Query psy6304
Match_columns 407
No_of_seqs 157 out of 1511
Neff 7.9
Searched_HMMs 46136
Date Fri Aug 16 22:59:17 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6304.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6304hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0415 PhrB Deoxyribodipyrimi 100.0 8E-79 1.7E-83 605.4 28.2 331 7-379 44-461 (461)
2 TIGR02766 crypt_chrom_pln cryp 100.0 1.9E-77 4.2E-82 615.6 30.9 340 7-375 40-474 (475)
3 PRK10674 deoxyribodipyrimidine 100.0 2.7E-73 5.9E-78 582.7 31.6 337 5-380 44-470 (472)
4 TIGR03556 photolyase_8HDF deox 100.0 1.8E-72 3.8E-77 576.6 30.1 342 6-377 43-470 (471)
5 PF03441 FAD_binding_7: FAD bi 100.0 3.4E-64 7.4E-69 482.1 10.3 220 151-379 1-277 (277)
6 TIGR02765 crypto_DASH cryptoch 100.0 1.7E-61 3.6E-66 492.0 29.0 295 5-327 48-429 (429)
7 KOG0133|consensus 100.0 6.1E-56 1.3E-60 445.3 18.4 367 3-386 44-501 (531)
8 TIGR00591 phr2 photolyase PhrI 100.0 7.7E-52 1.7E-56 423.7 21.5 285 6-323 66-454 (454)
9 PF00875 DNA_photolyase: DNA p 99.5 1.7E-14 3.7E-19 128.1 9.4 94 7-104 42-164 (165)
10 COG3046 Uncharacterized protei 99.2 5.1E-10 1.1E-14 108.6 17.5 132 146-295 220-355 (505)
11 PRK09982 universal stress prot 60.1 26 0.00056 29.6 5.9 42 19-60 69-110 (142)
12 PRK12652 putative monovalent c 58.3 25 0.00054 35.1 6.2 47 19-65 63-125 (357)
13 TIGR01490 HAD-SF-IB-hyp1 HAD-s 56.8 26 0.00057 31.2 5.7 44 17-60 89-132 (202)
14 PRK15456 universal stress prot 56.3 25 0.00055 29.4 5.3 44 18-61 68-113 (142)
15 PRK15005 universal stress prot 55.0 29 0.00062 28.9 5.4 44 18-61 70-115 (144)
16 TIGR01488 HAD-SF-IB Haloacid D 53.1 18 0.0004 31.3 4.0 44 18-61 76-119 (177)
17 COG0560 SerB Phosphoserine pho 52.1 23 0.0005 32.6 4.5 44 19-62 81-124 (212)
18 TIGR01491 HAD-SF-IB-PSPlk HAD- 49.7 35 0.00075 30.2 5.3 44 18-61 83-126 (201)
19 TIGR01544 HAD-SF-IE haloacid d 48.5 33 0.00072 33.0 5.1 44 18-61 124-171 (277)
20 cd01988 Na_H_Antiporter_C The 48.1 58 0.0013 26.3 6.1 49 14-62 52-103 (132)
21 cd01987 USP_OKCHK USP domain i 47.8 67 0.0015 25.8 6.4 44 18-61 49-93 (124)
22 PF12710 HAD: haloacid dehalog 47.3 48 0.001 28.9 5.8 41 22-62 96-138 (192)
23 KOG1615|consensus 45.6 30 0.00065 31.5 4.0 43 19-61 92-136 (227)
24 PF00702 Hydrolase: haloacid d 44.1 32 0.0007 30.6 4.2 40 17-56 129-168 (215)
25 PRK15118 universal stress glob 43.7 84 0.0018 26.1 6.5 41 21-61 68-111 (144)
26 PF03392 OS-D: Insect pheromon 43.6 8.5 0.00018 30.7 0.2 13 311-323 83-95 (95)
27 PF04244 DPRP: Deoxyribodipyri 41.5 1.2E+02 0.0025 28.3 7.5 57 7-63 38-101 (224)
28 PRK11590 hypothetical protein; 40.2 73 0.0016 28.9 5.9 42 20-61 101-145 (211)
29 TIGR01545 YfhB_g-proteo haloac 40.2 72 0.0016 29.1 5.9 43 19-61 99-144 (210)
30 TIGR00338 serB phosphoserine p 39.0 46 0.00099 30.1 4.4 44 18-61 88-131 (219)
31 cd01989 STK_N The N-terminal d 38.3 1.2E+02 0.0026 25.1 6.7 43 19-61 66-111 (146)
32 COG2217 ZntA Cation transport 36.8 33 0.00073 37.5 3.5 40 22-61 544-583 (713)
