Consensus 93 ~~~~~~~~PCG~CRQ~L~E~~~~~~~~~Vi~~~~~g~ 129 (166)
+.+.+.+|||.|||+|.||.+ ...|++...++.
T Consensus 97 -~~~~f~tPCG~CRQfl~Ef~~---~~~l~~~~~n~~ 129 (173)
T KOG0833|consen 97 -EDGDFTTPCGVCRQFLREFGN---ASLLLEYRANCL 129 (173)
T ss_pred -CCCCcCCCcHHHHHHHHHHhh---cceeeeecCCCc
Confidence 445599999999999999983 334555444443
No 12
>PRK09027 cytidine deaminase; Provisional
Probab=100.00 E-value=8.9e-33 Score=235.40 Aligned_cols=104 Identities=18% Similarity=0.323 Sum_probs=96.3
Q ss_pred HHHHHHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEEEEeeecccCCCCCCCHHHHHHHHHHHcCCC--ceeEEEEEeee
Q psy2494 15 IEQNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAISEGQT--KFKRIAVSAIL 92 (166)
Q Consensus 15 ~~~~L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~~G~NvEnas~~~s~CAEr~Ai~~a~~~G~~--~i~~i~vv~~~ 92 (166)
++++|+++|++++++||+|||+|+|||||+++||+||+|+|+||++|++|+||||+||++|++.|.+ +|+++++++
T Consensus 188 ~~~~L~~~A~~aa~~SYaPYS~f~vGaAl~~~dG~i~~G~nvENAAynpslcaer~Al~~~v~~G~~~~~i~~i~lv~-- 265 (295)
T PRK09027 188 TGDPLIQAALDAANRSHAPYSQSYSGVALETKDGRIYTGRYAENAAFNPSLPPLQGALNLLNLSGEDFSDIQRAVLVE-- 265 (295)
T ss_pred CHHHHHHHHHHHHHhccCCccCCceeEEEEeCCCCEEEEEEEEcCCCCCcccHHHHHHHHHHHcCCCccCEEEEEEEe--
Confidence 3467999999999999999999999999999999999999999999999999999999999999985 899999999
Q ss_pred CCCCCccCCCHHHHHHHHHhcCCCCCcEEEE
Q psy2494 93 PDSNKFVSPCGSCRQVIAEFSSPACDIQVLI 123 (166)
Q Consensus 93 ~~~~~~~~PCG~CRQ~L~E~~~~~~~~~Vi~ 123 (166)
+.+.+++|||+|||+|.||++ .+++.+.
T Consensus 266 -~~~~~ispcg~cRq~L~ef~~--~~~~~~~ 293 (295)
T PRK09027 266 -KADAKLSQWDATQATLKALGC--HELERVL 293 (295)
T ss_pred -CCCCCcCchHHHHHHHHHhCC--CCcEEEe
Confidence 778889999999999999986 5666554
No 13
>TIGR01355 cyt_deam_dimer cytidine deaminase, homodimeric. This homodimeric zinc metalloprotein is found in Arabidopis and some Proteobacteria. A related, homotetrameric form with a much smaller subunit is found most bacteria and in animals. Both types may act on deoxycytidine as well as cytidine.
Probab=99.96 E-value=3.2e-29 Score=212.53 Aligned_cols=97 Identities=21% Similarity=0.399 Sum_probs=86.7
Q ss_pred HHHHHHHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEEEEeeecccCCCCCCCHHHHHHHHHHHcCC-C---ceeEEEEE
Q psy2494 14 PIEQNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAISEGQ-T---KFKRIAVS 89 (166)
Q Consensus 14 ~~~~~L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~~G~NvEnas~~~s~CAEr~Ai~~a~~~G~-~---~i~~i~vv 89 (166)
++.++|+++|++++++||+|||+|+||||++++||++|+|+|+||++|++|+||||+||++|+++|. + +|++++++
T Consensus 172 ~~~~~l~~~A~~a~~~sYaPYS~f~vgaal~~~~g~i~~G~nvENAay~~slcaer~Ai~~~v~~g~g~~~~~i~~aVl~ 251 (283)
T TIGR01355 172 SEISHLKQQALKAANRSYAPYSKSPSGVALLDKEGKVYRGWYIESAAFNPSLGPVQAALVDFMANGGGKGFEDIVRAVLV 251 (283)
T ss_pred chHHHHHHHHHHHHHhccCCCcCCceeEEEEeCCCCEEEEEEeecCCCCCcccHHHHHHHHHHHhCCCCChhheeEEEEE
Confidence 4456799999999999999999999999999999999999999999999999999999999999852 3 45666666
Q ss_pred eeeCCCCCccCCCHHHHHHHHHhc
Q psy2494 90 AILPDSNKFVSPCGSCRQVIAEFS 113 (166)
Q Consensus 90 ~~~~~~~~~~~PCG~CRQ~L~E~~ 113 (166)
. ..+..++|||+|||+|.||+
T Consensus 252 e---~~~~~vs~~~~~r~~l~~~~ 272 (283)
T TIGR01355 252 E---KADAKVSHEATARTLLETIA 272 (283)
T ss_pred e---cCCCccChHHHHHHHHHHhC
Confidence 6 55567899999999999997
No 14
>cd01283 cytidine_deaminase Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on the substrate. Cytidine deaminases catalyze the deamination of cytidine to uridine and are important in the pyrimadine salvage pathway in many cell types, from bacteria to humans. This family also includes the apoBec proteins, which are a mammal specific expansion of RNA editing enzymes, and the closely related phorbolins, and the AID (activation-induced) enzymes.
Probab=99.95 E-value=4.5e-27 Score=173.60 Aligned_cols=110 Identities=46% Similarity=0.748 Sum_probs=94.8
Q ss_pred HHHHHHHHhcCCCCCCCceEEEEEeCCCcEEEEeeecccCCCCCCCHHHHHHHHHHHcCCCceeEEEEEeeeCCCCCccC
Q psy2494 21 NLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAISEGQTKFKRIAVSAILPDSNKFVS 100 (166)
Q Consensus 21 ~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~~G~NvEnas~~~s~CAEr~Ai~~a~~~G~~~i~~i~vv~~~~~~~~~~~ 100 (166)
++|+++++++|.|||+|+|||+++++||++|+|+|+|+++++.++|||+.||.+|.+.|.+.+...+.++ +...+.+
T Consensus 2 ~~a~~~~~~a~~~~~~~~vga~i~~~~g~i~~G~n~e~~~~~~~~hAE~~ai~~~~~~~~~~~~~~i~vs---~~~~~~s 78 (112)
T cd01283 2 EAALAAAEFAYAPYSNFTVGAALLTKDGRIFTGVNVENASYGLTLCAERTAIGKAVSEGLRRYLVTWAVS---DEGGVWS 78 (112)
T ss_pred HHHHHHHHhCcCCCCCCeEEEEEEECCCCEEEeEEeecCCCCCCcCHHHHHHHHHHHcCCCceEEEEEEE---CCCCccC
Confidence 5678888899999999999999999999999999999999999999999999999999885555555555 3467889
Q ss_pred CCHHHHHHHHHhcCCCCCcEEEEEcCCCceEEEeec
Q psy2494 101 PCGSCRQVIAEFSSPACDIQVLIVKSDRSQVGLITI 136 (166)
Q Consensus 101 PCG~CRQ~L~E~~~~~~~~~Vi~~~~~g~~~~~~~l 136 (166)
|||+|||+|.||.. .++.+++.+.++. .+.+++
T Consensus 79 PC~~C~~~l~~~~~--~~v~~~~~~~~~~-~~~~~~ 111 (112)
T cd01283 79 PCGACRQVLAEFLP--SRLYIIIDNPKGE-EFAYTL 111 (112)
T ss_pred CCHHHHHHHHHhCC--CCeEEEEEcCCCC-EEEEec
Confidence 99999999999985 5888888888875 555554
No 15
>PLN02402 cytidine deaminase
Probab=99.93 E-value=4.5e-25 Score=188.37 Aligned_cols=106 Identities=20% Similarity=0.388 Sum_probs=96.1
Q ss_pred HHHHHHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEEEEeeecccCCCCCCCHHHHHHHHHHHcC----CCceeEEEEEe
Q psy2494 15 IEQNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAISEG----QTKFKRIAVSA 90 (166)
Q Consensus 15 ~~~~L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~~G~NvEnas~~~s~CAEr~Ai~~a~~~G----~~~i~~i~vv~ 90 (166)
..++|+++|++++++||+|||+|+||||+++.||+||+|+|+||++|++|+||||+||++|++.| .++|++++++.
T Consensus 191 ~~~~L~~~A~~a~~~sYaPYS~f~VGaal~~~dG~i~~G~nvENAay~~slcAer~Ai~~~v~~G~g~~~~~i~~ivlve 270 (303)
T PLN02402 191 SSDDLKNEALEAANKSHAPYSNCPSGVALMDCEGKVYRGSYMESAAYNPSMGPVQAALVAYVAGGRGGGYERIVAAVLVE 270 (303)
T ss_pred cHHHHHHHHHHHHHcccCCccCCceeEEEEeCCCCEEEEEEEEcCCCCCcccHHHHHHHHHHHcCCCCccccEEEEEEEe
Confidence 35789999999999999999999999999999999999999999999999999999999999997 46899999999
Q ss_pred eeCCCCCccCCCHHHHHHHHHhcCCCCCcEEEEE
Q psy2494 91 ILPDSNKFVSPCGSCRQVIAEFSSPACDIQVLIV 124 (166)
Q Consensus 91 ~~~~~~~~~~PCG~CRQ~L~E~~~~~~~~~Vi~~ 124 (166)
..+..++.=+++|.+|..+++ ..+++++.+
T Consensus 271 ---~~~~~vs~~~~~~~~L~~iap-~~~l~~~~~ 300 (303)
T PLN02402 271 ---KEGAVVRQEQTARLLLKEISP-KCEFKVFHC 300 (303)
T ss_pred ---cCCCccchHHHHHHHHHhhCC-CCceEEEEE
Confidence 777788999999999999973 346666654
No 16
>PF08211 dCMP_cyt_deam_2: Cytidine and deoxycytidylate deaminase zinc-binding region ; InterPro: IPR013171 This region contains the zinc-binding domain of cytidine and deoxycytidylate deaminase. Cytidine deaminase (3.5.4.5 from EC) (cytidine aminohydrolase) catalyzes the hydrolysis of cytidine into uridine and ammonia while deoxycytidylate deaminase (3.5.4.12 from EC) (dCMP deaminase) hydrolyzes dCMP into dUMP. Both enzymes are known to bind zinc and to require it for their catalytic activity [, ]. These two enzymes do not share any sequence similarity with the exception of a region that contains three conserved histidine and cysteine residues which are thought to be involved in the binding of the catalytic zinc ion.; GO: 0004126 cytidine deaminase activity, 0008270 zinc ion binding; PDB: 1CTU_A 1AF2_A 1ALN_A 1CTT_A 4EG2_C.
Probab=99.84 E-value=6.2e-21 Score=144.53 Aligned_cols=75 Identities=31% Similarity=0.522 Sum_probs=60.1
Q ss_pred HHHHHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEEEEeeecccCCCCCCCHHHHHHHHHHHcCC--CceeEEEEEe
Q psy2494 16 EQNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAISEGQ--TKFKRIAVSA 90 (166)
Q Consensus 16 ~~~L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~~G~NvEnas~~~s~CAEr~Ai~~a~~~G~--~~i~~i~vv~ 90 (166)
.+.|+++|++++++||+|||++++|+||++.||+||+|+|+||++|++|+|++|+|+..++.+|. .+|++++++.
T Consensus 33 ~d~l~~~A~~Aa~~syaPYS~~~sGvAL~~~~G~i~~G~y~EnAAfNPSl~PlQ~AL~~~~~~G~~~~~I~~avLvE 109 (124)
T PF08211_consen 33 EDPLVQAALEAANRSYAPYSKCPSGVALLTSDGRIYTGRYAENAAFNPSLPPLQAALVQAVLAGKDFEDIVRAVLVE 109 (124)
T ss_dssp SSHHHHHHHHHHCT-B-TTT---EEEEEEETTS-EEEEE-B--TTSTT-B-HHHHHHHHHHHTT--GGGEEEEEEEE
T ss_pred ccHHHHHHHHHHHhccCCccCCceeEEEEeCCCCEEEEEEEeecccCCChHHHHHHHHHHHHcCCChhhEeEEEEEE
Confidence 45699999999999999999999999999999999999999999999999999999999999987 4899999999
No 17
>cd00786 cytidine_deaminase-like Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on the substrate.
Probab=99.75 E-value=1.6e-17 Score=119.91 Aligned_cols=85 Identities=42% Similarity=0.646 Sum_probs=72.7
Q ss_pred HHHHHHHHhcCCCCCCCceEEEEEeC--CCcEEEEeeecccCCCCCCCHHHHHHHHHHHcCCCceeEEEEEeeeCCCCCc
Q psy2494 21 NLSIQARDNAYCPYSKLQVGAALLCQ--DDTIFTGCNVENASYGMTICAEKTAISKAISEGQTKFKRIAVSAILPDSNKF 98 (166)
Q Consensus 21 ~~A~~a~~~ayaPyS~f~VGAAv~~~--dG~i~~G~NvEnas~~~s~CAEr~Ai~~a~~~G~~~i~~i~vv~~~~~~~~~ 98 (166)
+.|+++++++|.++++++|||+++++ ++.+++|+|.++..++++.|||+.||.++...+..+...+++.
T Consensus 2 ~~a~~~a~~a~~~~~~~pVGaviv~~~~g~ii~~g~n~~~~~~~~~~HAE~~ai~~a~~~~~~~~~tly~t--------- 72 (96)
T cd00786 2 TEALKAADLGYAKESNFQVGACLVNKKDGGKVGRGCNIENAAYSMCNHAERTALFNAGSEGDTKGQMLYVA--------- 72 (96)
T ss_pred HHHHHHHHhccCCCCCCCEEEEEEEeCCCCeEeeeEeccCCCCCCeeCHHHHHHHHHHHcCCCCceEEEEE---------
Confidence 57889999999999999999999987 4457799999999999999999999999998876444444443
Q ss_pred cCCCHHHHHHHHHhcC
Q psy2494 99 VSPCGSCRQVIAEFSS 114 (166)
Q Consensus 99 ~~PCG~CRQ~L~E~~~ 114 (166)
..||++|+|+|.+++-
T Consensus 73 lePC~mC~~ai~~~gi 88 (96)
T cd00786 73 LSPCGACAQLIIELGI 88 (96)
T ss_pred CCChHHHHHHHHHhCC
Confidence 4899999999999983
No 18
>PF00383 dCMP_cyt_deam_1: Cytidine and deoxycytidylate deaminase zinc-binding region; InterPro: IPR002125 Cytidine deaminase (3.5.4.5 from EC) (cytidine aminohydrolase) catalyzes the hydrolysis of cytidine into uridine and ammonia while deoxycytidylate deaminase (3.5.4.12 from EC) (dCMP deaminase) hydrolyzes dCMP into dUMP. Both enzymes are known to bind zinc and to require it for their catalytic activity [, ]. These two enzymes do not share any sequence similarity with the exception of a region that contains three conserved histidine and cysteine residues which are thought to be involved in the binding of the catalytic zinc ion. Such a region is also found in other proteins [, ]: Yeast cytosine deaminase (3.5.4.1 from EC) (gene FCY1) which transforms cytosine into uracil. Mammalian apolipoprotein B mRNA editing protein, responsible for the postranscriptional editing of a CAA codon into a UAA (stop) codon in the APOB mRNA. Riboflavin biosynthesis protein ribG, which converts 2,5-diamino-6-(ribosylamino)-4(3H)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1H,3H)-pyrimidinedione 5'-phosphate. Bacillus cereus blasticidin-S deaminase (3.5.4.23 from EC), which catalyzes the deamination of the cytosine moiety of the antibiotics blasticidin S, cytomycin and acetylblasticidin S. Bacillus subtilis protein comEB. This protein is required for the binding and uptake of transforming DNA. B. subtilis hypothetical protein yaaJ. Escherichia coli hypothetical protein yfhC. Yeast hypothetical protein YJL035c. ; GO: 0008270 zinc ion binding, 0016787 hydrolase activity; PDB: 3MPZ_C 3R2N_C 1WKQ_A 1TIY_B 2B3J_C 2O7P_B 2OBC_A 2G6V_B 2D30_B 2D5N_B ....
Probab=99.64 E-value=2.9e-15 Score=107.69 Aligned_cols=91 Identities=27% Similarity=0.428 Sum_probs=73.7
Q ss_pred HHHHHHHHHHHHHHhcCCCCCCCceEEEEEeC-CCcEEEEeeecccCCCCCCCHHHHHHHHHHHcCCCceeEEEEEeeeC
Q psy2494 15 IEQNLANLSIQARDNAYCPYSKLQVGAALLCQ-DDTIFTGCNVENASYGMTICAEKTAISKAISEGQTKFKRIAVSAILP 93 (166)
Q Consensus 15 ~~~~L~~~A~~a~~~ayaPyS~f~VGAAv~~~-dG~i~~G~NvEnas~~~s~CAEr~Ai~~a~~~G~~~i~~i~vv~~~~ 93 (166)
+++++++.|++++++++ +.++++|||+++++ ++.+++|.|.+....++++|||+.||.++...|...++...++.
