Query 014573
Match_columns 422
No_of_seqs 277 out of 1471
Neff 7.4
Searched_HMMs 46136
Date Fri Mar 29 06:27:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014573.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014573hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR02765 crypto_DASH cryptoch 100.0 1.6E-53 3.4E-58 439.5 29.6 301 46-420 2-331 (429)
2 COG0415 PhrB Deoxyribodipyrimi 100.0 1.1E-52 2.5E-57 425.8 27.0 293 45-420 2-317 (461)
3 TIGR03556 photolyase_8HDF deox 100.0 7.5E-52 1.6E-56 430.6 27.5 299 46-420 2-329 (471)
4 TIGR02766 crypt_chrom_pln cryp 100.0 1.8E-50 3.9E-55 421.5 24.0 300 48-420 1-327 (475)
5 PRK10674 deoxyribodipyrimidine 100.0 5.3E-49 1.1E-53 409.4 26.5 293 46-420 3-324 (472)
6 TIGR00591 phr2 photolyase PhrI 100.0 1.2E-47 2.6E-52 398.2 26.4 298 45-420 23-350 (454)
7 KOG0133 Deoxyribodipyrimidine 100.0 5E-37 1.1E-41 314.5 13.2 308 43-420 3-342 (531)
8 PF00875 DNA_photolyase: DNA p 100.0 1.4E-35 2.9E-40 267.6 13.7 155 47-205 1-164 (165)
9 PF03441 FAD_binding_7: FAD bi 99.7 5.6E-18 1.2E-22 165.2 9.4 92 292-402 1-92 (277)
10 COG3046 Uncharacterized protei 98.5 1.4E-05 3.1E-10 79.8 18.8 300 45-419 2-343 (505)
11 PF04244 DPRP: Deoxyribodipyri 93.8 0.92 2E-05 43.0 11.7 118 49-176 2-129 (224)
12 PRK09982 universal stress prot 89.9 8.3 0.00018 33.2 12.4 81 60-140 17-112 (142)
13 PRK12652 putative monovalent c 87.5 5 0.00011 40.8 10.5 102 60-161 19-144 (357)
14 cd01989 STK_N The N-terminal d 86.0 12 0.00027 31.8 11.0 82 59-140 12-112 (146)
15 PRK15456 universal stress prot 85.8 4.7 0.0001 34.5 8.2 80 61-140 19-114 (142)
16 PRK15005 universal stress prot 83.5 12 0.00026 31.8 9.7 80 61-140 19-116 (144)
17 cd01987 USP_OKCHK USP domain i 83.4 12 0.00027 30.8 9.6 78 59-141 12-95 (124)
18 TIGR00289 conserved hypothetic 81.2 9.5 0.00021 36.1 8.7 94 60-161 14-112 (222)
19 cd01988 Na_H_Antiporter_C The 79.6 28 0.0006 28.7 10.5 81 61-141 14-104 (132)
20 PRK10116 universal stress prot 79.0 38 0.00083 28.5 13.1 82 59-140 16-111 (142)
21 KOG0133 Deoxyribodipyrimidine 77.0 9.5 0.00021 40.6 8.0 91 47-139 169-269 (531)
22 cd00293 USP_Like Usp: Universa 76.7 29 0.00063 27.9 9.6 71 70-140 28-102 (130)
23 cd01994 Alpha_ANH_like_IV This 73.2 22 0.00048 32.7 8.7 92 61-161 14-115 (194)
24 TIGR00290 MJ0570_dom MJ0570-re 70.3 38 0.00083 32.1 9.6 94 60-161 14-112 (223)
25 PF00582 Usp: Universal stress 61.9 61 0.0013 26.2 8.5 31 111-141 82-112 (140)
26 PF00702 Hydrolase: haloacid d 61.0 35 0.00077 30.7 7.4 61 96-157 130-192 (215)
27 PRK10490 sensor protein KdpD; 57.1 77 0.0017 36.3 10.7 69 70-143 279-348 (895)
28 TIGR01490 HAD-SF-IB-hyp1 HAD-s 55.0 28 0.00061 31.4 5.7 45 94-138 88-132 (202)
29 COG0560 SerB Phosphoserine pho 51.8 19 0.00041 33.7 4.0 44 97-140 81-124 (212)
30 COG2102 Predicted ATPases of P 51.7 93 0.002 29.5 8.4 92 60-156 14-111 (223)
31 PRK15118 universal stress glob 51.1 1.5E+02 0.0032 24.9 12.8 41 100-140 69-112 (144)
32 COG0589 UspA Universal stress 49.8 1.1E+02 0.0023 25.6 8.2 47 94-140 72-122 (154)
33 PRK11175 universal stress prot 48.5 1.6E+02 0.0035 28.4 10.2 43 98-140 225-270 (305)
34 COG2217 ZntA Cation transport 48.4 50 0.0011 36.8 7.1 58 98-160 542-599 (713)
35 PF01902 ATP_bind_4: ATP-bindi 47.6 28 0.00061 32.8 4.4 91 61-161 15-112 (218)
36 TIGR01488 HAD-SF-IB Haloacid D 46.8 22 0.00048 31.2 3.5 43 96-138 76-118 (177)
37 PF13911 AhpC-TSA_2: AhpC/TSA 46.1 47 0.001 27.3 5.2 41 98-139 2-44 (115)
38 PRK14010 potassium-transportin 46.1 90 0.002 34.6 8.6 60 96-160 444-503 (673)
39 TIGR01491 HAD-SF-IB-PSPlk HAD- 45.4 36 0.00079 30.5 4.8 42 96-137 83-124 (201)
40 TIGR03679 arCOG00187 arCOG0018 44.9 2.1E+02 0.0045 26.8 9.9 92 61-161 12-113 (218)
41 PRK01122 potassium-transportin 44.8 79 0.0017 35.1 8.0 60 96-160 448-507 (679)
42 PRK11175 universal stress prot 43.2 2.2E+02 0.0047 27.4 10.3 88 54-141 11-117 (305)
43 PF12710 HAD: haloacid dehalog 42.3 48 0.001 29.4 5.0 41 100-140 96-138 (192)
44 PF06574 FAD_syn: FAD syntheta 41.0 17 0.00037 32.3 1.8 92 70-161 36-138 (157)
45 COG2205 KdpD Osmosensitive K+ 40.5 2.7E+02 0.006 31.5 11.1 73 70-147 277-350 (890)
46 PF10087 DUF2325: Uncharacteri 39.1 1.4E+02 0.003 24.0 6.8 67 98-172 12-83 (97)
47 PRK14719 bifunctional RNAse/5- 37.8 71 0.0015 32.5 5.9 59 103-161 36-96 (360)
48 PF08259 Periviscerokin: Periv 37.8 13 0.00029 18.0 0.3 8 2-9 4-11 (11)
49 TIGR00338 serB phosphoserine p 35.9 47 0.001 30.4 4.0 42 96-137 88-129 (219)
50 TIGR01544 HAD-SF-IE haloacid d 35.5 59 0.0013 31.8 4.7 36 97-132 125-160 (277)
51 TIGR01512 ATPase-IB2_Cd heavy 35.4 1.2E+02 0.0025 32.6 7.4 46 94-139 363-409 (536)
52 PF08218 Citrate_ly_lig: Citra 34.6 1.5E+02 0.0032 27.2 6.7 98 64-161 20-138 (182)
53 TIGR01525 ATPase-IB_hvy heavy 33.7 74 0.0016 34.2 5.6 46 94-139 385-431 (556)
54 KOG1615 Phosphoserine phosphat 33.5 55 0.0012 30.5 3.8 36 98-133 93-128 (227)
55 cd01427 HAD_like Haloacid deha 33.5 1.1E+02 0.0023 24.6 5.5 48 94-141 25-76 (139)
56 PLN02954 phosphoserine phospha 32.9 60 0.0013 29.8 4.2 39 95-133 86-124 (224)
57 PF13167 GTP-bdg_N: GTP-bindin 32.7 2.7E+02 0.0059 22.6 8.3 58 95-156 7-79 (95)
58 TIGR03674 fen_arch flap struct 32.7 1.7E+02 0.0037 29.5 7.6 14 291-304 243-256 (338)
59 PF11111 CENP-M: Centromere pr 32.3 2.8E+02 0.0062 25.3 8.1 38 120-157 116-153 (176)
60 TIGR01088 aroQ 3-dehydroquinat 31.9 3.3E+02 0.0072 23.9 8.2 73 97-177 25-104 (141)
61 PF00578 AhpC-TSA: AhpC/TSA fa 31.3 1.6E+02 0.0034 23.9 6.2 44 95-138 45-89 (124)
62 cd06542 GH18_EndoS-like Endo-b 31.0 4.6E+02 0.0099 24.7 10.4 88 46-142 2-115 (255)
63 PRK10517 magnesium-transportin 30.1 2.1E+02 0.0045 32.9 8.6 38 96-133 553-590 (902)
64 TIGR01545 YfhB_g-proteo haloac 30.0 1.1E+02 0.0023 28.5 5.3 41 98-138 100-143 (210)
65 PF08765 Mor: Mor transcriptio 29.3 2.5E+02 0.0055 23.0 7.0 68 90-157 3-71 (108)
66 cd00466 DHQase_II Dehydroquina 28.7 4E+02 0.0087 23.4 8.5 73 97-177 25-104 (140)
67 TIGR03333 salvage_mtnX 2-hydro 28.1 1E+02 0.0022 28.4 4.8 35 96-130 73-107 (214)
68 TIGR01497 kdpB K+-transporting 28.1 1.1E+02 0.0024 33.9 5.8 50 96-147 449-498 (675)
69 PRK09484 3-deoxy-D-manno-octul 28.0 1.6E+02 0.0034 26.5 6.0 55 97-161 56-110 (183)
70 PRK13015 3-dehydroquinate dehy 28.0 4.3E+02 0.0092 23.4 8.7 73 97-177 27-106 (146)
71 cd06294 PBP1_ycjW_transcriptio 27.2 3.2E+02 0.007 25.1 8.3 70 93-172 18-91 (270)
72 PRK11590 hypothetical protein; 27.1 1.3E+02 0.0028 27.7 5.4 41 99-139 102-145 (211)
73 PRK15122 magnesium-transportin 26.8 2.5E+02 0.0054 32.3 8.5 38 96-133 553-590 (903)
74 cd01017 AdcA Metal binding pro 26.6 5.5E+02 0.012 24.7 10.0 43 96-138 207-250 (282)
75 cd06279 PBP1_LacI_like_3 Ligan 26.4 3.8E+02 0.0082 25.2 8.7 71 92-172 17-87 (283)
76 PRK08384 thiamine biosynthesis 25.4 3.4E+02 0.0074 27.9 8.4 70 88-157 18-97 (381)
77 TIGR02137 HSK-PSP phosphoserin 24.8 74 0.0016 29.4 3.2 43 95-138 70-112 (203)
78 cd00008 53EXOc 5'-3' exonuclea 24.5 4.9E+02 0.011 24.7 8.9 72 70-141 49-134 (240)
79 COG0546 Gph Predicted phosphat 23.6 81 0.0017 29.3 3.3 40 95-134 91-130 (220)
80 CHL00090 apcD allophycocyanin 23.3 5.2E+02 0.011 23.1 8.2 71 295-395 20-90 (161)
81 TIGR01524 ATPase-IIIB_Mg magne 22.8 3.3E+02 0.0072 31.2 8.5 38 96-133 518-555 (867)
82 TIGR01647 ATPase-IIIA_H plasma 22.3 3.3E+02 0.0071 30.6 8.3 39 96-134 445-483 (755)
83 cd06297 PBP1_LacI_like_12 Liga 21.9 4.9E+02 0.011 24.2 8.5 71 92-172 12-86 (269)
84 cd03018 PRX_AhpE_like Peroxire 21.8 2.6E+02 0.0057 23.5 6.0 44 94-137 47-90 (149)
85 TIGR01489 DKMTPPase-SF 2,3-dik 21.8 1.1E+02 0.0023 26.9 3.7 36 98-133 77-112 (188)
86 PF01596 Methyltransf_3: O-met 21.7 4.4E+02 0.0096 24.4 7.8 51 110-161 97-150 (205)
87 PLN02781 Probable caffeoyl-CoA 21.4 4.4E+02 0.0095 24.8 7.9 62 98-160 106-172 (234)
88 TIGR01511 ATPase-IB1_Cu copper 21.4 2.6E+02 0.0057 30.1 7.1 41 96-137 408-448 (562)
89 TIGR03707 PPK2_P_aer polyphosp 21.3 5.9E+02 0.013 24.2 8.6 71 90-160 10-89 (230)
90 PRK09552 mtnX 2-hydroxy-3-keto 21.1 1.4E+02 0.003 27.6 4.3 34 97-130 78-111 (219)
91 PRK11133 serB phosphoserine ph 21.0 1.6E+02 0.0035 29.4 5.0 9 26-34 36-44 (322)
92 COG0415 PhrB Deoxyribodipyrimi 20.8 52 0.0011 34.6 1.4 83 243-358 198-280 (461)
93 cd06277 PBP1_LacI_like_1 Ligan 20.7 5.2E+02 0.011 23.8 8.4 47 93-139 16-66 (268)
94 TIGR01670 YrbI-phosphatas 3-de 20.6 1.6E+02 0.0035 25.7 4.4 38 101-138 36-73 (154)
95 PRK10826 2-deoxyglucose-6-phos 20.6 95 0.0021 28.5 3.1 9 58-66 20-28 (222)
96 cd00128 XPG Xeroderma pigmento 20.5 1.8E+02 0.004 28.6 5.3 18 120-137 130-147 (316)
97 PF13419 HAD_2: Haloacid dehal 20.3 2.6E+02 0.0056 23.6 5.7 29 103-131 87-115 (176)
98 cd01545 PBP1_SalR Ligand-bindi 20.2 6.5E+02 0.014 23.0 8.9 46 93-138 13-63 (270)
No 1
>TIGR02765 crypto_DASH cryptochrome, DASH family. Photolyases and cryptochromes are related flavoproteins. Photolyases harness the energy of blue light to repair DNA damage by removing pyrimidine dimers. Cryptochromes do not repair DNA and are presumed to act instead in some other (possibly unknown) process such as entraining circadian rhythms. This model describes the cryptochrome DASH subfamily, one of at least five major subfamilies, which is found in plants, animals, marine bacteria, etc. Members of this family bind both folate and FAD. They may show weak photolyase activity in vitro but have not been shown to affect DNA repair in vivo. Rather, DASH family cryptochromes have been shown to bind RNA (Vibrio cholerae VC1814), or DNA, and seem likely to act in light-responsive regulatory processes.
Probab=100.00 E-value=1.6e-53 Score=439.49 Aligned_cols=301 Identities=28% Similarity=0.451 Sum_probs=232.1
Q ss_pred eEEEEEcCCCCccCCHHHHHHHhc-CCeEEEEEEcCCcccc--------CCHhHHHHHHHHHHHHHHHHHhcCCcEEEEe
Q 014573 46 SAVIWFKQDLRVDDHLGLVAASKY-QAVVPLYVFDHRILSR--------YSNEMLELVIFALEDLRKSLKEQGSDLMIRF 116 (422)
Q Consensus 46 ~~L~Wfr~DLRl~DN~aL~~A~~~-~~vl~vfi~dp~~~~~--------~~~~r~~Fl~esL~~L~~~L~~lg~~L~v~~ 116 (422)
.+|||||||||++||+||.+|++. .+|+||||+||+++.. .|++|++||++||.+|+++|+++|++|+|+.
T Consensus 2 ~~l~WfRrDLRl~DN~aL~~A~~~~~~vl~vfi~dp~~~~~~~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~g~~L~v~~ 81 (429)
T TIGR02765 2 VVLYWFRNDLRVHDNPALYKASSSSDTLIPLYCFDPRQFKLTHFFGFPKTGPARGKFLLESLKDLRTSLRKLGSDLLVRS 81 (429)
T ss_pred eEEEEeCCCCccccHHHHHHHHhcCCeEEEEEEECchHhccccccccCCCCHHHHHHHHHHHHHHHHHHHHcCCCeEEEe
Confidence 589999999999999999999987 6899999999987652 5899999999999999999999999999999
Q ss_pred CCHHHHHHHHHHHhCccEEEEccccchhHHHHHHHHHHHhhhcCCCCCCceeEecCcccccCCCC----CCCCccchhHH
Q 014573 117 GRVENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVSLVDGKPKICLWQTPFYDIKNL----NDLPVSHNEFR 192 (422)
Q Consensus 117 G~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~gi~~~~~~~~~~~~~L~~~~~~----~~~p~~ft~F~ 192 (422)
|++.++|++|+++++|++||+|.+|+++++++|++|++.|.+.|| .++.+++++|++|+++ +++|++||+|+
T Consensus 82 G~~~~vl~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i----~~~~~~~~~l~~p~~v~~~~~~~~~~ft~f~ 157 (429)
T TIGR02765 82 GKPEDVLPELIKELGVRTVFLHQEVGSEEKSVERLLQQALARLGI----HVEQHWGSTLYHEDDLPFDLEDLPDVFTQFR 157 (429)
T ss_pred CCHHHHHHHHHHHhCCCEEEEeccCCHHHHHHHHHHHHHHHhcCc----eEEEecCCEeECHHhcCCCCCCCCCCchHHH
Confidence 999999999999999999999999999999999999999998887 8899999999998864 78899999999
Q ss_pred hccCC---CCCCCCCC-CCCCCcccCCCCCCCChhhhhhhhcCCCccchhhhhhhccchHHHHHHHHhhhhccccccCCC
Q 014573 193 KLQRP---LTSPILPP-TLAGAKLEADWGPLPTFDELKEFVNENPWKLEESWTLINNMSAETILTDKLSKLGKRSKRNLN 268 (422)
Q Consensus 193 k~~~~---~~~pl~~p-~lp~~~~~~~~~~ip~~~~L~~~~~~~~~~~~~~~~~~g~~~a~~~l~~~l~~~~~~~~~~~~ 268 (422)
|++.. ...+++.| .+++.+.......+|++++++.
T Consensus 158 ~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~l~~~~~----------------------------------------- 196 (429)
T TIGR02765 158 KQVEAKCSIRPPLPAPEKLPPLPSVDDPGWIPTLEDLGE----------------------------------------- 196 (429)
T ss_pred HHHHhhCCCCCCCCCcccCCCCcccccccCCCChhhcCC-----------------------------------------
Confidence 98653 22333333 2221111000001122111100
Q ss_pred CCCCCccccCCcccccCCCCCCCCcHHHHHHHHHHHHHHhcCCcchhhHHHHHhhhcccCCCCCCCCCCCchhhhcCCcc
Q 014573 269 NQHSPRKRLDKSFFVTDKGNTVGGGTNAVLNALQAYLRYLEGTVRDDWQELQEKLRNAESRDGASFATLFGPALCLGIIS 348 (422)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~~~~~~gGE~~Al~~L~~fl~~~~~~~~~~Y~~~Rn~~r~~~t~~~~~~tS~LSPyLa~G~IS 348 (422)
+... ......++|||++|+++|++||+ ...+..|++.||. .++.++||+|||||++||||
T Consensus 197 ---------~~~~--~~~~~~~~gGe~~A~~~L~~Fl~---~~~l~~Y~~~R~~------~~~~~~tS~LSpyL~~G~iS 256 (429)
T TIGR02765 197 ---------ESSE--VDRGLPFVGGETAGLARLKEYFW---SKDLKSYKETRNG------MLGPDYSTKFSPWLALGCVS 256 (429)
T ss_pred ---------Cccc--ccccCCcCchHHHHHHHHHHHHh---hccHhhhhhccCc------ccCCCCcCccCHHHhCCccc
Confidence 0000 00012479999999999999984 2468899998752 35678999999999999999
Q ss_pred HHHHHHHHHHHHHHhcCCCCCCCCCChhhHHHHHHHHHHHHHHHHHHhcCCCCCCCCccc------------eeeecCCc
Q 014573 349 RRGVHYEAIKFEKERNAGFLSPFGYSAATIAAAADAVCSMEWYWLMSLRSLRSNEGVYST------------RIWRWNGY 416 (422)
Q Consensus 349 ~R~i~~~l~~~e~~~~~n~~~~~g~st~~~~~~~~ELlWReFy~~~~~~~~~~~~~~~~~------------~~w~w~~~ 416 (422)
||+|++++.+++...+.+ .++.+ +++||+|||||+++...++..++..... .+-+|+.|
T Consensus 257 ~r~v~~~~~~~~~~~~~~------~~~~~---~~~eL~WRef~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~W~~G 327 (429)
T TIGR02765 257 PRQIYEELQRYETERGAN------DSTYW---VIFELLWRDYFRFYALKYGNRLFRFGGLRGKHPKWSFDAKRFEQWKTG 327 (429)
T ss_pred HHHHHHHHHHHHhhcccC------CCcHH---HHHHHHHHHHHHHHHHHcCCcccccCCCccCCCCCccCHHHHHHHhCC
Confidence 999999998766433222 23333 6779999999999988888655542222 23479999
Q ss_pred cccc
Q 014573 417 QIQV 420 (422)
Q Consensus 417 ~~~~ 420 (422)
.|+|
T Consensus 328 ~TG~ 331 (429)
T TIGR02765 328 TTGY 331 (429)
T ss_pred CCCC
Confidence 9988
No 2
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=100.00 E-value=1.1e-52 Score=425.78 Aligned_cols=293 Identities=24% Similarity=0.344 Sum_probs=238.5
Q ss_pred CeEEEEEcCCCCccCCHHHHHHHhc-CC-eEEEEEEcCCccccCCHhHHHHHHHHHHHHHHHHHhcCCcEEEEeCCHHHH
Q 014573 45 GSAVIWFKQDLRVDDHLGLVAASKY-QA-VVPLYVFDHRILSRYSNEMLELVIFALEDLRKSLKEQGSDLMIRFGRVENV 122 (422)
Q Consensus 45 ~~~L~Wfr~DLRl~DN~aL~~A~~~-~~-vl~vfi~dp~~~~~~~~~r~~Fl~esL~~L~~~L~~lg~~L~v~~G~~~~~ 122 (422)
+++|||||||||++||+||.+|++. .+ +++|||++|+++...|+++.+|+.+||++|+++|+++|++|+|..|++.++
T Consensus 2 ~~~l~WfrrDLR~~DN~aL~~A~~~~~~~~~~vfi~~~~~~~~~~~~~~~Fl~~sL~~L~~~L~~~gi~L~v~~~~~~~~ 81 (461)
T COG0415 2 STVLVWFRRDLRLTDNAALAAACQSGQPVIIAVFILDPEQLGHASPRHAAFLLQSLQALQQSLAELGIPLLVREGDPEQV 81 (461)
T ss_pred CeEEEEeccccccCChHHHHHHHhcCCCceEEEEEechhhccccCHHHHHHHHHHHHHHHHHHHHcCCceEEEeCCHHHH
Confidence 4689999999999999999999988 44 569999999998778999999999999999999999999999999999999
Q ss_pred HHHHHHHhCccEEEEccccchhHHHHHHHHHHHhhhcCCCCCCceeEecCcccccCCC----CCCCCccchhHHhccCCC
Q 014573 123 IRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVSLVDGKPKICLWQTPFYDIKN----LNDLPVSHNEFRKLQRPL 198 (422)
Q Consensus 123 l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~gi~~~~~~~~~~~~~L~~~~~----~~~~p~~ft~F~k~~~~~ 198 (422)
+++++++++++.|++|.+|+.+++.+|.+|++.|.+.|| .++.+++++|++|.+ .+++|++||+|+|+|...
T Consensus 82 l~~~~~~~~~~~v~~n~~~~~~~~~rD~al~~~l~~~gi----~~~~~~d~~l~~p~~~~t~~~~~y~vfT~F~k~~~~~ 157 (461)
T COG0415 82 LPELAKQLAATTVFWNRDYEEWERQRDAALAQPLTEVGI----AVHSFWDALLHEPGEVRTGSGEPYKVFTPFYKAWRDR 157 (461)
T ss_pred HHHHHHHhCcceEEeeeeechhHHHHHHHHHHHHHhcCc----eEEEeccccccCHhhccCCCCCCccccchHHHHHHHh
Confidence 999999999999999999999999999999999999988 888999999999975 488999999999997643
Q ss_pred ---CCCCCCCC-CCCCcccCCCCCCCChhhhhhhhcCCCccchhhhhhhccchHHHHHHHHhhhhccccccCCCCCCCCc
Q 014573 199 ---TSPILPPT-LAGAKLEADWGPLPTFDELKEFVNENPWKLEESWTLINNMSAETILTDKLSKLGKRSKRNLNNQHSPR 274 (422)
Q Consensus 199 ---~~pl~~p~-lp~~~~~~~~~~ip~~~~L~~~~~~~~~~~~~~~~~~g~~~a~~~l~~~l~~~~~~~~~~~~~~~~~~ 274 (422)
..|++.|. +.++... ...|....+ ++
T Consensus 158 ~~~~~~~~~p~~~~~~~~~---~~~~~~~~~------------------------------------------P~----- 187 (461)
T COG0415 158 LRILRPVPAPDVLDALRDE---EPPPEEISL------------------------------------------PD----- 187 (461)
T ss_pred cccCCCCCCcchhcccccc---ccCcccccC------------------------------------------Cc-----
Confidence 34455441 2111100 000000000 00
Q ss_pred cccCCcccccCCCCCCCCcHHHHHHHHHHHHHHhcCCcchhhHHHHHhhhcccCCCCCCCCCCCchhhhcCCccHHHHHH
Q 014573 275 KRLDKSFFVTDKGNTVGGGTNAVLNALQAYLRYLEGTVRDDWQELQEKLRNAESRDGASFATLFGPALCLGIISRRGVHY 354 (422)
Q Consensus 275 ~~~~~~~~~~~~~~~~~gGE~~Al~~L~~fl~~~~~~~~~~Y~~~Rn~~r~~~t~~~~~~tS~LSPyLa~G~IS~R~i~~ 354 (422)
.+ ......+.|||++|+++|++|+. +.+..|++.|| .|+.++||+|||||++|+||||+||+
T Consensus 188 ----~~---~~~~~~~~~Ge~aA~~~l~~F~~----~~l~~Y~~~Rd-------~p~~~~TS~LSpyL~~G~IS~r~v~~ 249 (461)
T COG0415 188 ----FS---KFDVLLFTGGEKAALARLQDFLA----EGLDDYERTRD-------FPALDGTSRLSPYLAFGVISPREVYA 249 (461)
T ss_pred ----cc---cccccCCCchHHHHHHHHHHHHH----HHHHHHHHhcC-------CcccccccccCHHHHcCCcCHHHHHH
Confidence 00 00113689999999999999996 66999999984 79999999999999999999999999
Q ss_pred HHHHHHHHhcCCCCCCCCCChhhHHHHHHHHHHHHHHHHHHhcCCCC-CCCCc------------cceeeecCCccccc
Q 014573 355 EAIKFEKERNAGFLSPFGYSAATIAAAADAVCSMEWYWLMSLRSLRS-NEGVY------------STRIWRWNGYQIQV 420 (422)
Q Consensus 355 ~l~~~e~~~~~n~~~~~g~st~~~~~~~~ELlWReFy~~~~~~~~~~-~~~~~------------~~~~w~w~~~~~~~ 420 (422)
++.+.+.+ ++ .++. .|+.||+|||||+|++..+++- .+.+. ..++-.|+.|.|+|
T Consensus 250 ~~~~~~~~--~~------~~~~---~~~~eL~WREFy~h~~~~~p~~~~~~~~~~~~~~~~w~~~~~~f~aW~~G~TGy 317 (461)
T COG0415 250 ALLAAESD--AR------EGTA---ALINELIWREFYQHLLYHYPSLSRFEPFAEKTLNIPWEDNPAHFQAWQEGKTGY 317 (461)
T ss_pred HHHHhhhc--cc------chHH---HHHHHHHHHHHHHHHHHhCCcccccccccccccCCccccCHHHHHHHhcCCCCC
Confidence 99987754 22 2333 4999999999999999999975 33332 23345899999998
No 3
>TIGR03556 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 8-HDF type. This model describes a narrow clade of cyanobacterial deoxyribodipyrimidine photo-lyase. This group, in contrast to several closely related proteins, uses a chromophore that, in other lineages is modified further to become coenzyme F420. This chromophore is called 8-HDF in most articles on the DNA photolyase and FO in most literature on coenzyme F420.