33 cd00293 USP_Like Usp: Universa 36.5 1.2E+02 0.0027 23.7 6.2 47 15-61 53-101 (130)
34 PLN02954 phosphoserine phospha 36.2 59 0.0013 29.4 4.7 43 18-60 87-131 (224)
35 PF13911 AhpC-TSA_2: AhpC/TSA 34.0 77 0.0017 25.5 4.6 42 20-63 2-46 (115)
36 COG0589 UspA Universal stress 33.3 1.3E+02 0.0029 24.6 6.1 46 16-61 72-121 (154)
37 PRK03669 mannosyl-3-phosphogly 32.5 1E+02 0.0022 29.1 5.8 36 19-55 29-64 (271)
38 TIGR03333 salvage_mtnX 2-hydro 32.2 82 0.0018 28.5 4.9 46 16-61 71-117 (214)
39 PRK10116 universal stress prot 31.6 2.6E+02 0.0056 22.9 7.6 39 23-61 69-110 (142)
40 smart00475 53EXOc 5'-3' exonuc 31.2 1.5E+02 0.0032 28.2 6.6 48 16-63 82-133 (259)
41 KOG3167|consensus 30.5 91 0.002 26.6 4.3 39 16-54 60-103 (153)
42 TIGR01525 ATPase-IB_hvy heavy 30.3 94 0.002 32.9 5.6 45 16-60 385-430 (556)
43 COG0546 Gph Predicted phosphat 29.9 57 0.0012 29.8 3.4 42 17-58 91-132 (220)
44 TIGR01489 DKMTPPase-SF 2,3-dik 29.8 66 0.0014 27.9 3.8 38 20-57 77-114 (188)
45 PF00578 AhpC-TSA: AhpC/TSA fa 29.3 1.3E+02 0.0029 23.9 5.3 39 17-55 45-83 (124)
46 TIGR01670 YrbI-phosphatas 3-de 28.8 96 0.0021 26.6 4.5 36 24-59 37-72 (154)
47 TIGR01512 ATPase-IB2_Cd heavy 28.2 77 0.0017 33.4 4.5 44 16-59 363-407 (536)
48 TIGR02137 HSK-PSP phosphoserin 28.1 69 0.0015 29.1 3.6 42 19-61 72-113 (203)
49 PRK11175 universal stress prot 28.0 1.4E+02 0.003 28.4 5.9 42 20-61 225-269 (305)
50 PRK01158 phosphoglycolate phos 27.2 1.5E+02 0.0033 26.8 5.9 30 26-55 31-60 (230)
51 cd01427 HAD_like Haloacid deha 26.6 1E+02 0.0022 24.5 4.1 38 17-54 26-63 (139)
52 PF08282 Hydrolase_3: haloacid 26.5 1.5E+02 0.0032 26.7 5.6 37 18-55 19-55 (254)
53 PF08444 Gly_acyl_tr_C: Aralky 26.3 1.1E+02 0.0023 24.2 3.8 46 11-56 32-77 (89)
54 cd00128 XPG Xeroderma pigmento 26.0 1.1E+02 0.0023 29.9 4.8 43 17-59 127-169 (316)
55 TIGR02463 MPGP_rel mannosyl-3- 25.7 1.2E+02 0.0025 27.5 4.7 29 27-55 28-56 (221)
56 PRK14976 5'-3' exonuclease; Pr 25.7 1.9E+02 0.004 27.9 6.2 49 16-64 88-140 (281)
57 PRK10513 sugar phosphate phosp 25.4 1.4E+02 0.0031 27.8 5.4 29 27-55 32-60 (270)
58 PF11520 Cren7: Chromatin prot 25.2 22 0.00048 25.5 -0.1 16 312-327 42-58 (60)
59 KOG0635|consensus 25.1 43 0.00092 29.4 1.5 53 288-343 119-173 (207)
60 PRK11133 serB phosphoserine ph 24.6 1.5E+02 0.0032 29.2 5.5 44 18-61 184-227 (322)
61 PRK08384 thiamine biosynthesis 23.6 2.3E+02 0.005 28.6 6.7 54 10-63 18-81 (381)
62 PRK09552 mtnX 2-hydroxy-3-keto 23.6 1.4E+02 0.003 27.1 4.8 44 17-61 76-121 (219)
63 PRK10826 2-deoxyglucose-6-phos 23.3 80 0.0017 28.6 3.2 39 20-58 97-135 (222)
64 cd00008 53EXOc 5'-3' exonuclea 23.3 2.2E+02 0.0049 26.5 6.2 49 15-63 82-134 (240)
65 PRK10530 pyridoxal phosphate ( 23.2 1.7E+02 0.0037 27.2 5.5 35 20-55 26-60 (272)
66 COG0561 Cof Predicted hydrolas 23.0 1.8E+02 0.0038 27.1 5.5 32 25-56 30-61 (264)
67 PRK09484 3-deoxy-D-manno-octul 22.7 1.4E+02 0.003 26.5 4.5 32 28-59 61-92 (183)
68 PF02739 5_3_exonuc_N: 5'-3' e 22.4 2.5E+02 0.0053 24.7 5.9 48 16-63 84-135 (169)