T Consensus 3 ~~~~~m~~a~~~a~~s~-~~~~~~vgaviv~~~~~~i~~g~n~~~~~~~~~~HAE~~Ai~~~~~~~~~~~~~~~lyv--- 78 (102)
T PF00383_consen 3 WDEEFMRIAIELAKRSR-PCGNFPVGAVIVDPDGKIIATGYNGEPPGKNPTIHAEMNAIRKAARNGGSSLKGCTLYV--- 78 (102)
T ss_dssp HHHHHHHHHHHHHHTHB-TTTSSSEEEEEEETTTEEEEEEESBHHSTTGGTB-HHHHHHHHHHHTTSSGETTEEEEE---
T ss_pred HHHHHHHHHHHHHHhcc-ccCCCCEEEEEEeccCccEEEEeeeeeeeccccccchhhhhhhhhhhccccccCccccc---
Confidence 46789999999999998 78999999999995 45688999999988889999999999999999744563222222
Q ss_pred CCCCccCCCHHHHHHHHHhc
Q psy2494 94 DSNKFVSPCGSCRQVIAEFS 113 (166)
Q Consensus 94 ~~~~~~~PCG~CRQ~L~E~~ 113 (166)
...||++|++.|.+++
T Consensus 79 ----t~ePC~~C~~ai~~~g 94 (102)
T PF00383_consen 79 ----TLEPCGMCAMAIVHAG 94 (102)
T ss_dssp ----EE--BHHHHHHHHHHT
T ss_pred ----CCCCHHHHHHHHHHHC
Confidence 2389999999999998
No 19
>PLN02182 cytidine deaminase
Probab=99.63 E-value=1.4e-15 Score=131.72 Aligned_cols=109 Identities=21% Similarity=0.413 Sum_probs=97.9
Q ss_pred HHHHHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEEEEeeecccCCCCCCCHHHHHHHHHHHc--CC--CceeEEEEEee
Q psy2494 16 EQNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAISE--GQ--TKFKRIAVSAI 91 (166)
Q Consensus 16 ~~~L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~~G~NvEnas~~~s~CAEr~Ai~~a~~~--G~--~~i~~i~vv~~ 91 (166)
.++|..+|++++++||+|||+-+.|.||.+.||+||+|.++||++|++|+-+-|+||..++.+ |. .+|+++++++
T Consensus 201 ~~~l~~~Al~AAn~S~APYS~~~SGvAL~~~~G~vy~G~YaEnAAfNPSL~PlQaALv~~~~~~~G~~~~~I~~avLvE- 279 (339)
T PLN02182 201 CSHLKCKALAAANNSFSPYTESPSGVALLDNDGKWYRGWYIESVASNPSFGPVQAALVDFVARSRGKMFNKIVQAVLVE- 279 (339)
T ss_pred ccHHHHHHHHHHHhccCCccCCCceEEEEeCCCCEEEeeehhhcccCCCccHHHHHHHHHHHhcCCCChhhhheEEEEe-
Confidence 478999999999999999999999999999999999999999999999999999999999987 54 5899999999
Q ss_pred eCCCCCccCCCHHHHHHHHHhcCCCCCcEEEEEcCC
Q psy2494 92 LPDSNKFVSPCGSCRQVIAEFSSPACDIQVLIVKSD 127 (166)
Q Consensus 92 ~~~~~~~~~PCG~CRQ~L~E~~~~~~~~~Vi~~~~~ 127 (166)
..+..++.-++.|.+|..++.++.+++++.+..+
T Consensus 280 --~~~a~vsq~~~t~~~L~~i~~p~~~~~~~~~~~~ 313 (339)
T PLN02182 280 --KNNAIVSQERTAKIILDTIAAPNCDFKVFHCSVD 313 (339)
T ss_pred --cCCCccchHHHHHHHHHHhcCCCCceEEEEEeHh
Confidence 7778889999999999999643457788876654
No 20
>cd01285 nucleoside_deaminase Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on the substrate. The functional enzyme is a homodimer. Cytosine deaminase catalyzes the deamination of cytosine to uracil and ammonia and is a member of the pyrimidine salvage pathway. Cytosine deaminase is found in bacteria and fungi but is not present in mammals; for this reason, the enzyme is currently of interest for antimicrobial drug design and gene therapy applications against tumors. Some members of this family are tRNA-specific adenosine deaminases that generate inosine at the first position of their anticodon (position 34) of specific tRNAs; this modification is thought to enlarge the codon recognition capacity during protei
Probab=99.24 E-value=1.1e-10 Score=85.92 Aligned_cols=85 Identities=20% Similarity=0.225 Sum_probs=67.4
Q ss_pred HHHHHHHHhcCCCCCCCceEEEEEeCCCcE-EEEeeecccCCCCCCCHHHHHHHHHHHcC-CCceeEEEEEeeeCCCCCc
Q psy2494 21 NLSIQARDNAYCPYSKLQVGAALLCQDDTI-FTGCNVENASYGMTICAEKTAISKAISEG-QTKFKRIAVSAILPDSNKF 98 (166)
Q Consensus 21 ~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i-~~G~NvEnas~~~s~CAEr~Ai~~a~~~G-~~~i~~i~vv~~~~~~~~~ 98 (166)
+.|++.+++++. .++++|||++++.||+| .+|.|-++..++++.|||..||.++.... ...++...++. .
T Consensus 2 ~~al~~a~~~~~-~~~~~vgaviv~~~~~ii~~g~n~~~~~~~~~~HAE~~ai~~~~~~~~~~~~~~~~ly~-------t 73 (109)
T cd01285 2 RLAIELARKALA-EGEVPFGAVIVDDDGKVIARGHNRVEQDGDPTAHAEIVAIRNAARRLGSYLLSGCTLYT-------T 73 (109)
T ss_pred HHHHHHHHHHHH-cCCCcEEEEEEeCCCEEEEEEeCCCCCCCCCcccHHHHHHHHHHHHhCCCccCCeEEEE-------e
Confidence 345555555544 46889999999998997 59999999888999999999999998873 44566666655 3
Q ss_pred cCCCHHHHHHHHHhc
Q psy2494 99 VSPCGSCRQVIAEFS 113 (166)
Q Consensus 99 ~~PCG~CRQ~L~E~~ 113 (166)
..||.+|.+.|....
T Consensus 74 ~EPC~mC~~ai~~~g 88 (109)
T cd01285 74 LEPCPMCAGALLWAR 88 (109)
T ss_pred CCChHHHHHHHHHHC
Confidence 579999999999765
No 21
>PF14421 LmjF365940-deam: A distinct subfamily of CDD/CDA-like deaminases
Probab=99.16 E-value=1.3e-10 Score=93.01 Aligned_cols=93 Identities=27% Similarity=0.481 Sum_probs=73.3
Q ss_pred CCCceEEEEEeC--------CC--cEEEEeeecccCCCCCCCHHHHHHHHHHHcC----CCceeEEEEEeee--------
Q psy2494 35 SKLQVGAALLCQ--------DD--TIFTGCNVENASYGMTICAEKTAISKAISEG----QTKFKRIAVSAIL-------- 92 (166)
Q Consensus 35 S~f~VGAAv~~~--------dG--~i~~G~NvEnas~~~s~CAEr~Ai~~a~~~G----~~~i~~i~vv~~~-------- 92 (166)
++-+|-|.|+.+ || +.|.|+|.|-+....|+|+||+||++|.+.. .+.++.|+|++..
T Consensus 35 ~~kPVlavLlV~~~~~~~~~~~~~~~~~gvN~EvSmPTGSlCSErNAiG~aLAsdp~l~r~~l~~iavl~~~~~~~~~~~ 114 (193)
T PF14421_consen 35 DRKPVLAVLLVDKNHCEVHGDGRPEFVRGVNYEVSMPTGSLCSERNAIGKALASDPTLRRRDLKMIAVLSVNLTGGGSSA 114 (193)
T ss_pred CCCcEEEEEEEeccccccCCCCCccEEEEEEeEEcCCCcchhHHHHHhhhhhhcCchhhhhhcceeEEEEEeccCCCCcc
Confidence 455787877653 23 3789999999999999999999999988874 3578888876511
Q ss_pred ---------------------------------CCCCCccCCCHHHHHHHHHhcCCCCCcEEEEEcCC
Q psy2494 93 ---------------------------------PDSNKFVSPCGSCRQVIAEFSSPACDIQVLIVKSD 127 (166)
Q Consensus 93 ---------------------------------~~~~~~~~PCG~CRQ~L~E~~~~~~~~~Vi~~~~~ 127 (166)
+....++.|||+|-++|..++..||++.|++++..
T Consensus 115 ~~~~~~~~~~~~~~~~pt~~vR~~~~~g~~~~s~~~~NPL~PCGaC~ewL~KIAe~np~f~v~mFd~t 182 (193)
T PF14421_consen 115 VTSPTAVEGADDGGGEPTSPVREVFVHGANLTSPRDPNPLFPCGACKEWLRKIAEANPDFRVYMFDDT 182 (193)
T ss_pred ccCccccccCcccCCCCCccccceeecccccCCCCCCCCCCcchHHHHHHHHHHHhCCCeEEEEecCC
Confidence 01124688999999999999988899999998764
No 22
>cd01286 deoxycytidylate_deaminase Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the enzyme is allosterically regulated by the ratio of dCTP to dTTP not only in eukaryotic cells but also in T-even phage-infected Escherichia coli, with dCTP acting as an activator and dTTP as an inhibitor.
Probab=99.15 E-value=6.5e-10 Score=84.73 Aligned_cols=87 Identities=25% Similarity=0.372 Sum_probs=67.3
Q ss_pred HHHHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEEEEeeecc---------------------cCCCCCCCHHHHHHHHH
Q psy2494 17 QNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVEN---------------------ASYGMTICAEKTAISKA 75 (166)
Q Consensus 17 ~~L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~~G~NvEn---------------------as~~~s~CAEr~Ai~~a 75 (166)
+..++.|++++++++.| +++|||+|+.+++.|-+|.|-.. ..+..++|||..||.++
T Consensus 2 ~~~m~~A~~~A~~s~~~--~~~VGAViv~~~~iI~~G~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~HAE~~Ai~~a 79 (131)
T cd01286 2 EYFMAIARLAALRSTCP--RRQVGAVIVKDKRIISTGYNGSPSGLPHCAEVGCERDDLPSGEDQKCCRTVHAEQNAILQA 79 (131)
T ss_pred HHHHHHHHHHHHHcCCC--CCCEEEEEEECCEEEEEeeCCCCCCCCCcccccccccccccccccccCCCCCHHHHHHHHH
Confidence 45789999999999887 89999999986544669988643 45778999999999999
Q ss_pred HHcCCCceeEEEEEeeeCCCCCccCCCHHHHHHHHHhc
Q psy2494 76 ISEGQTKFKRIAVSAILPDSNKFVSPCGSCRQVIAEFS 113 (166)
Q Consensus 76 ~~~G~~~i~~i~vv~~~~~~~~~~~PCG~CRQ~L~E~~ 113 (166)
...|. .+....++. ...||.+|.+.|.+.+
T Consensus 80 ~~~~~-~~~~~tLyv-------T~ePC~~C~~ai~~~g 109 (131)
T cd01286 80 ARHGV-SLEGATLYV-------TLFPCIECAKLIIQAG 109 (131)
T ss_pred hHcCC-CcCCeEEEE-------ecCcHHHHHHHHHHhC
Confidence 87743 333333333 2489999999999887
No 23
>TIGR02571 ComEB ComE operon protein 2. This protein is found in the ComE operon for "late competence" as characterized in B. subtilis. Proteins in this family contain homology to a cytidine/deoxycytidine deaminase domain family (pfam00383), and may carry out this activity.
Probab=98.92 E-value=1.5e-08 Score=79.23 Aligned_cols=87 Identities=25% Similarity=0.299 Sum_probs=67.6
Q ss_pred HHHHHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEE-EEeeecccCC---------------CCCCCHHHHHHHHHHHcC
Q psy2494 16 EQNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIF-TGCNVENASY---------------GMTICAEKTAISKAISEG 79 (166)
Q Consensus 16 ~~~L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~-~G~NvEnas~---------------~~s~CAEr~Ai~~a~~~G 79 (166)
|+..++.|++.++++..| +.+|||+++ .||+|+ +|.|-....+ ..+.|||.+||.++...+
T Consensus 6 d~~fM~~A~~~A~rs~~~--~~~VGAVIV-~d~~IIs~GyN~~~~g~~~~~~~~~~~~~~~~~~~~HAE~nAI~~a~~~~ 82 (151)
T TIGR02571 6 DQYFMAQSHLLALRSTCT--RLSVGATIV-RDKRIIAGGYNGSVAGGVHCIDEGCYVVDGHCVRTIHAEMNALLQCAKFG 82 (151)
T ss_pred HHHHHHHHHHHHHhcCCC--CCCEEEEEE-ECCEEEEEEECCCCCCCCccccccccccccccCCccCHHHHHHHHHHhcC
Confidence 456789999999998777 789999987 578876 8999864432 468999999999988765
Q ss_pred CCceeEEEEEeeeCCCCCccCCCHHHHHHHHHhc
Q psy2494 80 QTKFKRIAVSAILPDSNKFVSPCGSCRQVIAEFS 113 (166)
Q Consensus 80 ~~~i~~i~vv~~~~~~~~~~~PCG~CRQ~L~E~~ 113 (166)
. .++...++. ...||-+|-..|...+
T Consensus 83 ~-~l~g~tlYv-------T~ePC~~Ca~ai~~ag 108 (151)
T TIGR02571 83 V-STEGAEIYV-------THFPCLQCTKSIIQAG 108 (151)
T ss_pred C-CcCCcEEEE-------eCCCcHHHHHHHHHhC
Confidence 3 445444444 3589999999999876
No 24
>PRK10860 tRNA-specific adenosine deaminase; Provisional
Probab=98.89 E-value=3.7e-08 Score=78.58 Aligned_cols=89 Identities=16% Similarity=0.217 Sum_probs=70.5
Q ss_pred HHHHHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEE-EEeeecccCCCCCCCHHHHHHHHHHHc-CCCceeEEEEEeeeC
Q psy2494 16 EQNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIF-TGCNVENASYGMTICAEKTAISKAISE-GQTKFKRIAVSAILP 93 (166)
Q Consensus 16 ~~~L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~-~G~NvEnas~~~s~CAEr~Ai~~a~~~-G~~~i~~i~vv~~~~ 93 (166)
++..+++|++.++++... .++||||+++. +|+|+ +|.|-.....+++.|||..||.+|... +...+....++.
T Consensus 13 ~~~~m~~A~~~A~~a~~~-g~~pvGAVIV~-~g~IIa~g~N~~~~~~d~~~HAEi~Ai~~a~~~~~~~~l~g~tlY~--- 87 (172)
T PRK10860 13 HEYWMRHALTLAKRAWDE-REVPVGAVLVH-NNRVIGEGWNRPIGRHDPTAHAEIMALRQGGLVLQNYRLLDATLYV--- 87 (172)
T ss_pred HHHHHHHHHHHHHHhhcc-CCCCEEEEEEe-CCEEEEEeeCCCCCCCCCccCHHHHHHHHHHHhcCCCCcCCcEEEe---
Confidence 456889999999988774 57899999986 78866 899987666778999999999998764 334555544444
Q ss_pred CCCCccCCCHHHHHHHHHhc
Q psy2494 94 DSNKFVSPCGSCRQVIAEFS 113 (166)
Q Consensus 94 ~~~~~~~PCG~CRQ~L~E~~ 113 (166)
...||.||-..|...+
T Consensus 88 ----TlEPC~MC~~aii~ag 103 (172)
T PRK10860 88 ----TLEPCVMCAGAMVHSR 103 (172)
T ss_pred ----eCCCcHHHHHHHHHhC
Confidence 4589999999999887
No 25
>PHA02588 cd deoxycytidylate deaminase; Provisional
Probab=98.88 E-value=4.1e-08 Score=78.02 Aligned_cols=87 Identities=25% Similarity=0.365 Sum_probs=66.2
Q ss_pred HHHHHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEE-EEeeecccC--------------------------------CC
Q psy2494 16 EQNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIF-TGCNVENAS--------------------------------YG 62 (166)
Q Consensus 16 ~~~L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~-~G~NvEnas--------------------------------~~ 62 (166)
|+.+++.|++.++++..+ +.+|||+|+ +||+|+ +|.|--... ..