Probab=100.00 E-value=7.5e-52 Score=430.64 Aligned_cols=299 Identities=21% Similarity=0.300 Sum_probs=232.5
Q ss_pred eEEEEEcCCCCccCCHHHHHHHhc-CCeEEEEEEcCCcccc--CCHhHHHHHHHHHHHHHHHHHhcCCcEEEEeCCHHHH
Q 014573 46 SAVIWFKQDLRVDDHLGLVAASKY-QAVVPLYVFDHRILSR--YSNEMLELVIFALEDLRKSLKEQGSDLMIRFGRVENV 122 (422)
Q Consensus 46 ~~L~Wfr~DLRl~DN~aL~~A~~~-~~vl~vfi~dp~~~~~--~~~~r~~Fl~esL~~L~~~L~~lg~~L~v~~G~~~~~ 122 (422)
.+|||||||||++||+||.+|++. .+|+||||+||.++.. .+.+|++|+++||.+|+++|+++|++|+|+.|++.++
T Consensus 2 ~vl~WfRrDLRl~DN~AL~~A~~~~~~vl~vfi~dp~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~G~p~~v 81 (471)
T TIGR03556 2 LILFWHRRDLRLSDNIGLAAARQQSAKVVGLFCLDPNILQADDMAPARVAYLIGCLQELQQRYQQAGSQLLILQGDPVQL 81 (471)
T ss_pred CEEEEeCCCCCcchHHHHHHHHhcCCCEEEEEEEchhhhccccCCHHHHHHHHHHHHHHHHHHHHCCCCeEEEECCHHHH
Confidence 489999999999999999999976 6899999999987642 4889999999999999999999999999999999999
Q ss_pred HHHHHHHhCccEEEEccccchhHHHHHHHHHHHhhhcCCCCCCceeEecCcccccCCCC----CCCCccchhHHhccCCC
Q 014573 123 IRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVSLVDGKPKICLWQTPFYDIKNL----NDLPVSHNEFRKLQRPL 198 (422)
Q Consensus 123 l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~gi~~~~~~~~~~~~~L~~~~~~----~~~p~~ft~F~k~~~~~ 198 (422)
|++|+++++|++||+|.+++++++++|++|++.|.+.|| .++.+++++|++|+++ +++|++||+|+|++...
T Consensus 82 l~~l~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i----~~~~~~~~~l~~p~~i~~~~~~~y~~ft~f~k~~~~~ 157 (471)
T TIGR03556 82 IPQLAQQLGAKAVYWNLDVEPYGRKRDRAVAAALKEAGI----AVVTLWDQLLHSPDEILTGSGNPYTVYTPFWKNWSSL 157 (471)
T ss_pred HHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHHHHCCC----EEEEeCCcEEECccccccCCCCCCcchhHHHHHHHhc
Confidence 999999999999999999999999999999999998887 8999999999999864 56899999999986533
Q ss_pred --CCCCCCC-CCCCCcccC-------CCCCCCChhhhhhhhcCCCccchhhhhhhccchHHHHHHHHhhhhccccccCCC
Q 014573 199 --TSPILPP-TLAGAKLEA-------DWGPLPTFDELKEFVNENPWKLEESWTLINNMSAETILTDKLSKLGKRSKRNLN 268 (422)
Q Consensus 199 --~~pl~~p-~lp~~~~~~-------~~~~ip~~~~L~~~~~~~~~~~~~~~~~~g~~~a~~~l~~~l~~~~~~~~~~~~ 268 (422)
..|++.| .+++.+... ....+|++++++
T Consensus 158 ~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~p~~~~~~------------------------------------------ 195 (471)
T TIGR03556 158 PKPTPVATPTELEGLTEAELEAAAPLGVIALPTAKDLG------------------------------------------ 195 (471)
T ss_pred cccCCCCCccccccCCccccccccccccccCCcccccc------------------------------------------
Confidence 2234444 222111000 000001100000
Q ss_pred CCCCCccccCCcccccCCCCCCCCcHHHHHHHHHHHHHHhcCCcchhhHHHHHhhhcccCCCCCCCCCCCchhhhcCCcc
Q 014573 269 NQHSPRKRLDKSFFVTDKGNTVGGGTNAVLNALQAYLRYLEGTVRDDWQELQEKLRNAESRDGASFATLFGPALCLGIIS 348 (422)
Q Consensus 269 ~~~~~~~~~~~~~~~~~~~~~~~gGE~~Al~~L~~fl~~~~~~~~~~Y~~~Rn~~r~~~t~~~~~~tS~LSPyLa~G~IS 348 (422)
.+.. . ...++|||++|+++|+.|++ ..+..|+.+|| .|+.++||+|||||++||||
T Consensus 196 --------~~~~---~--~~~~~gGe~~A~~~L~~f~~----~~l~~Y~~~r~-------~p~~~~tS~LSpyL~~G~iS 251 (471)
T TIGR03556 196 --------FDWD---G--DLILEPGETAAQARLEEFCD----RAIADYQEQRN-------FPALDGTSQLSPALKFGVIG 251 (471)
T ss_pred --------cccc---c--ccCCCCcHHHHHHHHHHHHH----HHHHHhhhccC-------CCCCCCCCCCChhhcCCccc
Confidence 0000 0 01479999999999999995 57999999884 47789999999999999999
Q ss_pred HHHHHHHHHHHHHHhcCCCCCCCCCChhhHHHHHHHHHHHHHHHHHHhcCCCCCC------------CCccceeeecCCc
Q 014573 349 RRGVHYEAIKFEKERNAGFLSPFGYSAATIAAAADAVCSMEWYWLMSLRSLRSNE------------GVYSTRIWRWNGY 416 (422)
Q Consensus 349 ~R~i~~~l~~~e~~~~~n~~~~~g~st~~~~~~~~ELlWReFy~~~~~~~~~~~~------------~~~~~~~w~w~~~ 416 (422)
+|+|++++.+.......+ .....+.+|++||+|||||++++..++.-.. .+..-.+-+|+.|
T Consensus 252 ~r~v~~~~~~~~~~~~~~------~~~~~~~~f~~eL~WRef~~~~~~~~p~~~~~~~~~~~~~~~w~~~~~~~~~W~~G 325 (471)
T TIGR03556 252 IRTVWQATQEAHENSRSE------EARNSIRTWQQELAWREFYQHALYHFPELADGPYRSLFQNFPWENNEAHFQAWCEG 325 (471)
T ss_pred HHHHHHHHHHHHhhcccc------cccccHHHHHHHHHHHHHHHHHHHHCcchhccccchhhhcCCCcCCHHHHHHHhcC
Confidence 999999998744322111 1223455699999999999999998875221 1122234589999
Q ss_pred cccc
Q 014573 417 QIQV 420 (422)
Q Consensus 417 ~~~~ 420 (422)
.|+|
T Consensus 326 ~TG~ 329 (471)
T TIGR03556 326 RTGY 329 (471)
T ss_pred CCCC
Confidence 9987
No 4
>TIGR02766 crypt_chrom_pln cryptochrome, plant family. At least five major families of cryptochomes and photolyases share FAD cofactor binding, sequence homology, and the ability to react to short wavelengths of visible light. Photolysases are responsible for light-dependent DNA repair by removal of two types of uv-induced DNA dimerizations. Cryptochromes have other functions, often regulatory and often largely unknown, which may include circadian clock entrainment and control of development. Members of this subfamily are known so far only in plants; they may show some photolyase activity in vitro but appear mostly to be regulatory proteins that respond to blue light.
Probab=100.00 E-value=1.8e-50 Score=421.52 Aligned_cols=300 Identities=17% Similarity=0.174 Sum_probs=223.4
Q ss_pred EEEEcCCCCccCCHHHHHHHhcCCeEEEEEEcCCcccc--CCHhHHHHHHHHHHHHHHHHHhcCCcEEEEe-CCHHHHHH
Q 014573 48 VIWFKQDLRVDDHLGLVAASKYQAVVPLYVFDHRILSR--YSNEMLELVIFALEDLRKSLKEQGSDLMIRF-GRVENVIR 124 (422)
Q Consensus 48 L~Wfr~DLRl~DN~aL~~A~~~~~vl~vfi~dp~~~~~--~~~~r~~Fl~esL~~L~~~L~~lg~~L~v~~-G~~~~~l~ 124 (422)
||||||||||+||+||.+|++.++|+||||+||.++.. .+.++.+||++||.+|+++|+++|++|+|+. |++.++|.
T Consensus 1 l~WFRrDLRl~DN~aL~~A~~~~~vlpvyi~dp~~~~~~~~~~~~~~fl~~sL~~L~~~L~~~G~~L~v~~~g~~~~~l~ 80 (475)
T TIGR02766 1 IVWFRRDLRVEDNPALAAAARAGPVIPVFVWAPEEEGQYYPGRVSRWWLKQSLAHLDQSLRSLGTCLVTIRSTDTVAALL 80 (475)
T ss_pred CEecCCCCCcchHHHHHHHHhCCCEEEEEEechHHhccccccHHHHHHHHHHHHHHHHHHHHcCCceEEEeCCCHHHHHH
Confidence 69999999999999999998767899999999987643 3678888999999999999999999999984 89999999
Q ss_pred HHHHHhCccEEEEccccchhHHHHHHHHHHHhhhcCCCCCCceeEecCcccccCCCC----CCCCccchhHHhccCCCCC
Q 014573 125 ELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVSLVDGKPKICLWQTPFYDIKNL----NDLPVSHNEFRKLQRPLTS 200 (422)
Q Consensus 125 ~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~gi~~~~~~~~~~~~~L~~~~~~----~~~p~~ft~F~k~~~~~~~ 200 (422)
+|+++++|+.||+|.+++++++++|++|++.|.+.|| .++.+++++|++|+++ +++|++||+|+|++.....
T Consensus 81 ~l~~~~~i~~v~~~~~~~~~~~~rd~~v~~~l~~~gi----~~~~~~~~~l~~p~~i~~~~~~~~~~ft~f~~~~~~~~~ 156 (475)
T TIGR02766 81 DCVRSTGATRLFFNHLYDPVSLVRDHRAKEVLTAQGI----SVQSFNADLLYEPWEVYDELGRPFTMFAAFWERCLSMPY 156 (475)
T ss_pred HHHHHcCCCEEEEecccCHHHHHHHHHHHHHHHHcCC----EEEEecCCEEEChhhhcccCCCCCCeecHHHHHHHhccC
Confidence 9999999999999999999999999999999998887 8999999999999863 5789999999998654321
Q ss_pred ----CCCCC-CCCCCcccCCCCCCCChhhhhhhhcCCCccchhhhhhhccchHHHHHHHHhhhhccccccCCCCCCCCcc
Q 014573 201 ----PILPP-TLAGAKLEADWGPLPTFDELKEFVNENPWKLEESWTLINNMSAETILTDKLSKLGKRSKRNLNNQHSPRK 275 (422)
Q Consensus 201 ----pl~~p-~lp~~~~~~~~~~ip~~~~L~~~~~~~~~~~~~~~~~~g~~~a~~~l~~~l~~~~~~~~~~~~~~~~~~~ 275 (422)
+.+.| .++..+ ...+..++++... ...
T Consensus 157 ~~~~~~~~p~~~~~~~-----~~~~~~~~~~~~~---------------------------------------~~~---- 188 (475)
T TIGR02766 157 DPESPLLPPKKIISGD-----VSKCSADDLGFED---------------------------------------DSE---- 188 (475)
T ss_pred CCCCCCCCccccCCCc-----cccCChhhcCCCC---------------------------------------ccc----
Confidence 12222 111000 0000111111000 000
Q ss_pred ccCCcccccCCCCCCCCcHHHHHHHHHHHHHHhcCCcchhhHHHHHhhhcccCCCCCCCCCCCchhhhcCCccHHHHHHH
Q 014573 276 RLDKSFFVTDKGNTVGGGTNAVLNALQAYLRYLEGTVRDDWQELQEKLRNAESRDGASFATLFGPALCLGIISRRGVHYE 355 (422)
Q Consensus 276 ~~~~~~~~~~~~~~~~gGE~~Al~~L~~fl~~~~~~~~~~Y~~~Rn~~r~~~t~~~~~~tS~LSPyLa~G~IS~R~i~~~ 355 (422)
..... .....|+|||++|+++|+.||+ +.+..|+.+|| .|+.++||+|||||++||||||+|+++
T Consensus 189 ~~~~~----~~~~~~~gGe~~A~~~L~~Fl~----~~~~~Y~~~Rd-------~p~~~~tS~LSPyL~~G~ISpR~v~~~ 253 (475)
T TIGR02766 189 KGSNA----LLARAWSPGWSNADKALTEFIN----GPLLEYSKNRK-------KADSATTSLLSPYLHFGEVSVRKVFHL 253 (475)
T ss_pred ccccc----cccccCCCccHHHHHHHHHHHH----HHHHHHhhcCC-------CCCCCCCCCCCcccccCcccHHHHHHH
Confidence 00000 0012489999999999999995 57899999874 467799999999999999999999999
Q ss_pred HHHHHHH---hcCCCCCCCCCChhhHHHHHHHHHHHHHHHHHHhcCCCCCCC------------CccceeeecCCccccc
Q 014573 356 AIKFEKE---RNAGFLSPFGYSAATIAAAADAVCSMEWYWLMSLRSLRSNEG------------VYSTRIWRWNGYQIQV 420 (422)
Q Consensus 356 l~~~e~~---~~~n~~~~~g~st~~~~~~~~ELlWReFy~~~~~~~~~~~~~------------~~~~~~w~w~~~~~~~ 420 (422)
+.+.+.. .+.+ . ...|+ ..|++||+|||||++++.++|.-... ++...+-+|+.|.|+|
T Consensus 254 ~~~~~~~~~~~~~~--~-~~~s~---~~f~~eL~WRef~~~~~~~~p~~~~~~~~~~~~~~~w~~~~~~f~aW~~G~TG~ 327 (475)
T TIGR02766 254 VRMKQIAWANEGNS--A-GEESV---NLFLRSIGLREYSRYISFNHPFSHEKPLLGHLKFFPWAVDENYFKAWRQGRTGY 327 (475)
T ss_pred HHhhhhhhhhcccC--C-CcccH---HHHHHHHHHHHHHHHHHHhCCcccccchhhhhhcCCCCCCHHHHHHHHcCCCCC
Confidence 9632100 0110 0 00233 34999999999999999998742111 1111233799999998
No 5
>PRK10674 deoxyribodipyrimidine photolyase; Provisional
Probab=100.00 E-value=5.3e-49 Score=409.39 Aligned_cols=293 Identities=14% Similarity=0.184 Sum_probs=221.8
Q ss_pred eEEEEEcCCCCccCCHHHHHHHhc-C-CeEEEEEEcCCccc--cCCHhHHHHHHHHHHHHHHHHHhcCCcEEEEeC----
Q 014573 46 SAVIWFKQDLRVDDHLGLVAASKY-Q-AVVPLYVFDHRILS--RYSNEMLELVIFALEDLRKSLKEQGSDLMIRFG---- 117 (422)
Q Consensus 46 ~~L~Wfr~DLRl~DN~aL~~A~~~-~-~vl~vfi~dp~~~~--~~~~~r~~Fl~esL~~L~~~L~~lg~~L~v~~G---- 117 (422)
++|||||||||++||+||.+|++. . +|+||||+||..+. ..|.+|++||+|||.+|+++|+++|++|+|+.|
T Consensus 3 ~~l~WfRrDLRl~DN~aL~~A~~~~~~~vlpvyv~dp~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~g~~L~v~~g~~~g 82 (472)
T PRK10674 3 THLVWFRNDLRLHDNLALAAACRDPSARVLALFIATPAQWAAHDMAPRQAAFINAQLNALQIALAEKGIPLLFHEVDDFA 82 (472)
T ss_pred ceEEEECCCCCcchHHHHHHHHhCCCCCEEEEEEECchhhccCCCCHHHHHHHHHHHHHHHHHHHHcCCceEEEecCCcC
Confidence 369999999999999999999987 3 79999999997653 358999999999999999999999999999975
Q ss_pred CHHHHHHHHHHHhCccEEEEccccchhHHHHHHHHHHHhhhcCCCCCCceeEecCcccccCCC----CCCCCccchhHHh
Q 014573 118 RVENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVSLVDGKPKICLWQTPFYDIKN----LNDLPVSHNEFRK 193 (422)
Q Consensus 118 ~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~gi~~~~~~~~~~~~~L~~~~~----~~~~p~~ft~F~k 193 (422)
+|.++|++|+++++|+.||++.+++++++++|++|++.|. +| .++.+++++|++++. .+++|++||+|+|
T Consensus 83 ~~~~vl~~l~~~~~i~~v~~~~~~~~~~~~rd~~v~~~l~--~i----~~~~~~~~~l~~~~~i~~~~~~~y~~ft~f~~ 156 (472)
T PRK10674 83 ASVEWLKQFCQQHQVTHLFYNYQYEVNERQRDAAVERALR--NV----VCQGFDDSVLLPPGSVMTGNHEMYKVFTPFKN 156 (472)
T ss_pred CHHHHHHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHcC--CC----EEEEecCceEeCccccccCCCCCCCcccHHHH
Confidence 7999999999999999999999999999999999999986 45 778899999999986 3678999999999
Q ss_pred ccCC-CCCCCCCCCCCCCcccCCCCCC--CChhhhhhhhcCCCccchhhhhhhccchHHHHHHHHhhhhccccccCCCCC
Q 014573 194 LQRP-LTSPILPPTLAGAKLEADWGPL--PTFDELKEFVNENPWKLEESWTLINNMSAETILTDKLSKLGKRSKRNLNNQ 270 (422)
Q Consensus 194 ~~~~-~~~pl~~p~lp~~~~~~~~~~i--p~~~~L~~~~~~~~~~~~~~~~~~g~~~a~~~l~~~l~~~~~~~~~~~~~~ 270 (422)
+|.. +..+.+.+ ++. +.......+ +....++ + ..
T Consensus 157 ~~~~~~~~~~p~~-~~~-p~~~~~~~~~~~~~~~~~-------------~---------------------------~~- 193 (472)
T PRK10674 157 AFLKRLREGDPEC-VPA-PKVRSSGAIEPLPPIPFN-------------Y---------------------------PQ- 193 (472)
T ss_pred HHHHhhcccCCcc-CCC-CccccccccCCCCccccc-------------C---------------------------cc-
Confidence 8754 22222111 111 100000000 0000000 0 00
Q ss_pred CCCccccCCcccccCCCCCCCCcHHHHHHHHHHHHHHhcCCcchhhHHHHHhhhcccCCCCCCCCCCCchhhhcCCccHH
Q 014573 271 HSPRKRLDKSFFVTDKGNTVGGGTNAVLNALQAYLRYLEGTVRDDWQELQEKLRNAESRDGASFATLFGPALCLGIISRR 350 (422)
Q Consensus 271 ~~~~~~~~~~~~~~~~~~~~~gGE~~Al~~L~~fl~~~~~~~~~~Y~~~Rn~~r~~~t~~~~~~tS~LSPyLa~G~IS~R 350 (422)
... ....++|||++|+++|++|++ +.+..|++.|| .|+.++||+|||||+|||||+|
T Consensus 194 ----~~~--------~~~~~~gGe~~A~~~L~~f~~----~~l~~Y~~~r~-------~p~~~~tS~LSPyL~~G~iS~r 250 (472)
T PRK10674 194 ----QSF--------DTALFPVGEKAAIAQLRQFCQ----QGAGEYEQQRD-------FPAVDGTSRLSAYLATGVLSPR 250 (472)
T ss_pred ----ccc--------ccCCCCCCHHHHHHHHHHHHH----HHHHHhccccC-------CCCccCCCCcChhhccCcCCHH
Confidence 000 002489999999999999996 57999999874 4778899999999999999999
Q ss_pred HHHHHHHH-HHHHhcCCCCCCCCCChhhHHHHHHHHHHHHHHHHHHhcCCCC----CCCCc---------cceeeecCCc
Q 014573 351 GVHYEAIK-FEKERNAGFLSPFGYSAATIAAAADAVCSMEWYWLMSLRSLRS----NEGVY---------STRIWRWNGY 416 (422)
Q Consensus 351 ~i~~~l~~-~e~~~~~n~~~~~g~st~~~~~~~~ELlWReFy~~~~~~~~~~----~~~~~---------~~~~w~w~~~ 416 (422)
+|++++.+ ++.....+ ...+|++||+|||||++++.+++.- -+... .-.+-+|+.|
T Consensus 251 ~v~~~~~~~~~~~~~~~----------~~~~fl~eL~WRef~~~~~~~~p~~~~~~~~~~~~~~~~w~~~~~~~~~W~~G 320 (472)
T PRK10674 251 QCLHRLLAEQPQALDGG----------AGSVWLNELIWREFYRHLMVAYPSLCKHRPFIAWTDRVQWQSNPAHLQAWQQG 320 (472)
T ss_pred HHHHHHHHHhhhhhccC----------chhHHHHHHHHHHHHHHHHHhCCchhhccCcchhhhccCcccCHHHHHHHHcC
Confidence 99999976 33221111 1235899999999999999998762 11111 1113469999
Q ss_pred cccc
Q 014573 417 QIQV 420 (422)
Q Consensus 417 ~~~~ 420 (422)
.|+|
T Consensus 321 ~TG~ 324 (472)
T PRK10674 321 KTGY 324 (472)
T ss_pred CCCC
Confidence 9987
No 6
>TIGR00591 phr2 photolyase PhrII. All proteins in this family for which functions are known are DNA-photolyases used for the direct repair of UV irradiation induced DNA damage. Some repair 6-4 photoproducts while others repair cyclobutane pyrimidine dimers. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=1.2e-47 Score=398.23 Aligned_cols=298 Identities=13% Similarity=0.091 Sum_probs=220.4
Q ss_pred CeEEEEEcCCCCccCCHHHHHHHh-----cCCeEEEEEEcCCccccCCHhHHHHHHHHHHHHHHHHHhcCCcEEEEeCCH
Q 014573 45 GSAVIWFKQDLRVDDHLGLVAASK-----YQAVVPLYVFDHRILSRYSNEMLELVIFALEDLRKSLKEQGSDLMIRFGRV 119 (422)
Q Consensus 45 ~~~L~Wfr~DLRl~DN~aL~~A~~-----~~~vl~vfi~dp~~~~~~~~~r~~Fl~esL~~L~~~L~~lg~~L~v~~G~~ 119 (422)
+++|||||+|||++||+||.+|++ ..+|+||||+||.++. .|.+|.+||++||.+|+++|+++|++|+|+.|+|
T Consensus 23 ~~vL~WFRrDLRl~DN~aL~~A~~~a~~~~~~vl~vyi~dp~~~~-~~~~r~~Fl~esL~~L~~~L~~~g~~L~v~~g~~ 101 (454)
T TIGR00591 23 GVVVYWMSRDQRVQDNWALIAAQTLALKKKLPLHVCFCLVDFFLA-ATRRHYFFMLGGLDEVANECERLIIPFHLLDGPP 101 (454)
T ss_pred CeEEEEecCchhccCCHHHHHHHHHHHHcCCCEEEEEEeCCCccc-ccHHHHHHHHHHHHHHHHHHHHcCCceEEeecCh
Confidence 569999999999999999999975 2579999999998874 5899999999999999999999999999999999
Q ss_pred HHHHHHHHHHhCccEEEEccccchhHHHHHHHHHHHhhhcCCCCCCceeEecCcccccCCCC--CCCCccchhHHhccCC
Q 014573 120 ENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVSLVDGKPKICLWQTPFYDIKNL--NDLPVSHNEFRKLQRP 197 (422)
Q Consensus 120 ~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~gi~~~~~~~~~~~~~L~~~~~~--~~~p~~ft~F~k~~~~ 197 (422)
.++|++|+++++|++||+|.+++++++++|+.|++.|++ +| .++.+++++|++++.+ ..++++||+|.|....
T Consensus 102 ~~~l~~l~~~~~i~~V~~~~~~~~~~~~rd~~v~~~l~~-~i----~~~~~~~~~l~p~~~~~~~~~y~~ft~~~k~~~~ 176 (454)
T TIGR00591 102 KELLPYFVDLHAAAAVVTDFSPLRQPEQWDEAVGKLLPK-DV----PFQQVDAHNVVPCWAASKKLEYAARTIRGKIRKL 176 (454)
T ss_pred HHHHHHHHHHcCCCEEEEecccCcHHHHHHHHHHHHhcC-CC----cEEEECCceEeeCcccCCceeeeeecHHHHHHHh
Confidence 999999999999999999999999999999999999965 66 8999999999998653 3567888888775211
Q ss_pred CCCCCCC-CCCCCCcccCCCCCC-CChhhhhhhhcCCCccchhhhhhhccchHHHHHHHHhhhhccccccCCCCCCCCcc
Q 014573 198 LTSPILP-PTLAGAKLEADWGPL-PTFDELKEFVNENPWKLEESWTLINNMSAETILTDKLSKLGKRSKRNLNNQHSPRK 275 (422)
Q Consensus 198 ~~~pl~~-p~lp~~~~~~~~~~i-p~~~~L~~~~~~~~~~~~~~~~~~g~~~a~~~l~~~l~~~~~~~~~~~~~~~~~~~ 275 (422)
.+..++. |.....+. ...+ |... .+. ..+.. +.
T Consensus 177 ~~~~~~~~~~~~~~~~---~~~~~~~~~---------------~~~--------~~~~~-~~------------------ 211 (454)
T TIGR00591 177 LPEYLTEFPRVLKHPS---PLDLEAGPV---------------DWD--------AVRDS-LA------------------ 211 (454)
T ss_pred ChhhccccCCCccCCc---ccccccCcC---------------CHH--------HHHHh-cc------------------
Confidence 1111110 10000000 0000 0000 000 00000 00
Q ss_pred ccCCcccccCCCCCC-CCcHHHHHHHHHHHHHHhcCCcchhhHHHHHhhhcccCCCCCCCCCCCchhhhcCCccHHHHHH
Q 014573 276 RLDKSFFVTDKGNTV-GGGTNAVLNALQAYLRYLEGTVRDDWQELQEKLRNAESRDGASFATLFGPALCLGIISRRGVHY 354 (422)
Q Consensus 276 ~~~~~~~~~~~~~~~-~gGE~~Al~~L~~fl~~~~~~~~~~Y~~~Rn~~r~~~t~~~~~~tS~LSPyLa~G~IS~R~i~~ 354 (422)
...++ ....| +|||++|+++|+.|++ +.+..|+++|| .|+.++||+||||||+||||||+|++
T Consensus 212 -~~~~~----~~~~~~~gGe~aA~~~L~~F~~----~~l~~Y~~~Rn-------~p~~~~tS~LSPyL~~G~IS~R~i~~ 275 (454)
T TIGR00591 212 -VERSV----EEVVWAKPGTTAGLIMLESFIE----KRLCFFRTRRN-------DPNNDALSMLSPWLHFGQLSAQRAAR 275 (454)
T ss_pred -CcCCc----CCcCCCCCcHHHHHHHHHHHHH----HHHHHHHHhcC-------CcccccccccchHHhcCcccHHHHHH
Confidence 00000 01236 9999999999999985 68999999985 47779999999999999999999999
Q ss_pred HHHHHHHHhcCCCCCCCCCChhhHHHHHHHHHHH-HHHHHHHhcCCC--CC-----CC--------Ccc-c---eeeecC
Q 014573 355 EAIKFEKERNAGFLSPFGYSAATIAAAADAVCSM-EWYWLMSLRSLR--SN-----EG--------VYS-T---RIWRWN 414 (422)
Q Consensus 355 ~l~~~e~~~~~n~~~~~g~st~~~~~~~~ELlWR-eFy~~~~~~~~~--~~-----~~--------~~~-~---~~w~w~ 414 (422)
++.+... .+ .++ ...|+.||+|| |||++++..+++ .. +. +.. - .+-+|+
T Consensus 276 ~~~~~~~---~~------~~~--~~~fl~EL~WR~ef~~~~~~~~p~~~~~~~~~~w~~~~l~~~~~d~r~~~~~~~~W~ 344 (454)
T TIGR00591 276 AVERARG---NA------GES--VEFFEEELVVRRELADNFCFYNPYYDSLCGAYWWARTTLDDHAKDKREHLYSLEQLE 344 (454)
T ss_pred HHHHhcc---CC------chH--HHHHHHHHHHHHHHHhHhhhcCCCccccccchHHHHHHHHHHhcCCccccCCHHHHH
Confidence 9854321 11 122 23599999999 799999988885 21 11 111 1 346888
Q ss_pred Cccccc
Q 014573 415 GYQIQV 420 (422)
Q Consensus 415 ~~~~~~ 420 (422)
.|.|+|
T Consensus 345 ~G~Tg~ 350 (454)
T TIGR00591 345 KSTTHD 350 (454)
T ss_pred hcCcCc
Confidence 898887
No 7
>KOG0133 consensus Deoxyribodipyrimidine photolyase/cryptochrome [Replication, recombination and repair; Signal transduction mechanisms]
Probab=100.00 E-value=5e-37 Score=314.46 Aligned_cols=308 Identities=19% Similarity=0.244 Sum_probs=225.9
Q ss_pred CCCeEEEEEcCCCCccCCHHHHHHHhc-CCeEEEEEEcCCcccc--CCHhHHHHHHHHHHHHHHHHHhcCCcEEEEeCCH
Q 014573 43 RSGSAVIWFKQDLRVDDHLGLVAASKY-QAVVPLYVFDHRILSR--YSNEMLELVIFALEDLRKSLKEQGSDLMIRFGRV 119 (422)
Q Consensus 43 ~~~~~L~Wfr~DLRl~DN~aL~~A~~~-~~vl~vfi~dp~~~~~--~~~~r~~Fl~esL~~L~~~L~~lg~~L~v~~G~~ 119 (422)
|+..+|+|||+|||+||||||.+|+.. ++++||||+||+..+. .|..|++||.|+|++|+++|+++|++|++++|.|
T Consensus 3 ~~~~~v~wfr~~lR~~dnpal~~a~~~~~~~~~v~i~d~~~~~~~~~g~~~~~~l~qsL~~ld~sl~~l~~~L~v~~~~p 82 (531)
T KOG0133|consen 3 TGSKSVHWFRKGLRLHDNPALLAAAAGKEPVRPVFILDPEEAGSSNVGRNRWRFLLQSLEDLDQSLRELNSRLFVFRGHP 82 (531)
T ss_pred CccceEEecccCcccccChhhHHHhccCCCceeEEEeCHhHhhccccchhHHHHHHHHHHHHHHHHHHhCCceEEEeCCc
Confidence 446789999999999999999877666 8999999999987653 4899999999999999999999999999999999
Q ss_pred HHHHHHHHHHhCccEEEEccccchhHHHHHHHHHHHhhhcCCCCCCceeEecCcccccCCC-----CCCCCccchhHHhc
Q 014573 120 ENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVSLVDGKPKICLWQTPFYDIKN-----LNDLPVSHNEFRKL 194 (422)
Q Consensus 120 ~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~gi~~~~~~~~~~~~~L~~~~~-----~~~~p~~ft~F~k~ 194 (422)
+.+|..+.+.++++.|.++.+++++.+.+|..++..+.+.|+ .+....+++++.++. .+++|.+|..|+..
T Consensus 83 ~~vl~~~~~~~~~~~l~~~~~~~p~~~vrD~~~~~~a~~l~i----~v~s~~s~~~~~~~~~i~~n~~k~pls~~~~~~~ 158 (531)
T KOG0133|consen 83 IAVLSRLLEQVGVQKLKFEYDMEPDGKVRDATIKSLATELGL----SVVSPVSHTLYLPDKIIEANGGKPPLSYKTFRGV 158 (531)
T ss_pred hHHHhhhhhccceeEEEEEEeccCccccccHHHHHHHHHhhh----hhcccCchhhhcHHHHHHhcCCCCcccccccccc
Confidence 999999999999999999999999999999999999999887 888888999999874 58899999999987
Q ss_pred cCCCCCC-CCC---C--CCCCCcccC----CCCCCCChhhhhhhhcCCCccchhhhhhhccchHHHHHHHHhhhhccccc
Q 014573 195 QRPLTSP-ILP---P--TLAGAKLEA----DWGPLPTFDELKEFVNENPWKLEESWTLINNMSAETILTDKLSKLGKRSK 264 (422)
Q Consensus 195 ~~~~~~p-l~~---p--~lp~~~~~~----~~~~ip~~~~L~~~~~~~~~~~~~~~~~~g~~~a~~~l~~~l~~~~~~~~ 264 (422)
...+..+ +|. . .++..+... ....+|+++.+.+.
T Consensus 159 ~~~~~~~~~p~~v~~~~~~~~~~~~~~~~~~~~~v~~~e~l~~~------------------------------------ 202 (531)
T KOG0133|consen 159 CQSMSAPKIPALVLSGLAVEKHPNFLANSKASAVVPTLELLRFI------------------------------------ 202 (531)
T ss_pred ccccccccccccccccccCCCChhhhhhcccccccCCchhhccC------------------------------------
Confidence 5444222 110 0 111111000 01223333332210
Q ss_pred cCCCCCCCCccccCCcccccCCCCCCCCcHHHHHHHHHHHHHHhcCCcchhhHHHHHhhhcccCCCCCCCCCCCchhhhc
Q 014573 265 RNLNNQHSPRKRLDKSFFVTDKGNTVGGGTNAVLNALQAYLRYLEGTVRDDWQELQEKLRNAESRDGASFATLFGPALCL 344 (422)
Q Consensus 265 ~~~~~~~~~~~~~~~~~~~~~~~~~~~gGE~~Al~~L~~fl~~~~~~~~~~Y~~~Rn~~r~~~t~~~~~~tS~LSPyLa~ 344 (422)
+... ....|.||++.|+.+|++||+ .. .+...-+.++.+.+.-...+++.|||||.|
T Consensus 203 -------------~~~~----~~~~~~~g~s~al~~l~~~l~----~~--~~~an~~~~~~~~~~~~~~s~~~Ls~yL~f 259 (531)
T KOG0133|consen 203 -------------PSNY----GEVVWRGGESEALKRLDAHLK----VP--LWVANLELRYSNANSRVKISTTVLSPYLKF 259 (531)
T ss_pred -------------cccc----cccccCCcccchhHHHHHHhh----HH--HHHhhhhccccccchhcCCCccccccceee
Confidence 0000 001389999999999999996 22 222222221111112235788899999999
Q ss_pred CCccHHHHHH--HHHHHHHHhcCCCCCCCCCChhhHHHHHHHHHHHHHHHHHHhcCC--CCCCCCcccee----------
Q 014573 345 GIISRRGVHY--EAIKFEKERNAGFLSPFGYSAATIAAAADAVCSMEWYWLMSLRSL--RSNEGVYSTRI---------- 410 (422)
Q Consensus 345 G~IS~R~i~~--~l~~~e~~~~~n~~~~~g~st~~~~~~~~ELlWReFy~~~~~~~~--~~~~~~~~~~~---------- 410 (422)
||||+|.+++ .+.+-......+.+.+. ..+++||+||||||+++...+ +.++++..|..
T Consensus 260 g~~svr~~~~~~~~k~V~~~~~~~s~~~e-------s~~~~qv~Wre~~y~~~~n~p~~~~m~~n~~~~~ipw~~n~~~~ 332 (531)
T KOG0133|consen 260 GCLSVRYFYRCVRLKQVKWKAKKNSLPPE-------SLFLGQVAWREFFYTAAFNTPYFDDMPGNKILLQIPWDKNPPKL 332 (531)
T ss_pred ccceeEeehhHhHHHHHHHhhhcccCCcc-------ccccceeeeechhhHhhcCCccccccccccccccCCcccChhhh
Confidence 9999999995 33332322223312211 137999999999999998877 48888888885
Q ss_pred eecCCccccc
Q 014573 411 WRWNGYQIQV 420 (422)
Q Consensus 411 w~w~~~~~~~ 420 (422)
-+|+.|+|+|
T Consensus 333 ~aw~~G~tG~ 342 (531)
T KOG0133|consen 333 AAWLEGLTGY 342 (531)
T ss_pred HHHHcCCCCC
Confidence 3788888876
No 8
>PF00875 DNA_photolyase: DNA photolyase from Prosite.; InterPro: IPR006050 DNA photolyases are enzymes that bind to DNA containing pyrimidine dimers: on absorption of visible light, they catalyse dimer splitting into the constituent monomers, a process called photoreactivation []. This is a DNA repair mechanism, repairing mismatched pyrimidine dimers induced by exposure to ultra-violet light []. The precise mechanisms involved in substrate binding, conversion of light energy to the mechanical energy needed to rupture the cyclobutane ring, and subsequent release of the product are uncertain []. Analysis of DNA lyases has revealed the presence of an intrinsic chromophore, all monomers containing a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore [, ]. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm []. This domain binds a light harvesting cofactor.; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 2J07_A 1IQU_A 2J09_A 2J08_A 1IQR_A 1DNP_A 3FY4_B 2VTB_A 2J4D_B ....
Probab=100.00 E-value=1.4e-35 Score=267.56 Aligned_cols=155 Identities=26% Similarity=0.399 Sum_probs=127.8
Q ss_pred EEEEEcCCCCccCCHHHHHHHhc-CCeEEEEEEcCCcccc--CCHhHHHHHHHHHHHHHHHHHhcCCcEEEEeCCHHHHH
Q 014573 47 AVIWFKQDLRVDDHLGLVAASKY-QAVVPLYVFDHRILSR--YSNEMLELVIFALEDLRKSLKEQGSDLMIRFGRVENVI 123 (422)
Q Consensus 47 ~L~Wfr~DLRl~DN~aL~~A~~~-~~vl~vfi~dp~~~~~--~~~~r~~Fl~esL~~L~~~L~~lg~~L~v~~G~~~~~l 123 (422)
+|||||+|||++||+||++|++. .+|+||||+||..... .|.+|++|+++||.+|+++|+++|++|+|+.|++.++|
T Consensus 1 ~l~Wfr~DLRl~DN~aL~~A~~~~~~v~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l 80 (165)
T PF00875_consen 1 VLVWFRRDLRLHDNPALHAAAQNGDPVLPVFVFDPEEFHPYRIGPRRRRFLLESLADLQESLRKLGIPLLVLRGDPEEVL 80 (165)
T ss_dssp EEEEESS--SSTT-HHHHHHHHTTSEEEEEEEE-HHGGTTCSSCHHHHHHHHHHHHHHHHHHHHTTS-EEEEESSHHHHH
T ss_pred CEEEEcCCCchhhhHHHHHHHHcCCCeEEEEEecccccccccCcchHHHHHHHHHHHHHHHHHhcCcceEEEecchHHHH
Confidence 69999999999999999999988 8999999999984333 49999999999999999999999999999999999999
Q ss_pred HHHHHHhCccEEEEccccchhHHHHHHHHHHHhhhcCCCCCCceeEecCcccccCCCC----CCCCccchhHHhccCCC-
Q 014573 124 RELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVSLVDGKPKICLWQTPFYDIKNL----NDLPVSHNEFRKLQRPL- 198 (422)
Q Consensus 124 ~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~gi~~~~~~~~~~~~~L~~~~~~----~~~p~~ft~F~k~~~~~- 198 (422)
++|+++++|++||++.+|+++++++|++|++.|.+.|| .++.+++++|++++++ +++|++||+|+|+|++.
T Consensus 81 ~~l~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i----~~~~~~~~~L~~~~~i~~~~~~~~~vFtpf~k~~~~~~ 156 (165)
T PF00875_consen 81 PELAKEYGATAVYFNEEYTPYERRRDERVRKALKKHGI----KVHTFDDHTLVPPDDIPKKDGEPYKVFTPFRKKWEKQL 156 (165)
T ss_dssp HHHHHHHTESEEEEE---SHHHHHHHHHHHHHHHHTTS----EEEEE--SSSS-HHHCHSTTSSSHSSHHHHHHHHHCHC
T ss_pred HHHHHhcCcCeeEeccccCHHHHHHHHHHHHHHHhcce----EEEEECCcEEEeccccccCCCCCcccHHHHHHHHHhcC
Confidence 99999999999999999999999999999999998887 9999999999999864 78999999999997653
Q ss_pred C-CCCCCC
Q 014573 199 T-SPILPP 205 (422)
Q Consensus 199 ~-~pl~~p 205 (422)
. .|+|+|
T Consensus 157 ~~~p~p~p 164 (165)
T PF00875_consen 157 LEEPLPAP 164 (165)
T ss_dssp SC------
T ss_pred CCCCCCCC
Confidence 2 455554
No 9
>PF03441 FAD_binding_7: FAD binding domain of DNA photolyase from Prosite.; InterPro: IPR005101 This entry represents a multi-helical domain composed of two all-alpha subdomains that is found as the C-terminal domain in cryptochrome proteins, as well as at the N-terminal of DNA photolyase where it acts as a FAD-binding domain (the N-terminal of DNA photolyase binds a light-harvesting cofactor). Photolyases and cryptochromes are related flavoproteins that bind FAD. Photolyases harness the energy of blue light to repair DNA damage by removing pyrimidine dimers. Cryptochromes (CRY1 and CRY2) are blue light photoreceptors that mediate blue light-induced gene expression [, ]. DNA photolyases are DNA repair enzymes that repair mismatched pyrimidine dimers induced by exposure to ultra-violet light. They bind to UV-damaged DNA containing pyrimidine dimers and, upon absorbing a near-UV photon (300 to 500 nm), they catalyse dimer splitting, breaking the cyclobutane ring joining the two pyrimidines of the dimer so as to split them into the constituent monomers; this process is called photoreactivation. DNA photolyases require two choromophore-cofactors for their activity. All monomers contain a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm [, ].; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 3ZXS_A 1DNP_A 2XRZ_B 2XRY_A 2VTB_A 2J4D_B 2IJG_X 3TVS_A 2E0I_D ....
Probab=99.74 E-value=5.6e-18 Score=165.20 Aligned_cols=92 Identities=21% Similarity=0.291 Sum_probs=73.2
Q ss_pred CcHHHHHHHHHHHHHHhcCCcchhhHHHHHhhhcccCCCCCCCCCCCchhhhcCCccHHHHHHHHHHHHHHhcCCCCCCC
Q 014573 292 GGTNAVLNALQAYLRYLEGTVRDDWQELQEKLRNAESRDGASFATLFGPALCLGIISRRGVHYEAIKFEKERNAGFLSPF 371 (422)
Q Consensus 292 gGE~~Al~~L~~fl~~~~~~~~~~Y~~~Rn~~r~~~t~~~~~~tS~LSPyLa~G~IS~R~i~~~l~~~e~~~~~n~~~~~ 371 (422)
|||++|+++|+.||+ .++..|.+.|| .|+.++||+|||||++||||||+|++++.+... ....
T Consensus 1 GGe~~A~~~L~~Fl~----~~l~~Y~~~r~-------~p~~~~~S~LSpyL~~G~lS~r~v~~~~~~~~~-~~~~----- 63 (277)
T PF03441_consen 1 GGETAALKRLEEFLK----ERLADYGEQRD-------DPAADGTSRLSPYLNFGCLSPREVYRAVKKAQE-ANDA----- 63 (277)
T ss_dssp SSHHHHHHHHHHHHH----HCGGGHHHHTT--------TTSTTS---HHHHHTTSS-HHHHHHHHHHHHH-CHTC-----
T ss_pred CcHHHHHHHHHHHHH----HHHHhhchhcc-------CCCcCCcCcccHHHhCCCcCHHHHHHHHHHHhh-hccc-----
Confidence 899999999999996 78999999884 467899999999999999999999999988665 2111
Q ss_pred CCChhhHHHHHHHHHHHHHHHHHHhcCCCCC
Q 014573 372 GYSAATIAAAADAVCSMEWYWLMSLRSLRSN 402 (422)
Q Consensus 372 g~st~~~~~~~~ELlWReFy~~~~~~~~~~~ 402 (422)
....+.+|++||+|||||++++..+++-.
T Consensus 64 --~~~~~~~f~~eL~WRef~~~~~~~~p~~~ 92 (277)
T PF03441_consen 64 --HSESAEKFIRELIWREFYRQLLYHNPNLD 92 (277)
T ss_dssp --HHHHHHHHHHHHHHHHHHHHHHHHSGGCT
T ss_pred --ccchHHHHHHHHHHHHHHHHHHHhCCcch
Confidence 11345679999999999999999988633
No 10
>COG3046 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]
Probab=98.47 E-value=1.4e-05 Score=79.80 Aligned_cols=300 Identities=16% Similarity=0.140 Sum_probs=166.0
Q ss_pred CeEEEEEcCCCCccCCHHHHHHHhcCCeEEEEEEcCCccc--cCCHhHHHHHHHHHHHHHHHHHhcCCcEEEEeCCH---
Q 014573 45 GSAVIWFKQDLRVDDHLGLVAASKYQAVVPLYVFDHRILS--RYSNEMLELVIFALEDLRKSLKEQGSDLMIRFGRV--- 119 (422)
Q Consensus 45 ~~~L~Wfr~DLRl~DN~aL~~A~~~~~vl~vfi~dp~~~~--~~~~~r~~Fl~esL~~L~~~L~~lg~~L~v~~G~~--- 119 (422)
+.+++|.=-|.=.++++||.. ...++..+-|-+..... .+-..+.-++..+++.+.+.|+..|.......-++
T Consensus 2 ~~~~~lvLgdQL~~~~~al~~--d~~~~~vllvE~~~~a~~~r~HkqKl~lv~aAMR~Fad~LraeG~~V~Y~~~~~~~~ 79 (505)
T COG3046 2 MSSVVLVLGDQLSEDHSALGD--DRSQDGVLLVESAAEARYRRHHKQKLVLVFAAMRHFADELRAEGLKVRYERADDNSF 79 (505)
T ss_pred CceEEEEeccccccccchhcc--CcccCcEEEehhHhHhhhhhcchhhhHHHHHHHHHHHHHHhhCCceeEEEEcCCccc
Confidence 357888888998999988865 21233223332221111 23456777899999999999999998875554333
Q ss_pred HHHHHHHHHHhCccEEEEccccchhHHHHHHHHHHHhhhcCCCCCCceeEecCc-ccccCCC-----CCCCCccchhHHh
Q 014573 120 ENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVSLVDGKPKICLWQT-PFYDIKN-----LNDLPVSHNEFRK 193 (422)
Q Consensus 120 ~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~gi~~~~~~~~~~~~-~L~~~~~-----~~~~p~~ft~F~k 193 (422)
...|.+.++.+..++|++.+--+.....+.+.+..+ .|+ ++..+.+. -|....+ .+..+-....|++
T Consensus 80 ~~~l~~~l~~~~~d~~~~~~p~~~~l~~~m~~L~~~---~g~----~i~~~~~~~Fl~s~a~f~~w~~~~k~~lme~FYr 152 (505)
T COG3046 80 GGELRRALEAYPGDRVQVQEPGDHRLEARMKSLSMA---LGI----EITEVENPHFLCSRAEFDAWAGDRKPLLMESFYR 152 (505)
T ss_pred chHHHHHHHhcCCCeEEEecCcchhHHHHHHhhhhh---cCc----eeEEecCcceecCHHHhhhhhccCcchhhHHHHH
Confidence 467888999999999998765444444444444333 344 55555433 4444433 2333334445544
Q ss_pred ----ccC-CCC----------------CCCCCCC-CCCCcccCCCCCCCChhhhhhhhcCCCccchhhhhhhccchHHHH
Q 014573 194 ----LQR-PLT----------------SPILPPT-LAGAKLEADWGPLPTFDELKEFVNENPWKLEESWTLINNMSAETI 251 (422)
Q Consensus 194 ----~~~-~~~----------------~pl~~p~-lp~~~~~~~~~~ip~~~~L~~~~~~~~~~~~~~~~~~g~~~a~~~ 251 (422)
++. -|. +++| |. ++|.+ ..+|.-+ .+ +.
T Consensus 153 ~mRkr~g~LM~~dqP~GGrWnFDaeNR~~~~-pdL~~P~p-----l~fppd~----------------~v--------q~ 202 (505)
T COG3046 153 RMRKRTGILMEDDQPEGGRWNFDAENRKKLP-PDLLPPKP-----LKFPPDE----------------IV--------QE 202 (505)
T ss_pred HHHHhhceeccCCCCCCCcCCcCcccccCCC-CcCCCCCC-----CCCCCcc----------------hh--------HH
Confidence 321 111 1121 11 11100 1111100 00 01
Q ss_pred HHHHhhhhccccccCCCCCCCCccccCCcccccCCCC-CCCCcHHHHHHHHHHHHHHhcCCcchhhHHHHHhhhcccCCC
Q 014573 252 LTDKLSKLGKRSKRNLNNQHSPRKRLDKSFFVTDKGN-TVGGGTNAVLNALQAYLRYLEGTVRDDWQELQEKLRNAESRD 330 (422)
Q Consensus 252 l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~gGE~~Al~~L~~fl~~~~~~~~~~Y~~~Rn~~r~~~t~~ 330 (422)
..+.++.. ++..++ ..+. .|+---+.|+..|++|+. ..+..+....++. +..
T Consensus 203 v~e~Ve~~-----f~~~~G--------------~~e~F~wpvtr~~A~~~L~~Fi~----~~L~nFG~yQDam----~~d 255 (505)
T COG3046 203 VKERVERL-----FPDNFG--------------QVEGFGWPVTRTQALRALKHFIA----DRLPNFGSYQDAM----SAD 255 (505)
T ss_pred HHHHHHhh-----CCCCCC--------------ccccCCCCCCHHHHHHHHHHHHH----HhhhcCCcHHHHH----hcC
Confidence 11222211 011110 0111 478889999999999995 4455443332221 121
Q ss_pred -CCCCCCCCchhhhcCCccHHHHHHHHHHHHHHhcCCCCCCCCCChhhHHHHHHHHH-HHHHHHHHHhc-CC---CCCC-
Q 014573 331 -GASFATLFGPALCLGIISRRGVHYEAIKFEKERNAGFLSPFGYSAATIAAAADAVC-SMEWYWLMSLR-SL---RSNE- 403 (422)
Q Consensus 331 -~~~~tS~LSPyLa~G~IS~R~i~~~l~~~e~~~~~n~~~~~g~st~~~~~~~~ELl-WReFy~~~~~~-~~---~~~~- 403 (422)
..=+-|.||++|..|.|+|.+|..++.+...+. +.+-..++.+++||+ ||||.+.+-.- .+ .+.|
T Consensus 256 ~~~L~HSllS~alNigLL~PleVi~Aa~~Ay~~g--------~ipLN~VEGFvRQiiGWREfmRgiY~~~~P~y~trN~f 327 (505)
T COG3046 256 DPHLWHSLLSFALNIGLLTPLEVIRAALKAYREG--------DIPLNSVEGFVRQIIGWREFMRGIYWLKMPDYATRNFF 327 (505)
T ss_pred CchhHHHHHHHHhhccCCCHHHHHHHHHHhhccC--------CCchHHHHHHHHHHhhHHHHHHHhhhhcCCchhhhhhh
Confidence 234789999999999999999999997633321 123456677999986 99998877633 22 2332
Q ss_pred -CCccceeeecCCcccc
Q 014573 404 -GVYSTRIWRWNGYQIQ 419 (422)
Q Consensus 404 -~~~~~~~w~w~~~~~~ 419 (422)
+...+--.=|.| .|+
T Consensus 328 ~~d~~Lp~~yw~g-~T~ 343 (505)
T COG3046 328 NADRKLPPFYWTG-QTK 343 (505)
T ss_pred ccCCCCCCccccC-CcC
Confidence 333344455666 443
No 11
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=93.82 E-value=0.92 Score=43.01 Aligned_cols=118 Identities=13% Similarity=0.120 Sum_probs=62.1
Q ss_pred EEEcCCCCccCCHHHHHHHhcCCeEEEEEEc-CCccc--cCCHhHHHHHHHHHHHHHHHHHhcCCcEEEEeC-------C
Q 014573 49 IWFKQDLRVDDHLGLVAASKYQAVVPLYVFD-HRILS--RYSNEMLELVIFALEDLRKSLKEQGSDLMIRFG-------R 118 (422)
Q Consensus 49 ~Wfr~DLRl~DN~aL~~A~~~~~vl~vfi~d-p~~~~--~~~~~r~~Fl~esL~~L~~~L~~lg~~L~v~~G-------~ 118 (422)
.|.=-|.=-.++++|.. . . .-..|+.+. +.... .+-..|..+++.+|+...+.|++.|.....+.- +
T Consensus 2 ~lIlgdQL~~~~~~l~~-~-~-~~~~v~mvE~~~~~~~~~~HkqKl~l~~saMRhfa~~L~~~G~~V~Y~~~~~~~~~~s 78 (224)
T PF04244_consen 2 RLILGDQLFEDHPALRD-D-P-ADDRVLMVEVPEEFTYVPHHKQKLVLFFSAMRHFADELRAKGFRVHYIELDDPENTQS 78 (224)
T ss_dssp EE--TT---TT-HHHHT---T-TT-EEEEE--HHHHHSS---HHHHHHHHHHHHHHHHHHHHTT--EEEE-TT-TT--SS
T ss_pred eEeccCCCCCccccccc-C-C-CCCEEEEEEchHHhCcCcccHHHHHHHHHHHHHHHHHHHhCCCEEEEEeCCCcccccc
Confidence 34444555567777755 2 2 222333333 32222 235678889999999999999999999877753 3
Q ss_pred HHHHHHHHHHHhCccEEEEccccchhHHHHHHHHHHHhhhcCCCCCCceeEecCcccc
Q 014573 119 VENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVSLVDGKPKICLWQTPFY 176 (422)
Q Consensus 119 ~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~gi~~~~~~~~~~~~~L~ 176 (422)
-.+.|.+++++++++.|.+ ++|.+.+..+.+.+.+.+.|| ++..+.+...+
T Consensus 79 ~~~~L~~~~~~~~~~~~~~---~~P~d~~l~~~l~~~~~~~~i----~~~~~~~~~Fl 129 (224)
T PF04244_consen 79 FEDALARALKQHGIDRLHV---MEPGDYRLEQRLESLAQQLGI----PLEVLEDPHFL 129 (224)
T ss_dssp HHHHHHHHHHHH----EEE---E--S-HHHHHHHHH----SSS-----EEEE--TTSS
T ss_pred HHHHHHHHHHHcCCCEEEE---ECCCCHHHHHHHHhhhcccCC----ceEEeCCCCcc
Confidence 4678889999999999988 456666666778887777776 66666554433
No 12
>PRK09982 universal stress protein UspD; Provisional
Probab=89.91 E-value=8.3 Score=33.19 Aligned_cols=81 Identities=14% Similarity=0.115 Sum_probs=50.8
Q ss_pred CHHHHHHHhc-----CCeEEEEEEcCCcc--cc-C--C--H---hHHHHHHHHHHHHHHHHHhcCCcEEEEeCCHHHHHH
Q 014573 60 HLGLVAASKY-----QAVVPLYVFDHRIL--SR-Y--S--N---EMLELVIFALEDLRKSLKEQGSDLMIRFGRVENVIR 124 (422)
Q Consensus 60 N~aL~~A~~~-----~~vl~vfi~dp~~~--~~-~--~--~---~r~~Fl~esL~~L~~~L~~lg~~L~v~~G~~~~~l~ 124 (422)
..||.+|++. ..+..++|+++... .. . . . .......+.|.++.+.+...++...+..|+|.+.|.