T Consensus 3 d~~fM~~A~~~A~~s~~~--~~~VGAVIV-~~~~Iis~GyNg~p~g~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (168)
T PHA02588 3 DSTYLQIAYLVSQESKCV--SWKVGAVIE-KNGRIISTGYNGTPAGGVNCCDHANEQGWLDDEGKLKKEHRPEHSAWSSK 79 (168)
T ss_pred HHHHHHHHHHHHHhcCCC--CCCEEEEEE-ECCEEEEEEeCCCCcCCcccccccccccccccccccccccccccccccCC
Confidence 456899999999999886 679999888 678877 999843210 24
Q ss_pred CCCCHHHHHHHHHHHcCCCceeEEEEEeeeCCCCCccCCCHHHHHHHHHhc
Q psy2494 63 MTICAEKTAISKAISEGQTKFKRIAVSAILPDSNKFVSPCGSCRQVIAEFS 113 (166)
Q Consensus 63 ~s~CAEr~Ai~~a~~~G~~~i~~i~vv~~~~~~~~~~~PCG~CRQ~L~E~~ 113 (166)
.++|||.+||.+|...|. .+....++. ...||.+|...|...+
T Consensus 80 ~~~HAE~nAi~~a~~~~~-~~~g~tLYv-------TlePC~~Ca~aI~~~g 122 (168)
T PHA02588 80 NEIHAELNAILFAARNGI-SIEGATMYV-------TASPCPDCAKAIAQSG 122 (168)
T ss_pred CCccHHHHHHHHHhhcCC-CCCCcEEEE-------eCCCcHHHHHHHHHhC
Confidence 689999999999987653 344444443 3589999999999876
No 26
>COG0590 CumB Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]
Probab=98.77 E-value=1e-07 Score=74.58 Aligned_cols=94 Identities=21% Similarity=0.265 Sum_probs=76.4
Q ss_pred CCHHHHHHHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEE-EEeeecccCCCCCCCHHHHHHHHHHHcC-CCceeEEEEE
Q psy2494 12 LDPIEQNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIF-TGCNVENASYGMTICAEKTAISKAISEG-QTKFKRIAVS 89 (166)
Q Consensus 12 l~~~~~~L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~-~G~NvEnas~~~s~CAEr~Ai~~a~~~G-~~~i~~i~vv 89 (166)
+..++...+++|++.++.++ -..+.||||+++..+|++. .|.|--+..-+++-|||-.||.+|.... ...++...++
T Consensus 4 ~~~~~~~~m~~al~~A~~a~-~~ge~PvGaviV~~~~~ii~~~~N~~~~~~dptaHAEi~air~a~~~~~~~~l~~~tly 82 (152)
T COG0590 4 LSEKDEDFMREALKEAKKAG-DEGEVPVGAVIVDADGEIIARGHNRREEDNDPTAHAEILAIRAAAETLGNYRLKDCTLY 82 (152)
T ss_pred hhhhhHHHHHHHHHHHHHHH-hcCCCCEEEEEEcCCCCEEEEecCccccCCCccccHHHHHHHHHHHhhCCCCcCCcEEE
Confidence 34557778899999888888 5678999999999888755 7999888888999999999999998764 3456555554
Q ss_pred eeeCCCCCccCCCHHHHHHHHHhc
Q psy2494 90 AILPDSNKFVSPCGSCRQVIAEFS 113 (166)
Q Consensus 90 ~~~~~~~~~~~PCG~CRQ~L~E~~ 113 (166)
. .+.||-||-..|....
T Consensus 83 v-------T~EPC~MCagAi~~ar 99 (152)
T COG0590 83 V-------TLEPCPMCAGAIIWAR 99 (152)
T ss_pred E-------ecCCHHHHHHHHHHhC
Confidence 4 4589999999999766
No 27
>cd01284 Riboflavin_deaminase-reductase Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the biosynthesis of riboflavin.The ribG gene of Bacillus subtilis and the ribD gene of E. coli are bifunctional and contain this deaminase domain and a reductase domain which catalyzes the subsequent reduction of the ribosyl side chain.
Probab=98.74 E-value=1.4e-07 Score=70.65 Aligned_cols=78 Identities=18% Similarity=0.267 Sum_probs=60.4
Q ss_pred HHHHHHHHhc--CCCCCCCceEEEEEeCCCcEE-EEeeecccCCCCCCCHHHHHHHHHHHcCCCceeEEEEEeeeCCCCC
Q psy2494 21 NLSIQARDNA--YCPYSKLQVGAALLCQDDTIF-TGCNVENASYGMTICAEKTAISKAISEGQTKFKRIAVSAILPDSNK 97 (166)
Q Consensus 21 ~~A~~a~~~a--yaPyS~f~VGAAv~~~dG~i~-~G~NvEnas~~~s~CAEr~Ai~~a~~~G~~~i~~i~vv~~~~~~~~ 97 (166)
++|++.++++ .. ..+++|||+|+..||+|+ +|.|-.. .+.|||..||.++... .++...++.
T Consensus 2 ~~al~~A~~~~~~~-~~~~pvGaviv~~~g~iv~~g~n~~~----~~~HAE~~ai~~a~~~---~l~g~tly~------- 66 (115)
T cd01284 2 RRALELAEKGRGLT-SPNPPVGCVIVDDDGEIVGEGYHRKA----GGPHAEVNALASAGEK---LARGATLYV------- 66 (115)
T ss_pred HHHHHHHHhccccc-CCCCCEEEEEEeCCCeEEEEecCCCC----CcccHHHHHHHHHhhc---CCCCeEEEE-------
Confidence 4567777766 33 248899999999889977 7999864 7899999999998775 444444444
Q ss_pred ccCCC------HHHHHHHHHhc
Q psy2494 98 FVSPC------GSCRQVIAEFS 113 (166)
Q Consensus 98 ~~~PC------G~CRQ~L~E~~ 113 (166)
...|| .||...|....
T Consensus 67 TlEPC~~~~~~~mC~~ai~~~g 88 (115)
T cd01284 67 TLEPCSHHGKTPPCVDAIIEAG 88 (115)
T ss_pred eCCCCCCCCCchHHHHHHHHHC
Confidence 35899 79999999987
No 28
>KOG1018|consensus
Probab=98.40 E-value=2.8e-06 Score=67.74 Aligned_cols=97 Identities=20% Similarity=0.256 Sum_probs=77.6
Q ss_pred cCCCCHHHHHHHHHHHHHHHhcCCCCC-CCceEEEEEeCCCc-EEEEeeecccCCCCCCCHHHHHHHH---HHHcCC-Cc
Q psy2494 9 FSALDPIEQNLANLSIQARDNAYCPYS-KLQVGAALLCQDDT-IFTGCNVENASYGMTICAEKTAISK---AISEGQ-TK 82 (166)
Q Consensus 9 ~~~l~~~~~~L~~~A~~a~~~ayaPyS-~f~VGAAv~~~dG~-i~~G~NvEnas~~~s~CAEr~Ai~~---a~~~G~-~~ 82 (166)
..++.+.+.+..+.|.+.+.+++- +. +.||||.++..||+ +..|-|.-|..++++.|||..||.. +...-. ..
T Consensus 4 ~~~~~~~~~~~m~~a~eea~ka~d-~~~~~pvg~vlV~~~g~v~a~g~n~~~~~~d~t~HaE~~~I~~~~~~~~~~~~~~ 82 (169)
T KOG1018|consen 4 IRELSDHDIAFMVEAVEEAKKALD-EGDEVPVGAVLVHMDGKVLASGGNMVNEKKDPTAHAEVIAIREEEVMCKSLRTID 82 (169)
T ss_pred chhcccccHHHHHHHHHHHHhhcc-CCCCCceEEEEEeCCCeEEecccceecccCCcchhhHHHHHhhHHHHhhhcCcee
Confidence 445666678888999999998876 67 99999999997777 4599998888999999999999998 655533 44
Q ss_pred eeEEEEEeeeCCCCCccCCCHHHHHHHHHhc
Q psy2494 83 FKRIAVSAILPDSNKFVSPCGSCRQVIAEFS 113 (166)
Q Consensus 83 i~~i~vv~~~~~~~~~~~PCG~CRQ~L~E~~ 113 (166)
++...++. .+.||-||...|...+
T Consensus 83 ls~~tlyv-------t~ePc~mC~gal~~~g 106 (169)
T KOG1018|consen 83 LSETTLYV-------TCEPCPMCAGALAQSG 106 (169)
T ss_pred ccCCEEEE-------EecccHHHHHHHHHcC
Confidence 55544444 5689999999999887
No 29
>PRK10786 ribD bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=98.08 E-value=3.6e-05 Score=67.80 Aligned_cols=82 Identities=16% Similarity=0.226 Sum_probs=60.8
Q ss_pred HHHHHHHHHHHHHhcCC-CCCCCceEEEEEeCCCcEE-EEeeecccCCCCCCCHHHHHHHHHHHcCCCceeEEEEEeeeC
Q psy2494 16 EQNLANLSIQARDNAYC-PYSKLQVGAALLCQDDTIF-TGCNVENASYGMTICAEKTAISKAISEGQTKFKRIAVSAILP 93 (166)
Q Consensus 16 ~~~L~~~A~~a~~~aya-PyS~f~VGAAv~~~dG~i~-~G~NvEnas~~~s~CAEr~Ai~~a~~~G~~~i~~i~vv~~~~ 93 (166)
++..+++|++.++++.- -..+.+|||+++ +||+|+ +|.|... .+.|||..||.+|... ++...++.
T Consensus 3 d~~~m~~A~~~A~~~~~~~~~~~~vGaviv-~~g~ii~~g~n~~~----g~~HAE~~ai~~a~~~----~~g~tlyv--- 70 (367)
T PRK10786 3 DEFYMARALKLAQRGRFTTHPNPNVGCVIV-KDGEIVGEGYHQRA----GEPHAEVHALRMAGEK----AKGATAYV--- 70 (367)
T ss_pred HHHHHHHHHHHHHhcCcCCCCCCCEEEEEE-eCCEEEEEEeCCCC----CCCCHHHHHHHHHhhh----cCCCEEEE---
Confidence 45678999999988753 124789999988 478866 9999764 3589999999998642 22222333
Q ss_pred CCCCccCCC------HHHHHHHHHhc
Q psy2494 94 DSNKFVSPC------GSCRQVIAEFS 113 (166)
Q Consensus 94 ~~~~~~~PC------G~CRQ~L~E~~ 113 (166)
.+.|| .||.+.|...+
T Consensus 71 ----TlEPC~~~g~t~mC~~aii~ag 92 (367)
T PRK10786 71 ----TLEPCSHHGRTPPCCDALIAAG 92 (367)
T ss_pred ----ecCCccCCCCChHHHHHHHHhC
Confidence 35899 89999999987
No 30
>TIGR00326 eubact_ribD riboflavin biosynthesis protein RibD. This model describes the ribD protein as found in Escherichia coli. The N-terminal domain includes the conserved zinc-binding site region captured in the model dCMP_cyt_deam and shared by proteins such as cytosine deaminase, mammalian apolipoprotein B mRNA editing protein, blasticidin-S deaminase, and Bacillus subtilis competence protein comEB. The C-terminal domain is homologous to the full length of yeast HTP reductase, a protein required for riboflavin biosynthesis. A number of archaeal proteins believed related to riboflavin biosynthesis contain only this C-terminal domain and are not found as full-length matches to this model.
Probab=98.03 E-value=3.8e-05 Score=66.77 Aligned_cols=77 Identities=19% Similarity=0.263 Sum_probs=56.4
Q ss_pred HHHHHHHHhcCCC-CCCCceEEEEEeCCCcEE-EEeeecccCCCCCCCHHHHHHHHHHHcCCCceeEEEEEeeeCCCCCc
Q psy2494 21 NLSIQARDNAYCP-YSKLQVGAALLCQDDTIF-TGCNVENASYGMTICAEKTAISKAISEGQTKFKRIAVSAILPDSNKF 98 (166)
Q Consensus 21 ~~A~~a~~~ayaP-yS~f~VGAAv~~~dG~i~-~G~NvEnas~~~s~CAEr~Ai~~a~~~G~~~i~~i~vv~~~~~~~~~ 98 (166)
++|++.++++... .-+.+|||+++. ||+|+ +|.|-. ..+.|||..||.+|... ++...++. .
T Consensus 2 ~~a~~~a~~~~~~~~~~~~vGaviv~-~~~ii~~g~n~~----~~~~HAE~~ai~~a~~~----~~g~tlyv-------t 65 (344)
T TIGR00326 2 NRALDLAKKGQGTTHPNPLVGCVIVK-NGEIVGEGAHQK----AGEPHAEVHALRQAGEN----AKGATAYV-------T 65 (344)
T ss_pred HHHHHHHHhcCCCCCCCCCEEEEEEe-CCEEEEEeeCCC----CCCCCHHHHHHHHhccc----cCCcEEEE-------e
Confidence 5677777766542 236799999998 89976 799863 35899999999998542 33333333 3
Q ss_pred cCCC------HHHHHHHHHhc
Q psy2494 99 VSPC------GSCRQVIAEFS 113 (166)
Q Consensus 99 ~~PC------G~CRQ~L~E~~ 113 (166)
..|| +||...|.+.+
T Consensus 66 lEPC~~~g~~~~C~~ai~~~g 86 (344)
T TIGR00326 66 LEPCSHQGRTPPCAEAIIEAG 86 (344)
T ss_pred CCCCCCCCCCcHHHHHHHHcC
Confidence 5899 89999999987
No 31
>PLN02807 diaminohydroxyphosphoribosylaminopyrimidine deaminase
Probab=98.01 E-value=6.5e-05 Score=66.71 Aligned_cols=83 Identities=16% Similarity=0.178 Sum_probs=60.9
Q ss_pred HHHHHHHHHHHHHhcCCC-CCCCceEEEEEeCCCcEE-EEeeecccCCCCCCCHHHHHHHHHHHcCCCceeEEEEEeeeC
Q psy2494 16 EQNLANLSIQARDNAYCP-YSKLQVGAALLCQDDTIF-TGCNVENASYGMTICAEKTAISKAISEGQTKFKRIAVSAILP 93 (166)
Q Consensus 16 ~~~L~~~A~~a~~~ayaP-yS~f~VGAAv~~~dG~i~-~G~NvEnas~~~s~CAEr~Ai~~a~~~G~~~i~~i~vv~~~~ 93 (166)
++..+++|++.+++++.- .-+.+|||+++. ||+|+ +|.|-.. .+.|||..||.+|... +....++.
T Consensus 32 d~~~M~~Al~lA~~~~~~~~~np~VGaViV~-~g~Ii~~g~n~~~----g~~HAEi~Ai~~a~~~----~~g~tlyv--- 99 (380)
T PLN02807 32 DSFYMRRCVELARKAIGCTSPNPMVGCVIVK-DGRIVGEGFHPKA----GQPHAEVFALRDAGDL----AENATAYV--- 99 (380)
T ss_pred HHHHHHHHHHHHHhhcccCCCCCCEEEEEEE-CCEEEEEEeCCCC----CCcCHHHHHHHHhhhh----cCCcEEEE---
Confidence 567899999999887532 225679998885 69977 8999643 3589999999997542 23333333
Q ss_pred CCCCccCCC------HHHHHHHHHhcC
Q psy2494 94 DSNKFVSPC------GSCRQVIAEFSS 114 (166)
Q Consensus 94 ~~~~~~~PC------G~CRQ~L~E~~~ 114 (166)
.+.|| .+|-+.|.+.+-
T Consensus 100 ----TLEPC~h~Gktp~C~~aii~agI 122 (380)
T PLN02807 100 ----SLEPCNHYGRTPPCTEALIKAKV 122 (380)
T ss_pred ----EcCCCcCCCCChHHHHHHHHhCC
Confidence 35899 899999999873
No 32
>PF14431 YwqJ-deaminase: YwqJ-like deaminase
Probab=97.93 E-value=6.4e-05 Score=56.92 Aligned_cols=75 Identities=28% Similarity=0.526 Sum_probs=51.9
Q ss_pred eEEEEEeCCCcEEEEeeeccc------------------------CCCCCCCHHHHHHHHHHHcCC--------CceeEE
Q psy2494 39 VGAALLCQDDTIFTGCNVENA------------------------SYGMTICAEKTAISKAISEGQ--------TKFKRI 86 (166)
Q Consensus 39 VGAAv~~~dG~i~~G~NvEna------------------------s~~~s~CAEr~Ai~~a~~~G~--------~~i~~i 86 (166)
++|++...+|++|+|.|--.. .|+.+.|||..||.+++.+.+ .++...
T Consensus 17 ~a~~l~~~tG~~~~g~n~~~~~~~~~lHP~v~~~ld~~~~~~~~~~~~~G~cAEv~avn~~L~~~d~~~~~~~~a~~~~~ 96 (125)
T PF14431_consen 17 VAAALDVRTGKIYTGTNGKGDDSPPDLHPLVQDRLDNLPSEESRERFGAGRCAEVIAVNDALWARDAARRSLEGAKITTR 96 (125)
T ss_pred eEEEEEecCCcEEEEECCCCCCCccccCHHHHHHHhcccccccccCcCCCcccHHHHHHHHHHhhhccccccccccceee
Confidence 555555556999999997532 156899999999999998722 122222
Q ss_pred EEEe-eeCCCCCccCCCHHHHHHHHHhc
Q psy2494 87 AVSA-ILPDSNKFVSPCGSCRQVIAEFS 113 (166)
Q Consensus 87 ~vv~-~~~~~~~~~~PCG~CRQ~L~E~~ 113 (166)
.+-. +.+..+...+||-.|..+|..|+
T Consensus 97 ~ir~~~~~~~G~~~~pC~nC~~~l~~~~ 124 (125)
T PF14431_consen 97 RIREPGDPEHGKYAPPCRNCAALLKHFG 124 (125)
T ss_pred eeecccCCCCCCCCCCCchHHHHHhhcC
Confidence 2222 22344678899999999998875
No 33
>COG0117 RibD Pyrimidine deaminase [Coenzyme metabolism]
Probab=97.72 E-value=0.00076 Score=52.66 Aligned_cols=100 Identities=15% Similarity=0.227 Sum_probs=63.3
Q ss_pred HHHHHHHHHHHHHHh-cCCCCCCCceEEEEEeCCCcEE-EEeeecccCCCCCCCHHHHHHHHHHHcCCCceeEEEEEeee
Q psy2494 15 IEQNLANLSIQARDN-AYCPYSKLQVGAALLCQDDTIF-TGCNVENASYGMTICAEKTAISKAISEGQTKFKRIAVSAIL 92 (166)
Q Consensus 15 ~~~~L~~~A~~a~~~-ayaPyS~f~VGAAv~~~dG~i~-~G~NvEnas~~~s~CAEr~Ai~~a~~~G~~~i~~i~vv~~~ 92 (166)
.++..++.|++.+++ .+.-+.|+.|||+++.. |+|+ .|.... ...-|||+.||..| |+.-=-+.+.++-.