T Consensus 17 ~~al~~A~~lA~~~~a~l~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~v~~G~p~~~I~ 96 (142)
T PRK09982 17 ALLVNKALELARHNDAHLTLIHIDDGLSELYPGIYFPATEDILQLLKNKSDNKLYKLTKNIQWPKTKLRIERGEMPETLL 96 (142)
T ss_pred HHHHHHHHHHHHHhCCeEEEEEEccCcchhchhhhccchHHHHHHHHHHHHHHHHHHHHhcCCCcceEEEEecCHHHHHH
Confidence 4677777633 56888899875321 00 0 0 0 111122233444444444445667888899999999
Q ss_pred HHHHHhCccEEEEccc
Q 014573 125 ELVEEVKATSVFAEEE 140 (422)
Q Consensus 125 ~l~~~~~~~~V~~~~~ 140 (422)
+.+++.+++.|++-..
T Consensus 97 ~~A~~~~aDLIVmG~~ 112 (142)
T PRK09982 97 EIMQKEQCDLLVCGHH 112 (142)
T ss_pred HHHHHcCCCEEEEeCC
Confidence 9999999999998754
No 13
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=87.50 E-value=5 Score=40.76 Aligned_cols=102 Identities=16% Similarity=0.089 Sum_probs=62.2
Q ss_pred CHHHHHHHhc-------CCeEEEEEEcCCccccCCHhHHHHHHHHHHHHHHHHHh------cCCcEEE--Ee--------
Q 014573 60 HLGLVAASKY-------QAVVPLYVFDHRILSRYSNEMLELVIFALEDLRKSLKE------QGSDLMI--RF-------- 116 (422)
Q Consensus 60 N~aL~~A~~~-------~~vl~vfi~dp~~~~~~~~~r~~Fl~esL~~L~~~L~~------lg~~L~v--~~-------- 116 (422)
..|+.+|++. ..|..|+|.++.........-..---+-+++..+.+++ .|+.... ..
T Consensus 19 ~~Al~~AielA~~~g~~AeL~lL~Vv~~~~~~~~~~~~~~~~eelle~~~~~~~~~l~~~~~gV~ve~~vv~~~~~~~~~ 98 (357)
T PRK12652 19 RQTVAYAVESAEEAAETPTVHLVAAASGRAVDPEGQDELAAAEELLERVEVWATEDLGDDASSVTIETALLGTDEYLFGP 98 (357)
T ss_pred HHHHHHHHHHHHhcCCCCEEEEEEEecCcccccchhHHHHHHHHHHHHHHHHHHHhhhcccCCCceEEEEEeccccccCC
Confidence 3466666532 35778899886432111110001111234455554444 4776433 33
Q ss_pred CCHHHHHHHHHHHhCccEEEEccccchhHHH-HHHHHHHHhhhcCC
Q 014573 117 GRVENVIRELVEEVKATSVFAEEEVEYHLRQ-MMAIVDETLAKVSL 161 (422)
Q Consensus 117 G~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~-~d~~v~~~l~~~gi 161 (422)
|+|.+.|.+.+++++++.|+..-+|.|.... ..+-+...|.+.|+
T Consensus 99 G~pae~Iv~~Aee~~aDLIVm~~~~~~~~~~~~~~~~~~~~~~~~~ 144 (357)
T PRK12652 99 GDYAEVLIAYAEEHGIDRVVLDPEYNPGGTAPMLQPLERELARAGI 144 (357)
T ss_pred CCHHHHHHHHHHHcCCCEEEECCCCCCCCCCcccchHHHHHHhcCC
Confidence 8999999999999999999999999876543 23455566766665
No 14
>cd01989 STK_N The N-terminal domain of Eukaryotic Serine Threonine kinases. The Serine Threonine kinases are enzymes that belong to a very extensive family of proteins which share a conserved catalytic core common with both serine/threonine and tyrosine protein kinases. The N-terminal domain is homologous to the USP family which has a ATP binding fold. The N-terminal domain is predicted to be involved in ATP binding.
Probab=85.98 E-value=12 Score=31.79 Aligned_cols=82 Identities=17% Similarity=0.011 Sum_probs=50.2
Q ss_pred CCHHHHHHHhc-----CCeEEEEEEcCCccccC--C-----H----hHHHHHHHHHHHHHHHHHhcCCc--EEEEeC-CH
Q 014573 59 DHLGLVAASKY-----QAVVPLYVFDHRILSRY--S-----N----EMLELVIFALEDLRKSLKEQGSD--LMIRFG-RV 119 (422)
Q Consensus 59 DN~aL~~A~~~-----~~vl~vfi~dp~~~~~~--~-----~----~r~~Fl~esL~~L~~~L~~lg~~--L~v~~G-~~ 119 (422)
-..||.+|++. .++..+++.++...... + . ....-..+-|.+..+.+++.|.. ..+..| +|
T Consensus 12 s~~al~~a~~~a~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~g~~~ 91 (146)
T cd01989 12 SKNALKWALDNLATKGQTIVLVHVHPPITSIPSSSGKLEVASAYKQEEDKEAKELLLPYRCFCSRKGVQCEDVVLEDDDV 91 (146)
T ss_pred cHHHHHHHHHhccCCCCcEEEEEeccCcccCCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCeEEEEEEeCCcH
Confidence 34677777753 57888999876422110 1 0 00112223444455555555654 455565 89
Q ss_pred HHHHHHHHHHhCccEEEEccc
Q 014573 120 ENVIRELVEEVKATSVFAEEE 140 (422)
Q Consensus 120 ~~~l~~l~~~~~~~~V~~~~~ 140 (422)
.+.|.+.+++++++.|+.-..
T Consensus 92 ~~~I~~~a~~~~~dlIV~Gs~ 112 (146)
T cd01989 92 AKAIVEYVADHGITKLVMGAS 112 (146)
T ss_pred HHHHHHHHHHcCCCEEEEecc
Confidence 999999999999999887654
No 15
>PRK15456 universal stress protein UspG; Provisional
Probab=85.78 E-value=4.7 Score=34.52 Aligned_cols=80 Identities=19% Similarity=0.163 Sum_probs=48.5
Q ss_pred HHHHHHHhc----CCeEEEEEEcCCcccc-----CC-----HhHHHHHHHHHHHHHHHHHhcCC--cEEEEeCCHHHHHH
Q 014573 61 LGLVAASKY----QAVVPLYVFDHRILSR-----YS-----NEMLELVIFALEDLRKSLKEQGS--DLMIRFGRVENVIR 124 (422)
Q Consensus 61 ~aL~~A~~~----~~vl~vfi~dp~~~~~-----~~-----~~r~~Fl~esL~~L~~~L~~lg~--~L~v~~G~~~~~l~ 124 (422)
.||.+|.+. ..+..++++++..... .. ..-..-..+.|.++.+.+...|. ..++..|+|.+.|.
T Consensus 19 ~al~~A~~la~~~~~l~llhv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~~~v~~G~~~~~I~ 98 (142)
T PRK15456 19 KAVRHAEFLAQDDGVIHLLHVLPGSASLSLHRFAADVRRFEEHLQHEAEERLQTMVSHFTIDPSRIKQHVRFGSVRDEVN 98 (142)
T ss_pred HHHHHHHHHHhcCCeEEEEEEecCcccccccccccchhhHHHHHHHHHHHHHHHHHHHhCCCCcceEEEEcCCChHHHHH
Confidence 566666542 5677888887632100 00 01111222345555544433333 56677899999999
Q ss_pred HHHHHhCccEEEEccc
Q 014573 125 ELVEEVKATSVFAEEE 140 (422)
Q Consensus 125 ~l~~~~~~~~V~~~~~ 140 (422)
+++++++++.|++-..
T Consensus 99 ~~a~~~~~DLIVmG~~ 114 (142)
T PRK15456 99 ELAEELGADVVVIGSR 114 (142)
T ss_pred HHHhhcCCCEEEEcCC
Confidence 9999999999887554
No 16
>PRK15005 universal stress protein F; Provisional
Probab=83.48 E-value=12 Score=31.81 Aligned_cols=80 Identities=18% Similarity=0.136 Sum_probs=48.2
Q ss_pred HHHHHHHhc-----CCeEEEEEEcCCcc-cc--C-----CHhHHHH---HHHHHHHHHHHHHhcCC--cEEEEeCCHHHH
Q 014573 61 LGLVAASKY-----QAVVPLYVFDHRIL-SR--Y-----SNEMLEL---VIFALEDLRKSLKEQGS--DLMIRFGRVENV 122 (422)
Q Consensus 61 ~aL~~A~~~-----~~vl~vfi~dp~~~-~~--~-----~~~r~~F---l~esL~~L~~~L~~lg~--~L~v~~G~~~~~ 122 (422)
.||.+|.+. .++..++++++... .. . ....... ..+.|.++.+.+...|. ..++..|+|.+.
T Consensus 19 ~a~~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~v~~G~p~~~ 98 (144)
T PRK15005 19 RVISHVEAEAKIDDAEVHFLTVIPSLPYYASLGLAYSAELPAMDDLKAEAKSQLEEIIKKFKLPTDRVHVHVEEGSPKDR 98 (144)
T ss_pred HHHHHHHHHHhccCCeEEEEEEEccCcccccccccccccchHHHHHHHHHHHHHHHHHHHhCCCCCceEEEEeCCCHHHH
Confidence 466666532 56888888875211 00 0 0111111 22344444444443343 567788999999
Q ss_pred HHHHHHHhCccEEEEccc
Q 014573 123 IRELVEEVKATSVFAEEE 140 (422)
Q Consensus 123 l~~l~~~~~~~~V~~~~~ 140 (422)
|.+.+++.+++.|+.-..
T Consensus 99 I~~~a~~~~~DLIV~Gs~ 116 (144)
T PRK15005 99 ILELAKKIPADMIIIASH 116 (144)
T ss_pred HHHHHHHcCCCEEEEeCC
Confidence 999999999999988654
No 17
>cd01987 USP_OKCHK USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium transport. The USP domain is homologous to the universal stress protein Usp Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity.
Probab=83.44 E-value=12 Score=30.82 Aligned_cols=78 Identities=17% Similarity=0.143 Sum_probs=51.6
Q ss_pred CCHHHHHHHhc-----CCeEEEEEEcCCccccCCHhHHHHHHHHHHHHHHHHHhcCCcEEEE-eCCHHHHHHHHHHHhCc
Q 014573 59 DHLGLVAASKY-----QAVVPLYVFDHRILSRYSNEMLELVIFALEDLRKSLKEQGSDLMIR-FGRVENVIRELVEEVKA 132 (422)
Q Consensus 59 DN~aL~~A~~~-----~~vl~vfi~dp~~~~~~~~~r~~Fl~esL~~L~~~L~~lg~~L~v~-~G~~~~~l~~l~~~~~~ 132 (422)
...+|..|+.. ..+..|++.++.... ...... +.|+.+.+.+++.++...++ .|++.+.|.+.++++++
T Consensus 12 s~~al~~a~~la~~~~~~l~ll~v~~~~~~~-~~~~~~----~~l~~~~~~~~~~~~~~~~~~~~~~~~~I~~~~~~~~~ 86 (124)
T cd01987 12 AERLIRRAARLADRLKAPWYVVYVETPRLNR-LSEAER----RRLAEALRLAEELGAEVVTLPGDDVAEAIVEFAREHNV 86 (124)
T ss_pred hHHHHHHHHHHHHHhCCCEEEEEEecCcccc-CCHHHH----HHHHHHHHHHHHcCCEEEEEeCCcHHHHHHHHHHHcCC
Confidence 34566666532 578889998875321 111212 33555666666778766554 46889999999999999
Q ss_pred cEEEEcccc
Q 014573 133 TSVFAEEEV 141 (422)
Q Consensus 133 ~~V~~~~~~ 141 (422)
+.|+.-..-
T Consensus 87 dllviG~~~ 95 (124)
T cd01987 87 TQIVVGKSR 95 (124)
T ss_pred CEEEeCCCC
Confidence 988876553
No 18
>TIGR00289 conserved hypothetical protein TIGR00289. Homologous proteins related to MJ0570 of Methanococcus jannaschii include both the apparent orthologs found by this model above the trusted cutoff, the much longer protein YLR143W from Saccharomyces cerevisiae, and second homologous proteins from Archaeoglobus fulgidus and Pyrococcus horikoshii that appear to represent a second orthologous group.
Probab=81.20 E-value=9.5 Score=36.11 Aligned_cols=94 Identities=14% Similarity=0.046 Sum_probs=58.7
Q ss_pred CHHHHHHHhcCCeEEEEEEcCCccccCCHhHHHHHHHHHHHHHHHHHhcCCcEEEEe--CCHH---HHHHHHHHHhCccE
Q 014573 60 HLGLVAASKYQAVVPLYVFDHRILSRYSNEMLELVIFALEDLRKSLKEQGSDLMIRF--GRVE---NVIRELVEEVKATS 134 (422)
Q Consensus 60 N~aL~~A~~~~~vl~vfi~dp~~~~~~~~~r~~Fl~esL~~L~~~L~~lg~~L~v~~--G~~~---~~l~~l~~~~~~~~ 134 (422)
+-||+.|.+...+.+++..-+.... +..|-...+..++.+-+.+|++|+... |... +.+.+.+++.+++.
T Consensus 14 ~lAl~~~~~~~~V~~L~~~~~~~~~-----s~~~h~~~~~~~~~qA~algiPl~~~~~~~~~e~~~~~l~~~l~~~gv~~ 88 (222)
T TIGR00289 14 ILALYKALEEHEVISLVGVFSENEE-----SYMFHSPNLHLTDLVAEAVGIPLIKLYTSGEEEKEVEDLAGQLGELDVEA 88 (222)
T ss_pred HHHHHHHHHcCeeEEEEEEcCCCCC-----ccccccCCHHHHHHHHHHcCCCeEEEEcCCchhHHHHHHHHHHHHcCCCE
Confidence 3467777655457777777664321 222222356777788889999998765 3323 34444556679999
Q ss_pred EEEccccchhHHHHHHHHHHHhhhcCC
Q 014573 135 VFAEEEVEYHLRQMMAIVDETLAKVSL 161 (422)
Q Consensus 135 V~~~~~~~~~~~~~d~~v~~~l~~~gi 161 (422)
|++-.-...+.+.+.+++ |...|+
T Consensus 89 vv~GdI~s~~qr~~~e~v---c~~~gl 112 (222)
T TIGR00289 89 LCIGAIESNYQKSRIDKV---CRELGL 112 (222)
T ss_pred EEECccccHHHHHHHHHH---HHHcCC
Confidence 998776666666655544 555555
No 19
>cd01988 Na_H_Antiporter_C The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial for the regulation of cell volume, and for the reabsorption of NaCl across renal, intestinal, and other epithelia. These antiports exchange Na+ for H+ in an electroneutral manner, and this activity is carried out by a family of Na+ /H+ exchangers, or NHEs, which are known to be present in both prokaryotic and eukaryotic cells. These exchangers are highly-regulated (glyco)phosphoproteins, which, based on their primary structure, appear to contain 10-12 membrane-spanning regions (M) at the N-terminus and a large cytoplasmic region at the C-terminus. The transmembrane regions M3-M12 share identity wit h other members of the family. The M6 and M7 regions are highly conserved. Thus, this is thought to be the regio
Probab=79.58 E-value=28 Score=28.66 Aligned_cols=81 Identities=14% Similarity=0.004 Sum_probs=53.8
Q ss_pred HHHHHHHhc-----CCeEEEEEEcCCcccc--CCHhHHHHHHHHHHHHHHHHHhcCCcEEEE---eCCHHHHHHHHHHHh
Q 014573 61 LGLVAASKY-----QAVVPLYVFDHRILSR--YSNEMLELVIFALEDLRKSLKEQGSDLMIR---FGRVENVIRELVEEV 130 (422)
Q Consensus 61 ~aL~~A~~~-----~~vl~vfi~dp~~~~~--~~~~r~~Fl~esL~~L~~~L~~lg~~L~v~---~G~~~~~l~~l~~~~ 130 (422)
.+|.+|... ..+..++++++..... .......-..+.+..+.+.+++.|++.... .|++.+.|.++++++
T Consensus 14 ~~l~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~I~~~a~~~ 93 (132)
T cd01988 14 DLLELAAALARAQNGEIIPLNVIEVPNHSSPSQLEVNVQRARKLLRQAERIAASLGVPVHTIIRIDHDIASGILRTAKER 93 (132)
T ss_pred HHHHHHHHHhhcCCCeEEEEEEEecCCCCCcchhHHHHHHHHHHHHHHHHHhhhcCCceEEEEEecCCHHHHHHHHHHhc
Confidence 466666542 5688899988642111 011122334466777777788888875432 478999999999999
Q ss_pred CccEEEEcccc
Q 014573 131 KATSVFAEEEV 141 (422)
Q Consensus 131 ~~~~V~~~~~~ 141 (422)
+++.|++-..-
T Consensus 94 ~~dlIV~G~~~ 104 (132)
T cd01988 94 QADLIIMGWHG 104 (132)
T ss_pred CCCEEEEecCC
Confidence 99998886653
No 20
>PRK10116 universal stress protein UspC; Provisional
Probab=79.00 E-value=38 Score=28.55 Aligned_cols=82 Identities=11% Similarity=0.092 Sum_probs=48.9
Q ss_pred CCHHHHHHHhc-----CCeEEEEEEcCCc-cccCC-----HhHHHHHHHHHHHHHHHHHhcCCc---EEEEeCCHHHHHH
Q 014573 59 DHLGLVAASKY-----QAVVPLYVFDHRI-LSRYS-----NEMLELVIFALEDLRKSLKEQGSD---LMIRFGRVENVIR 124 (422)
Q Consensus 59 DN~aL~~A~~~-----~~vl~vfi~dp~~-~~~~~-----~~r~~Fl~esL~~L~~~L~~lg~~---L~v~~G~~~~~l~ 124 (422)
.+.+|.+|+.. ..+..++++++.. ....+ ..+....-+....|++...+.|++ .++..|++.+.+.
T Consensus 16 s~~al~~A~~lA~~~~a~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~G~~~~~I~ 95 (142)
T PRK10116 16 SQQLLAKAVSIARPVNGKISLITLASDPEMYNQFAAPMLEDLRSVMQEETQSFLDKLIQDADYPIEKTFIAYGELSEHIL 95 (142)
T ss_pred hHHHHHHHHHHHHHhCCEEEEEEEccCcccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeEEEEEecCCHHHHHH
Confidence 36888888643 4677778876531 11111 111111112222333333455643 4666899999999
Q ss_pred HHHHHhCccEEEEccc
Q 014573 125 ELVEEVKATSVFAEEE 140 (422)
Q Consensus 125 ~l~~~~~~~~V~~~~~ 140 (422)
+.+++.+++.|+....
T Consensus 96 ~~a~~~~~DLiV~g~~ 111 (142)
T PRK10116 96 EVCRKHHFDLVICGNH 111 (142)
T ss_pred HHHHHhCCCEEEEcCC
Confidence 9999999999988554
No 21
>KOG0133 consensus Deoxyribodipyrimidine photolyase/cryptochrome [Replication, recombination and repair; Signal transduction mechanisms]
Probab=76.99 E-value=9.5 Score=40.62 Aligned_cols=91 Identities=8% Similarity=-0.064 Sum_probs=62.6
Q ss_pred EEEEEcCCCCccCCHHHHHHHhc-CCeEEEEEEcCCcccc---------CCHhHHHHHHHHHHHHHHHHHhcCCcEEEEe
Q 014573 47 AVIWFKQDLRVDDHLGLVAASKY-QAVVPLYVFDHRILSR---------YSNEMLELVIFALEDLRKSLKEQGSDLMIRF 116 (422)
Q Consensus 47 ~L~Wfr~DLRl~DN~aL~~A~~~-~~vl~vfi~dp~~~~~---------~~~~r~~Fl~esL~~L~~~L~~lg~~L~v~~ 116 (422)
.++|+..+++.++|.....++.. .+++..+.++++.... .......||... .+..++++.++...++.
T Consensus 169 ~~v~~~~~~~~~~~~~~~~~~~~~v~~~e~l~~~~~~~~~~~~~~g~s~al~~l~~~l~~~--~~~an~~~~~~~~~~~~ 246 (531)
T KOG0133|consen 169 ALVLSGLAVEKHPNFLANSKASAVVPTLELLRFIPSNYGEVVWRGGESEALKRLDAHLKVP--LWVANLELRYSNANSRV 246 (531)
T ss_pred ccccccccCCCChhhhhhcccccccCCchhhccCcccccccccCCcccchhHHHHHHhhHH--HHHhhhhccccccchhc
Confidence 58999999999999766555543 5666677777754321 123445566555 56888888888888887
Q ss_pred CCHHHHHHHHHHHhCccEEEEcc
Q 014573 117 GRVENVIRELVEEVKATSVFAEE 139 (422)
Q Consensus 117 G~~~~~l~~l~~~~~~~~V~~~~ 139 (422)
+....+|...++...++..++..
T Consensus 247 ~~s~~~Ls~yL~fg~~svr~~~~ 269 (531)
T KOG0133|consen 247 KISTTVLSPYLKFGCLSVRYFYR 269 (531)
T ss_pred CCCccccccceeeccceeEeehh
Confidence 77777887777766666665554
No 22
>cd00293 USP_Like Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae Usp reveals an alpha/beta fold similar to that of the Methanococcus jannaschii MJ0577 protein, which binds ATP, athough Usp lacks ATP-binding activity.
Probab=76.75 E-value=29 Score=27.87 Aligned_cols=71 Identities=27% Similarity=0.255 Sum_probs=47.7
Q ss_pred CCeEEEEEEcCCcccc--CCHhHHHHHHHHHHHHHHHHHhcCCcE--EEEeCCHHHHHHHHHHHhCccEEEEccc
Q 014573 70 QAVVPLYVFDHRILSR--YSNEMLELVIFALEDLRKSLKEQGSDL--MIRFGRVENVIRELVEEVKATSVFAEEE 140 (422)
Q Consensus 70 ~~vl~vfi~dp~~~~~--~~~~r~~Fl~esL~~L~~~L~~lg~~L--~v~~G~~~~~l~~l~~~~~~~~V~~~~~ 140 (422)
.++..+|+.++..... .......-..+.|.++...+...|+++ .+..|++.+.|.+.+++.+++.|+....
T Consensus 28 ~~i~~l~v~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~dlvvig~~ 102 (130)
T cd00293 28 AELVLLHVVDPPPSSAAELAELLEEEARALLEALREALAEAGVKVETVVLEGDPAEAILEAAEELGADLIVMGSR 102 (130)
T ss_pred CEEEEEEEecCCCCcchhHHHHHHHHHHHHHHHHHHHHhcCCCceEEEEecCCCHHHHHHHHHHcCCCEEEEcCC
Confidence 5788899987643210 001122233466777777666678776 4557888899999999999999988653
No 23
>cd01994 Alpha_ANH_like_IV This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=73.17 E-value=22 Score=32.74 Aligned_cols=92 Identities=21% Similarity=0.133 Sum_probs=52.9
Q ss_pred HHHHHHHhc-CCeEEEEEEcCCccccCCHhHHHHHHHHHHHHHHHHHhcCCcEEEEe--CC---HHH----HHHHHHHHh
Q 014573 61 LGLVAASKY-QAVVPLYVFDHRILSRYSNEMLELVIFALEDLRKSLKEQGSDLMIRF--GR---VEN----VIRELVEEV 130 (422)
Q Consensus 61 ~aL~~A~~~-~~vl~vfi~dp~~~~~~~~~r~~Fl~esL~~L~~~L~~lg~~L~v~~--G~---~~~----~l~~l~~~~ 130 (422)
-+|+.|.+. ..++++++.-+.... +..|-...++.++...+.+|++++++. ++ -.+ .|.++.++
T Consensus 14 ~al~~a~~~G~~v~~l~~~~~~~~~-----~~~~h~~~~e~~~~~A~~lgipl~~i~~~~~~e~~~~~l~~~l~~~~~~- 87 (194)
T cd01994 14 YALYRALEEGHEVVALLNLTPEEGS-----SMMYHTVNHELLELQAEAMGIPLIRIEISGEEEDEVEDLKELLRKLKEE- 87 (194)
T ss_pred HHHHHHHHcCCEEEEEEEEecCCCC-----cccccccCHHHHHHHHHHcCCcEEEEeCCCCchHHHHHHHHHHHHHHHc-
Confidence 355666655 468888877654321 111111356677777888999998875 22 112 23333344
Q ss_pred CccEEEEccccchhHHHHHHHHHHHhhhcCC
Q 014573 131 KATSVFAEEEVEYHLRQMMAIVDETLAKVSL 161 (422)
Q Consensus 131 ~~~~V~~~~~~~~~~~~~d~~v~~~l~~~gi 161 (422)
+++.|++-.-..-+.+.+.+++ |.+.|+
T Consensus 88 g~~~vv~G~i~sd~~~~~~e~~---~~~~gl 115 (194)
T cd01994 88 GVDAVVFGAILSEYQRTRVERV---CERLGL 115 (194)
T ss_pred CCCEEEECccccHHHHHHHHHH---HHHcCC
Confidence 5888887666656666655554 444554
No 24
>TIGR00290 MJ0570_dom MJ0570-related uncharacterized domain. Proteins with this uncharacterized domain include two apparent ortholog families in the Archaea, one of which is universal among the first four completed archaeal genomes, and YLR143W, a much longer protein from Saccharomyces cerevisiae. The domain comprises the full length of the archaeal proteins and the first third of the yeast protein.
Probab=70.27 E-value=38 Score=32.08 Aligned_cols=94 Identities=14% Similarity=0.066 Sum_probs=56.0
Q ss_pred CHHHHHHHhcCCeEEEEEEcCCccccCCHhHHHHHHHHHHHHHHHHHhcCCcEEEEe--C---CHHHHHHHHHHHhCccE
Q 014573 60 HLGLVAASKYQAVVPLYVFDHRILSRYSNEMLELVIFALEDLRKSLKEQGSDLMIRF--G---RVENVIRELVEEVKATS 134 (422)
Q Consensus 60 N~aL~~A~~~~~vl~vfi~dp~~~~~~~~~r~~Fl~esL~~L~~~L~~lg~~L~v~~--G---~~~~~l~~l~~~~~~~~ 134 (422)
+-||+.|.+...+.++..+-|... .+..|-.-.+.-++.+-+.+|++|+... | +-.+.+.++.++.+++.