T Consensus 5 ~~~~~M~~Al~lA~k~~g~T~pNP~VG~VIV~~-~~Ivg~G~h~~----aG~pHAEv~Al~~a---g~~a~Gat~yVTLE 76 (146)
T COG0117 5 LDERYMERALELAEKGQGTTSPNPSVGCVIVKD-GEIVGEGYHEK----AGGPHAEVCALRMA---GEAARGATAYVTLE 76 (146)
T ss_pred HHHHHHHHHHHHHHhcCCcCCCCCceeEEEEEC-CEEEeeeecCC----CCCCcHHHHHHHHc---CcccCCCEEEEEec
Confidence 477899999998887 55556799999998885 5776 777765 45789999999988 33211122223311
Q ss_pred CCC-CCccCCCHHHHHHHHHhcCCCCCcEEEEEcCC
Q psy2494 93 PDS-NKFVSPCGSCRQVIAEFSSPACDIQVLIVKSD 127 (166)
Q Consensus 93 ~~~-~~~~~PCG~CRQ~L~E~~~~~~~~~Vi~~~~~ 127 (166)
|-+ ..-.+| |-..|.+-+- ..+-|-+.|+|
T Consensus 77 PCsH~GrTPP---C~~ali~agi--~rVvva~~DPn 107 (146)
T COG0117 77 PCSHYGRTPP---CADALIKAGV--ARVVVAMLDPN 107 (146)
T ss_pred CcccCCCCcc---hHHHHHHhCC--CEEEEEecCCC
Confidence 211 112345 5688888762 23323345555
No 34
>COG2131 ComEB Deoxycytidylate deaminase [Nucleotide transport and metabolism]
Probab=97.58 E-value=0.0007 Score=53.84 Aligned_cols=87 Identities=25% Similarity=0.347 Sum_probs=63.3
Q ss_pred HHH-HHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEE-EEeeecccC----------------------CCCCCCHHHHH
Q psy2494 16 EQN-LANLSIQARDNAYCPYSKLQVGAALLCQDDTIF-TGCNVENAS----------------------YGMTICAEKTA 71 (166)
Q Consensus 16 ~~~-L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~-~G~NvEnas----------------------~~~s~CAEr~A 71 (166)
+++ -++.|.-++.++-+| +-+|||+++- ||+|+ +|-|=--.. +.-++|||++|
T Consensus 8 wdeyfm~~A~l~a~Rstc~--r~~VGAvIvk-d~rIiatGYNG~p~g~~~c~~~g~~~~~~~~~~~~~~~~r~vHAE~NA 84 (164)
T COG2131 8 WDEYFMAIAELVALRSTCP--RRQVGAVIVK-DGRIIATGYNGAPSGEDHCIDRGCLRDKVVFVTTCGHCCRTLHAEQNA 84 (164)
T ss_pred HHHHHHHHHHHHHHHccCc--ccceeEEEEe-CCeEEEeecCCCCcccCCcCccCceecccccccchhHHHHHHHHHHHH
Confidence 444 467788888999998 6789999998 88877 777632111 23478999999
Q ss_pred HHHHHHcCCCceeEEEEEeeeCCCCCccCCCHHHHHHHHHhc
Q psy2494 72 ISKAISEGQTKFKRIAVSAILPDSNKFVSPCGSCRQVIAEFS 113 (166)
Q Consensus 72 i~~a~~~G~~~i~~i~vv~~~~~~~~~~~PCG~CRQ~L~E~~ 113 (166)
|.++...|..--.+...+. ..||-.|--.|.+-+
T Consensus 85 il~aa~~g~~~~~atlYvt--------~~PC~~Cak~Ii~aG 118 (164)
T COG2131 85 ILQAARHGVGLEGATLYVT--------HFPCSNCAKLIIQAG 118 (164)
T ss_pred HHHHHhcCCCCCCcEEEEE--------ecccHHHHHHHHHhC
Confidence 9999999865322333333 279999999988766
No 35
>KOG3127|consensus
Probab=97.32 E-value=0.0012 Score=54.70 Aligned_cols=86 Identities=23% Similarity=0.374 Sum_probs=63.3
Q ss_pred HHHHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEE-EEeee--------------------cccCCCCCCCHHHHHHHHH
Q psy2494 17 QNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIF-TGCNV--------------------ENASYGMTICAEKTAISKA 75 (166)
Q Consensus 17 ~~L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~-~G~Nv--------------------Enas~~~s~CAEr~Ai~~a 75 (166)
+-.+..|.-+++|+-.| +-+|||++++.+++|+ +|-|- +..-|-..+|||.+||.++
T Consensus 68 ~yFM~iA~LsA~RSkDp--ntqVGaCiv~~~n~iVg~GYNgfP~gc~~~vfp~~~~~~~~~~~~k~~yv~HAE~NAi~~~ 145 (230)
T KOG3127|consen 68 DYFMAIAFLSAKRSKDP--NTQVGACIVDRENRIVGTGYNGFPRGCSDDVFPWCKAALSTNLDLKYCYVVHAEENAILNK 145 (230)
T ss_pred HHHHHHHHHHHHhccCc--ccceeeEEEcCCCEEEEeccCCCcCCCCCCCCcccccccccCCCcceEEEeehHHHHHHHh
Confidence 33467888899999998 7799999999999877 66653 1223455789999999886
Q ss_pred HHcCCCceeEEEEEeeeCCCCCccCCCHHHHHHHHHhcC
Q psy2494 76 ISEGQTKFKRIAVSAILPDSNKFVSPCGSCRQVIAEFSS 114 (166)
Q Consensus 76 ~~~G~~~i~~i~vv~~~~~~~~~~~PCG~CRQ~L~E~~~ 114 (166)
-..--.. ..+++. .-||--|-+.|.+++-
T Consensus 146 ~~~~~~~-~~lYvt---------l~PC~~Ca~liiq~GI 174 (230)
T KOG3127|consen 146 GRERVGG-CSLYVT---------LCPCNECAKLIIQAGI 174 (230)
T ss_pred CccccCC-ceEEEe---------ecchHHHHHHHHHhhh
Confidence 5543333 333333 3699999999999983
No 36
>PF14437 MafB19-deam: MafB19-like deaminase
Probab=96.37 E-value=0.027 Score=44.07 Aligned_cols=68 Identities=24% Similarity=0.252 Sum_probs=48.2
Q ss_pred EEEEEeCCCcEEEEeeecccC--------------------------CCCCCCHHHHHHHHHHHcCCCceeEEEEEeeeC
Q psy2494 40 GAALLCQDDTIFTGCNVENAS--------------------------YGMTICAEKTAISKAISEGQTKFKRIAVSAILP 93 (166)
Q Consensus 40 GAAv~~~dG~i~~G~NvEnas--------------------------~~~s~CAEr~Ai~~a~~~G~~~i~~i~vv~~~~ 93 (166)
-.|...-+|++|+|+|.-.-. --...|||-.||-+|.-.|.+.=+.+.+.-
T Consensus 30 tvA~~~I~G~~f~gvN~~~rp~ad~n~p~~~~dri~~~~~~~~~pn~~~~~~HAE~~aiqqA~d~G~~~g~~~tm~V--- 106 (146)
T PF14437_consen 30 TVAEGEINGQKFFGVNSTARPIADPNLPTLIRDRIAAKIPGKPGPNNNMAKAHAEAGAIQQAYDAGKTVGRSMTMYV--- 106 (146)
T ss_pred eEEEEEECCeEEEeeCCCCcccCCCCCcceeccccccccccccCccchhHHHHHHHHHHHHHHHhcCccCCeEEEEE---
Confidence 355555689999999986420 012579999999999999876433333322
Q ss_pred CCCCccCCCHHHHHHHHHhcC
Q psy2494 94 DSNKFVSPCGSCRQVIAEFSS 114 (166)
Q Consensus 94 ~~~~~~~PCG~CRQ~L~E~~~ 114 (166)
+ -.+|+.|++-|..++.
T Consensus 107 d----r~vC~~C~~~i~~~a~ 123 (146)
T PF14437_consen 107 D----RDVCGYCGGDIPSMAE 123 (146)
T ss_pred C----cccchHHHHHHHHHHH
Confidence 2 1689999999998873
No 37
>PF14439 Bd3614-deam: Bd3614-like deaminase
Probab=94.43 E-value=0.19 Score=38.35 Aligned_cols=80 Identities=18% Similarity=0.229 Sum_probs=52.5
Q ss_pred CceEEEEEeCCCcEE-EEeeecccCCCCCCCHHHHHHHHHHHcC----C-----------------CceeE--EEEEeee
Q psy2494 37 LQVGAALLCQDDTIF-TGCNVENASYGMTICAEKTAISKAISEG----Q-----------------TKFKR--IAVSAIL 92 (166)
Q Consensus 37 f~VGAAv~~~dG~i~-~G~NvEnas~~~s~CAEr~Ai~~a~~~G----~-----------------~~i~~--i~vv~~~ 92 (166)
-.|.|+|++.+|.++ .++|... -+..+|||-+.+.-....- . +.|.. .+.+
T Consensus 8 R~VvA~lv~~~G~l~daa~NtNa--~N~~LHAE~NLl~p~~~~~~~~~~~~~d~~~~~~g~g~~~~~~l~~ga~l~v--- 82 (136)
T PF14439_consen 8 RRVVAALVSPDGELVDAAVNTNA--DNKMLHAEWNLLMPWLWREWVDSPTDDDEIGNRPGDGPEERRPLPPGARLLV--- 82 (136)
T ss_pred cceeEEEECCCCcEEEeeeccCC--ccceeehhhhhhhHHHHhhcccCCCcccccccCCCcchhhcCcCCCCcEEEE---
Confidence 478999999999988 7777643 3568999999998775431 1 11211 1111
Q ss_pred CCCCCccCCCHHHHHHHHHhcC-CCC--CcEEEEEcC
Q psy2494 93 PDSNKFVSPCGSCRQVIAEFSS-PAC--DIQVLIVKS 126 (166)
Q Consensus 93 ~~~~~~~~PCG~CRQ~L~E~~~-~~~--~~~Vi~~~~ 126 (166)
...||-||-..+.+++. +.. -++|+...+
T Consensus 83 -----TlqcCkMCAalv~a~~d~pg~~~~~~vvY~~e 114 (136)
T PF14439_consen 83 -----TLQCCKMCAALVCAASDRPGRRVPIDVVYLNE 114 (136)
T ss_pred -----echhHHHHHHHHHHHhhCcCCccceEEEEecC
Confidence 24689999999999984 211 255655444
No 38
>PF14440 XOO_2897-deam: Xanthomonas XOO_2897-like deaminase
Probab=91.66 E-value=0.13 Score=38.95 Aligned_cols=60 Identities=17% Similarity=0.272 Sum_probs=45.8
Q ss_pred eecccCCCCCCCHHHHHHHHHHHcCCC--ceeEEEEEeeeCCCCCccCCCHH---HHHHHHHhcCCCCCcEEEEEcC
Q psy2494 55 NVENASYGMTICAEKTAISKAISEGQT--KFKRIAVSAILPDSNKFVSPCGS---CRQVIAEFSSPACDIQVLIVKS 126 (166)
Q Consensus 55 NvEnas~~~s~CAEr~Ai~~a~~~G~~--~i~~i~vv~~~~~~~~~~~PCG~---CRQ~L~E~~~~~~~~~Vi~~~~ 126 (166)
||-.+.++.+.|+|+.++..+...|-. .|+.++.= ..||.. |.++|.+.- |+.+|...-+
T Consensus 36 nv~v~~~~~~~H~E~~il~~l~~~~v~p~~I~elYtE---------l~PC~~~~~C~~~l~~~~---p~a~vt~s~~ 100 (118)
T PF14440_consen 36 NVAVARSGGKPHSERAILHQLRAHGVPPEQITELYTE---------LEPCELGGYCARMLRNSL---PGAEVTYSFD 100 (118)
T ss_pred ceeeecCCCCCChHHHHHHHHHHcCCcHHHHHHHHHh---------cccccccchHHHHHHhhC---CCCeEEEecc
Confidence 555555688999999999999988754 56555532 379999 999999988 7888876433
No 39
>PF14424 Toxin-deaminase: The BURPS668_1122 family of deaminases
Probab=91.63 E-value=0.74 Score=35.27 Aligned_cols=59 Identities=22% Similarity=0.354 Sum_probs=44.2
Q ss_pred CCCCCCHHHHHHHHHHHc-CCC-ce--eEEEEEeeeCCCCCccCCCHHHHHHHHHhcCCCCCcEEEEEcC
Q psy2494 61 YGMTICAEKTAISKAISE-GQT-KF--KRIAVSAILPDSNKFVSPCGSCRQVIAEFSSPACDIQVLIVKS 126 (166)
Q Consensus 61 ~~~s~CAEr~Ai~~a~~~-G~~-~i--~~i~vv~~~~~~~~~~~PCG~CRQ~L~E~~~~~~~~~Vi~~~~ 126 (166)
+.-...+|.-.|...... +.. .. -.|-+++ -..||..|+-+|.+|....|+++|.+.+.
T Consensus 70 ~~R~~DsE~KiL~~ia~~l~~~~~~~~G~i~l~t-------e~~pC~SC~~vi~qF~~~~pni~~~v~~~ 132 (133)
T PF14424_consen 70 FPRNNDSEYKILEDIAKKLGDNPDPSGGTIDLFT-------ELPPCESCSNVIEQFKKDFPNIKVNVVYN 132 (133)
T ss_pred ccccccHHHHHHHHHHHHhccccccCCceEEEEe-------cCCcChhHHHHHHHHHHHCCCcEEEEecC
Confidence 456789999999887765 222 22 3566766 34899999999999997778888887654
No 40
>PRK13663 hypothetical protein; Provisional
Probab=88.81 E-value=1.4 Score=40.21 Aligned_cols=61 Identities=20% Similarity=0.278 Sum_probs=50.1
Q ss_pred ccccCCCCHHHHHHHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEEEEeeecccCCCCCCCHHHHHHHHHHHc
Q psy2494 6 IMEFSALDPIEQNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAISE 78 (166)
Q Consensus 6 ~~~~~~l~~~~~~L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~~G~NvEnas~~~s~CAEr~Ai~~a~~~ 78 (166)
+|..-.++++|+..+..|++.++..-.| ++|+...||+|+||-+-+ -+.|--++|.+|+..
T Consensus 330 lM~~~gi~~~dR~vv~~A~~~a~~t~~p------a~AieL~DG~IiTGKtS~------LlgasaA~lLNAlK~ 390 (493)
T PRK13663 330 LMNDAGITPEDRKVVVAAREKAEETGEP------ALAIELPDGTIVTGKTSE------LLGATAAVLLNALKH 390 (493)
T ss_pred HHHHcCCChhhhHHHHHHHHHHHHhCCC------eEEEEeCCCCEEeCCCcc------ccchHHHHHHHHHHH
Confidence 4666778899999999999999988776 899999999999998754 356667788888775
No 41
>PF08903 DUF1846: Domain of unknown function (DUF1846); InterPro: IPR014999 This group of proteins are functionally uncharacterised. ; PDB: 3BH1_B.
Probab=83.38 E-value=1.5 Score=40.16 Aligned_cols=61 Identities=21% Similarity=0.311 Sum_probs=42.4
Q ss_pred ccccCCCCHHHHHHHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEEEEeeecccCCCCCCCHHHHHHHHHHHc
Q psy2494 6 IMEFSALDPIEQNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAISE 78 (166)
Q Consensus 6 ~~~~~~l~~~~~~L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~~G~NvEnas~~~s~CAEr~Ai~~a~~~ 78 (166)
+|..-.++++++..+..|++.++..-+| ++|+...||+|+||-+-+- +.|--++|.+|+..
T Consensus 329 lM~~~~i~~~dR~vv~~A~~~ae~t~~p------a~AieL~DG~IvTGktS~L------lgasaA~lLNAlK~ 389 (491)
T PF08903_consen 329 LMNQAGITPEDRPVVAAAREKAEETGAP------AAAIELPDGTIVTGKTSDL------LGASAAALLNALKY 389 (491)
T ss_dssp HHHHHT--GGGSTTHHHHHHHHHHHSS-------EEEEE-TTS-EEEEE--SS------B-HHHHHHHHHHHH
T ss_pred HHHHcCCChHhhHHHHHHHHHHHHhCCC------eEEEEeCCCCEEeCCCccc------cchHHHHHHHHHHH
Confidence 4555667788888899999999988776 7899999999999998543 55667778888764
No 42
>PF14428 SCP1201-deam: SCP1.201-like deaminase
Probab=74.59 E-value=16 Score=28.02 Aligned_cols=60 Identities=18% Similarity=0.235 Sum_probs=40.8
Q ss_pred CCCCCCHHHHHHHHHHHcCCCceeEEEEEeeeCCCCCccCCCHH---HHHHHHHhcCCCCCcEEEEEcCCCc
Q psy2494 61 YGMTICAEKTAISKAISEGQTKFKRIAVSAILPDSNKFVSPCGS---CRQVIAEFSSPACDIQVLIVKSDRS 129 (166)
Q Consensus 61 ~~~s~CAEr~Ai~~a~~~G~~~i~~i~vv~~~~~~~~~~~PCG~---CRQ~L~E~~~~~~~~~Vi~~~~~g~ 129 (166)
+..+-|.|..+-..|..+|. +...|+- + .-.|||. |.|.|.-+-..+..+.|+..+..+.
T Consensus 65 ~~~~~HVE~k~Aa~Mr~~g~---~~a~vvI---N---~n~pC~~~~gC~~~l~~iLP~GstLtV~~~~~~~~ 127 (135)
T PF14428_consen 65 PTAASHVEGKAAAWMRRNGI---KHATVVI---N---PNGPCGGRDGCDQLLPAILPEGSTLTVHWPGGRGP 127 (135)
T ss_pred ccchhhhhHHHHHHHHHcCC---eEEEEEE---e---CCCCCCCccCHHHHHHHhCCCCCEEEEEeeCCCce
Confidence 45678999999888888543 3333333 2 3389999 9999999986445566666555443
No 43
>COG4868 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=74.09 E-value=5.4 Score=35.67 Aligned_cols=59 Identities=25% Similarity=0.267 Sum_probs=45.4
Q ss_pred cccCCCCHHHHHHHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEEEEeeecccCCCCCCCHHHHHHH
Q psy2494 7 MEFSALDPIEQNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAIS 73 (166)
Q Consensus 7 ~~~~~l~~~~~~L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~~G~NvEnas~~~s~CAEr~Ai~ 73 (166)
|.--.++++|++.+..|++.++..-.| |.|+...||+|+||-+-|- ++++--|-.+||-
T Consensus 331 M~~~G~t~eDRkVv~~A~~k~E~tg~p------a~A~elpdG~iiTGK~SeL--~g~~aA~ilNalK 389 (493)
T COG4868 331 MNDLGLTPEDRKVVVFARQKAELTGQP------ALAFELPDGKIITGKTSEL--FGPTAAAILNALK 389 (493)
T ss_pred HhhcCCChhcchhhhHhHHHHHhcCCC------ceEEEcCCCceeeccchhh--cCccHHHHHHHHH
Confidence 334456789999999999999988787 8899999999999999875 5555444444443
No 44
>PF11372 DUF3173: Domain of unknown function (DUF3173); InterPro: IPR021512 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=70.74 E-value=4.9 Score=26.86 Aligned_cols=38 Identities=11% Similarity=0.339 Sum_probs=27.9
Q ss_pred ccccccCCCCH-HHHHHHHHHHHH-HHhcCCCCCCCceEEE
Q psy2494 4 HDIMEFSALDP-IEQNLANLSIQA-RDNAYCPYSKLQVGAA 42 (166)
Q Consensus 4 ~~~~~~~~l~~-~~~~L~~~A~~a-~~~ayaPyS~f~VGAA 42 (166)
.|+|.+ .+++ .-++++++|.+. .+++|++|.+-++|-+
T Consensus 7 ~dLi~l-Gf~~~tA~~IIrqAK~~lV~~G~~~Y~nkRlg~V 46 (59)
T PF11372_consen 7 KDLIEL-GFSESTARDIIRQAKALLVQKGFSFYNNKRLGRV 46 (59)
T ss_pred HHHHHc-CCCHHHHHHHHHHHHHHHHHcCCCcccCCccCcc
Confidence 356665 5555 367899999864 4789999999888754
No 45
>PF14441 OTT_1508_deam: OTT_1508-like deaminase
Probab=68.93 E-value=11 Score=28.57 Aligned_cols=45 Identities=16% Similarity=0.168 Sum_probs=35.3
Q ss_pred CCCCCCCHHHHHHHHHHHcCCCceeEEEEEeeeCCCCCccCCCHHHHHHHHHhc
Q psy2494 60 SYGMTICAEKTAISKAISEGQTKFKRIAVSAILPDSNKFVSPCGSCRQVIAEFS 113 (166)
Q Consensus 60 s~~~s~CAEr~Ai~~a~~~G~~~i~~i~vv~~~~~~~~~~~PCG~CRQ~L~E~~ 113 (166)
.....+|||..-+.....++.....-|.+.- .||..|..+|..+.
T Consensus 63 ~~~~~vHaE~~ll~~~~~~~~~~~~yIG~SK---------~~C~lC~~~~~~~~ 107 (142)
T PF14441_consen 63 SFKPSVHAEMQLLDHLERHFDPPPRYIGCSK---------PSCFLCYLYFQAHG 107 (142)
T ss_pred CCCCCeehHHHHHHHHHHhcCCCCCEEEEeC---------chHHhHHHHHHHhC
Confidence 5678999999999888877334555555444 79999999999887
No 46
>cd03026 AhpF_NTD_C TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then reduces hydrogen peroxide and organic hydroperoxides. AhpF contains an NTD containing two contiguous TRX-fold subdomains similar to Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). It also contains a catalytic core similar to TRX reductase containing FAD and NADH binding domains with an active site disulfide. The proposed mechanism of action of AhpF is similar to a TRX/TRX reductase system. The flow of reducing equivalents goes from NADH - catalytic core of AhpF - NTD of AhpF - AhpC - peroxide substrates. The catalytic CXXC motif of the NTD of AhpF is contained in its C-terminal TRX subdomain.
Probab=68.28 E-value=22 Score=24.83 Aligned_cols=48 Identities=8% Similarity=0.041 Sum_probs=32.0
Q ss_pred HHHHcCCCceeEEEEEeeeCCCCCccCCCHHHHHHHHHhcCCCCCcEEEEEcCC
Q psy2494 74 KAISEGQTKFKRIAVSAILPDSNKFVSPCGSCRQVIAEFSSPACDIQVLIVKSD 127 (166)
Q Consensus 74 ~a~~~G~~~i~~i~vv~~~~~~~~~~~PCG~CRQ~L~E~~~~~~~~~Vi~~~~~ 127 (166)
.++..=...++-.+.++ ..+++|..++|++.++...++++++.+.+.+
T Consensus 5 ~~~~~l~~pv~i~~F~~------~~C~~C~~~~~~~~~l~~~~~~i~~~~vd~~ 52 (89)
T cd03026 5 EQIRRLNGPINFETYVS------LSCHNCPDVVQALNLMAVLNPNIEHEMIDGA 52 (89)
T ss_pred HHHHhcCCCEEEEEEEC------CCCCCcHHHHHHHHHHHHHCCCceEEEEEhH
Confidence 34443345555444343 2578999999999999865677888877754
No 47
>PRK09732 hypothetical protein; Provisional
Probab=67.39 E-value=39 Score=25.87 Aligned_cols=62 Identities=10% Similarity=0.049 Sum_probs=44.2
Q ss_pred ccCCCCHH-HHHHHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEEEEeeecccCCCCCCCHHHHHHHHHHHc
Q psy2494 8 EFSALDPI-EQNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAISE 78 (166)
Q Consensus 8 ~~~~l~~~-~~~L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~~G~NvEnas~~~s~CAEr~Ai~~a~~~ 78 (166)
+.+.|+.+ -++++++|++.+++- +++|..+|++..|+...=.-.+++.+. +. ..|..+|.+.
T Consensus 3 ~~~~Ltl~~A~~~~~aA~~~A~~~-----g~~v~iaVvD~~G~l~a~~RmDgA~~~---s~-~iA~~KA~TA 65 (134)
T PRK09732 3 TKVILSQQMASAIIAAGQEEAQKN-----NWSVSIAVADDGGHLLALSRMDDCAPI---AA-YISQEKARTA 65 (134)
T ss_pred ccccCCHHHHHHHHHHHHHHHHHh-----CCCEEEEEEcCCCCEEEEEEcCCCccc---cH-HHHHHHHHHH
Confidence 34556665 567788888777653 457999999999999888888887653 22 4666666654
No 48
>PF14427 Pput2613-deam: Pput_2613-like deaminase
Probab=60.56 E-value=17 Score=27.33 Aligned_cols=30 Identities=17% Similarity=0.335 Sum_probs=22.4
Q ss_pred ccCCCHHHHHHHHHhcCCCCCcEEEEEcCCC
Q psy2494 98 FVSPCGSCRQVIAEFSSPACDIQVLIVKSDR 128 (166)
Q Consensus 98 ~~~PCG~CRQ~L~E~~~~~~~~~Vi~~~~~g 128 (166)
..+||-.||-.|..|... .+..|+...+++
T Consensus 74 ~ypPC~~CkG~Mr~~s~~-~g~~I~Y~w~~~ 103 (118)
T PF14427_consen 74 QYPPCNSCKGKMRRASEK-SGATIQYTWPNG 103 (118)
T ss_pred ecCCCchhHHHHHHhhhc-cCcEEEEecCCC
Confidence 458999999999999842 356676666554
No 49
>PF08210 APOBEC_N: APOBEC-like N-terminal domain; InterPro: IPR013158 This domain is found at the N terminus of the Apolipoprotein B mRNA editing enzyme. Apobec-1 catalyzes C to U editing of apolipoprotein B (apoB) mRNA in the mammalian intestine. The N-terminal domain of APOBEC-1 like proteins is the catalytic domain, while the C-terminal domain is a pseudocatalyitc domain. More specifically, the catalytic domain is a zinc dependent deaminases domain and is essential for cytidine deamination. APOBEC-3 like members contain two copies of this domain. This family also includes the functionally homologous activation induced deaminase, which is essential for the development of antibody diversity in B lymphocytes. RNA editing by APOBEC-1 requires homodimerisation and this complex interacts with RNA binding proteins to from the editosome [] (and references therein).; GO: 0008270 zinc ion binding, 0016814 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines; PDB: 3IQS_A 3IR2_A 3V4J_B 2KEM_A 2KBO_A 3V4K_A 3E1U_A 2JYW_A 2RPZ_A.
Probab=60.13 E-value=50 Score=26.49 Aligned_cols=83 Identities=20% Similarity=0.177 Sum_probs=47.6
Q ss_pred CCCCCCceEEEEEe--CCCc-EEEEeeecccCCCCCCCHHHHHHHHHHHcC--C-CceeEEEEEeeeCCCCCccCCCHH-
Q psy2494 32 CPYSKLQVGAALLC--QDDT-IFTGCNVENASYGMTICAEKTAISKAISEG--Q-TKFKRIAVSAILPDSNKFVSPCGS- 104 (166)
Q Consensus 32 aPyS~f~VGAAv~~--~dG~-i~~G~NvEnas~~~s~CAEr~Ai~~a~~~G--~-~~i~~i~vv~~~~~~~~~~~PCG~- 104 (166)
+||.+-........ .+|. ++.|.-..... .+.|||..=+..-.... + ...-.|.... .-+||..
T Consensus 18 ~~~~r~~t~Lcy~v~~~~~~~~~~g~~~n~~~--~~~HAE~~fl~~i~~~~~~~~~~~y~ITwy~-------SwSPC~~~ 88 (188)
T PF08210_consen 18 PNYGRNKTYLCYEVEGRDGSWVQRGYFRNENC--KGRHAELCFLDWIRSWLLFDPDQIYRITWYL-------SWSPCPES 88 (188)
T ss_dssp ---SSSS-EEEEEEEEECTTEEEECECCSTTS--TSB-HHHHHHHHCCCGTB-TTTSEEEEEEEE-------SSS--CC-
T ss_pred ccCCCCeEEEEEEEEEecCCCceEEEEECCCC--CCCCHHHHHHHHHHHhhccCCCceEEEEEEE-------ecCCCcch
Confidence 33445555555543 4554 67776543322 68999999887665544 2 3444555443 2489999
Q ss_pred ---HHHHHHHhcCCC--CCcEEEE
Q psy2494 105 ---CRQVIAEFSSPA--CDIQVLI 123 (166)
Q Consensus 105 ---CRQ~L~E~~~~~--~~~~Vi~ 123 (166)
|-+-|.+|-..+ +++.+-+
T Consensus 89 ~~~Ca~~i~~FL~~~~~~~v~L~I 112 (188)
T PF08210_consen 89 DHCCAEKIAEFLKKHLKPNVSLSI 112 (188)
T ss_dssp ---HHHHHHHHHCCC--TTEEEEE
T ss_pred hhHHHHHHHHHHHHhCCCCCeEEE
Confidence 999999998756 5555444
No 50
>PF03652 UPF0081: Uncharacterised protein family (UPF0081); InterPro: IPR005227 Holliday junction resolvases (HJRs) are key enzymes of DNA recombination. The principal HJRs are now known or confidently predicted for all bacteria and archaea whose genomes have been completely sequenced, with many species encoding multiple potential HJRs. Structural and evolutionary relationships of HJRs and related nucleases suggests that the HJR function has evolved independently from at least four distinct structural folds, namely RNase H, endonuclease, endonuclease VII-colicin E and RusA (IPR008822 from INTERPRO): The endonuclease fold, whose structural prototypes are the phage exonuclease, the very short patch repair nuclease (Vsr) and type II restriction enzymes, is shown to encompass by far a greater diversity of nucleases than previously suspected. This fold unifies archaeal HJRs (IPR002732 from INTERPRO), repair nucleases such as RecB (IPR004586 from INTERPRO) and Vsr (IPR004603 from INTERPRO), restriction enzymes and a variety of predicted nucleases whose specific activities remain to be determined. The RNase H fold characterises the RuvC family (IPR002176 from INTERPRO), which is nearly ubiquitous in bacteria, and in addition the YqgF family (IPR005227 from INTERPRO). The proteins of this family, typified by Escherichia coli YqgF, are likely to function as an alternative to RuvC in most bacteria, but could be the principal HJRs in low-GC Gram-positive bacteria and Aquifex. Endonuclease VII of phage T4 (IPR004211 from INTERPRO) is shown to serve as a structural template for many nucleases, including McrA and other type II restriction enzymes. Together with colicin E7, endonuclease VII defines a distinct metal-dependent nuclease fold. Horizontal gene transfer, lineage-specific gene loss and gene family expansion, and non-orthologous gene displacement seem to have been major forces in the evolution of HJRs and related nucleases. A remarkable case of displacement is seen in the Lyme disease spirochete Borrelia burgdorferi, which does not possess any of the typical HJRs, but instead encodes, in its chromosome and each of the linear plasmids, members of the exonuclease family predicted to function as HJRs. The diversity of HJRs and related nucleases in bacteria and archaea contrasts with their near absence in eukaryotes. The few detected eukaryotic representatives of the endonuclease fold and the RNase H fold have probably been acquired from bacteria via horizontal gene transfer. The identity of the principal HJR(s) involved in recombination in eukaryotes remains uncertain; this function could be performed by topoisomerase IB or by a novel, so far undetected, class of enzymes. Likely HJRs and related nucleases were identified in the genomes of numerous bacterial and eukaryotic DNA viruses. Gene flow between viral and cellular genomes has probably played a major role in the evolution of this class of enzymes. This family represents the YqgF family of putative Holliday junction resolvases. With the exception of the spirochetes, the YqgF family is represented in all bacterial lineages, including the mycoplasmas with their highly degenerate genomes. The RuvC resolvases are conspicuously absent in the low-GC Gram-positive bacterial lineage, with the exception of Ureaplasma parvum (Ureaplasma urealyticum biotype 1) (Q9PQY7 from SWISSPROT, []). Furthermore, loss of function ruvC mutants of E. coli show a residual HJR activity that cannot be ascribed to the prophage-encoded RusA resolvase []. This suggests that the YqgF family proteins could be alternative HJRs whose function partially overlaps with that of RuvC [].; GO: 0016788 hydrolase activity, acting on ester bonds, 0006281 DNA repair, 0006310 DNA recombination, 0006974 response to DNA damage stimulus, 0005737 cytoplasm; PDB: 1NU0_A 1OVQ_A 1NMN_B 1VHX_B 1IV0_A.
Probab=55.80 E-value=50 Score=25.00 Aligned_cols=97 Identities=13% Similarity=0.096 Sum_probs=57.1
Q ss_pred CCCCceEEEEEeCCCcEEEEe-eecccCCCCCCCHHHHHHHHHHHcCCCceeEEEEEeeeC-CCCCccCCCHHHHHHHHH
Q psy2494 34 YSKLQVGAALLCQDDTIFTGC-NVENASYGMTICAEKTAISKAISEGQTKFKRIAVSAILP-DSNKFVSPCGSCRQVIAE 111 (166)
Q Consensus 34 yS~f~VGAAv~~~dG~i~~G~-NvEnas~~~s~CAEr~Ai~~a~~~G~~~i~~i~vv~~~~-~~~~~~~PCG~CRQ~L~E 111 (166)
|..-++|.|+-+..+.+-... .+.+... .....+-..+. .+ ..+..+|| +-+. .++....-|-.+|+|..+
T Consensus 8 ~G~kriGiAvsd~~~~~a~pl~~i~~~~~-~~~~~~l~~li---~~--~~i~~iVv-GlP~~~~G~~~~~~~~v~~f~~~ 80 (135)
T PF03652_consen 8 YGTKRIGIAVSDPLGIIASPLETIPRRNR-EKDIEELKKLI---EE--YQIDGIVV-GLPLNMDGSESEQARRVRKFAEE 80 (135)
T ss_dssp ECSSEEEEEEEETTTSSEEEEEEEEECCC-CCCHHHHHHHH---HH--CCECEEEE-EEEBBCTSSC-CCHHHHHHHHHH
T ss_pred eCCCeEEEEEecCCCCeEeeeEEEECCCC-chHHHHHHHHH---HH--hCCCEEEE-eCCcccCCCccHHHHHHHHHHHH
Confidence 456689999999998764442 2333222 34444444443 33 45666554 4221 224445568889999888
Q ss_pred hcCCCCCcEEEEEcCCCceEEEeeccccc
Q psy2494 112 FSSPACDIQVLIVKSDRSQVGLITIDGMY 140 (166)
Q Consensus 112 ~~~~~~~~~Vi~~~~~g~~~~~~~l~eLL 140 (166)
+....|+++|++.|.... +....++|
T Consensus 81 L~~~~~~ipV~~~DEr~T---T~~A~~~l 106 (135)
T PF03652_consen 81 LKKRFPGIPVILVDERLT---TKEAERRL 106 (135)
T ss_dssp HHHHH-TSEEEEEECSCS---HHCCHCCH
T ss_pred HHHhcCCCcEEEECCChh---HHHHHHHH
Confidence 874225889999998765 33444444
No 51
>PF13540 RCC1_2: Regulator of chromosome condensation (RCC1) repeat; PDB: 3QI0_D 1JTD_B 3QHY_B.