T Consensus 14 ~~al~~a~~~~~v~~L~t~~~~~~-----~s~~~H~~~~~~~~~qA~algipl~~~~~~~~~e~~~e~l~~~l~~~gv~~ 88 (223)
T TIGR00290 14 CLALYHALKEHEVISLVNIMPENE-----ESYMFHGVNAHLTDLQAESIGIPLIKLYTEGTEEDEVEELKGILHTLDVEA 88 (223)
T ss_pred HHHHHHHHHhCeeEEEEEEecCCC-----CcccccccCHHHHHHHHHHcCCCeEEeecCCCccHHHHHHHHHHHHcCCCE
Confidence 457888876534666666555321 1111111134455566678899997643 2 24455666667779999
Q ss_pred EEEccccchhHHHHHHHHHHHhhhcCC
Q 014573 135 VFAEEEVEYHLRQMMAIVDETLAKVSL 161 (422)
Q Consensus 135 V~~~~~~~~~~~~~d~~v~~~l~~~gi 161 (422)
|++-.-...+.+.+.+++ |.+.|+
T Consensus 89 vv~GdI~s~~qr~~~e~v---~~~lgl 112 (223)
T TIGR00290 89 VVFGAIYSEYQKTRIERV---CRELGL 112 (223)
T ss_pred EEECCcccHHHHHHHHHH---HHhcCC
Confidence 999776666666655544 555555
No 25
>PF00582 Usp: Universal stress protein family; InterPro: IPR006016 The universal stress protein UspA P28242 from SWISSPROT [] is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. UspA enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae UspA [] reveals an alpha/beta fold similar to that of the Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0577 protein, which binds ATP [], though UspA lacks ATP-binding activity.; GO: 0006950 response to stress; PDB: 3DLO_C 3QTB_A 2PFS_A 3TNJ_A 1JMV_D 3FH0_B 3FDX_B 3AB7_A 3AB8_A 2GM3_F ....
Probab=61.85 E-value=61 Score=26.18 Aligned_cols=31 Identities=26% Similarity=0.349 Sum_probs=26.6
Q ss_pred cEEEEeCCHHHHHHHHHHHhCccEEEEcccc
Q 014573 111 DLMIRFGRVENVIRELVEEVKATSVFAEEEV 141 (422)
Q Consensus 111 ~L~v~~G~~~~~l~~l~~~~~~~~V~~~~~~ 141 (422)
...+..|++.+.+.+++++.+++.|+....-
T Consensus 82 ~~~~~~~~~~~~i~~~~~~~~~dliv~G~~~ 112 (140)
T PF00582_consen 82 EVVIESGDVADAIIEFAEEHNADLIVMGSRG 112 (140)
T ss_dssp EEEEEESSHHHHHHHHHHHTTCSEEEEESSS
T ss_pred EEEEEeeccchhhhhccccccceeEEEeccC
Confidence 4566679999999999999999999987665
No 26
>PF00702 Hydrolase: haloacid dehalogenase-like hydrolase; InterPro: IPR005834 This group of hydrolase enzymes is structurally different from the alpha/beta hydrolase family (abhydrolase). This group includes L-2-haloacid dehalogenase, epoxide hydrolases and phosphatases. The structure consists of two domains. One is an inserted four helix bundle, which is the least well conserved region of the alignment, between residues 16 and 96 of HAD1_PSESP. The rest of the fold is composed of the core alpha/beta domain.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1TE2_A 3NAL_A 3NAM_A 3NAN_A 3A1D_B 3J09_A 3J08_A 2B8E_C 3A1E_A 2VOY_J ....
Probab=60.98 E-value=35 Score=30.70 Aligned_cols=61 Identities=18% Similarity=0.192 Sum_probs=42.4
Q ss_pred HHHHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHhCccE--EEEccccchhHHHHHHHHHHHhh
Q 014573 96 FALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATS--VFAEEEVEYHLRQMMAIVDETLA 157 (422)
Q Consensus 96 esL~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~~~~~--V~~~~~~~~~~~~~d~~v~~~l~ 157 (422)
..+.++-++|++.|+++.++.|+.......++++.++.. |+.....-|..+ .-..+.+.|+
T Consensus 130 ~~~~~~l~~L~~~Gi~~~i~TGD~~~~a~~~~~~lgi~~~~v~a~~~~kP~~k-~~~~~i~~l~ 192 (215)
T PF00702_consen 130 PGAKEALQELKEAGIKVAILTGDNESTASAIAKQLGIFDSIVFARVIGKPEPK-IFLRIIKELQ 192 (215)
T ss_dssp TTHHHHHHHHHHTTEEEEEEESSEHHHHHHHHHHTTSCSEEEEESHETTTHHH-HHHHHHHHHT
T ss_pred hhhhhhhhhhhccCcceeeeeccccccccccccccccccccccccccccccch-hHHHHHHHHh
Confidence 446677777888899999999999999999999999954 443321134333 2234445554
No 27
>PRK10490 sensor protein KdpD; Provisional
Probab=57.07 E-value=77 Score=36.34 Aligned_cols=69 Identities=16% Similarity=0.185 Sum_probs=48.6
Q ss_pred CCeEEEEEEcCCccccCCHhHHHHHHHHHHHHHHHHHhcCCcEEEEeC-CHHHHHHHHHHHhCccEEEEccccch
Q 014573 70 QAVVPLYVFDHRILSRYSNEMLELVIFALEDLRKSLKEQGSDLMIRFG-RVENVIRELVEEVKATSVFAEEEVEY 143 (422)
Q Consensus 70 ~~vl~vfi~dp~~~~~~~~~r~~Fl~esL~~L~~~L~~lg~~L~v~~G-~~~~~l~~l~~~~~~~~V~~~~~~~~ 143 (422)
.++++|||-.+..- ..+.....-+.+.+. |. +++|...+++.| ++.+.|.++|++.+|+.|+.-+.-..
T Consensus 279 a~~~~l~V~~~~~~-~~~~~~~~~l~~~~~-lA---~~lGa~~~~~~~~dva~~i~~~A~~~~vt~IViG~s~~~ 348 (895)
T PRK10490 279 SVWHAVYVETPRLH-RLPEKKRRAILSALR-LA---QELGAETATLSDPAEEKAVLRYAREHNLGKIIIGRRASR 348 (895)
T ss_pred CCEEEEEEecCCcC-cCCHHHHHHHHHHHH-HH---HHcCCEEEEEeCCCHHHHHHHHHHHhCCCEEEECCCCCC
Confidence 68999999877432 223333333444442 43 456999877776 78899999999999999999876543
No 28
>TIGR01490 HAD-SF-IB-hyp1 HAD-superfamily subfamily IB hydrolase, TIGR01490. A subset of these sequences, including the Caulobacter crescentus CicA protein, cluster together and may represent a separate equivalog.
Probab=55.02 E-value=28 Score=31.41 Aligned_cols=45 Identities=11% Similarity=0.183 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHhCccEEEEc
Q 014573 94 VIFALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATSVFAE 138 (422)
Q Consensus 94 l~esL~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~~~~~V~~~ 138 (422)
+...+.++-+.|++.|.++.|..+.+...+..+++..+++.++.+
T Consensus 88 ~~~~~~~~l~~l~~~g~~v~ivS~s~~~~v~~~~~~lg~~~~~~~ 132 (202)
T TIGR01490 88 LYPEARDLIRWHKAEGHTIVLVSASLTILVKPLARILGIDNAIGT 132 (202)
T ss_pred ccHHHHHHHHHHHHCCCEEEEEeCCcHHHHHHHHHHcCCcceEec
Confidence 455667777778899999999999999999999999999887765
No 29
>COG0560 SerB Phosphoserine phosphatase [Amino acid transport and metabolism]
Probab=51.82 E-value=19 Score=33.68 Aligned_cols=44 Identities=25% Similarity=0.346 Sum_probs=39.2
Q ss_pred HHHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHhCccEEEEccc
Q 014573 97 ALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATSVFAEEE 140 (422)
Q Consensus 97 sL~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~~~~~V~~~~~ 140 (422)
...+|-+.|++.|....|+.|.+...+..+++.++++.++.|.-
T Consensus 81 ga~elv~~lk~~G~~v~iiSgg~~~lv~~ia~~lg~d~~~an~l 124 (212)
T COG0560 81 GAEELVAALKAAGAKVVIISGGFTFLVEPIAERLGIDYVVANEL 124 (212)
T ss_pred cHHHHHHHHHHCCCEEEEEcCChHHHHHHHHHHhCCchheeeEE
Confidence 38889999999999999999999999999999999997776643
No 30
>COG2102 Predicted ATPases of PP-loop superfamily [General function prediction only]
Probab=51.68 E-value=93 Score=29.47 Aligned_cols=92 Identities=17% Similarity=0.084 Sum_probs=58.9
Q ss_pred CHHHHHHHhc-CCeEEEEEEcCCccccCCHhHHHHHHHHHHHHHHHHHhcCCcEEEEe--C---CHHHHHHHHHHHhCcc
Q 014573 60 HLGLVAASKY-QAVVPLYVFDHRILSRYSNEMLELVIFALEDLRKSLKEQGSDLMIRF--G---RVENVIRELVEEVKAT 133 (422)
Q Consensus 60 N~aL~~A~~~-~~vl~vfi~dp~~~~~~~~~r~~Fl~esL~~L~~~L~~lg~~L~v~~--G---~~~~~l~~l~~~~~~~ 133 (422)
|-||+.|.+. -.|.++.++-|..-. .+.|-.-.+.-....-+.+|++++... | +-.+.|.++.+..+++
T Consensus 14 ~~Al~~a~~~G~eV~~Ll~~~p~~~d-----S~m~H~~n~~~~~~~Ae~~gi~l~~~~~~g~~e~eve~L~~~l~~l~~d 88 (223)
T COG2102 14 FYALYLALEEGHEVVYLLTVKPENGD-----SYMFHTPNLELAELQAEAMGIPLVTFDTSGEEEREVEELKEALRRLKVD 88 (223)
T ss_pred HHHHHHHHHcCCeeEEEEEEecCCCC-----eeeeeccchHHHHHHHHhcCCceEEEecCccchhhHHHHHHHHHhCccc
Confidence 6789999877 568888887775321 111111223333444456799987764 3 2345677777888999
Q ss_pred EEEEccccchhHHHHHHHHHHHh
Q 014573 134 SVFAEEEVEYHLRQMMAIVDETL 156 (422)
Q Consensus 134 ~V~~~~~~~~~~~~~d~~v~~~l 156 (422)
.|++-.-+..+.+.|.++|.+.+
T Consensus 89 ~iv~GaI~s~yqk~rve~lc~~l 111 (223)
T COG2102 89 GIVAGAIASEYQKERVERLCEEL 111 (223)
T ss_pred EEEEchhhhHHHHHHHHHHHHHh
Confidence 99988777777777766665443
No 31
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=51.08 E-value=1.5e+02 Score=24.95 Aligned_cols=41 Identities=12% Similarity=0.206 Sum_probs=30.6
Q ss_pred HHHHHHHhcCCcE---EEEeCCHHHHHHHHHHHhCccEEEEccc
Q 014573 100 DLRKSLKEQGSDL---MIRFGRVENVIRELVEEVKATSVFAEEE 140 (422)
Q Consensus 100 ~L~~~L~~lg~~L---~v~~G~~~~~l~~l~~~~~~~~V~~~~~ 140 (422)
.|++.+++.|+.. ++..|+|.+.|.+.+++.+++.|+.-..
T Consensus 69 ~l~~~~~~~~~~~~~~~~~~G~p~~~I~~~a~~~~~DLIV~Gs~ 112 (144)
T PRK15118 69 ALTELSTNAGYPITETLSGSGDLGQVLVDAIKKYDMDLVVCGHH 112 (144)
T ss_pred HHHHHHHhCCCCceEEEEEecCHHHHHHHHHHHhCCCEEEEeCc
Confidence 3444445566653 4457999999999999999999998655
No 32
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=49.84 E-value=1.1e+02 Score=25.58 Aligned_cols=47 Identities=19% Similarity=0.136 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHHHhcCCc---EEEEeCCH-HHHHHHHHHHhCccEEEEccc
Q 014573 94 VIFALEDLRKSLKEQGSD---LMIRFGRV-ENVIRELVEEVKATSVFAEEE 140 (422)
Q Consensus 94 l~esL~~L~~~L~~lg~~---L~v~~G~~-~~~l~~l~~~~~~~~V~~~~~ 140 (422)
..+.+..+.+.+.+.|+. ..+..|+| .+.+..++.+.+++.|+.-..
T Consensus 72 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~i~~~a~~~~adliV~G~~ 122 (154)
T COG0589 72 AEELLAEAKALAEAAGVPVVETEVVEGSPSAEEILELAEEEDADLIVVGSR 122 (154)
T ss_pred HHHHHHHHHHHHHHcCCCeeEEEEecCCCcHHHHHHHHHHhCCCEEEECCC
Confidence 357788888888888866 46678999 699999999999999988654
No 33
>PRK11175 universal stress protein UspE; Provisional
Probab=48.46 E-value=1.6e+02 Score=28.37 Aligned_cols=43 Identities=26% Similarity=0.278 Sum_probs=32.2
Q ss_pred HHHHHHHHHhcCCc---EEEEeCCHHHHHHHHHHHhCccEEEEccc
Q 014573 98 LEDLRKSLKEQGSD---LMIRFGRVENVIRELVEEVKATSVFAEEE 140 (422)
Q Consensus 98 L~~L~~~L~~lg~~---L~v~~G~~~~~l~~l~~~~~~~~V~~~~~ 140 (422)
...+++-+++.|++ .++..|++.+.|.+.+++.+++.|++-..
T Consensus 225 ~~~l~~~~~~~~~~~~~~~v~~G~~~~~I~~~a~~~~~DLIVmG~~ 270 (305)
T PRK11175 225 LLAMKALRQKFGIDEEQTHVEEGLPEEVIPDLAEHLDAELVILGTV 270 (305)
T ss_pred HHHHHHHHHHhCCChhheeeccCCHHHHHHHHHHHhCCCEEEECCC
Confidence 33444445555664 56778999999999999999999987553
No 34
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=48.38 E-value=50 Score=36.82 Aligned_cols=58 Identities=16% Similarity=0.150 Sum_probs=43.7
Q ss_pred HHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHhCccEEEEccccchhHHHHHHHHHHHhhhcC
Q 014573 98 LEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVS 160 (422)
Q Consensus 98 L~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~g 160 (422)
-.+.-+.|+++|++++++.||.......++++.+|++|+.+ ..|+++.. +.+.|++.|
T Consensus 542 a~~aI~~L~~~Gi~~~mLTGDn~~~A~~iA~~lGId~v~Ae--llPedK~~---~V~~l~~~g 599 (713)
T COG2217 542 AKEAIAALKALGIKVVMLTGDNRRTAEAIAKELGIDEVRAE--LLPEDKAE---IVRELQAEG 599 (713)
T ss_pred HHHHHHHHHHCCCeEEEEcCCCHHHHHHHHHHcChHhhecc--CCcHHHHH---HHHHHHhcC
Confidence 34455667888999999999999999999999999999985 45555542 334455443
No 35
>PF01902 ATP_bind_4: ATP-binding region; InterPro: IPR002761 This domain is about 200 amino acids long with a strongly conserved motif SGGKD at the N-terminal. The structure of Q8U2K6 from SWISSPROT from Pyrococcus furiosus has been resolved to 2.7A and is suggested to be a putative N-type pytophosphatase. In some members of the family e.g. Q12429 from SWISSPROT, this domain is associated with IPR006175 from INTERPRO, another domain of unknown function. Proteins with this uncharacterised domain include two apparent ortholog families in the archaea, one of which is universal among the first four completed archaeal genomes. The domain comprises the full length of the archaeal proteins and the first third of fungal proteins.; PDB: 3RK0_A 3RK1_A 3RJZ_A 2D13_D.
Probab=47.59 E-value=28 Score=32.82 Aligned_cols=91 Identities=18% Similarity=0.153 Sum_probs=47.0
Q ss_pred HHHHHHHhcCCeEEEEEEcCCccccCCHhHHHHHHHH--HHHHHHHHHhcCCcEEEEe-----CCHHHHHHHHHHHhCcc
Q 014573 61 LGLVAASKYQAVVPLYVFDHRILSRYSNEMLELVIFA--LEDLRKSLKEQGSDLMIRF-----GRVENVIRELVEEVKAT 133 (422)
Q Consensus 61 ~aL~~A~~~~~vl~vfi~dp~~~~~~~~~r~~Fl~es--L~~L~~~L~~lg~~L~v~~-----G~~~~~l~~l~~~~~~~ 133 (422)
-||+.|.+..+|.++..+-|.... + ++.++ +.-++.+-+.+|++|+... .+-.+.+.+.+++.+|+
T Consensus 15 lAl~~a~~~~~v~~L~t~~~~~~~-----s--~~~H~~~~~~~~~qA~algipl~~~~~~g~~~~~~~~l~~~l~~~~v~ 87 (218)
T PF01902_consen 15 LALYRALRQHEVVCLLTMVPEEED-----S--YMFHGVNIELIEAQAEALGIPLIEIPTSGDEEDYVEDLKEALKELKVE 87 (218)
T ss_dssp HHHHHHHHT-EEEEEEEEEESTTT--------SSS-STTGTCHHHHHHHHT--EEEEEE---CCCHHHHHHHHHCTC--S
T ss_pred HHHHHHHHhCCccEEEEeccCCCC-----c--ccccccCHHHHHHHHHHCCCCEEEEEccCccchhhHHHHHHHHHcCCC
Confidence 478888776556666655543221 1 11111 3344455567799998764 33445677777888999
Q ss_pred EEEEccccchhHHHHHHHHHHHhhhcCC
Q 014573 134 SVFAEEEVEYHLRQMMAIVDETLAKVSL 161 (422)
Q Consensus 134 ~V~~~~~~~~~~~~~d~~v~~~l~~~gi 161 (422)
+|++-.-...+.+.+ +.+.|.+.|+
T Consensus 88 ~vv~GdI~~~~~r~~---~e~vc~~lGl 112 (218)
T PF01902_consen 88 AVVFGDIDSEYQRNW---VERVCERLGL 112 (218)
T ss_dssp EEE--TTS-HHHHHH---HHHHHHHCT-
T ss_pred EEEECcCCcHHHHHH---HHHHHHHcCC
Confidence 998866554555554 4445555555
No 36
>TIGR01488 HAD-SF-IB Haloacid Dehalogenase superfamily, subfamily IB, phosphoserine phosphatase-like. Subfamily IA includes the enzyme phosphoserine phosphatase (TIGR00338) as well as three hypothetical equivalogs. Many members of these hypothetical equivalogs have been annotated as PSPase-like or PSPase-family proteins. In particular, the hypothetical equivalog which appears to be most closely related to PSPase contains only Archaea (while TIGR00338 contains only eukaryotes and bacteria) of which some are annotated as PSPases. Although this is a reasonable conjecture, none of these sequences has sufficient evidence for this assignment. If such should be found, this model should be retired while the PSPase model should be broadened to include these sequences.
Probab=46.84 E-value=22 Score=31.19 Aligned_cols=43 Identities=28% Similarity=0.370 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHhCccEEEEc
Q 014573 96 FALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATSVFAE 138 (422)
Q Consensus 96 esL~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~~~~~V~~~ 138 (422)
.++.++-+.|++.|.++.|+.|.....+..+++.+++..++.+
T Consensus 76 ~g~~~~l~~l~~~g~~~~ivS~~~~~~i~~~~~~~g~~~~~~~ 118 (177)
T TIGR01488 76 PGARELISWLKERGIDTVIVSGGFDFFVEPVAEKLGIDDVFAN 118 (177)
T ss_pred cCHHHHHHHHHHCCCEEEEECCCcHHHHHHHHHHcCCchheee
Confidence 3455666666777777777777777777777777666655543
No 37
>PF13911 AhpC-TSA_2: AhpC/TSA antioxidant enzyme
Probab=46.09 E-value=47 Score=27.33 Aligned_cols=41 Identities=20% Similarity=0.358 Sum_probs=29.3
Q ss_pred HHHHHHHHHhcCCcEEEE-eCCHHHHHHHHHHHhCcc-EEEEcc
Q 014573 98 LEDLRKSLKEQGSDLMIR-FGRVENVIRELVEEVKAT-SVFAEE 139 (422)
Q Consensus 98 L~~L~~~L~~lg~~L~v~-~G~~~~~l~~l~~~~~~~-~V~~~~ 139 (422)
|.....+|++.|++|+++ .|++.. +.++++..+.. .||++.
T Consensus 2 L~~~~~~l~~~gv~lv~I~~g~~~~-~~~f~~~~~~p~~ly~D~ 44 (115)
T PF13911_consen 2 LSRRKPELEAAGVKLVVIGCGSPEG-IEKFCELTGFPFPLYVDP 44 (115)
T ss_pred hhHhHHHHHHcCCeEEEEEcCCHHH-HHHHHhccCCCCcEEEeC
Confidence 566788899999999877 477755 88898654332 377654
No 38
>PRK14010 potassium-transporting ATPase subunit B; Provisional
Probab=46.06 E-value=90 Score=34.59 Aligned_cols=60 Identities=17% Similarity=0.101 Sum_probs=45.7
Q ss_pred HHHHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHhCccEEEEccccchhHHHHHHHHHHHhhhcC
Q 014573 96 FALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVS 160 (422)
Q Consensus 96 esL~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~g 160 (422)
+...+.-++|++.|++..++.||....-..++++.+++.|+.+ ..|+.+.+ +.+.+++.|
T Consensus 444 ~~a~e~I~~Lr~~GI~vvMiTGDn~~TA~aIA~elGI~~v~A~--~~PedK~~---iV~~lQ~~G 503 (673)
T PRK14010 444 DGLVERFRELREMGIETVMCTGDNELTAATIAKEAGVDRFVAE--CKPEDKIN---VIREEQAKG 503 (673)
T ss_pred HHHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCceEEcC--CCHHHHHH---HHHHHHhCC
Confidence 3456666777889999999999999999999999999998875 45555543 444565554
No 39
>TIGR01491 HAD-SF-IB-PSPlk HAD-superfamily, subfamily-IB PSPase-like hydrolase, archaeal. This hypothetical equivalog is a member of the IB subfamily (TIGR01488) of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. The sequences modelled by this alignment are all from archaeal species. The phylogenetically closest group of sequences to these are phosphoserine phosphatases (TIGR00338). There are no known archaeal phosphoserine phosphatases, and no archaea fall within TIGR00338. It is likely, then, that This model represents the archaeal branch of the PSPase equivalog.
Probab=45.37 E-value=36 Score=30.46 Aligned_cols=42 Identities=24% Similarity=0.330 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHhCccEEEE
Q 014573 96 FALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATSVFA 137 (422)
Q Consensus 96 esL~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~~~~~V~~ 137 (422)
..+.++-+.|++.|+++.|+.+.+...+..+++.+++..++.
T Consensus 83 ~g~~e~l~~l~~~g~~~~IvS~~~~~~~~~~l~~~g~~~~~~ 124 (201)
T TIGR01491 83 DYAEELVRWLKEKGLKTAIVSGGIMCLAKKVAEKLNPDYVYS 124 (201)
T ss_pred ccHHHHHHHHHHCCCEEEEEeCCcHHHHHHHHHHhCCCeEEE
Confidence 345566666666777777777777667777777766665544
No 40
>TIGR03679 arCOG00187 arCOG00187 universal archaeal metal-binding-domain/4Fe-4S-binding-domain containing ABC transporter, ATP-binding protein. This model has the same scope as an archaeal COG (arCOG00187) and is found in all completely sequenced archaea and does not recognize any known non-archaeal genes.
Probab=44.94 E-value=2.1e+02 Score=26.78 Aligned_cols=92 Identities=13% Similarity=0.041 Sum_probs=48.5
Q ss_pred HHHHHHHhc-CCeEEEEEEcCCccccCCHhHHHHHHHHHHHHHHHHHhcCCcEEEEeCC-----HHH----HHHHHHHHh
Q 014573 61 LGLVAASKY-QAVVPLYVFDHRILSRYSNEMLELVIFALEDLRKSLKEQGSDLMIRFGR-----VEN----VIRELVEEV 130 (422)
Q Consensus 61 ~aL~~A~~~-~~vl~vfi~dp~~~~~~~~~r~~Fl~esL~~L~~~L~~lg~~L~v~~G~-----~~~----~l~~l~~~~ 130 (422)
-+|+.|.+. ..+.+++.+.+..... .-|-...+..++...+.+|+++.++.-+ ..+ .+.++.++
T Consensus 12 ~al~~a~~~G~~v~~l~~~~~~~~~~-----~~~~~~~~~~~~~~A~~lgip~~~i~~~~~~~~~~~~l~~~l~~~~~~- 85 (218)
T TIGR03679 12 YALYKALEEGHEVRCLITVVPENEES-----YMFHTPNIELTRLQAEALGIPLVKIETSGEKEKEVEDLKGALKELKRE- 85 (218)
T ss_pred HHHHHHHHcCCEEEEEEEeccCCCCc-----cccCCCCHHHHHHHHHHhCCCEEEEECCCCChHHHHHHHHHHHHHHHc-
Confidence 355666555 3466666655532111 0000124556677778889999887633 222 23333333
Q ss_pred CccEEEEccccchhHHHHHHHHHHHhhhcCC
Q 014573 131 KATSVFAEEEVEYHLRQMMAIVDETLAKVSL 161 (422)
Q Consensus 131 ~~~~V~~~~~~~~~~~~~d~~v~~~l~~~gi 161 (422)
+++.|++-.-...+.+.+ +.+.+...|+
T Consensus 86 g~~~vv~G~i~sd~~~~~---~e~v~~~~gl 113 (218)
T TIGR03679 86 GVEGIVTGAIASRYQKSR---IERICEELGL 113 (218)
T ss_pred CCCEEEECCcccHhHHHH---HHHHHHhCCC
Confidence 899888765555444444 3344555554
No 41
>PRK01122 potassium-transporting ATPase subunit B; Provisional
Probab=44.83 E-value=79 Score=35.08 Aligned_cols=60 Identities=10% Similarity=0.051 Sum_probs=45.4
Q ss_pred HHHHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHhCccEEEEccccchhHHHHHHHHHHHhhhcC
Q 014573 96 FALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVS 160 (422)
Q Consensus 96 esL~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~g 160 (422)
....+.-++|++.|++.+++.||.......++++.+++.++.+ ..|+.+.+ +.+.+++.|
T Consensus 448 ~~~~eai~~Lr~~GI~vvMiTGDn~~TA~aIA~elGId~v~A~--~~PedK~~---iV~~lQ~~G 507 (679)
T PRK01122 448 PGIKERFAELRKMGIKTVMITGDNPLTAAAIAAEAGVDDFLAE--ATPEDKLA---LIRQEQAEG 507 (679)
T ss_pred hhHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCcEEEcc--CCHHHHHH---HHHHHHHcC
Confidence 3456666778889999999999999999999999999998875 44555443 344455554
No 42
>PRK11175 universal stress protein UspE; Provisional
Probab=43.21 E-value=2.2e+02 Score=27.39 Aligned_cols=88 Identities=14% Similarity=0.032 Sum_probs=51.5
Q ss_pred CCCccCCHHHHHHHhc-----CCeEEEEEEcCCccc---cC-CHh----HHHH---HHHHHHHHHHHHHhcCCcEE--EE
Q 014573 54 DLRVDDHLGLVAASKY-----QAVVPLYVFDHRILS---RY-SNE----MLEL---VIFALEDLRKSLKEQGSDLM--IR 115 (422)
Q Consensus 54 DLRl~DN~aL~~A~~~-----~~vl~vfi~dp~~~~---~~-~~~----r~~F---l~esL~~L~~~L~~lg~~L~--v~ 115 (422)
|.=-.+..||.+|... ..+..++++++.... .. ... +... ..+.|++..+.++..|++.. +.
T Consensus 11 D~s~~~~~al~~a~~lA~~~~a~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~v~ 90 (305)
T PRK11175 11 DPNQDDQPALRRAVYLAQRNGGKITAFLPIYDFSYEMTTLLSPDEREAMRQGVISQRTAWIREQAKPYLDAGIPIEIKVV 90 (305)
T ss_pred CCCccccHHHHHHHHHHHhcCCCEEEEEeccCchhhhhcccchhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCceEEEEe
Confidence 3333467888888642 467777776432110 01 111 1111 12334444445556676653 33
Q ss_pred -eCCHHHHHHHHHHHhCccEEEEcccc
Q 014573 116 -FGRVENVIRELVEEVKATSVFAEEEV 141 (422)
Q Consensus 116 -~G~~~~~l~~l~~~~~~~~V~~~~~~ 141 (422)
.|++.+.|.+.+++.+++.|++-..-
T Consensus 91 ~~g~~~~~i~~~a~~~~~DLiV~G~~~ 117 (305)
T PRK11175 91 WHNRPFEAIIQEVIAGGHDLVVKMTHQ 117 (305)
T ss_pred cCCCcHHHHHHHHHhcCCCEEEEeCCC
Confidence 58999999999999999999987653
No 43
>PF12710 HAD: haloacid dehalogenase-like hydrolase; PDB: 3P96_A 3N28_A 3FVV_A 1RKU_A 1RKV_A 1Y8A_A 2FEA_B 3KD3_B.
Probab=42.29 E-value=48 Score=29.36 Aligned_cols=41 Identities=24% Similarity=0.447 Sum_probs=35.7
Q ss_pred HHHHHHHhcCCcEEEEeCCHHHHHHHHHHHhCccE--EEEccc
Q 014573 100 DLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATS--VFAEEE 140 (422)
Q Consensus 100 ~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~~~~~--V~~~~~ 140 (422)
++-+.|++.|.+.+|+.|.+...+..+++..++.. |+.+..
T Consensus 96 e~i~~~~~~~~~v~IvS~~~~~~i~~~~~~~~i~~~~v~~~~~ 138 (192)
T PF12710_consen 96 ELIRELKDNGIKVVIVSGSPDEIIEPIAERLGIDDDNVIGNEL 138 (192)
T ss_dssp HHHHHHHHTTSEEEEEEEEEHHHHHHHHHHTTSSEGGEEEEEE
T ss_pred HHHHHHHHCCCEEEEECCCcHHHHHHHHHHcCCCceEEEEEee
Confidence 66667888899999999999999999999999987 777766
No 44
>PF06574 FAD_syn: FAD synthetase; InterPro: IPR015864 Riboflavin is converted into catalytically active cofactors (FAD and FMN) by the actions of riboflavin kinase (2.7.1.26 from EC), which converts it into FMN, and FAD synthetase (2.7.7.2 from EC), which adenylates FMN to FAD. Eukaryotes usually have two separate enzymes, while most prokaryotes have a single bifunctional protein that can carry out both catalyses, although exceptions occur in both cases. While eukaryotic monofunctional riboflavin kinase is orthologous to the bifunctional prokaryotic enzyme [], the monofunctional FAD synthetase differs from its prokaryotic counterpart, and is instead related to the PAPS-reductase family []. The bacterial FAD synthetase that is part of the bifunctional enzyme has remote similarity to nucleotidyl transferases and, hence, it may be involved in the adenylylation reaction of FAD synthetases []. This entry represents prokaryotic-type FAD synthetase, which occurs primarily as part of a bifunctional enzyme.; GO: 0003919 FMN adenylyltransferase activity, 0009231 riboflavin biosynthetic process; PDB: 2X0K_B 3OP1_B 1T6Z_A 2I1L_A 1T6Y_B 1T6X_B 1S4M_A 1MRZ_A.
Probab=40.97 E-value=17 Score=32.34 Aligned_cols=92 Identities=13% Similarity=0.191 Sum_probs=53.5
Q ss_pred CCeEEEEEEcCCccccCCHhHHHHHHHHHHHHHHHHHhcCCcEEEEe--------CCHHHHHHHHHH-HhCccEEEEccc
Q 014573 70 QAVVPLYVFDHRILSRYSNEMLELVIFALEDLRKSLKEQGSDLMIRF--------GRVENVIRELVE-EVKATSVFAEEE 140 (422)
Q Consensus 70 ~~vl~vfi~dp~~~~~~~~~r~~Fl~esL~~L~~~L~~lg~~L~v~~--------G~~~~~l~~l~~-~~~~~~V~~~~~ 140 (422)
+-...|+.|+|.-..-..+....+.+-++.+=.+.|+++|++.++.. =++.+-+..++. +.++..|++-.+
T Consensus 36 ~~~~~v~tF~~~P~~~~~~~~~~~~l~s~~ek~~~l~~~Gvd~~~~~~F~~~~~~ls~~~Fi~~iL~~~l~~~~ivvG~D 115 (157)
T PF06574_consen 36 GLKSVVLTFDPHPKEVLNPDKPPKLLTSLEEKLELLESLGVDYVIVIPFTEEFANLSPEDFIEKILKEKLNVKHIVVGED 115 (157)
T ss_dssp T-EEEEEEESS-CHHHHSCTCCGGBSS-HHHHHHHHHHTTESEEEEE-CCCHHCCS-HHHHHHHHCCCHCTEEEEEEETT
T ss_pred ccceEEEEcccCHHHHhcCCCcccCCCCHHHHHHHHHHcCCCEEEEecchHHHHcCCHHHHHHHHHHhcCCccEEEEccC
Confidence 44556788887432111112222345677777888899999866552 246667777555 899999999888
Q ss_pred cchhHH--HHHHHHHHHhhhcCC
Q 014573 141 VEYHLR--QMMAIVDETLAKVSL 161 (422)
Q Consensus 141 ~~~~~~--~~d~~v~~~l~~~gi 161 (422)
+..... ...+.+++.+.+.|+
T Consensus 116 frFG~~~~G~~~~L~~~~~~~g~ 138 (157)
T PF06574_consen 116 FRFGKNRSGDVELLKELGKEYGF 138 (157)
T ss_dssp -EESGGGEEEHHHHHHCTTTT-S
T ss_pred ccCCCCCCCCHHHHHHhcccCce
Confidence 754332 233556666665555
No 45
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=40.50 E-value=2.7e+02 Score=31.53 Aligned_cols=73 Identities=16% Similarity=0.223 Sum_probs=51.4
Q ss_pred CCeEEEEEEcCCccccCCHhHHHHHHHHHHHHHHHHHhcCCcEEEEe-CCHHHHHHHHHHHhCccEEEEccccchhHHH
Q 014573 70 QAVVPLYVFDHRILSRYSNEMLELVIFALEDLRKSLKEQGSDLMIRF-GRVENVIRELVEEVKATSVFAEEEVEYHLRQ 147 (422)
Q Consensus 70 ~~vl~vfi~dp~~~~~~~~~r~~Fl~esL~~L~~~L~~lg~~L~v~~-G~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~ 147 (422)
.+..+|||-.|+... .+.....-+ +....|.++ +|....++. ++..+.+.+.|..++++.|+.-+.....+++
T Consensus 277 a~~~av~v~~~~~~~-~~~~~~~~l-~~~~~Lae~---lGae~~~l~~~dv~~~i~~ya~~~~~TkiViG~~~~~rw~~ 350 (890)
T COG2205 277 AKWTAVYVETPELHR-LSEKEARRL-HENLRLAEE---LGAEIVTLYGGDVAKAIARYAREHNATKIVIGRSRRSRWRR 350 (890)
T ss_pred CCeEEEEEecccccc-ccHHHHHHH-HHHHHHHHH---hCCeEEEEeCCcHHHHHHHHHHHcCCeeEEeCCCcchHHHH
Confidence 789999999987642 222222222 334445544 599998888 5777999999999999999987766555543
No 46
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=39.11 E-value=1.4e+02 Score=23.95 Aligned_cols=67 Identities=16% Similarity=0.161 Sum_probs=42.9
Q ss_pred HHHHHHHHHhcCCcEEEE---eCCHHH--HHHHHHHHhCccEEEEccccchhHHHHHHHHHHHhhhcCCCCCCceeEecC
Q 014573 98 LEDLRKSLKEQGSDLMIR---FGRVEN--VIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVSLVDGKPKICLWQ 172 (422)
Q Consensus 98 L~~L~~~L~~lg~~L~v~---~G~~~~--~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~gi~~~~~~~~~~~ 172 (422)
...+++.+++.|..+.+. .|.... .|++.+++ ++.|++--++-..... ..+++.+++.++ ++....+
T Consensus 12 ~~~~~~~~~~~G~~~~~hg~~~~~~~~~~~l~~~i~~--aD~VIv~t~~vsH~~~--~~vk~~akk~~i----p~~~~~~ 83 (97)
T PF10087_consen 12 ERRYKRILEKYGGKLIHHGRDGGDEKKASRLPSKIKK--ADLVIVFTDYVSHNAM--WKVKKAAKKYGI----PIIYSRS 83 (97)
T ss_pred HHHHHHHHHHcCCEEEEEecCCCCccchhHHHHhcCC--CCEEEEEeCCcChHHH--HHHHHHHHHcCC----cEEEECC
Confidence 567788888999999888 333333 37776664 6767665555443333 356677777666 7766643
No 47
>PRK14719 bifunctional RNAse/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=37.85 E-value=71 Score=32.55 Aligned_cols=59 Identities=12% Similarity=0.017 Sum_probs=39.7
Q ss_pred HHHHhcCC--cEEEEeCCHHHHHHHHHHHhCccEEEEccccchhHHHHHHHHHHHhhhcCC
Q 014573 103 KSLKEQGS--DLMIRFGRVENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVSL 161 (422)
Q Consensus 103 ~~L~~lg~--~L~v~~G~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~gi 161 (422)
++|+++|+ ..+.+.+.|.....+.+-+.++..|+.-.|+.+..+..-.++.+.|+..||
T Consensus 36 ~~l~~lgi~g~~i~~s~~p~~~cad~ii~~gi~rVVi~~D~d~~G~~~~~~~~~~L~~aGi 96 (360)
T PRK14719 36 LSLKNLKINANFITVSNTPVFQIADDLIAENISEVILLTDFDRAGRVYAKNIMEEFQSRGI 96 (360)
T ss_pred HHHHHcCCCCcEEEEeCCchHHHHHHHHHcCCCEEEEEECCCCCCCccchHHHHHHHHCCC
Confidence 36778888 356666777655555555558887776667777555444566788888887
No 48
>PF08259 Periviscerokin: Periviscerokinin family; InterPro: IPR013231 Perviscerokinin neuropeptides are found in the abdominal perisympathetic organs of insects. They mediate visceral muscle contractile activity (myotropic activity). CAPA, which are in the periviscerokinin and pyrokinin peptide families, has potential medical importance. This is due to its myotropic effects on, for example, heart muscles and due to its occurrence in the Ixodoidea (ticks), which are important vectors in the transmission of many animal diseases []. These peptides also have a strong diuretic or anti-diuretic effect, suggesting they have significant medical implications [].
Probab=37.75 E-value=13 Score=18.00 Aligned_cols=8 Identities=63% Similarity=1.178 Sum_probs=6.1
Q ss_pred cccccccc
Q 014573 2 ALISFPRF 9 (422)
Q Consensus 2 ~~~~~~~~ 9 (422)
.||+|||.
T Consensus 4 GlI~fpR~ 11 (11)
T PF08259_consen 4 GLIPFPRV 11 (11)
T ss_pred cccccCCC
Confidence 48899883
No 49
>TIGR00338 serB phosphoserine phosphatase SerB. Phosphoserine phosphatase catalyzes the reaction 3-phospho-serine + H2O = L-serine + phosphate. It catalyzes the last of three steps in the biosynthesis of serine from D-3-phosphoglycerate. Note that this enzyme acts on free phosphoserine, not on phosphoserine residues of phosphoproteins.
Probab=35.88 E-value=47 Score=30.41 Aligned_cols=42 Identities=24% Similarity=0.355 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHhCccEEEE
Q 014573 96 FALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATSVFA 137 (422)
Q Consensus 96 esL~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~~~~~V~~ 137 (422)
.++.++=+.|++.|.++.|+.+.....+..+++..++..++.
T Consensus 88 ~g~~~~l~~l~~~g~~~~IvS~~~~~~~~~~l~~~~i~~~~~ 129 (219)
T TIGR00338 88 EGAEELVKTLKEKGYKVAVISGGFDLFAEHVKDKLGLDAAFA 129 (219)
T ss_pred CCHHHHHHHHHHCCCEEEEECCCcHHHHHHHHHHcCCCceEe
Confidence 344555556666666666666666566666666666655443
No 50
>TIGR01544 HAD-SF-IE haloacid dehalogenase superfamily, subfamily IE hydrolase, TIGR01544. This group of sequences was found during searches for members of the haloacid dehalogenase (HAD) superfamily. All of the conserved catalytic motifs are found. The placement of the variable domain between motifs 1 and 2 indicates membership in subfamily I of the superfamily, but these sequences are sufficiently different from any of the branches (IA, TIGR01493, TIGR01509, TIGR01549; IB, TIGR01488; IC, TIGR01494; ID, TIGR01658; IF TIGR01545) of that subfamily as to constitute a separate branch to now be called IE. Considering that the closest identifiable hit outside of the noise range is to a phosphoserine phosphatase, this group may be considered to be most closely allied to subfamily IB.
Probab=35.54 E-value=59 Score=31.85 Aligned_cols=36 Identities=17% Similarity=0.316 Sum_probs=25.3
Q ss_pred HHHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHhCc
Q 014573 97 ALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKA 132 (422)
Q Consensus 97 sL~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~~~ 132 (422)
+..+|=+.|++.|+++.|+.|.....+..++++.++
T Consensus 125 G~~efl~~L~~~GIpv~IvS~G~~~~Ie~vL~~lgl 160 (277)
T TIGR01544 125 GYENFFDKLQQHSIPVFIFSAGIGNVLEEVLRQAGV 160 (277)
T ss_pred CHHHHHHHHHHCCCcEEEEeCCcHHHHHHHHHHcCC
Confidence 556677777777777777777777777777666555
No 51
>TIGR01512 ATPase-IB2_Cd heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase. .
Probab=35.40 E-value=1.2e+02 Score=32.57 Aligned_cols=46 Identities=20% Similarity=0.162 Sum_probs=40.0
Q ss_pred HHHHHHHHHHHHHhcCC-cEEEEeCCHHHHHHHHHHHhCccEEEEcc
Q 014573 94 VIFALEDLRKSLKEQGS-DLMIRFGRVENVIRELVEEVKATSVFAEE 139 (422)
Q Consensus 94 l~esL~~L~~~L~~lg~-~L~v~~G~~~~~l~~l~~~~~~~~V~~~~ 139 (422)
+...+.++-+.|++.|+ ++.+..|++......++++.+++.++.+.
T Consensus 363 l~~~~~e~i~~L~~~Gi~~v~vvTgd~~~~a~~i~~~lgi~~~f~~~ 409 (536)
T TIGR01512 363 PRPDAAEAIAELKALGIEKVVMLTGDRRAVAERVARELGIDEVHAEL 409 (536)
T ss_pred chHHHHHHHHHHHHcCCCcEEEEcCCCHHHHHHHHHHcCChhhhhcc
Confidence 44677888888889999 99999999999999999999999887643
No 52
>PF08218 Citrate_ly_lig: Citrate lyase ligase C-terminal domain; InterPro: IPR013166 [Citrate (pro-3S)-lyase] ligase (6.2.1.22 from EC), also known as citrate lyase ligase, is responsible for acetylation of the prosthetic group (2-(5''-phosphoribosyl)-3'-dephosphocoenzyme-A) of the gamma subunit of citrate lyase. It converts the inactive thiol form of the enzyme to the active form. In Clostridium sphenoides, citrate lyase ligase actively degrades citrate. In Clostridium sporosphaeroides and Lactococcus lactis, however, the enzyme is under stringent regulatory control. The enzyme's activity in anaerobic bacteria is modulated by phosphorylation and dephosphorylation []. The proteins in this entry represent the C-terminal domain of citrate lyase ligase.; GO: 0008771 [citrate (pro-3S)-lyase] ligase activity
Probab=34.57 E-value=1.5e+02 Score=27.19 Aligned_cols=98 Identities=17% Similarity=0.167 Sum_probs=58.8
Q ss_pred HHHHhcCCeEEEEEEcCCccccCCHhHHHHHHHHHHHHHHHHHhcCCcEEEEe--------CCHH-----------HHHH
Q 014573 64 VAASKYQAVVPLYVFDHRILSRYSNEMLELVIFALEDLRKSLKEQGSDLMIRF--------GRVE-----------NVIR 124 (422)
Q Consensus 64 ~~A~~~~~vl~vfi~dp~~~~~~~~~r~~Fl~esL~~L~~~L~~lg~~L~v~~--------G~~~-----------~~l~ 124 (422)
..|++....+-|||+..+...---.-|...+.++..+|..=-=--|++.+|-. .+.. .++.
T Consensus 20 E~Aa~~~d~l~vFVV~eD~S~Fpf~~R~~LVk~G~~~L~NV~V~~~g~YiIS~aTFPsYFlK~~~~~~~~~~~lD~~iF~ 99 (182)
T PF08218_consen 20 EQAAKECDWLHVFVVSEDRSLFPFADRYELVKEGTADLPNVTVHPGGDYIISSATFPSYFLKDEDDVIKAQAELDATIFK 99 (182)
T ss_pred HHHHHhCCEEEEEEEccccCcCCHHHHHHHHHHHhCcCCCEEEEcCCCeeeecccChhhhccchhHHHHHHHHHHHHHHH
Confidence 45666667888999887542111356888999999888643222244444421 1111 1333
Q ss_pred H-HHHHhCccEEEEccccchhHHHHH-HHHHHHhhhcCC
Q 014573 125 E-LVEEVKATSVFAEEEVEYHLRQMM-AIVDETLAKVSL 161 (422)
Q Consensus 125 ~-l~~~~~~~~V~~~~~~~~~~~~~d-~~v~~~l~~~gi 161 (422)
+ ++...+|+.-|.-.|+-..-.+.. +.+++.|+..||
T Consensus 100 ~~IAp~L~It~RfVG~EP~~~vT~~YN~~M~~~Lp~~gi 138 (182)
T PF08218_consen 100 KYIAPALGITKRFVGEEPFSPVTRIYNEAMKEILPPYGI 138 (182)
T ss_pred HHhhHhcCcccceeCCCCCCHHHHHHHHHHHHhccccCC
Confidence 3 667788888888777655555444 455667777766
No 53
>TIGR01525 ATPase-IB_hvy heavy metal translocating P-type ATPase. This alignment encompasses two equivalog models for the copper and cadmium-type heavy metal transporting P-type ATPases (TIGR01511 and TIGR01512) as well as those species which score ambiguously between both models. For more comments and references, see the files on TIGR01511 and 01512.
Probab=33.71 E-value=74 Score=34.21 Aligned_cols=46 Identities=20% Similarity=0.212 Sum_probs=40.3
Q ss_pred HHHHHHHHHHHHHhcC-CcEEEEeCCHHHHHHHHHHHhCccEEEEcc
Q 014573 94 VIFALEDLRKSLKEQG-SDLMIRFGRVENVIRELVEEVKATSVFAEE 139 (422)
Q Consensus 94 l~esL~~L~~~L~~lg-~~L~v~~G~~~~~l~~l~~~~~~~~V~~~~ 139 (422)
+.....++-+.|++.| +++.+..|++......++++.+++.++.+-
T Consensus 385 ~~~g~~e~l~~L~~~g~i~v~ivTgd~~~~a~~i~~~lgi~~~f~~~ 431 (556)
T TIGR01525 385 LRPEAKEAIAALKRAGGIKLVMLTGDNRSAAEAVAAELGIDEVHAEL 431 (556)
T ss_pred chHhHHHHHHHHHHcCCCeEEEEeCCCHHHHHHHHHHhCCCeeeccC
Confidence 4567778888888999 999999999999999999999999888753
No 54
>KOG1615 consensus Phosphoserine phosphatase [Amino acid transport and metabolism]
Probab=33.55 E-value=55 Score=30.49 Aligned_cols=36 Identities=17% Similarity=0.388 Sum_probs=17.7
Q ss_pred HHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHhCcc
Q 014573 98 LEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKAT 133 (422)
Q Consensus 98 L~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~~~~ 133 (422)
+.+|-..|++.|..++++.|--...+.-++.+.++.
T Consensus 93 i~eLv~~L~~~~~~v~liSGGF~~~i~~Va~~Lgi~ 128 (227)
T KOG1615|consen 93 IRELVSRLHARGTQVYLISGGFRQLIEPVAEQLGIP 128 (227)
T ss_pred HHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHhCCc
Confidence 444445555555555555555444444444444443
No 55
>cd01427 HAD_like Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others, all of which use a nucleophilic aspartate in their phosphoryl transfer reaction. All members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. Members of this superfamily are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.
Probab=33.53 E-value=1.1e+02 Score=24.63 Aligned_cols=48 Identities=23% Similarity=0.335 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHhCc----cEEEEcccc
Q 014573 94 VIFALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKA----TSVFAEEEV 141 (422)
Q Consensus 94 l~esL~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~~~----~~V~~~~~~ 141 (422)
+.+.+.++-+.|++.|..++++.|.....+..+++..++ +.++.....
T Consensus 25 ~~~~~~~~l~~l~~~g~~i~ivS~~~~~~~~~~~~~~~~~~~~~~i~~~~~~ 76 (139)
T cd01427 25 LYPGVKEALKELKEKGIKLALATNKSRREVLELLEELGLDDYFDPVITSNGA 76 (139)
T ss_pred cCcCHHHHHHHHHHCCCeEEEEeCchHHHHHHHHHHcCCchhhhheeccchh
Confidence 445666777778888999999999998889888888876 455554433
No 56
>PLN02954 phosphoserine phosphatase
Probab=32.89 E-value=60 Score=29.82 Aligned_cols=39 Identities=18% Similarity=0.312 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHhCcc
Q 014573 95 IFALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKAT 133 (422)
Q Consensus 95 ~esL~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~~~~ 133 (422)
..++.++-+.|++.|+++.|..+.....+..+++.+++.
T Consensus 86 ~pg~~e~l~~l~~~g~~~~IvS~~~~~~i~~~l~~~gi~ 124 (224)
T PLN02954 86 SPGIPELVKKLRARGTDVYLVSGGFRQMIAPVAAILGIP 124 (224)
T ss_pred CccHHHHHHHHHHCCCEEEEECCCcHHHHHHHHHHhCCC
Confidence 356667777777778888888877777777777777775
No 57
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=32.73 E-value=2.7e+02 Score=22.64 Aligned_cols=58 Identities=24% Similarity=0.355 Sum_probs=41.3
Q ss_pred HHHHHHHHHHHHhcCCcEEEE---------------eCCHHHHHHHHHHHhCccEEEEccccchhHHHHHHHHHHHh
Q 014573 95 IFALEDLRKSLKEQGSDLMIR---------------FGRVENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETL 156 (422)
Q Consensus 95 ~esL~~L~~~L~~lg~~L~v~---------------~G~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l 156 (422)
-++|.+|..-.+..|+..+-. .|. .+.|.++++..+++.|+++.+..|.-.+- +.+.+
T Consensus 7 ~~~l~El~~L~~t~g~~vv~~~~q~~~~~~p~~~iG~GK-~eei~~~~~~~~~d~vvfd~~Lsp~Q~rN---Le~~~ 79 (95)
T PF13167_consen 7 EESLEELEELAETAGYEVVGTVVQKRRKPDPKTYIGSGK-VEEIKELIEELDADLVVFDNELSPSQQRN---LEKAL 79 (95)
T ss_pred HHHHHHHHHHHHHCCCeEEEEEEecCCCCCcceeechhH-HHHHHHHHhhcCCCEEEECCCCCHHHHHH---HHHHH
Confidence 367888888888888764321 133 35778899999999999999887765543 44444
No 58
>TIGR03674 fen_arch flap structure-specific endonuclease. Endonuclease that cleaves the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Has 5'-endo-/exonuclease and 5'-pseudo-Y-endonuclease activities. Cleaves the junction between single and double-stranded regions of flap DNA
Probab=32.71 E-value=1.7e+02 Score=29.47 Aligned_cols=14 Identities=21% Similarity=0.382 Sum_probs=10.9
Q ss_pred CCcHHHHHHHHHHH
Q 014573 291 GGGTNAVLNALQAY 304 (422)
Q Consensus 291 ~gGE~~Al~~L~~f 304 (422)
.-|...|++-++.|
T Consensus 243 GIG~ktA~kli~~~ 256 (338)
T TIGR03674 243 GIGPKTALKLIKEH 256 (338)
T ss_pred CccHHHHHHHHHHc
Confidence 34888898888775
No 59
>PF11111 CENP-M: Centromere protein M (CENP-M); InterPro: IPR020987 The prime candidate for specifying centromere identity is the array of nucleosomes assembles associated with CENP-A []. CENP-A recruits a nucleosome associated complex (CENP-A-NAC complex) comprised of CENP-M which this entry represents, along with two other proteins []. Assembly of the CENP-A NAC at centromeres is partly dependent on CENP-M. The CENP-A NAC is essential, as disruption of the complex causes errors of chromosome alignment and segregation that preclude cell survival [].
Probab=32.26 E-value=2.8e+02 Score=25.26 Aligned_cols=38 Identities=21% Similarity=0.211 Sum_probs=28.8
Q ss_pred HHHHHHHHHHhCccEEEEccccchhHHHHHHHHHHHhh
Q 014573 120 ENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLA 157 (422)
Q Consensus 120 ~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~ 157 (422)
.+.+.+|+.+|+..-++++.+.+-.-...-+++-+.++
T Consensus 116 ~~~V~kla~~y~~plL~~~le~~~~~~~lAqRLL~~lq 153 (176)
T PF11111_consen 116 PNEVRKLAATYNSPLLFADLENEEGRTSLAQRLLRMLQ 153 (176)
T ss_pred HHHHHHHHHHhCCCEEEeecccchHHHHHHHHHHHHHH
Confidence 35788999999999999998887555555555655554
No 60
>TIGR01088 aroQ 3-dehydroquinate dehydratase, type II. This model specifies the type II enzyme. The type I enzyme, often found as part of a multifunctional protein, is described by TIGR01093.
Probab=31.91 E-value=3.3e+02 Score=23.91 Aligned_cols=73 Identities=15% Similarity=0.221 Sum_probs=44.5
Q ss_pred HHHHHHHHHH----hcCCcEEEEeCCHHHHHHHHHHHh--CccEEEEccc-cchhHHHHHHHHHHHhhhcCCCCCCceeE
Q 014573 97 ALEDLRKSLK----EQGSDLMIRFGRVENVIRELVEEV--KATSVFAEEE-VEYHLRQMMAIVDETLAKVSLVDGKPKIC 169 (422)
Q Consensus 97 sL~~L~~~L~----~lg~~L~v~~G~~~~~l~~l~~~~--~~~~V~~~~~-~~~~~~~~d~~v~~~l~~~gi~~~~~~~~ 169 (422)
+|.++.+.|+ ++|..+.++..+.+-.|.+.+++. +++.|+.|-- |.... -+++.++...++ +++.