Probab=49.07 E-value=20 Score=20.03 Aligned_cols=15 Identities=27% Similarity=0.450 Sum_probs=9.6
Q ss_pred EEEEeCCCcEE-EEee
Q psy2494 41 AALLCQDDTIF-TGCN 55 (166)
Q Consensus 41 AAv~~~dG~i~-~G~N 55 (166)
++++++||++| .|.|
T Consensus 11 t~al~~~g~v~~wG~n 26 (30)
T PF13540_consen 11 TCALTSDGEVYCWGDN 26 (30)
T ss_dssp EEEEE-TTEEEEEE--
T ss_pred EEEEEcCCCEEEEcCC
Confidence 46678899998 7776
No 52
>cd01659 TRX_superfamily Thioredoxin (TRX) superfamily; a large, diverse group of proteins containing a TRX-fold. Many members contain a classic TRX domain with a redox active CXXC motif. They function as protein disulfide oxidoreductases (PDOs), altering the redox state of target proteins via the reversible oxidation of their active site dithiol. The PDO members of this superfamily include TRX, protein disulfide isomerase (PDI), tlpA-like, glutaredoxin, NrdH redoxin, and the bacterial Dsb (DsbA, DsbC, DsbG, DsbE, DsbDgamma) protein families. Members of the superfamily that do not function as PDOs but contain a TRX-fold domain include phosducins, peroxiredoxins and glutathione (GSH) peroxidases, SCO proteins, GSH transferases (GST, N-terminal domain), arsenic reductases, TRX-like ferredoxins and calsequestrin, among others.
Probab=45.14 E-value=32 Score=19.48 Aligned_cols=29 Identities=14% Similarity=0.235 Sum_probs=18.2
Q ss_pred CCHHHHHHHHHhcC---CCCCcEEEEEcCCCc
Q psy2494 101 PCGSCRQVIAEFSS---PACDIQVLIVKSDRS 129 (166)
Q Consensus 101 PCG~CRQ~L~E~~~---~~~~~~Vi~~~~~g~ 129 (166)
-|+.|+++...+.. .++++.+...+.++.
T Consensus 8 ~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~ 39 (69)
T cd01659 8 WCPFCQALRPVLAELALLNKGVKFEAVDVDED 39 (69)
T ss_pred CChhHHhhhhHHHHHHhhCCCcEEEEEEcCCC
Confidence 47777777666651 136777777666553
No 53
>COG3019 Predicted metal-binding protein [General function prediction only]
Probab=41.46 E-value=50 Score=25.94 Aligned_cols=25 Identities=20% Similarity=0.557 Sum_probs=18.5
Q ss_pred CCCHHHHHHHHHhcCCCCCcEEEEEcC
Q psy2494 100 SPCGSCRQVIAEFSSPACDIQVLIVKS 126 (166)
Q Consensus 100 ~PCG~CRQ~L~E~~~~~~~~~Vi~~~~ 126 (166)
++||-|..++.-+-. ..++|-....
T Consensus 34 PnCGCC~~w~~~mk~--~Gf~Vk~~~~ 58 (149)
T COG3019 34 PNCGCCDEWAQHMKA--NGFEVKVVET 58 (149)
T ss_pred CCCccHHHHHHHHHh--CCcEEEEeec
Confidence 799999999887764 5676655433
No 54
>PF03928 DUF336: Domain of unknown function (DUF336); InterPro: IPR005624 This entry contains uncharacterised proteins, including GlcG P45504 from SWISSPROT. The alignment contains many conserved motifs that are suggestive of cofactor binding and enzymatic activity.; PDB: 2A2L_D 3FPW_A 3FPV_E.
Probab=41.19 E-value=1.1e+02 Score=22.72 Aligned_cols=52 Identities=13% Similarity=0.158 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEEEEeeecccCCCCCCCHHHHHH
Q psy2494 16 EQNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAI 72 (166)
Q Consensus 16 ~~~L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~~G~NvEnas~~~s~CAEr~Ai 72 (166)
-.+|.+.|++.+++. +++|..+|++.+|+...=.-.+++.....--|++.|-
T Consensus 8 A~~l~~~a~~~a~~~-----g~~v~iaVvd~~G~~~~~~r~dga~~~~~~~a~~KA~ 59 (132)
T PF03928_consen 8 AWKLGDAAVEEARER-----GLPVSIAVVDAGGHLLAFARMDGAPPDSIDWAQRKAY 59 (132)
T ss_dssp HHHHHHHHHHHHHHT-----T---EEEEEETTS-EEEEEE-TTS-TTHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHh-----CCCeEEEEEECCCCEEEEEecCCCcccHHHHHHHHHH
Confidence 456788888777764 3458899999999988777777766544444555543
No 55
>COG0421 SpeE Spermidine synthase [Amino acid transport and metabolism]
Probab=39.24 E-value=31 Score=29.58 Aligned_cols=71 Identities=20% Similarity=0.207 Sum_probs=43.7
Q ss_pred HHHHHHHHHHcCCCceeEEEEEeeeCCCCCccCCCHHHHHHHHHhcCCCCCcEEEEEcCCCceEEEeecccccCCcccCC
Q psy2494 68 EKTAISKAISEGQTKFKRIAVSAILPDSNKFVSPCGSCRQVIAEFSSPACDIQVLIVKSDRSQVGLITIDGMYLTLHCCW 147 (166)
Q Consensus 68 Er~Ai~~a~~~G~~~i~~i~vv~~~~~~~~~~~PCG~CRQ~L~E~~~~~~~~~Vi~~~~~g~~~~~~~l~eLLP~~~~~~ 147 (166)
|..+...+.+++.. ++|.|+++ -.||.=|+++... +.-++.+++-|.+ +.. -.++.||..
T Consensus 64 Eml~h~~~~ah~~p--k~VLiiGg--------GdG~tlRevlkh~----~ve~i~~VEID~~-Vi~-~ar~~l~~~---- 123 (282)
T COG0421 64 EMLAHVPLLAHPNP--KRVLIIGG--------GDGGTLREVLKHL----PVERITMVEIDPA-VIE-LARKYLPEP---- 123 (282)
T ss_pred HHHHhchhhhCCCC--CeEEEECC--------CccHHHHHHHhcC----CcceEEEEEcCHH-HHH-HHHHhccCc----
Confidence 34444444455444 68899983 4577778877654 3567888888876 322 345778875
Q ss_pred CCCCCCCCCCccee
Q psy2494 148 ERGNLVLPDPKLTI 161 (166)
Q Consensus 148 ~~~~~~~~~~~~~~ 161 (166)
++..+ ||+|+|
T Consensus 124 -~~~~~--dpRv~i 134 (282)
T COG0421 124 -SGGAD--DPRVEI 134 (282)
T ss_pred -ccccC--CCceEE
Confidence 22222 777665
No 56
>PF00319 SRF-TF: SRF-type transcription factor (DNA-binding and dimerisation domain); InterPro: IPR002100 Human serum response factor (SRF) is a ubiquitous nuclear protein important for cell proliferation and differentiation. SRF function is essential for transcriptional regulation of numerous growth-factor-inducible genes, such as c-fos oncogene and muscle-specific actin genes. A core domain of around 90 amino acids is sufficient for the activities of DNA-binding, dimerisation and interaction with accessory factors. Within the core is a DNA-binding region, designated the MADS box [], that is highly similar to many eukaryotic regulatory proteins: among these are MCM1, the regulator of cell type-specific genes in fission yeast; DSRF, a Drosophila trachea development factor; the MEF2 family of myocyte-specific enhancer factors; and the Agamous and Deficiens families of plant homeotic proteins. In SRF, the MADS box has been shown to be involved in DNA-binding and dimerisation []. Proteins belonging to the MADS family function as dimers, the primary DNA-binding element of which is an anti-parallel coiled coil of two amphipathic alpha-helices, one from each subunit. The DNA wraps around the coiled coil allowing the basic N-termini of the helices to fit into the DNA major groove. The chain extending from the helix N-termini reaches over the DNA backbone and penetrates into the minor groove. A 4-stranded, anti-parallel beta-sheet packs against the coiled-coil face opposite the DNA and is the central element of the dimerisation interface. The MADS-box domain is commonly found associated with K-box region see IPR002487 from INTERPRO ; GO: 0003677 DNA binding, 0046983 protein dimerization activity; PDB: 1MNM_B 1N6J_A 1TQE_S 3MU6_D 3P57_I 1EGW_A 1C7U_B 3KOV_A 1HBX_A 1K6O_C ....
Probab=38.95 E-value=85 Score=20.06 Aligned_cols=32 Identities=13% Similarity=0.194 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEEE
Q psy2494 16 EQNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFT 52 (166)
Q Consensus 16 ~~~L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~~ 52 (166)
.+-|+.+|.++....-+ .|+..+...+|++|+
T Consensus 17 k~gL~KKa~ELs~LC~~-----~v~~iv~~~~g~~~~ 48 (51)
T PF00319_consen 17 KKGLFKKASELSTLCGV-----DVALIVFSPDGKLYT 48 (51)
T ss_dssp HHHHHHHHHHHHHHHT------EEEEEEEETTSEEEE
T ss_pred HhhhhhccceeeeecCC-----eEEEEEECCCCCEEE
Confidence 45688888888876444 799999999999885
No 57
>COG1010 CobJ Precorrin-3B methylase [Coenzyme metabolism]
Probab=37.69 E-value=73 Score=27.11 Aligned_cols=41 Identities=22% Similarity=0.285 Sum_probs=32.2
Q ss_pred CCCHHHHHHHHHhcCCCCCcEEEEEcCC---CceEEEeeccccc-CC
Q psy2494 100 SPCGSCRQVIAEFSSPACDIQVLIVKSD---RSQVGLITIDGMY-LT 142 (166)
Q Consensus 100 ~PCG~CRQ~L~E~~~~~~~~~Vi~~~~~---g~~~~~~~l~eLL-P~ 142 (166)
.+=+.+.+.|.++-. ++++|.+..+- ++.++.+||+||. +.
T Consensus 171 ~~~~~a~eil~~~r~--~~tpVgivrnagR~~e~v~ittL~~l~~~~ 215 (249)
T COG1010 171 EQLGRAFEILREHRS--PDTPVGIVRNAGREGEEVRITTLGDLDEAE 215 (249)
T ss_pred HHHHHHHHHHHHhcC--CCCcEEEEecCCCCCceEEEEEhHHhcccc
Confidence 456889999999987 89999887553 4457899999988 44
No 58
>cd02961 PDI_a_family Protein Disulfide Isomerase (PDIa) family, redox active TRX domains; composed of eukaryotic proteins involved in oxidative protein folding in the endoplasmic reticulum (ER) by acting as catalysts and folding assistants. Members of this family include PDI and PDI-related proteins like ERp72, ERp57 (or ERp60), ERp44, P5, PDIR, ERp46 and the transmembrane PDIs. PDI, ERp57, ERp72, P5, PDIR and ERp46 are all oxidases, catalyzing the formation of disulfide bonds of newly synthesized polypeptides in the ER. They also exhibit reductase activity in acting as isomerases to correct any non-native disulfide bonds, as well as chaperone activity to prevent protein aggregation and facilitate the folding of newly synthesized proteins. These proteins usually contain multiple copies of a redox active TRX (a) domain containing a CXXC motif, and may also contain one or more redox inactive TRX-like (b) domains. Only one a domain is required for the oxidase function but multiple copies
Probab=36.35 E-value=76 Score=20.59 Aligned_cols=13 Identities=31% Similarity=0.951 Sum_probs=10.0
Q ss_pred CCHHHHHHHHHhc
Q psy2494 101 PCGSCRQVIAEFS 113 (166)
Q Consensus 101 PCG~CRQ~L~E~~ 113 (166)
-|+.|+++...|.
T Consensus 26 ~C~~C~~~~~~~~ 38 (101)
T cd02961 26 WCGHCKALAPEYE 38 (101)
T ss_pred CCHHHHhhhHHHH
Confidence 4999999877663
No 59
>PF01614 IclR: Bacterial transcriptional regulator This Pfam family contains some of the members of the iclR family; InterPro: IPR014757 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One of these subfamilies, called 'iclR', groups several proteins including: gylR, a possible activator protein for the gylABX glycerol operon in Streptomyces. iclR, the repressor of the acetate operon (also known as glyoxylate bypass operon) in Escherichia coli and Salmonella typhimurium. These proteins have a Helix-Turn-Helix motif at the N terminus that is similar to that of other DNA-binding proteins [].; PDB: 3MQ0_A 2IA2_D 3OBF_B 2G7U_C 3R4K_A 1TF1_D 1MKM_A 1YSP_A 3BJN_A 1TD5_A ....
Probab=33.95 E-value=94 Score=22.21 Aligned_cols=44 Identities=14% Similarity=0.280 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHhcCCCCC--C-----CceEEEEEeCCCcEEEEeeecccC
Q psy2494 16 EQNLANLSIQARDNAYCPYS--K-----LQVGAALLCQDDTIFTGCNVENAS 60 (166)
Q Consensus 16 ~~~L~~~A~~a~~~ayaPyS--~-----f~VGAAv~~~dG~i~~G~NvEnas 60 (166)
.++|.++..+++++.|+ ++ . ..+++.|.+.+|++..++++--..
T Consensus 53 ~~~l~~~l~~ir~~Gya-~~~~~~~~gv~~iA~Pi~~~~g~~~~alsv~~~~ 103 (129)
T PF01614_consen 53 PEELRQELAEIRERGYA-VSDGEYEPGVAAIAVPIFDPNGQVVAALSVSGPS 103 (129)
T ss_dssp HHHHHHHHHHHHHHTSE-EEESSSSTTEEEEEEEEEETTSCEEEEEEEEEEG
T ss_pred HHHHHHHHHHHHHhccc-ccchhcccccceEEEEEECCCCCEEEEEEEeeEh
Confidence 56788888888888887 32 1 257888888899999888886543
No 60
>cd02975 PfPDO_like_N Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO)-like family, N-terminal TRX-fold subdomain; composed of proteins with similarity to PfPDO, a redox active thermostable protein believed to be the archaeal counterpart of bacterial DsbA and eukaryotic protein disulfide isomerase (PDI), which are both involved in oxidative protein folding. PfPDO contains two redox active CXXC motifs in two contiguous TRX-fold subdomains. The active site in the N-terminal TRX-fold subdomain is required for isomerase but not for reductase activity of PfPDO. The exclusive presence of PfPDO-like proteins in extremophiles may suggest that they have a special role in adaptation to extreme conditions.
Probab=33.09 E-value=38 Score=24.37 Aligned_cols=26 Identities=27% Similarity=0.520 Sum_probs=15.8
Q ss_pred CHHHH---HHHHHhcCCCCCcEEEEEcCC
Q psy2494 102 CGSCR---QVIAEFSSPACDIQVLIVKSD 127 (166)
Q Consensus 102 CG~CR---Q~L~E~~~~~~~~~Vi~~~~~ 127 (166)
|+.|+ .+|.+++...+.+++...|.+
T Consensus 34 C~~C~~~~~~l~~la~~~~~i~~~~vd~d 62 (113)
T cd02975 34 CQYCEVTKQLLEELSELSDKLKLEIYDFD 62 (113)
T ss_pred CCChHHHHHHHHHHHHhcCceEEEEEeCC
Confidence 56665 677777743345666666544
No 61
>COG1414 IclR Transcriptional regulator [Transcription]
Probab=30.74 E-value=1.2e+02 Score=24.98 Aligned_cols=49 Identities=12% Similarity=0.155 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHHHhcCCCC------CCCceEEEEEeCCCcEEEEeeecccCCCCC
Q psy2494 16 EQNLANLSIQARDNAYCPY------SKLQVGAALLCQDDTIFTGCNVENASYGMT 64 (166)
Q Consensus 16 ~~~L~~~A~~a~~~ayaPy------S~f~VGAAv~~~dG~i~~G~NvEnas~~~s 64 (166)
.++|.++..+.+++.|+=. .-..|+|.+.+.+|++..++++-..++..+
T Consensus 168 ~~~l~~el~~iR~~Gya~~~~e~~~gv~~iAaPi~~~~g~v~aaisv~~p~~r~~ 222 (246)
T COG1414 168 PEALLEELAEIRARGYAVDDEELEPGVRCIAAPIFDAGGEVVAAISVSGPASRLT 222 (246)
T ss_pred HHHHHHHHHHHHhcCeeeeccccccCcEEEEEEEECCCCCEEEEEEEeechhhcC
Confidence 5678888889999998822 233899999999999999999988877655
No 62
>cd00884 beta_CA_cladeB Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an active site by ionization of the zinc-bound water molecule and removal of a proton from the active site. CAs are ubiquitous enzymes involved in fundamental processes like photosynthesis, respiration, pH homeostasis and ion transport. There are three evolutionarily distinct families of CAs (the alpha-, beta-, and gamma-CAs) which show no significant sequence identity or structural similarity. Within the beta-CA family there are four evolutionarily distinct clades (A through D). The beta-CAs are multimeric enzymes (forming dimers,tetramers,hexamers and octamers) which are present in higher plants, algae, fungi, archaea and prokaryotes.