T Consensus 25 tl~di~~~~~~~a~~~g~~v~~~QSN~EGelId~i~~a~~~~dgiIINpga~THtS----iAl~DAl~~~~~----P~vE 96 (141)
T TIGR01088 25 TLEEIVEIIETFAAQLNVELEFFQSNSEGQLIDKIHEAEGQYDGIIINPGALTHTS----VALRDALAAVSL----PVVE 96 (141)
T ss_pred CHHHHHHHHHHHHHHcCCEEEEEeeCcHHHHHHHHHhccccCCEEEEcChHHhhhH----HHHHHHHHcCCC----CEEE
Confidence 4555554444 458999999888876666666553 3567777742 22222 345555665555 8888
Q ss_pred ecCccccc
Q 014573 170 LWQTPFYD 177 (422)
Q Consensus 170 ~~~~~L~~ 177 (422)
++-..++.
T Consensus 97 VHiSNi~a 104 (141)
T TIGR01088 97 VHLSNVHA 104 (141)
T ss_pred EEcCCccc
Confidence 87555553
No 61
>PF00578 AhpC-TSA: AhpC/TSA family; InterPro: IPR000866 Peroxiredoxins (Prxs) are a ubiquitous family of antioxidant enzymes that also control cytokine-induced peroxide levels which mediate signal transduction in mammalian cells. Prxs can be regulated by changes to phosphorylation, redox and possibly oligomerisation states. Prxs are divided into three classes: typical 2-Cys Prxs; atypical 2-Cys Prxs; and 1-Cys Prxs. All Prxs share the same basic catalytic mechanism, in which an active-site cysteine (the peroxidatic cysteine) is oxidised to a sulphenic acid by the peroxide substrate. The recycling of the sulphenic acid back to a thiol is what distinguishes the three enzyme classes. Using crystal structures, a detailed catalytic cycle has been derived for typical 2-Cys Prxs, including a model for the redox-regulated oligomeric state proposed to control enzyme activity []. Alkyl hydroperoxide reductase (AhpC) is responsible for directly reducing organic hyperoxides in its reduced dithiol form. Thiol specific antioxidant (TSA) is a physiologically important antioxidant which constitutes an enzymatic defence against sulphur-containing radicals. This family contains AhpC and TSA, as well as related proteins.; GO: 0016209 antioxidant activity, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1QMV_A 1PRX_B 3HJP_C 3HA9_A 2V41_G 2V32_C 2V2G_C 3LWA_A 3IA1_B 1ZYE_G ....
Probab=31.34 E-value=1.6e+02 Score=23.86 Aligned_cols=44 Identities=20% Similarity=0.308 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHhCcc-EEEEc
Q 014573 95 IFALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKAT-SVFAE 138 (422)
Q Consensus 95 ~esL~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~~~~-~V~~~ 138 (422)
+..|.++.+++++.|+.++.+.-++.+.+.+++++++.. .++.+
T Consensus 45 l~~l~~~~~~~~~~~~~vi~is~d~~~~~~~~~~~~~~~~~~~~D 89 (124)
T PF00578_consen 45 LPELNELYKKYKDKGVQVIGISTDDPEEIKQFLEEYGLPFPVLSD 89 (124)
T ss_dssp HHHHHHHHHHHHTTTEEEEEEESSSHHHHHHHHHHHTCSSEEEEE
T ss_pred hhHHHHHhhhhccceEEeeecccccccchhhhhhhhccccccccC
Confidence 456888899999999999999888888999999998866 45554
No 62
>cd06542 GH18_EndoS-like Endo-beta-N-acetylglucosaminidases are bacterial chitinases that hydrolyze the chitin core of various asparagine (N)-linked glycans and glycoproteins. The endo-beta-N-acetylglucosaminidases have a glycosyl hydrolase family 18 (GH18) catalytic domain. Some members also have an additional C-terminal glycosyl hydrolase family 20 (GH20) domain while others have an N-terminal domain of unknown function (pfam08522). Members of this family include endo-beta-N-acetylglucosaminidase S (EndoS) from Streptococcus pyogenes, EndoF1, EndoF2, EndoF3, and EndoH from Flavobacterium meningosepticum, and EndoE from Enterococcus faecalis. EndoS is a secreted endoglycosidase from Streptococcus pyogenes that specifically hydrolyzes the glycan on human IgG between two core N-acetylglucosamine residues. EndoE is a secreted endoglycosidase, encoded by the ndoE gene in Enterococcus faecalis, that hydrolyzes the glycan on human RNase B.
Probab=30.99 E-value=4.6e+02 Score=24.69 Aligned_cols=88 Identities=13% Similarity=0.185 Sum_probs=54.7
Q ss_pred eEEEEEcC-C-------CCccCCHHHHHHHhcCCeEEEEEEcCCccccCCHhHHHHHHHHHHHHHHHHHhcCCcEEEEeC
Q 014573 46 SAVIWFKQ-D-------LRVDDHLGLVAASKYQAVVPLYVFDHRILSRYSNEMLELVIFALEDLRKSLKEQGSDLMIRFG 117 (422)
Q Consensus 46 ~~L~Wfr~-D-------LRl~DN~aL~~A~~~~~vl~vfi~dp~~~~~~~~~r~~Fl~esL~~L~~~L~~lg~~L~v~~G 117 (422)
..+.||++ | .++.+-| ..-.++++|--.+..- .... ..|+.+...+....|++.|+++++-.|
T Consensus 2 ~~~~y~~~~~~~~~~~~~~l~~~p------ds~D~v~lf~~~~~~~-~~~~--~~~~~~~~~~~i~~l~~kG~KVl~sig 72 (255)
T cd06542 2 ISFGYFEVWDDKGASLQESLLNLP------DSVDMVSLFAANINLD-AATA--VQFLLTNKETYIRPLQAKGTKVLLSIL 72 (255)
T ss_pred eEEEEEEecCCcCcccccccccCC------CcceEEEEcccccCcc-cccc--hhhhhHHHHHHHHHHhhCCCEEEEEEC
Confidence 35668875 3 5555544 2223556654444321 1111 568888888999999999999876542
Q ss_pred C------------H------HHHHHHHHHHhCccEEEEccccc
Q 014573 118 R------------V------ENVIRELVEEVKATSVFAEEEVE 142 (422)
Q Consensus 118 ~------------~------~~~l~~l~~~~~~~~V~~~~~~~ 142 (422)
- + .+.+..++++++.+-|-.+.|+.
T Consensus 73 g~~~~~~~~~~~~~~~~~~fa~~l~~~v~~yglDGiDiD~E~~ 115 (255)
T cd06542 73 GNHLGAGFANNLSDAAAKAYAKAIVDTVDKYGLDGVDFDDEYS 115 (255)
T ss_pred CCCCCCCccccCCHHHHHHHHHHHHHHHHHhCCCceEEeeeec
Confidence 1 1 23556677788888888877764
No 63
>PRK10517 magnesium-transporting ATPase MgtA; Provisional
Probab=30.08 E-value=2.1e+02 Score=32.94 Aligned_cols=38 Identities=26% Similarity=0.218 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHhCcc
Q 014573 96 FALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKAT 133 (422)
Q Consensus 96 esL~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~~~~ 133 (422)
+...+.-+.|++.|++..++.||....-..+|++.++.
T Consensus 553 ~~a~~aI~~l~~aGI~v~miTGD~~~tA~~IA~~lGI~ 590 (902)
T PRK10517 553 ETTAPALKALKASGVTVKILTGDSELVAAKVCHEVGLD 590 (902)
T ss_pred hhHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHcCCC
Confidence 55677777888899999999999999999999999996
No 64
>TIGR01545 YfhB_g-proteo haloacid dehalogenase superfamily, subfamily IF hydrolase, YfhB. The gene name comes from the E. coli gene. There is currently no information regarding the function of this gene.
Probab=29.98 E-value=1.1e+02 Score=28.50 Aligned_cols=41 Identities=17% Similarity=0.295 Sum_probs=27.3
Q ss_pred HHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHh---CccEEEEc
Q 014573 98 LEDLRKSLKEQGSDLMIRFGRVENVIRELVEEV---KATSVFAE 138 (422)
Q Consensus 98 L~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~---~~~~V~~~ 138 (422)
++-|++.|++.|.++.|..+.+...+..+++.. ++.+|+++
T Consensus 100 ~e~L~~~l~~~G~~v~IvSas~~~~~~~ia~~~~~~~~~~~i~t 143 (210)
T TIGR01545 100 AERLRQYLESSDADIWLITGSPQPLVEAVYFDSNFIHRLNLIAS 143 (210)
T ss_pred HHHHHHHHHhCCCEEEEEcCCcHHHHHHHHHhccccccCcEEEE
Confidence 334445667778888888888888888888763 33555544
No 65
>PF08765 Mor: Mor transcription activator family; InterPro: IPR014875 Mor (Middle operon regulator) is a sequence specific DNA binding protein. It mediates transcription activation through its interactions with the C-terminal domains of the alpha and sigma subunits of bacterial RNA polymerase. The N-terminal region of Mor is the dimerisation region, and the C-terminal contains a helix-turn-helix motif which binds DNA []. ; PDB: 1RR7_A.
Probab=29.30 E-value=2.5e+02 Score=23.02 Aligned_cols=68 Identities=12% Similarity=0.001 Sum_probs=40.5
Q ss_pred HHHHHHHHHHHHHHHHHhcC-CcEEEEeCCHHHHHHHHHHHhCccEEEEccccchhHHHHHHHHHHHhh
Q 014573 90 MLELVIFALEDLRKSLKEQG-SDLMIRFGRVENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLA 157 (422)
Q Consensus 90 r~~Fl~esL~~L~~~L~~lg-~~L~v~~G~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~ 157 (422)
+..+|.+-...+...|.+.| +.=-+..--..+++..|++.++-..||+-.........++..|.+.+.
T Consensus 3 ~~e~l~~l~~~i~~~l~~~g~i~~~~a~~ig~~~~~~L~~~~gG~~iyiP~~~~~~~~~R~~~I~~~f~ 71 (108)
T PF08765_consen 3 WPELLSELADVIAAELERLGEIDAELAEIIGEEVALKLCRYFGGQQIYIPKCDRLLRALRNREIRREFN 71 (108)
T ss_dssp HHHHHHHHHHHHHHHHHHTS-S-----TTSHHHHHHHHHHHH-SS------SHHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHHHHHHHHHcCCcchhHHHHHHHHHHHHHHHHHCCEeEEeeCccHHHHHHHHHHHHHHhC
Confidence 34456666666778888888 654444445668889999999999999987776677777778877665
No 66
>cd00466 DHQase_II Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway and the catabolic quinate pathway. There are two types of DHQases, which are distinct from each other in amino acid sequence and three-dimensional structure. Type I enzymes usually catalyze the biosynthetic reaction using a syn elimination mechanism. In contrast, type II enzymes, found in the quinate pathway of fungi and in the shikimate pathway of many bacteria, are dodecameric enzymes that employ an anti elimination reaction mechanism.
Probab=28.75 E-value=4e+02 Score=23.36 Aligned_cols=73 Identities=19% Similarity=0.251 Sum_probs=43.9
Q ss_pred HHHHHHHHHH----hcCCcEEEEeCCHHHHHHHHHHHh--CccEEEEccc-cchhHHHHHHHHHHHhhhcCCCCCCceeE
Q 014573 97 ALEDLRKSLK----EQGSDLMIRFGRVENVIRELVEEV--KATSVFAEEE-VEYHLRQMMAIVDETLAKVSLVDGKPKIC 169 (422)
Q Consensus 97 sL~~L~~~L~----~lg~~L~v~~G~~~~~l~~l~~~~--~~~~V~~~~~-~~~~~~~~d~~v~~~l~~~gi~~~~~~~~ 169 (422)
+|.++.+.|+ ++|+.+.++..+.+-.|.+.+++. +++.|+.|-- |+.. --++..++...++ +++.
T Consensus 25 tl~~i~~~l~~~a~~~g~~v~~~QSN~Egelid~I~~a~~~~dgiIINpga~THt----SvAi~DAl~~~~~----P~VE 96 (140)
T cd00466 25 TLADIEALLRELAAELGVEVEFFQSNHEGELIDWIHEARDGADGIIINPGAYTHT----SIALRDALAAVSI----PVIE 96 (140)
T ss_pred CHHHHHHHHHHHHHHcCCEEEEEeeCcHHHHHHHHHHhhccCcEEEEcchHHHHH----HHHHHHHHHcCCC----CEEE
Confidence 3444444444 468999999877776665555443 4677888742 2222 2345566665555 8888
Q ss_pred ecCccccc
Q 014573 170 LWQTPFYD 177 (422)
Q Consensus 170 ~~~~~L~~ 177 (422)
++-...+.
T Consensus 97 VHiSNi~a 104 (140)
T cd00466 97 VHISNIHA 104 (140)
T ss_pred EecCCccc
Confidence 87555543
No 67
>TIGR03333 salvage_mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase. Members of this family are the methionine salvage enzyme MnxX, a member of the HAD-superfamily hydrolases, subfamily IB (see TIGR01488). Members are found in Bacillus subtilis and related species, paired with MtnW (TIGR03332). In most species that recycle methionine from methylthioadenosine, the single protein MtnC replaces the MtnW/MtnX pair. In B. subtilis, mtnX was first known as ykrX.
Probab=28.06 E-value=1e+02 Score=28.40 Aligned_cols=35 Identities=14% Similarity=0.288 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHh
Q 014573 96 FALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEV 130 (422)
Q Consensus 96 esL~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~ 130 (422)
.++.++-+.|++.|+++.|..+.....+..+++.+
T Consensus 73 pg~~e~l~~l~~~g~~~~IvS~~~~~~i~~il~~~ 107 (214)
T TIGR03333 73 EGFREFVAFINEHGIPFYVISGGMDFFVYPLLEGI 107 (214)
T ss_pred ccHHHHHHHHHHCCCeEEEECCCcHHHHHHHHHhh
Confidence 44555555566666666666666555555555543
No 68
>TIGR01497 kdpB K+-transporting ATPase, B subunit. One sequence is apparently mis-annotated in the primary literature, but properly annotated by TIGR.
Probab=28.05 E-value=1.1e+02 Score=33.93 Aligned_cols=50 Identities=12% Similarity=0.103 Sum_probs=40.7
Q ss_pred HHHHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHhCccEEEEccccchhHHH
Q 014573 96 FALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATSVFAEEEVEYHLRQ 147 (422)
Q Consensus 96 esL~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~ 147 (422)
....+.-+.|++.|+...++.||.......++++.+++.++.+ ..|..+.
T Consensus 449 p~a~eaI~~l~~~Gi~v~miTGD~~~ta~~iA~~lGI~~v~a~--~~PedK~ 498 (675)
T TIGR01497 449 GGIKERFAQLRKMGIKTIMITGDNRLTAAAIAAEAGVDDFIAE--ATPEDKI 498 (675)
T ss_pred hHHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHcCCCEEEcC--CCHHHHH
Confidence 4466667778888999999999999999999999999998874 4454443
No 69
>PRK09484 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional
Probab=28.03 E-value=1.6e+02 Score=26.54 Aligned_cols=55 Identities=15% Similarity=0.309 Sum_probs=38.7
Q ss_pred HHHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHhCccEEEEccccchhHHHHHHHHHHHhhhcCC
Q 014573 97 ALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVSL 161 (422)
Q Consensus 97 sL~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~gi 161 (422)
++..|+ +.|+.+.|..|.+...+..++++.++..++...+. .-..+.+.+++.|+
T Consensus 56 ~i~~L~----~~Gi~v~I~T~~~~~~v~~~l~~lgl~~~f~g~~~------k~~~l~~~~~~~gl 110 (183)
T PRK09484 56 GIRCLL----TSGIEVAIITGRKSKLVEDRMTTLGITHLYQGQSN------KLIAFSDLLEKLAI 110 (183)
T ss_pred HHHHHH----HCCCEEEEEeCCCcHHHHHHHHHcCCceeecCCCc------HHHHHHHHHHHhCC
Confidence 555554 57999999999999999999999999877753221 12455566665544
No 70
>PRK13015 3-dehydroquinate dehydratase; Reviewed
Probab=27.98 E-value=4.3e+02 Score=23.39 Aligned_cols=73 Identities=15% Similarity=0.216 Sum_probs=43.1
Q ss_pred HHHHHHHHH----HhcCCcEEEEeCCHHHHHHHHHHHh--CccEEEEccc-cchhHHHHHHHHHHHhhhcCCCCCCceeE
Q 014573 97 ALEDLRKSL----KEQGSDLMIRFGRVENVIRELVEEV--KATSVFAEEE-VEYHLRQMMAIVDETLAKVSLVDGKPKIC 169 (422)
Q Consensus 97 sL~~L~~~L----~~lg~~L~v~~G~~~~~l~~l~~~~--~~~~V~~~~~-~~~~~~~~d~~v~~~l~~~gi~~~~~~~~ 169 (422)
+|.++.+.| +++|..+.++..+.+-.|.+.+++. +++.|+.|-- ++.+. -+++.++...++ +++.
T Consensus 27 tl~~i~~~~~~~a~~~g~~~~~~QSN~EGelId~i~~a~~~~dgiIINpga~THtS----iAl~DAl~~~~~----P~VE 98 (146)
T PRK13015 27 TLADVEALCRAAAEALGLEVEFRQSNHEGELIDWIHEARGDVAGIVINPGAYTHTS----VAIRDALAALEL----PVIE 98 (146)
T ss_pred CHHHHHHHHHHHHHHcCCEEEEEeeCcHHHHHHHHHHhhhcCCEEEEcchHHhhhH----HHHHHHHHcCCC----CEEE
Confidence 344444444 4458999999877776665555442 4677887743 22222 245555655555 8888
Q ss_pred ecCccccc
Q 014573 170 LWQTPFYD 177 (422)
Q Consensus 170 ~~~~~L~~ 177 (422)
++-..++.
T Consensus 99 VHiSNi~a 106 (146)
T PRK13015 99 VHISNVHA 106 (146)
T ss_pred EEcCCccc
Confidence 87555543
No 71
>cd06294 PBP1_ycjW_transcription_regulator_like Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors. This group includes the ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=27.17 E-value=3.2e+02 Score=25.11 Aligned_cols=70 Identities=13% Similarity=0.227 Sum_probs=42.3
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEeCC-H---HHHHHHHHHHhCccEEEEccccchhHHHHHHHHHHHhhhcCCCCCCcee
Q 014573 93 LVIFALEDLRKSLKEQGSDLMIRFGR-V---ENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVSLVDGKPKI 168 (422)
Q Consensus 93 Fl~esL~~L~~~L~~lg~~L~v~~G~-~---~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~gi~~~~~~~ 168 (422)
|..+-+..+++.+++.|..+.+..++ + .+.+.+++...+++.|+....... ..+.+.+.+.|+ +++
T Consensus 18 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dgiii~~~~~~------~~~~~~~~~~~i----pvV 87 (270)
T cd06294 18 FFIEVLRGISAVANENGYDISLATGKNEEELLEEVKKMIQQKRVDGFILLYSRED------DPIIDYLKEEKF----PFV 87 (270)
T ss_pred CHHHHHHHHHHHHHHCCCEEEEecCCCcHHHHHHHHHHHHHcCcCEEEEecCcCC------cHHHHHHHhcCC----CEE
Confidence 55666778888888899998876542 2 234555566667888777532111 122333445565 777
Q ss_pred EecC
Q 014573 169 CLWQ 172 (422)
Q Consensus 169 ~~~~ 172 (422)
.+..
T Consensus 88 ~~~~ 91 (270)
T cd06294 88 VIGK 91 (270)
T ss_pred EECC
Confidence 7643
No 72
>PRK11590 hypothetical protein; Provisional
Probab=27.08 E-value=1.3e+02 Score=27.65 Aligned_cols=41 Identities=15% Similarity=0.255 Sum_probs=28.2
Q ss_pred HHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHhC---ccEEEEcc
Q 014573 99 EDLRKSLKEQGSDLMIRFGRVENVIRELVEEVK---ATSVFAEE 139 (422)
Q Consensus 99 ~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~~---~~~V~~~~ 139 (422)
+-|++.|++.|..+.|..+.+...+..+++..+ +.+|++++
T Consensus 102 e~L~~~l~~~G~~l~IvSas~~~~~~~il~~l~~~~~~~~i~t~ 145 (211)
T PRK11590 102 ERLTTYLLSSDADVWLITGSPQPLVEQVYFDTPWLPRVNLIASQ 145 (211)
T ss_pred HHHHHHHHhCCCEEEEEeCCcHHHHHHHHHHccccccCceEEEE
Confidence 334456667788888888888877777777766 35666554
No 73
>PRK15122 magnesium-transporting ATPase; Provisional
Probab=26.84 E-value=2.5e+02 Score=32.32 Aligned_cols=38 Identities=18% Similarity=0.176 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHhCcc
Q 014573 96 FALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKAT 133 (422)
Q Consensus 96 esL~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~~~~ 133 (422)
+...+.-++|++.|++..++.||....-..++++.++.
T Consensus 553 ~~a~~aI~~l~~aGI~v~miTGD~~~tA~aIA~~lGI~ 590 (903)
T PRK15122 553 ESAAPAIAALRENGVAVKVLTGDNPIVTAKICREVGLE 590 (903)
T ss_pred HHHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCC
Confidence 45667777888899999999999999999999999996
No 74
>cd01017 AdcA Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and they bind their ligand in the cleft between these domains. In addition, many of these proteins have a low complexity region containing metal binding histidine-rich motif (repetitive HDH sequence).
Probab=26.57 E-value=5.5e+02 Score=24.68 Aligned_cols=43 Identities=14% Similarity=0.143 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHhcCCcEEEEe-CCHHHHHHHHHHHhCccEEEEc
Q 014573 96 FALEDLRKSLKEQGSDLMIRF-GRVENVIRELVEEVKATSVFAE 138 (422)
Q Consensus 96 esL~~L~~~L~~lg~~L~v~~-G~~~~~l~~l~~~~~~~~V~~~ 138 (422)
+.|.++.+.+++.|++.++.. ..+...+..++++.++..+..+
T Consensus 207 ~~l~~l~~~ik~~~v~~if~e~~~~~~~~~~la~~~g~~v~~ld 250 (282)
T cd01017 207 KQLAELVEFVKKSDVKYIFFEENASSKIAETLAKETGAKLLVLN 250 (282)
T ss_pred HHHHHHHHHHHHcCCCEEEEeCCCChHHHHHHHHHcCCcEEEec
Confidence 357788888999999987775 4455777888999998877654
No 75
>cd06279 PBP1_LacI_like_3 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=26.37 E-value=3.8e+02 Score=25.18 Aligned_cols=71 Identities=15% Similarity=0.123 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHhCccEEEEccccchhHHHHHHHHHHHhhhcCCCCCCceeEec
Q 014573 92 ELVIFALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVSLVDGKPKICLW 171 (422)
Q Consensus 92 ~Fl~esL~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~gi~~~~~~~~~~ 171 (422)
.|..+-+..+.+.+++.|..+.+...+......+.+...+++.|+....... +.. .+.+...++ +++.+.
T Consensus 17 ~~~~~~~~gi~~~a~~~g~~~~~~~~~~~~~~~~~~~~~~~dgiii~~~~~~-----~~~-~~~~~~~~i----pvV~~~ 86 (283)
T cd06279 17 PVASQFLAGVAEVLDAAGVNLLLLPASSEDSDSALVVSALVDGFIVYGVPRD-----DPL-VAALLRRGL----PVVVVD 86 (283)
T ss_pred ccHHHHHHHHHHHHHHCCCEEEEecCccHHHHHHHHHhcCCCEEEEeCCCCC-----hHH-HHHHHHcCC----CEEEEe
Confidence 3666777888899999999998887654333334455678998887543211 112 233444555 777664
Q ss_pred C
Q 014573 172 Q 172 (422)
Q Consensus 172 ~ 172 (422)
.
T Consensus 87 ~ 87 (283)
T cd06279 87 Q 87 (283)
T ss_pred c
Confidence 3
No 76
>PRK08384 thiamine biosynthesis protein ThiI; Provisional
Probab=25.41 E-value=3.4e+02 Score=27.86 Aligned_cols=70 Identities=13% Similarity=0.215 Sum_probs=46.2
Q ss_pred HhHHHHHHHHHHHHHHHHHhcCC----------cEEEEeCCHHHHHHHHHHHhCccEEEEccccchhHHHHHHHHHHHhh
Q 014573 88 NEMLELVIFALEDLRKSLKEQGS----------DLMIRFGRVENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLA 157 (422)
Q Consensus 88 ~~r~~Fl~esL~~L~~~L~~lg~----------~L~v~~G~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~ 157 (422)
..|.+|...-+.+++..|+.+|+ +++|...++.+++..|.+-.+|..+.--..++.......+.+.+.+.
T Consensus 18 ~~R~~fe~~L~~Ni~~~l~~~~~~~~~v~~~~~ri~v~~~~~~~~~~~l~~vfGI~~~s~~~~~~~~~~~i~~~~~~~~~ 97 (381)
T PRK08384 18 QTRRWFENILMNNIREALVSEGIEFKKVEAKHGRILVKTNRAEEAVEVLTRVFGIVSLSPAMEIDAELEKINRTALKLFR 97 (381)
T ss_pred chHHHHHHHHHHHHHHHHHhcCCccceEEEECCEEEEEcCCHHHHHHHHhhCCCceeEEEEEEeCCCHHHHHHHHHHHHH
Confidence 33888998889999999999873 35555445556777888888988775554555443333344444443
No 77
>TIGR02137 HSK-PSP phosphoserine phosphatase/homoserine phosphotransferase bifunctional protein. This enzyme is a member of the haloacid dehalogenase (HAD) superfamily, specifically part of subfamily IB by virtue of the presence of an alpha helical domain in between motifs I and II of the HAD domain . The closest homologs to this family are monofunctional phosphoserine phosphatases (TIGR00338).
Probab=24.78 E-value=74 Score=29.41 Aligned_cols=43 Identities=9% Similarity=0.126 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHhCccEEEEc
Q 014573 95 IFALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATSVFAE 138 (422)
Q Consensus 95 ~esL~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~~~~~V~~~ 138 (422)
..+..++-+.|++.| ++.|+.|.....+..++++.+++.++.|
T Consensus 70 ~pga~ell~~lk~~~-~~~IVS~~~~~~~~~il~~lgi~~~~an 112 (203)
T TIGR02137 70 LEGAVEFVDWLRERF-QVVILSDTFYEFSQPLMRQLGFPTLLCH 112 (203)
T ss_pred CccHHHHHHHHHhCC-eEEEEeCChHHHHHHHHHHcCCchhhce
Confidence 445666777777754 8888888888888888998888877764
No 78
>cd00008 53EXOc 5'-3' exonuclease; T5 type 5'-3' exonuclease domains may co-occur with DNA polymerase I (Pol I) domains, or be part of Pol I containing complexes. They digest dsDNA and ssDNA, releasing mono-,di- and tri-nucleotides, as well as oligonucleotides, and have also been reported to possess RNase H activity. Also called 5' nuclease family, involved in structure-specific cleavage of flaps formed by Pol I activity (similar to mammalian flap endonuclease I, FEN-1). A single nucleic acid strand may be threaded through the 5' nuclease enzyme before cleavage occurs. The domain binds two divalent metal ions which are necessary for activity.
Probab=24.51 E-value=4.9e+02 Score=24.66 Aligned_cols=72 Identities=18% Similarity=0.245 Sum_probs=46.4
Q ss_pred CCeEEEEEEcCC--cccc-----C-C--HhHHHHHHHHHHHHHHHHHhcCCcEEEEeC-CHHHHHHHHHHHh---CccEE
Q 014573 70 QAVVPLYVFDHR--ILSR-----Y-S--NEMLELVIFALEDLRKSLKEQGSDLMIRFG-RVENVIRELVEEV---KATSV 135 (422)
Q Consensus 70 ~~vl~vfi~dp~--~~~~-----~-~--~~r~~Fl~esL~~L~~~L~~lg~~L~v~~G-~~~~~l~~l~~~~---~~~~V 135 (422)
.+-.++++||.. .+.. . + ...-.-+.+.+..+++-|+.+|++.+...| +..+++..|+... +...+
T Consensus 49 ~p~~~~~~fD~~~~~~R~~l~p~YK~~R~~~p~~l~~q~~~~~~~l~~~gi~~i~~~~~EADD~ia~la~~~~~~g~~~~ 128 (240)
T cd00008 49 KPTYVAVVFDAGGKTFRHELYPEYKANRKKMPEELREQIPLIKELLEALGIPVLEIEGYEADDVIGTLAKKAEAEGYKVV 128 (240)
T ss_pred CCCeEEEEEeCCCCcccccccHHHHcCCCCCCHHHHHHHHHHHHHHHHCCCCEEecCCcCHHHHHHHHHHHHHHcCCeEE
Confidence 466778888864 3321 0 1 112334567889999999999999888777 7777888887643 33444
Q ss_pred EEcccc
Q 014573 136 FAEEEV 141 (422)
Q Consensus 136 ~~~~~~ 141 (422)
+++.|.
T Consensus 129 I~S~Dk 134 (240)
T cd00008 129 IVSGDK 134 (240)
T ss_pred EEeCCC
Confidence 555443
No 79
>COG0546 Gph Predicted phosphatases [General function prediction only]
Probab=23.58 E-value=81 Score=29.26 Aligned_cols=40 Identities=20% Similarity=0.246 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHhCccE
Q 014573 95 IFALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATS 134 (422)
Q Consensus 95 ~esL~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~~~~~ 134 (422)
+.++.++=..|++.|++|.|..+++...+..+++.+++..
T Consensus 91 ~~gv~e~L~~L~~~g~~l~i~T~k~~~~~~~~l~~~gl~~ 130 (220)
T COG0546 91 FPGVKELLAALKSAGYKLGIVTNKPERELDILLKALGLAD 130 (220)
T ss_pred CCCHHHHHHHHHhCCCeEEEEeCCcHHHHHHHHHHhCCcc
Confidence 3445566666777777777777777777777777766653
No 80
>CHL00090 apcD allophycocyanin gamma subunit
Probab=23.31 E-value=5.2e+02 Score=23.12 Aligned_cols=71 Identities=18% Similarity=0.295 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHHHhcCCcchhhHHHHHhhhcccCCCCCCCCCCCchhhhcCCccHHHHHHHHHHHHHHhcCCCCCCCCCC
Q 014573 295 NAVLNALQAYLRYLEGTVRDDWQELQEKLRNAESRDGASFATLFGPALCLGIISRRGVHYEAIKFEKERNAGFLSPFGYS 374 (422)
Q Consensus 295 ~~Al~~L~~fl~~~~~~~~~~Y~~~Rn~~r~~~t~~~~~~tS~LSPyLa~G~IS~R~i~~~l~~~e~~~~~n~~~~~g~s 374 (422)
...++.|+.|++.++ .++..|+..++. .-.|+.++.+---....+.+.|.| .
T Consensus 20 ~~EL~~l~~~~~~~~-~Rl~aa~~l~~n--------------------------a~~IV~~A~~~l~~~~P~l~~~Gg-~ 71 (161)
T CHL00090 20 IGELESIQDYLKTGE-KRIRIATILRDN--------------------------EKEIIQKASKQLFQIHPEYIAPGG-N 71 (161)
T ss_pred HHHHHHHHHHHHhHH-HHhHHHHHHHHH--------------------------HHHHHHHHHHHHHHHCcCccCCCC-C
Confidence 345788999986322 466777776631 234666664421122345555543 3
Q ss_pred hhhHHHHHHHHHHHHHHHHHH
Q 014573 375 AATIAAAADAVCSMEWYWLMS 395 (422)
Q Consensus 375 t~~~~~~~~ELlWReFy~~~~ 395 (422)
.++ +=..+.+|||+.+++-
T Consensus 72 ~y~--~~r~~aC~RD~~~~LR 90 (161)
T CHL00090 72 ASG--SRQRSLCLRDYGWYLR 90 (161)
T ss_pred Ccc--hHHHHHHHHhHHHhhh
Confidence 343 2359999999776654
No 81
>TIGR01524 ATPase-IIIB_Mg magnesium-translocating P-type ATPase. The magnesium ATPases have been classified as type IIIB by a phylogenetic analysis.
Probab=22.77 E-value=3.3e+02 Score=31.15 Aligned_cols=38 Identities=18% Similarity=0.201 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHhCcc
Q 014573 96 FALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKAT 133 (422)
Q Consensus 96 esL~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~~~~ 133 (422)
+...+.-++|++.|++..++.||....-..++++.++.
T Consensus 518 ~~~~~aI~~l~~aGI~vvmiTGD~~~tA~aIA~~lGI~ 555 (867)
T TIGR01524 518 ESTKEAIAALFKNGINVKVLTGDNEIVTARICQEVGID 555 (867)
T ss_pred hhHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHcCCC
Confidence 44666777788899999999999999999999999996
No 82
>TIGR01647 ATPase-IIIA_H plasma-membrane proton-efflux P-type ATPase. This model describes the plasma membrane proton efflux P-type ATPase found in plants, fungi, protozoa, slime molds and archaea. The best studied representative is from yeast.
Probab=22.31 E-value=3.3e+02 Score=30.63 Aligned_cols=39 Identities=8% Similarity=0.140 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHhCccE
Q 014573 96 FALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATS 134 (422)
Q Consensus 96 esL~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~~~~~ 134 (422)
+...+.-+.|++.|++..++.||....-..++++.++..
T Consensus 445 ~~a~~aI~~l~~aGI~v~miTGD~~~tA~~IA~~lGI~~ 483 (755)
T TIGR01647 445 HDTKETIERARHLGVEVKMVTGDHLAIAKETARRLGLGT 483 (755)
T ss_pred hhHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCCC
Confidence 345666677888999999999999999999999999864
No 83
>cd06297 PBP1_LacI_like_12 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs. Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=21.92 E-value=4.9e+02 Score=24.17 Aligned_cols=71 Identities=14% Similarity=0.052 Sum_probs=45.0
Q ss_pred HHHHHHHHHHHHHHHhcCCcEEEEeCCH----HHHHHHHHHHhCccEEEEccccchhHHHHHHHHHHHhhhcCCCCCCce
Q 014573 92 ELVIFALEDLRKSLKEQGSDLMIRFGRV----ENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVSLVDGKPK 167 (422)
Q Consensus 92 ~Fl~esL~~L~~~L~~lg~~L~v~~G~~----~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~gi~~~~~~ 167 (422)
.|..+-+..+.+.++++|..+.+...+. .+.+.++....+++.|++... ... ....+.+.+.++ ++
T Consensus 12 ~~~~~~~~~i~~~~~~~gy~~~~~~~~~~~~~~~~~~~~l~~~~vdgvi~~~~-~~~-----~~~~~~l~~~~i----Pv 81 (269)
T cd06297 12 EFYRRLLEGIEGALLEQRYDLALFPLLSLARLKRYLESTTLAYLTDGLLLASY-DLT-----ERLAERRLPTER----PV 81 (269)
T ss_pred hhHHHHHHHHHHHHHHCCCEEEEEeCCCcHHHHHHHHHHHHhcCCCEEEEecC-ccC-----hHHHHHHhhcCC----CE
Confidence 3667778899999999999998876432 234444455678998888642 111 122333455555 77
Q ss_pred eEecC
Q 014573 168 ICLWQ 172 (422)
Q Consensus 168 ~~~~~ 172 (422)
+.+..
T Consensus 82 v~~~~ 86 (269)
T cd06297 82 VLVDA 86 (269)
T ss_pred EEEcc
Confidence 77753
No 84
>cd03018 PRX_AhpE_like Peroxiredoxin (PRX) family, AhpE-like subfamily; composed of proteins similar to Mycobacterium tuberculosis AhpE. AhpE is described as a 1-cys PRX because of the absence of a resolving cysteine. The structure and sequence of AhpE, however, show greater similarity to 2-cys PRXs than 1-cys PRXs. PRXs are thiol-specific antioxidant (TSA) proteins that confer a protective role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF. The first step of catalysis is the nucleophilic attack by the peroxidatic cysteine on the peroxide leading to the formation of a cysteine sulfenic acid intermediate. The absence of a resolving cysteine suggests that functional AhpE is regenerated by an external reductant. The solution behavior and crystal structure of AhpE show that it forms dimers and octamers.
Probab=21.84 E-value=2.6e+02 Score=23.50 Aligned_cols=44 Identities=18% Similarity=0.107 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHhCccEEEE
Q 014573 94 VIFALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATSVFA 137 (422)
Q Consensus 94 l~esL~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~~~~~V~~ 137 (422)
.+..|.++.+++.+.|+.++.+..++.+.+.+++++++..-.+.
T Consensus 47 ~~~~l~~~~~~~~~~~v~vi~vs~d~~~~~~~~~~~~~~~~~~~ 90 (149)
T cd03018 47 ELCALRDSLELFEAAGAEVLGISVDSPFSLRAWAEENGLTFPLL 90 (149)
T ss_pred HHHHHHHHHHHHHhCCCEEEEecCCCHHHHHHHHHhcCCCceEe
Confidence 44678888888888899988887777788888998887764444
No 85
>TIGR01489 DKMTPPase-SF 2,3-diketo-5-methylthio-1-phosphopentane phosphatase. Note that SP|P53981 from S. cerevisiae, a member of this family, is annotated as a "probable membrane protein" due to a predicted transmembrane helix. The region in question contains the second of the three conserved HAD superfamily catalytic motifs and thus, considering the fold of the HAD catalytic domain, is unlikely to be a transmembrane region in fact.
Probab=21.80 E-value=1.1e+02 Score=26.90 Aligned_cols=36 Identities=17% Similarity=0.310 Sum_probs=19.7
Q ss_pred HHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHhCcc
Q 014573 98 LEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKAT 133 (422)
Q Consensus 98 L~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~~~~ 133 (422)
+.++-+.|++.|+++.|..+.....+..+++..++.
T Consensus 77 ~~~ll~~l~~~g~~~~i~S~~~~~~~~~~l~~~~l~ 112 (188)
T TIGR01489 77 FKEFIAFIKEHGIDFIVISDGNDFFIDPVLEGIGEK 112 (188)
T ss_pred HHHHHHHHHHcCCcEEEEeCCcHHHHHHHHHHcCCh
Confidence 344445555556666666655555555555555443
No 86
>PF01596 Methyltransf_3: O-methyltransferase; InterPro: IPR002935 Members of this family are O-methyltransferases. The family includes also bacterial O-methyltransferases that may be involved in antibiotic production [].; GO: 0008171 O-methyltransferase activity; PDB: 1SUI_C 1SUS_D 3CBG_A 2GPY_B 3TR6_A 2AVD_A 3DUL_B 3DUW_B 2ZTH_A 1VID_A ....
Probab=21.71 E-value=4.4e+02 Score=24.39 Aligned_cols=51 Identities=16% Similarity=0.122 Sum_probs=37.7
Q ss_pred CcEEEEeCCHHHHHHHHHHHh---CccEEEEccccchhHHHHHHHHHHHhhhcCC
Q 014573 110 SDLMIRFGRVENVIRELVEEV---KATSVFAEEEVEYHLRQMMAIVDETLAKVSL 161 (422)
Q Consensus 110 ~~L~v~~G~~~~~l~~l~~~~---~~~~V~~~~~~~~~~~~~d~~v~~~l~~~gi 161 (422)
.+..++.|+..++|++|..+. ..+-||.+.+-..|....+ .+...+...|+
T Consensus 97 ~~I~~~~gda~~~l~~l~~~~~~~~fD~VFiDa~K~~y~~y~~-~~~~ll~~ggv 150 (205)
T PF01596_consen 97 DRIEVIEGDALEVLPELANDGEEGQFDFVFIDADKRNYLEYFE-KALPLLRPGGV 150 (205)
T ss_dssp GGEEEEES-HHHHHHHHHHTTTTTSEEEEEEESTGGGHHHHHH-HHHHHEEEEEE
T ss_pred CcEEEEEeccHhhHHHHHhccCCCceeEEEEcccccchhhHHH-HHhhhccCCeE
Confidence 368889999999999999876 4889999988776666554 44466665553
No 87
>PLN02781 Probable caffeoyl-CoA O-methyltransferase
Probab=21.43 E-value=4.4e+02 Score=24.78 Aligned_cols=62 Identities=8% Similarity=0.027 Sum_probs=40.9
Q ss_pred HHHHHHHHHhcCC--cEEEEeCCHHHHHHHHHHH---hCccEEEEccccchhHHHHHHHHHHHhhhcC
Q 014573 98 LEDLRKSLKEQGS--DLMIRFGRVENVIRELVEE---VKATSVFAEEEVEYHLRQMMAIVDETLAKVS 160 (422)
Q Consensus 98 L~~L~~~L~~lg~--~L~v~~G~~~~~l~~l~~~---~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~g 160 (422)
++..++.+++.|. ...++.|+..+.+.+++.. -..+.||.+.+-..+..- .+.+.+.++..|
T Consensus 106 ~~~A~~n~~~~gl~~~i~~~~gda~~~L~~l~~~~~~~~fD~VfiDa~k~~y~~~-~~~~~~ll~~GG 172 (234)
T PLN02781 106 YEVGLEFIKKAGVDHKINFIQSDALSALDQLLNNDPKPEFDFAFVDADKPNYVHF-HEQLLKLVKVGG 172 (234)
T ss_pred HHHHHHHHHHcCCCCcEEEEEccHHHHHHHHHhCCCCCCCCEEEECCCHHHHHHH-HHHHHHhcCCCe
Confidence 3445555566665 4778899999999998764 367889998765555433 344455565444
No 88
>TIGR01511 ATPase-IB1_Cu copper-(or silver)-translocating P-type ATPase. One member from Halobacterium is annotated as "molybdenum-binding protein" although no evidence can be found for this classification.
Probab=21.37 E-value=2.6e+02 Score=30.14 Aligned_cols=41 Identities=17% Similarity=0.260 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHhCccEEEE
Q 014573 96 FALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATSVFA 137 (422)
Q Consensus 96 esL~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~~~~~V~~ 137 (422)
....++=+.|++.|+++.+..|+.......++++++++ ++.
T Consensus 408 ~~a~e~i~~Lk~~Gi~v~ilSgd~~~~a~~ia~~lgi~-~~~ 448 (562)
T TIGR01511 408 PEAKEVIQALKRRGIEPVMLTGDNRKTAKAVAKELGIN-VRA 448 (562)
T ss_pred HHHHHHHHHHHHcCCeEEEEcCCCHHHHHHHHHHcCCc-EEc
Confidence 45666667778889999999999999999999999997 444
No 89
>TIGR03707 PPK2_P_aer polyphosphate kinase 2, PA0141 family. Members of this protein family are designated polyphosphate kinase 2 (PPK2) after the characterized protein in Pseudomonas aeruginosa. This family comprises one of three well-separated clades in the larger family described by Pfam model pfam03976. PA0141 from this family has been shown capable of operating in reverse, with GDP preferred (over ADP) as a substrate, producing GTP (or ATP) by transfer of a phosphate residue from polyphosphate. Most species with a member of this family also encode a polyphosphate kinase 1 (PPK1).
Probab=21.33 E-value=5.9e+02 Score=24.19 Aligned_cols=71 Identities=21% Similarity=0.228 Sum_probs=47.9
Q ss_pred HHHHHHHHHHHHHHHHHhcCCcEEEE-eCC----HHHHHHHHHHHhCccEE--EEccccchhHHHHH--HHHHHHhhhcC
Q 014573 90 MLELVIFALEDLRKSLKEQGSDLMIR-FGR----VENVIRELVEEVKATSV--FAEEEVEYHLRQMM--AIVDETLAKVS 160 (422)
Q Consensus 90 r~~Fl~esL~~L~~~L~~lg~~L~v~-~G~----~~~~l~~l~~~~~~~~V--~~~~~~~~~~~~~d--~~v~~~l~~~g 160 (422)
+..=|.+.|.+|+..|.+.|++++|+ .|- --.++..|++..+...+ +.-..+...|++++ -+..+.++..|
T Consensus 10 ~l~~L~~~L~~lQ~~l~~~~~~vlIv~eG~DaAGKg~~I~~l~~~lDPRg~~v~~~~~pt~eE~~~p~lwRfw~~lP~~G 89 (230)
T TIGR03707 10 ELERLQIELVKLQAWVKETGARVVIVFEGRDAAGKGGTIKRITEHLNPRGARVVALPKPSDRERTQWYFQRYVQHLPAAG 89 (230)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCEEEEEeCCCCCCchHHHHHHHHhcCCCeeEEEeCCCCCHHHHcChHHHHHHHhCCCCC
Confidence 44556778999999999999997765 431 12678888888877644 44444455555544 45666777665
No 90
>PRK09552 mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase; Reviewed
Probab=21.12 E-value=1.4e+02 Score=27.57 Aligned_cols=34 Identities=12% Similarity=0.274 Sum_probs=17.5
Q ss_pred HHHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHh
Q 014573 97 ALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEV 130 (422)
Q Consensus 97 sL~~L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~ 130 (422)
++.++=+.|++.|+++.|..+.....+..+++.+
T Consensus 78 G~~e~l~~l~~~g~~~~IvS~~~~~~i~~il~~~ 111 (219)
T PRK09552 78 GFHEFVQFVKENNIPFYVVSGGMDFFVYPLLQGL 111 (219)
T ss_pred CHHHHHHHHHHcCCeEEEECCCcHHHHHHHHHHh
Confidence 4444555555555555555555554555544443
No 91
>PRK11133 serB phosphoserine phosphatase; Provisional
Probab=21.05 E-value=1.6e+02 Score=29.39 Aligned_cols=9 Identities=0% Similarity=-0.319 Sum_probs=4.3
Q ss_pred ccceeeecc
Q 014573 26 YKCVCCVSP 34 (422)
Q Consensus 26 ~~~~~~~~~ 34 (422)
.+|..++=+
T Consensus 36 ~~~~~~~~~ 44 (322)
T PRK11133 36 GRSGWLLYG 44 (322)
T ss_pred ccceEEEEC
Confidence 445555443
No 92
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=20.78 E-value=52 Score=34.65 Aligned_cols=83 Identities=14% Similarity=0.043 Sum_probs=51.8
Q ss_pred hccchHHHHHHHHhhhhccccccCCCCCCCCccccCCcccccCCCCCCCCcHHHHHHHHHHHHHHhcCCcchhhHHHHHh
Q 014573 243 INNMSAETILTDKLSKLGKRSKRNLNNQHSPRKRLDKSFFVTDKGNTVGGGTNAVLNALQAYLRYLEGTVRDDWQELQEK 322 (422)
Q Consensus 243 ~g~~~a~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gGE~~Al~~L~~fl~~~~~~~~~~Y~~~Rn~ 322 (422)
.|+.+|..+|.+|++.. +.+|...++. +...|+ .+|+.||.+|+.+...-|.+++..
T Consensus 198 ~Ge~aA~~~l~~F~~~~-l~~Y~~~Rd~------------------p~~~~T----S~LSpyL~~G~IS~r~v~~~~~~~ 254 (461)
T COG0415 198 GGEKAALARLQDFLAEG-LDDYERTRDF------------------PALDGT----SRLSPYLAFGVISPREVYAALLAA 254 (461)
T ss_pred chHHHHHHHHHHHHHHH-HHHHHHhcCC------------------cccccc----cccCHHHHcCCcCHHHHHHHHHHh
Confidence 47788999999999754 4455544432 123444 489999999988888888888753
Q ss_pred hhcccCCCCCCCCCCCchhhhcCCccHHHHHHHHHH
Q 014573 323 LRNAESRDGASFATLFGPALCLGIISRRGVHYEAIK 358 (422)
Q Consensus 323 ~r~~~t~~~~~~tS~LSPyLa~G~IS~R~i~~~l~~ 358 (422)
. .+ .++..+.| ...|-=|++|+.+..
T Consensus 255 ~------~~--~~~~~~~~--~~eL~WREFy~h~~~ 280 (461)
T COG0415 255 E------SD--AREGTAAL--INELIWREFYQHLLY 280 (461)
T ss_pred h------hc--ccchHHHH--HHHHHHHHHHHHHHH
Confidence 1 11 22222222 235556777777654
No 93
>cd06277 PBP1_LacI_like_1 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=20.73 E-value=5.2e+02 Score=23.77 Aligned_cols=47 Identities=15% Similarity=0.256 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEeCCHHH----HHHHHHHHhCccEEEEcc
Q 014573 93 LVIFALEDLRKSLKEQGSDLMIRFGRVEN----VIRELVEEVKATSVFAEE 139 (422)
Q Consensus 93 Fl~esL~~L~~~L~~lg~~L~v~~G~~~~----~l~~l~~~~~~~~V~~~~ 139 (422)
|+.+-+..+++.++++|..+.+...+... .+.+.+.+.+++.|+...
T Consensus 16 ~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~ 66 (268)
T cd06277 16 FYSEIYRAIEEEAKKYGYNLILKFVSDEDEEEFELPSFLEDGKVDGIILLG 66 (268)
T ss_pred cHHHHHHHHHHHHHHcCCEEEEEeCCCChHHHHHHHHHHHHCCCCEEEEeC
Confidence 66677778899999999998887543221 223334456899888754
No 94
>TIGR01670 YrbI-phosphatas 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase, YrbI family. The Methanosarcina sequence is distinctive in that it is linked to an N-terminal cytidylyltransferase domain (pfam02348) and is annotated as acylneuraminate cytidylyltransferase. This may give some clue as the function of these phosphatases. Several eukaryotic sequences scoring between trusted and noise are also closely related to this function such as the CMP-N-acetylneuraminic acid synthetase from mouse, but in these cases the phosphatase domain is clearly inactive as many of the active site residues are not conserved.
Probab=20.65 E-value=1.6e+02 Score=25.66 Aligned_cols=38 Identities=13% Similarity=0.243 Sum_probs=31.7
Q ss_pred HHHHHHhcCCcEEEEeCCHHHHHHHHHHHhCccEEEEc
Q 014573 101 LRKSLKEQGSDLMIRFGRVENVIRELVEEVKATSVFAE 138 (422)
Q Consensus 101 L~~~L~~lg~~L~v~~G~~~~~l~~l~~~~~~~~V~~~ 138 (422)
.-+.|++.|+.+.|..+.+...+..+++.+++..++..
T Consensus 36 ~i~~Lk~~G~~i~IvTn~~~~~~~~~l~~~gi~~~~~~ 73 (154)
T TIGR01670 36 GIRCALKSGIEVAIITGRKAKLVEDRCKTLGITHLYQG 73 (154)
T ss_pred HHHHHHHCCCEEEEEECCCCHHHHHHHHHcCCCEEEec
Confidence 44556778999999999998888999999999987764
No 95
>PRK10826 2-deoxyglucose-6-phosphatase; Provisional
Probab=20.61 E-value=95 Score=28.55 Aligned_cols=9 Identities=22% Similarity=-0.104 Sum_probs=3.7
Q ss_pred cCCHHHHHH
Q 014573 58 DDHLGLVAA 66 (422)
Q Consensus 58 ~DN~aL~~A 66 (422)
+.++....|
T Consensus 20 d~~~~~~~a 28 (222)
T PRK10826 20 DSEPLWDRA 28 (222)
T ss_pred cCHHHHHHH
Confidence 334444343
No 96
>cd00128 XPG Xeroderma pigmentosum G N- and I-regions (XPGN, XPGI); contains the HhH2 motif; domain in nucleases. XPG is a eukaryotic enzyme that functions in nucleotide-excision repair and transcription-coupled repair of oxidative DNA damage. Functionally/structurally related to FEN-1; divalent metal ion-dependent exo- and endonuclease, and bacterial and bacteriophage 5'3' exonucleases.
Probab=20.45 E-value=1.8e+02 Score=28.64 Aligned_cols=18 Identities=17% Similarity=0.163 Sum_probs=11.8
Q ss_pred HHHHHHHHHHhCccEEEE
Q 014573 120 ENVIRELVEEVKATSVFA 137 (422)
Q Consensus 120 ~~~l~~l~~~~~~~~V~~ 137 (422)
.+.+.++++..++..|..
T Consensus 130 ~~~~~~lL~~~gi~~i~a 147 (316)
T cd00128 130 IEEAKELLRLMGIPYIVA 147 (316)
T ss_pred HHHHHHHHHHcCCCEEEC
Confidence 355667777777776653
No 97
>PF13419 HAD_2: Haloacid dehalogenase-like hydrolase; PDB: 2FI1_A 2I6X_A 3SD7_A 4F71_A 4DFD_B 4F72_B 4DCC_A 3DDH_A 3KZX_A 2B0C_A ....
Probab=20.31 E-value=2.6e+02 Score=23.62 Aligned_cols=29 Identities=24% Similarity=0.339 Sum_probs=12.5
Q ss_pred HHHHhcCCcEEEEeCCHHHHHHHHHHHhC
Q 014573 103 KSLKEQGSDLMIRFGRVENVIRELVEEVK 131 (422)
Q Consensus 103 ~~L~~lg~~L~v~~G~~~~~l~~l~~~~~ 131 (422)
+.|++.|+++.++.+.+.+.+..+++.++
T Consensus 87 ~~l~~~~~~~~i~Sn~~~~~~~~~l~~~~ 115 (176)
T PF13419_consen 87 ERLKAKGIPLVIVSNGSRERIERVLERLG 115 (176)
T ss_dssp HHHHHTTSEEEEEESSEHHHHHHHHHHTT
T ss_pred hhcccccceeEEeecCCcccccccccccc
Confidence 33343444444444444444444444433
No 98
>cd01545 PBP1_SalR Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. The SalR binds to glucose based compound Salicin which is chemically related to aspirin. The ligand-binding of SalR is structurally homologous to the periplasmic sugar-binding domain of ABC-transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand bind
Probab=20.19 E-value=6.5e+02 Score=23.01 Aligned_cols=46 Identities=15% Similarity=0.169 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEeCC--H---HHHHHHHHHHhCccEEEEc
Q 014573 93 LVIFALEDLRKSLKEQGSDLMIRFGR--V---ENVIRELVEEVKATSVFAE 138 (422)
Q Consensus 93 Fl~esL~~L~~~L~~lg~~L~v~~G~--~---~~~l~~l~~~~~~~~V~~~ 138 (422)
|..+-+.-+++.+++.|..+.+...+ . ...+.+++...+++.|+..
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~ 63 (270)
T cd01545 13 YVSEIQLGALDACRDTGYQLVIEPCDSGSPDLAERVRALLQRSRVDGVILT 63 (270)
T ss_pred cHHHHHHHHHHHHHhCCCeEEEEeCCCCchHHHHHHHHHHHHCCCCEEEEe
Confidence 66677778888888999998887533 1 2344555556789988875
Done!