Probab=30.29 E-value=1.5e+02 Score=23.78 Aligned_cols=55 Identities=25% Similarity=0.325 Sum_probs=40.1
Q ss_pred CCcEEEEeeecccCCCC----CCCHHHHHHHHHHHcCCCceeEEEEEeeeCCCCCccCCCHHHHHHHHH
Q psy2494 47 DDTIFTGCNVENASYGM----TICAEKTAISKAISEGQTKFKRIAVSAILPDSNKFVSPCGSCRQVIAE 111 (166)
Q Consensus 47 dG~i~~G~NvEnas~~~----s~CAEr~Ai~~a~~~G~~~i~~i~vv~~~~~~~~~~~PCG~CRQ~L~E 111 (166)
-|.+|+=.|+-|-..+. .-+.+..+|-.|+..- +++.|+|++ . +=||+++..+..
T Consensus 48 ~Gd~fv~Rn~gn~v~~~~~~~~~~~~~asleyav~~l--~v~~ivV~G---H-----~~Cgav~Aa~~~ 106 (190)
T cd00884 48 PGELFVVRNVGNLVPPYEPDGGFHGTSAAIEYAVAVL--KVEHIVVCG---H-----SDCGGIRALLSP 106 (190)
T ss_pred CCCEEEEeccCCcCCcccccccccchhhhHHHHHHHh--CCCEEEEeC---C-----CcchHHHHHhcc
Confidence 48999999988875433 3456777888787763 456788888 4 669999998753
No 63
>PF14432 DYW_deaminase: DYW family of nucleic acid deaminases
Probab=29.52 E-value=96 Score=22.79 Aligned_cols=52 Identities=21% Similarity=0.356 Sum_probs=34.2
Q ss_pred CCCCCHHHHHHHHHHHcCCCceeEEEEEeeeCCCCCccCCCHHHHHHHHHhcCCCCCcEEEEEcCC
Q psy2494 62 GMTICAEKTAISKAISEGQTKFKRIAVSAILPDSNKFVSPCGSCRQVIAEFSSPACDIQVLIVKSD 127 (166)
Q Consensus 62 ~~s~CAEr~Ai~~a~~~G~~~i~~i~vv~~~~~~~~~~~PCG~CRQ~L~E~~~~~~~~~Vi~~~~~ 127 (166)
.+..|+|+-||+..+..- .++. +.. -=|+-|-+++.-++.. -.-+|++.|.+
T Consensus 59 ~~~~HSEKlAiafgli~~-------~vvk---n~~---RvC~DCH~~~K~iS~~-~~ReIiVRD~~ 110 (116)
T PF14432_consen 59 SLCYHSEKLAIAFGLINT-------RVVK---NLK---RVCGDCHSFIKFISKI-TGREIIVRDSN 110 (116)
T ss_pred hhhccHHHHHHHhcccce-------eEEe---cCC---ccchHHHHHHHHHHHH-HCeEEEEeCCC
Confidence 457799999998765443 3333 211 3499999998877631 24567887764
No 64
>KOG2501|consensus
Probab=29.40 E-value=58 Score=25.81 Aligned_cols=30 Identities=33% Similarity=0.596 Sum_probs=19.9
Q ss_pred CCCHHHHHH-------HHHhcCCCCCcEEEEEcCCCc
Q psy2494 100 SPCGSCRQV-------IAEFSSPACDIQVLIVKSDRS 129 (166)
Q Consensus 100 ~PCG~CRQ~-------L~E~~~~~~~~~Vi~~~~~g~ 129 (166)
.=|+-|||| ..++...+..++|+.++.|..
T Consensus 43 ~wC~pCR~FTP~Lk~fYe~l~~~~~~fEVvfVS~D~~ 79 (157)
T KOG2501|consen 43 HWCPPCRDFTPILKDFYEELKDNAAPFEVVFVSSDRD 79 (157)
T ss_pred EECCchhhCCchHHHHHHHHHhcCCceEEEEEecCCC
Confidence 347788985 333343446799998888764
No 65
>TIGR02196 GlrX_YruB Glutaredoxin-like protein, YruB-family. This glutaredoxin-like protein family contains the conserved CxxC motif and includes the Clostridium pasteurianum protein YruB which has been cloned from a rubredoxin operon. Somewhat related to NrdH, it is unknown whether this protein actually interacts with glutathione/glutathione reducatase, or, like NrdH, some other reductant system.
Probab=29.35 E-value=70 Score=19.74 Aligned_cols=24 Identities=17% Similarity=0.283 Sum_probs=15.2
Q ss_pred CCHHHHHHHHHhcCCCCCcEEEEEcC
Q psy2494 101 PCGSCRQVIAEFSSPACDIQVLIVKS 126 (166)
Q Consensus 101 PCG~CRQ~L~E~~~~~~~~~Vi~~~~ 126 (166)
=|+.|+++..-+.. .++++...+-
T Consensus 9 ~C~~C~~~~~~l~~--~~i~~~~vdi 32 (74)
T TIGR02196 9 WCPPCKKAKEYLTS--KGIAFEEIDV 32 (74)
T ss_pred CChhHHHHHHHHHH--CCCeEEEEec
Confidence 38888887766654 4555555544
No 66
>PLN00416 carbonate dehydratase
Probab=27.47 E-value=3.8e+02 Score=22.69 Aligned_cols=66 Identities=20% Similarity=0.275 Sum_probs=45.2
Q ss_pred CCCceEEEEEeCC-------------CcEEEEeeecccCCCCC---CCHHHHHHHHHHHcCCCceeEEEEEeeeCCCCCc
Q psy2494 35 SKLQVGAALLCQD-------------DTIFTGCNVENASYGMT---ICAEKTAISKAISEGQTKFKRIAVSAILPDSNKF 98 (166)
Q Consensus 35 S~f~VGAAv~~~d-------------G~i~~G~NvEnas~~~s---~CAEr~Ai~~a~~~G~~~i~~i~vv~~~~~~~~~ 98 (166)
++.|-.+.+-+.| |.+|.=.|+-|..-+.. .+....+|-.|+.. -+++.|+|++ .
T Consensus 77 gQ~P~alvI~CsDSRV~pe~If~~~pGDlFVvRNaGNiV~~~d~~~~~~~~asLEyAv~~--L~V~~IVV~G---H---- 147 (258)
T PLN00416 77 TQTPKFLVFACSDSRVCPSHILNFQPGEAFVVRNIANMVPPFDQKRHSGVGAAVEYAVVH--LKVENILVIG---H---- 147 (258)
T ss_pred CCCCCEEEEEecCCCCCHHHHcCCCCCCEEEEeccccccCCccccccccchhHHHHHHHH--hCCCEEEEec---C----
Confidence 4556656665554 88999999888753311 24566777777765 3456788888 4
Q ss_pred cCCCHHHHHHHH
Q psy2494 99 VSPCGSCRQVIA 110 (166)
Q Consensus 99 ~~PCG~CRQ~L~ 110 (166)
+-||+|+..+.
T Consensus 148 -s~CGaV~Aa~~ 158 (258)
T PLN00416 148 -SCCGGIKGLMS 158 (258)
T ss_pred -CCchHHHHHHh
Confidence 67999998875
No 67
>cd03008 TryX_like_RdCVF Tryparedoxin (TryX)-like family, Rod-derived cone viability factor (RdCVF) subfamily; RdCVF is a thioredoxin (TRX)-like protein specifically expressed in photoreceptors. RdCVF was isolated and identified as a factor that supports cone survival in retinal cultures. Cone photoreceptor loss is responsible for the visual handicap resulting from the inherited disease, retinitis pigmentosa. RdCVF shows 33% similarity to TRX but does not exhibit any detectable thiol oxidoreductase activity.
Probab=27.08 E-value=70 Score=24.61 Aligned_cols=30 Identities=13% Similarity=0.316 Sum_probs=19.5
Q ss_pred CCCHHHHHHHHHhcC------------CCCCcEEEEEcCCCc
Q psy2494 100 SPCGSCRQVIAEFSS------------PACDIQVLIVKSDRS 129 (166)
Q Consensus 100 ~PCG~CRQ~L~E~~~------------~~~~~~Vi~~~~~g~ 129 (166)
+=|+.||+.+-.+.. ...+++|+..+.|.+
T Consensus 35 sWCppCr~e~P~L~~ly~~~~~~~~~~~~~~~~vV~Vs~D~~ 76 (146)
T cd03008 35 VVSPQCQLFAPKLKDFFVRLTDEFYVDRSAQLALVYVSMDQS 76 (146)
T ss_pred CCChhHHHHHHHHHHHHHHHHhhcccccCCCEEEEEEECCCC
Confidence 459999998766531 113588887776643
No 68
>cd06222 RnaseH RNase H (RNase HI) is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a not sequence-specific manner. One of the important functions of RNase H is to remove Okazaki fragments during DNA replication. RNase H knockout mice lack mitochondrial DNA replication and die as embryos. The retroviral reverse transcriptase contains an RNase H domain that plays an important role in converting a single stranded retroviral genomic RNA into a dsDNA for integration into host chromosomes. RNase H inhibitors have been explored as an anti-HIV drug target because RNase H inactivation inhibits reverse transcription.
Probab=27.01 E-value=1.9e+02 Score=19.11 Aligned_cols=54 Identities=13% Similarity=0.078 Sum_probs=37.7
Q ss_pred CCceEEEEEeCCCcEEEEeeecccCCCCCCCHHHHHHHHHHHcC-CCceeEEEEEe
Q psy2494 36 KLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKAISEG-QTKFKRIAVSA 90 (166)
Q Consensus 36 ~f~VGAAv~~~dG~i~~G~NvEnas~~~s~CAEr~Ai~~a~~~G-~~~i~~i~vv~ 90 (166)
....|++++..+|.......... .......+|-.|+..++..- ...++.+.|.+
T Consensus 14 ~~g~g~v~~~~~~~~~~~~~~~~-~~~s~~~aEl~al~~al~~~~~~~~~~i~i~~ 68 (130)
T cd06222 14 PAGAGVVLRDPGGEVLLSGGLLG-GNTTNNRAELLALIEALELALELGGKKVNIYT 68 (130)
T ss_pred ceEEEEEEEeCCCeEEEeccccC-CCCcHHHHHHHHHHHHHHHHHhCCCceEEEEE
Confidence 45778888888887665554443 34567889999999887652 35667777777
No 69
>PTZ00051 thioredoxin; Provisional
Probab=26.53 E-value=72 Score=21.42 Aligned_cols=12 Identities=25% Similarity=0.916 Sum_probs=6.7
Q ss_pred CCHHHHHHHHHh
Q psy2494 101 PCGSCRQVIAEF 112 (166)
Q Consensus 101 PCG~CRQ~L~E~ 112 (166)
=|+.||++...|
T Consensus 29 ~C~~C~~~~~~l 40 (98)
T PTZ00051 29 WCGPCKRIAPFY 40 (98)
T ss_pred CCHHHHHHhHHH
Confidence 466666664333
No 70
>PRK14584 hmsS hemin storage system protein; Provisional
Probab=24.49 E-value=1.1e+02 Score=24.12 Aligned_cols=44 Identities=11% Similarity=0.006 Sum_probs=33.6
Q ss_pred CccCCCHHHHHHHHHhcCCCCCcEEEEEcCCCceEEEeecccccCCc
Q psy2494 97 KFVSPCGSCRQVIAEFSSPACDIQVLIVKSDRSQVGLITIDGMYLTL 143 (166)
Q Consensus 97 ~~~~PCG~CRQ~L~E~~~~~~~~~Vi~~~~~g~~~~~~~l~eLLP~~ 143 (166)
....-+|.+.|.+.|+.. ..+..+..|.+|+ +..++-..++|.+
T Consensus 103 ElA~sF~l~~e~i~qLr~--~kiltVh~De~G~-Ii~V~~~~~~p~p 146 (153)
T PRK14584 103 ELASSFALSPELIAQLKS--GSCLTLYNDEHGH-IIDVKEGLQLPEP 146 (153)
T ss_pred HHHHHcCCCHHHHHHHHh--CCeEEEEECCCCC-EEEeecCCCCCCc
Confidence 445568999999999985 5666667788998 6666777788863
No 71
>PF08046 IlvGEDA_leader: IlvGEDA operon leader peptide; InterPro: IPR012567 This family consists of the leader peptides of ilvGEDA operon. The expression of the ilvGEDA operon of E coli K-12 is multivalently controlled by the three branched -chain amino acids. Regulation is thought to occur by attenuation of transcription in response to the changing levels of the cognate tRNAs. Transcription of this operon is usually terminated at the end of the leader (regulatory) region [].; GO: 0009082 branched chain family amino acid biosynthetic process
Probab=24.14 E-value=84 Score=18.25 Aligned_cols=7 Identities=43% Similarity=1.464 Sum_probs=5.4
Q ss_pred cCCCHHH
Q psy2494 99 VSPCGSC 105 (166)
Q Consensus 99 ~~PCG~C 105 (166)
++|||+-
T Consensus 20 ip~cgaa 26 (32)
T PF08046_consen 20 IPPCGAA 26 (32)
T ss_pred ecCchHh
Confidence 4899974
No 72
>PRK10424 ilvG operon leader peptide; Provisional
Probab=24.13 E-value=85 Score=18.20 Aligned_cols=7 Identities=43% Similarity=1.464 Sum_probs=5.4
Q ss_pred cCCCHHH
Q psy2494 99 VSPCGSC 105 (166)
Q Consensus 99 ~~PCG~C 105 (166)
++|||+-
T Consensus 20 ippcgaa 26 (32)
T PRK10424 20 IPPCGAA 26 (32)
T ss_pred ecCchhh
Confidence 4899974
No 73
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=24.03 E-value=30 Score=30.18 Aligned_cols=37 Identities=16% Similarity=0.345 Sum_probs=19.2
Q ss_pred CCHHH---HHHHHHhcCCCCCcEEEEEcCCCceEEEeeccccc
Q psy2494 101 PCGSC---RQVIAEFSSPACDIQVLIVKSDRSQVGLITIDGMY 140 (166)
Q Consensus 101 PCG~C---RQ~L~E~~~~~~~~~Vi~~~~~g~~~~~~~l~eLL 140 (166)
|||.| |.+.. +..||+.++-.+.+|+.+++-.+++|.
T Consensus 58 ~Cg~C~sC~~~~~---g~HPD~~~i~p~~~~~~I~vdqiR~l~ 97 (319)
T PRK06090 58 ACGFCHSCELMQS---GNHPDLHVIKPEKEGKSITVEQIRQCN 97 (319)
T ss_pred CCCCCHHHHHHHc---CCCCCEEEEecCcCCCcCCHHHHHHHH
Confidence 55554 44433 223898766544444434444555554
No 74
>PRK15090 DNA-binding transcriptional regulator KdgR; Provisional
Probab=22.71 E-value=2.2e+02 Score=23.28 Aligned_cols=45 Identities=11% Similarity=0.163 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHHhcCCCCC-------CCceEEEEEeCCCcEEEEeeecccCC
Q psy2494 16 EQNLANLSIQARDNAYCPYS-------KLQVGAALLCQDDTIFTGCNVENASY 61 (166)
Q Consensus 16 ~~~L~~~A~~a~~~ayaPyS-------~f~VGAAv~~~dG~i~~G~NvEnas~ 61 (166)
.++|.++..+.+++.|+ ++ -+.||+-|.+.+|++..++++-....
T Consensus 177 ~~~l~~~l~~iR~~Gya-~~~~e~~~gv~~vA~Pv~~~~g~~~aalsv~~p~~ 228 (257)
T PRK15090 177 TEALLPVLDQVREQGYG-EDNEEQEEGLRCIAVPVFDRFGVVIAGLSISFPTL 228 (257)
T ss_pred HHHHHHHHHHHHHhCCC-ccccccccCCEEEEEEEECCCCCEEEEEEEEeehh
Confidence 35677778888888888 22 24788888999999999999876543
No 75
>PRK07276 DNA polymerase III subunit delta'; Validated
Probab=22.67 E-value=28 Score=29.97 Aligned_cols=41 Identities=22% Similarity=0.360 Sum_probs=21.2
Q ss_pred CCCHHHHHHHHHhcCCCCCcEEEEEcCCCceEEEeecccccCC
Q psy2494 100 SPCGSCRQVIAEFSSPACDIQVLIVKSDRSQVGLITIDGMYLT 142 (166)
Q Consensus 100 ~PCG~CRQ~L~E~~~~~~~~~Vi~~~~~g~~~~~~~l~eLLP~ 142 (166)
.|||.|+.--.=..+..||+.++ .++|..++.-.+++|...
T Consensus 55 ~~Cg~C~~C~~i~~~~HPD~~~i--~p~~~~I~idqIR~l~~~ 95 (290)
T PRK07276 55 LPCGHCRSCRLIEQGEFSDVTVI--EPQGQVIKTDTIRELVKN 95 (290)
T ss_pred CCCCCCHHHHHHhcCCCCCeeee--cCCCCcCCHHHHHHHHHH
Confidence 46665543222122333887543 455653555666776655
No 76
>cd02959 ERp19 Endoplasmic reticulum protein 19 (ERp19) family; ERp19 is also known as ERp18, a protein located in the ER containing one redox active TRX domain. Denaturation studies indicate that the reduced form is more stable than the oxidized form, suggesting that the protein is involved in disulfide bond formation. In vitro, ERp19 has been shown to possess thiol-disulfide oxidase activity which is dependent on the presence of both active site cysteines. Although described as protein disulfide isomerase (PDI)-like, the protein does not complement for PDI activity. ERp19 shows a wide tissue distribution but is most abundant in liver, testis, heart and kidney.
Probab=22.45 E-value=1.6e+02 Score=21.26 Aligned_cols=14 Identities=29% Similarity=0.928 Sum_probs=10.9
Q ss_pred CCCHHHHHHHHHhc
Q psy2494 100 SPCGSCRQVIAEFS 113 (166)
Q Consensus 100 ~PCG~CRQ~L~E~~ 113 (166)
+=||.|+.+...+.
T Consensus 29 ~WC~~C~~~~~~~~ 42 (117)
T cd02959 29 TWCGACKALKPKFA 42 (117)
T ss_pred CcCHHHHHHHHHHh
Confidence 34999999877765
No 77
>cd02986 DLP Dim1 family, Dim1-like protein (DLP) subfamily; DLP is a novel protein which shares 38% sequence identity to Dim1. Like Dim1, it is also implicated in pre-mRNA splicing and cell cycle progression. DLP is located in the nucleus and has been shown to interact with the U5 small nuclear ribonucleoprotein particle (snRNP)-specific 102kD protein (or Prp6). Dim1 protein, also known as U5 snRNP-specific 15kD protein is a component of U5 snRNP, which pre-assembles with U4/U6 snRNPs to form a [U4/U6:U5] tri-snRNP complex required for pre-mRNA splicing. Dim1 adopts a thioredoxin fold but does not contain the redox active CXXC motif.
Probab=22.35 E-value=80 Score=23.59 Aligned_cols=29 Identities=17% Similarity=0.338 Sum_probs=18.9
Q ss_pred CCCHHHHHH---HHHhcCCCCC-cEEEEEcCCC
Q psy2494 100 SPCGSCRQV---IAEFSSPACD-IQVLIVKSDR 128 (166)
Q Consensus 100 ~PCG~CRQ~---L~E~~~~~~~-~~Vi~~~~~g 128 (166)
+=||.|++. |.+++...++ +.++.+|-|.
T Consensus 24 ~WC~pCk~mdp~l~ela~~~~~~~~f~kVDVDe 56 (114)
T cd02986 24 DEDAVCLQLDDILSKTSHDLSKMASIYLVDVDK 56 (114)
T ss_pred CCChhHHHHHHHHHHHHHHccCceEEEEEeccc
Confidence 347777765 7888754455 6677777664
No 78
>PF02887 PK_C: Pyruvate kinase, alpha/beta domain; InterPro: IPR015795 Pyruvate kinase (2.7.1.40 from EC) (PK) catalyses the final step in glycolysis [], the conversion of phosphoenolpyruvate to pyruvate with concomitant phosphorylation of ADP to ATP: ADP + phosphoenolpyruvate = ATP + pyruvate The enzyme, which is found in all living organisms, requires both magnesium and potassium ions for its activity. In vertebrates, there are four tissue-specific isozymes: L (liver), R (red cells), M1 (muscle, heart and brain), and M2 (early foetal tissue). In plants, PK exists as cytoplasmic and plastid isozymes, while most bacteria and lower eukaryotes have one form, except in certain bacteria, such as Escherichia coli, that have two isozymes. All isozymes appear to be tetramers of identical subunits of ~500 residues. PK helps control the rate of glycolysis, along with phosphofructokinase (IPR000023 from INTERPRO) and hexokinase (IPR001312 from INTERPRO). PK possesses allosteric sites for numerous effectors, yet the isozymes respond differently, in keeping with their different tissue distributions []. The activity of L-type (liver) PK is increased by fructose-1,6-bisphosphate (F1,6BP) and lowered by ATP and alanine (gluconeogenic precursor), therefore when glucose levels are high, glycolysis is promoted, and when levels are low, gluconeogenesis is promoted. L-type PK is also hormonally regulated, being activated by insulin and inhibited by glucagon, which covalently modifies the PK enzyme. M1-type (muscle, brain) PK is inhibited by ATP, but F1,6BP and alanine have no effect, which correlates with the function of muscle and brain, as opposed to the liver. The structure of several pyruvate kinases from various organisms have been determined [, ]. The protein comprises three-four domains: a small N-terminal helical domain (absent in bacterial PK), a beta/alpha-barrel domain, a beta-barrel domain (inserted within the beta/alpha-barrel domain), and a 3-layer alpha/beta/alpha sandwich domain. This entry represents the 3-layer alpha/beta/alpha sandwich domain. This domain has a similar topology to the archaeal hypothetical protein, MTH1675 from Methanobacterium thermoautotrophicum.; PDB: 3QTG_B 1VP8_A 1T57_C 3N25_A 1AQF_C 2G50_B 1F3X_G 1A5U_F 1A49_E 1F3W_C ....
Probab=22.32 E-value=1.8e+02 Score=20.86 Aligned_cols=37 Identities=19% Similarity=0.386 Sum_probs=26.3
Q ss_pred CCceeEEEEEeeeCCCCCccCCCHHHHHHHHHhcCCCCCcEEEEEcCCCc
Q psy2494 80 QTKFKRIAVSAILPDSNKFVSPCGSCRQVIAEFSSPACDIQVLIVKSDRS 129 (166)
Q Consensus 80 ~~~i~~i~vv~~~~~~~~~~~PCG~CRQ~L~E~~~~~~~~~Vi~~~~~g~ 129 (166)
+-+.++|++.+ . .|.--+.|+.|- |..+|+...++-.
T Consensus 14 ~~~ak~Ivv~T---~-------sG~ta~~isk~R---P~~pIiavt~~~~ 50 (117)
T PF02887_consen 14 DLNAKAIVVFT---E-------SGRTARLISKYR---PKVPIIAVTPNES 50 (117)
T ss_dssp HHTESEEEEE----S-------SSHHHHHHHHT----TSSEEEEEESSHH
T ss_pred hcCCCEEEEEC---C-------CchHHHHHHhhC---CCCeEEEEcCcHH
Confidence 34577888877 3 566678999997 8899998877643
No 79
>TIGR02431 pcaR_pcaU beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family. Member of this family are IclR-type transcriptional regulators with similar DNA binding sites, able to bind at least three different metabolites related to protocatechuate metabolism. Beta-ketoadipate is the inducer for PcaR, p-hydroxybenzoate for PobR, and protocatechuate for PcaU.
Probab=21.39 E-value=3.5e+02 Score=21.86 Aligned_cols=47 Identities=11% Similarity=0.132 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHHhcCCCC------CCCceEEEEEeCCCcEEEEeeecccCCC
Q psy2494 16 EQNLANLSIQARDNAYCPY------SKLQVGAALLCQDDTIFTGCNVENASYG 62 (166)
Q Consensus 16 ~~~L~~~A~~a~~~ayaPy------S~f~VGAAv~~~dG~i~~G~NvEnas~~ 62 (166)
.++|.++..+.+++.|+=- .-..|++-|.+.+|+++.++++-.....
T Consensus 171 ~~~l~~~l~~ir~~Gya~~~~e~~~g~~~vA~Pv~~~~g~~~aalsv~~p~~r 223 (248)
T TIGR02431 171 RDALLAELLAVRAQGYALVDQELELGLRSIAVPIRNARGQVVAALNVSTHAAR 223 (248)
T ss_pred HHHHHHHHHHHHHcCcEeehhhcccCCeEEEEEEECCCCCEEEEEEEeeeccc
Confidence 3567777788888888811 2247788888999999999988655443
No 80
>PRK02487 hypothetical protein; Provisional
Probab=21.24 E-value=3.9e+02 Score=20.61 Aligned_cols=61 Identities=11% Similarity=0.072 Sum_probs=41.3
Q ss_pred cCCCCHH-HHHHHHHHHHHHHhcCCCCCCCceEEEEEeCCCcEEEEeeecccCCCCCCCHHHHHHHHH
Q psy2494 9 FSALDPI-EQNLANLSIQARDNAYCPYSKLQVGAALLCQDDTIFTGCNVENASYGMTICAEKTAISKA 75 (166)
Q Consensus 9 ~~~l~~~-~~~L~~~A~~a~~~ayaPyS~f~VGAAv~~~dG~i~~G~NvEnas~~~s~CAEr~Ai~~a 75 (166)
++.|+.+ -.+|...|++.++.- +.+|..+|+. +|+...=.-.+.+.....-.|.|.|-..+
T Consensus 20 ~~~l~~~~A~~l~~~a~~~A~~~-----g~~v~IaVv~-~G~~l~~~rmdga~~~s~~~a~~KA~Ta~ 81 (163)
T PRK02487 20 FPHFDNDDAWQLGSLLVELARER-----GLPIAIDITL-NGQPLFYAALPGTTPDNTDWIRRKRNVVA 81 (163)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHc-----CCCEEEEEEE-CCcEEEEEeCCCCCCccHHHHHhHHHHHH
Confidence 4556554 456777777777642 4578888885 89977777888877666666666665443
No 81
>PF14438 SM-ATX: Ataxin 2 SM domain; PDB: 1M5Q_1.
Probab=21.23 E-value=1e+02 Score=20.59 Aligned_cols=16 Identities=6% Similarity=0.291 Sum_probs=11.9
Q ss_pred EEEEeCCCcEEEEeee
Q psy2494 41 AALLCQDDTIFTGCNV 56 (166)
Q Consensus 41 AAv~~~dG~i~~G~Nv 56 (166)
+-|.++||.+|.|+=.
T Consensus 15 V~V~~~~G~~yeGif~ 30 (77)
T PF14438_consen 15 VEVTTKNGSVYEGIFH 30 (77)
T ss_dssp EEEEETTS-EEEEEEE
T ss_pred EEEEECCCCEEEEEEE
Confidence 5678899999988754
No 82
>PF08671 SinI: Anti-repressor SinI; InterPro: IPR010981 The SinR repressor is part of a group of Sin (sporulation inhibition) proteins in Bacillus subtilis that regulate the commitment to sporulation in response to extreme adversity []. SinR is a tetrameric repressor protein that binds to the promoters of genes essential for entry into sporulation and prevents their transcription. This repression is overcome through the activity of SinI, which disrupts the SinR tetramer through the formation of a SinI-SinR heterodimer, thereby allowing sporulation to proceed. The SinR structure consists of two domains: a dimerisation domain stabilised by a hydrophobic core, and a DNA-binding domain that is identical to domains of the bacteriophage 434 CI and Cro proteins that regulate prophage induction. The dimerisation domain is a four-helical bundle formed from two helices from the C-terminal residues of SinR and two helices from the central residues of SinI. These regions in SinR and SinI are similar in both structure and sequence. The interaction of SinR monomers to form tetramers is weaker than between SinR and SinI, since SinI can effectively disrupt SinR tetramers. This entry represents the dimerisation domain in both SinI and SinR proteins.; GO: 0005488 binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1B0N_A 2YAL_A.
Probab=21.06 E-value=98 Score=17.78 Aligned_cols=14 Identities=21% Similarity=0.062 Sum_probs=9.2
Q ss_pred CCHHHHHHHHHHHH
Q psy2494 12 LDPIEQNLANLSIQ 25 (166)
Q Consensus 12 l~~~~~~L~~~A~~ 25 (166)
|++|+..|+..|++
T Consensus 1 LD~EW~~Li~eA~~ 14 (30)
T PF08671_consen 1 LDEEWVELIKEAKE 14 (30)
T ss_dssp --HHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHH
Confidence 46778888887765
No 83
>COG4448 AnsA L-asparaginase II [Amino acid transport and metabolism]
Probab=20.91 E-value=78 Score=27.67 Aligned_cols=29 Identities=17% Similarity=0.308 Sum_probs=24.4
Q ss_pred CCCceEEEEEeCCCc-EEEEeeecccCCCC
Q psy2494 35 SKLQVGAALLCQDDT-IFTGCNVENASYGM 63 (166)
Q Consensus 35 S~f~VGAAv~~~dG~-i~~G~NvEnas~~~ 63 (166)
|++...++|.+.||+ +|.--+.|...|+-
T Consensus 24 SrH~g~a~V~D~dGr~l~~~Gd~e~~~FpR 53 (339)
T COG4448 24 SRHRGAAVVVDGDGRVLFSAGDSERPTFPR 53 (339)
T ss_pred ecceeeEEEEcCCCcEEEecccccCCccch
Confidence 788899999999999 45777889888873
No 84
>PRK10163 DNA-binding transcriptional repressor AllR; Provisional
Probab=20.88 E-value=2.3e+02 Score=23.47 Aligned_cols=46 Identities=15% Similarity=0.118 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHHhcCCCCC-------CCceEEEEEeCCCcEEEEeeecccCCC
Q psy2494 16 EQNLANLSIQARDNAYCPYS-------KLQVGAALLCQDDTIFTGCNVENASYG 62 (166)
Q Consensus 16 ~~~L~~~A~~a~~~ayaPyS-------~f~VGAAv~~~dG~i~~G~NvEnas~~ 62 (166)
.++|.++..+.+++.|+ ++ -..||+.|.+.+|++..++++-.....
T Consensus 189 ~~~l~~eL~~ir~~Gya-~~~~E~~~gv~~vAvPI~~~~g~~~aalsvs~p~~r 241 (271)
T PRK10163 189 MPTLLKDLEQARELGYT-VDKEEHVVGLNCIASAIYDDVGSVVAAISISGPSSR 241 (271)
T ss_pred HHHHHHHHHHHHHhCCe-ecccccCcCCeEEEEEEECCCCCEEEEEEEEEeccc
Confidence 45688888888888888 32 237778888999999999998765544
No 85
>TIGR01052 top6b DNA topoisomerase VI, B subunit. This model describes DNA topoisomerase VI, an archaeal type II DNA topoisomerase (DNA gyrase).
Probab=20.77 E-value=2.6e+02 Score=26.02 Aligned_cols=41 Identities=5% Similarity=-0.025 Sum_probs=32.2
Q ss_pred HHHHHHHHHhcCCCCCcEEEEEcCCCceEEEeecccccCCc
Q psy2494 103 GSCRQVIAEFSSPACDIQVLIVKSDRSQVGLITIDGMYLTL 143 (166)
Q Consensus 103 G~CRQ~L~E~~~~~~~~~Vi~~~~~g~~~~~~~l~eLLP~~ 143 (166)
..+++.|..++--+|++.+.+.+++|+.+..-...+-||..
T Consensus 181 ~~i~e~l~~~Al~nP~~~i~l~~~~~~~~~f~R~~~~~P~~ 221 (488)
T TIGR01052 181 QGVYEYLRRTAVANPHAKIVLVDPDGEIYVFPRSTDEIPKP 221 (488)
T ss_pred HHHHHHHHHHHhhCCCeEEEEEeCCCCEEEeecccccCCCC
Confidence 57888888887667999999999999856666666777764
No 86
>PF15626 mono-CXXC: single CXXC unit
Probab=20.76 E-value=29 Score=22.09 Aligned_cols=9 Identities=44% Similarity=1.228 Sum_probs=6.1
Q ss_pred CCCHHHHHH
Q psy2494 100 SPCGSCRQV 108 (166)
Q Consensus 100 ~PCG~CRQ~ 108 (166)
.+||+|+-=
T Consensus 3 ~~Cg~C~vC 11 (46)
T PF15626_consen 3 TACGMCRVC 11 (46)
T ss_pred cccccceec
Confidence 578888643
No 87
>cd03020 DsbA_DsbC_DsbG DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds formed by DsbA and prevent aggregation of incorrectly folded proteins. DsbC and DsbG are kept in their reduced state by the cytoplasmic membrane protein DsbD, which utilizes the TRX/TRX reductase system in the cytosol as a source of reducing equivalents. DsbG differ from DsbC in that it has a more limited substrate specificity, and it may preferentially act later in the folding process to catalyze disulfide rearrangements in folded or partially folded proteins. Also included in the alignment is the predicted protein TrbB, whose gene was sequenced from the enterohemorrhagic E. coli type IV pilus gene cluster, which is required for efficient plasmid transfer.
Probab=20.52 E-value=2e+02 Score=22.36 Aligned_cols=23 Identities=26% Similarity=0.478 Sum_probs=15.3
Q ss_pred CCCHHHHHHHHHhcCCCCCcEEE
Q psy2494 100 SPCGSCRQVIAEFSSPACDIQVL 122 (166)
Q Consensus 100 ~PCG~CRQ~L~E~~~~~~~~~Vi 122 (166)
+=|+.||++-.++.....++.|.
T Consensus 87 ~~Cp~C~~~~~~l~~~~~~v~v~ 109 (197)
T cd03020 87 PDCPYCRKLEKELKPNADGVTVR 109 (197)
T ss_pred CCCccHHHHHHHHhhccCceEEE
Confidence 46999999998886211344444
No 88
>cd02997 PDI_a_PDIR PDIa family, PDIR subfamily; composed of proteins similar to human PDIR (for Protein Disulfide Isomerase Related). PDIR is composed of three redox active TRX (a) domains and an N-terminal redox inactive TRX-like (b) domain. Similar to PDI, it is involved in oxidative protein folding in the endoplasmic reticulum (ER) through its isomerase and chaperone activities. These activities are lower compared to PDI, probably due to PDIR acting only on a subset of proteins. PDIR is preferentially expressed in cells actively secreting proteins and its expression is induced by stress. Similar to PDI, the isomerase and chaperone activities of PDIR are independent; CXXC mutants lacking isomerase activity retain chaperone activity.
Probab=20.21 E-value=1.9e+02 Score=19.21 Aligned_cols=12 Identities=42% Similarity=1.082 Sum_probs=8.7
Q ss_pred CCHHHHHHHHHh
Q psy2494 101 PCGSCRQVIAEF 112 (166)
Q Consensus 101 PCG~CRQ~L~E~ 112 (166)
=|+.||++...+
T Consensus 28 wC~~C~~~~~~~ 39 (104)
T cd02997 28 WCGHCKKMKPEF 39 (104)
T ss_pred CCHHHHHhCHHH
Confidence 399999885443
Done!