69 PRK15126 thiamin pyrimidine py 22.2 1.7E+02 0.0036 27.5 5.2 29 27-55 31-59 (272)
70 COG0220 Predicted S-adenosylme 22.0 1.2E+02 0.0025 28.3 4.0 44 18-61 83-127 (227)
71 TIGR02461 osmo_MPG_phos mannos 21.8 2E+02 0.0044 26.4 5.5 37 18-55 19-55 (225)
72 TIGR01486 HAD-SF-IIB-MPGP mann 21.6 2E+02 0.0043 26.7 5.5 30 26-55 27-56 (256)
73 PF05822 UMPH-1: Pyrimidine 5' 20.9 70 0.0015 30.2 2.2 39 16-54 91-129 (246)
74 cd03018 PRX_AhpE_like Peroxire 20.9 2.8E+02 0.0061 22.9 5.9 40 16-55 47-86 (149)
75 cd03017 PRX_BCP Peroxiredoxin 20.9 3.4E+02 0.0073 22.1 6.4 39 17-55 43-81 (140)
76 PRK13288 pyrophosphatase PpaX; 20.6 1.4E+02 0.003 26.9 4.1 39 19-57 86-124 (214)
77 PRK10976 putative hydrolase; P 20.4 2E+02 0.0044 26.7 5.3 35 20-55 25-59 (266)
No 1
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=100.00 E-value=8e-79 Score=605.44 Aligned_cols=331 Identities=27% Similarity=0.430 Sum_probs=275.5
Q ss_pred CCcHHHHHHHHHHHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCceEEEEeeece-----------------eeeE
Q psy6304 7 HIGYNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFEQDCEG-----------------VKPY 69 (407)
Q Consensus 7 ~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~~V~~~~~~~~-----------------v~~~ 69 (407)
..|+++++||.+||++|+++|+++||+|+|+.|+|.++|++|+++++++.|++|++|++ |.++
T Consensus 44 ~~~~~~~~Fl~~sL~~L~~~L~~~gi~L~v~~~~~~~~l~~~~~~~~~~~v~~n~~~~~~~~~rD~al~~~l~~~gi~~~ 123 (461)
T COG0415 44 HASPRHAAFLLQSLQALQQSLAELGIPLLVREGDPEQVLPELAKQLAATTVFWNRDYEEWERQRDAALAQPLTEVGIAVH 123 (461)
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHcCCceEEEeCCHHHHHHHHHHHhCcceEEeeeeechhHHHHHHHHHHHHHhcCceEE
Confidence 68999999999999999999999999999999999999999999999999999999976 3333
Q ss_pred E-----------ecC-CCCCCCccCcchhHHHHhhhcCCCCCCCCCCccc-ccccCCcchhHHhhhhccCCCCCCccCCC
Q psy6304 70 Q-----------SFP-TGSHPPRYQPCKTLLNFRDLSGLPPRPKEDIDFR-HVTFGTMSESLQREVSLFQTVPKPEQFHK 136 (407)
Q Consensus 70 ~-----------i~~-~g~~~~~ftp~~~f~~~~~~~~~~~~p~~~p~~~-~~~~~~~~~~~~~~~~~~~~~p~l~~lg~ 136 (407)
. |.+ .|++|++|| +|++.+........|.+.|... .+......+ ... ..|+ .
T Consensus 124 ~~~d~~l~~p~~~~t~~~~~y~vfT---~F~k~~~~~~~~~~~~~~p~~~~~~~~~~~~~------~~~-~~P~--~--- 188 (461)
T COG0415 124 SFWDALLHEPGEVRTGSGEPYKVFT---PFYKAWRDRLRILRPVPAPDVLDALRDEEPPP------EEI-SLPD--F--- 188 (461)
T ss_pred EeccccccCHhhccCCCCCCccccc---hHHHHHHHhcccCCCCCCcchhccccccccCc------ccc-cCCc--c---
Confidence 3 344 788999999 7877776543333444444311 010000000 000 1121 0
Q ss_pred CCCCCCCCCCCCCCccHHHHHHHHHHHhhhhhhhccccccccCCCCCCCCCCCCcCCcccccCcccHHHHHHHHHHhhcc
Q psy6304 137 YPEMDFGDPLIRWLGGETEALIKLNERLSQEIESFKSGVYLSNQVSPDLTGPPTSQSAALKFGCLSVRRFYWALHDHFNT 216 (407)
Q Consensus 137 ~~~~~~~~~~~~~~gGe~~A~~~L~~Fl~~~~~~~l~~Y~~~~~~~~~~~~~tS~LSPyL~~G~IS~R~v~~~~~~~~~~ 216 (407)
.. .....+.|||.+|+++|++|+ +.. +.+|+..|+ .++ .++||+|||||+||+||||+||+++.+....
T Consensus 189 ~~-----~~~~~~~~Ge~aA~~~l~~F~--~~~--l~~Y~~~Rd-~p~-~~~TS~LSpyL~~G~IS~r~v~~~~~~~~~~ 257 (461)
T COG0415 189 SK-----FDVLLFTGGEKAALARLQDFL--AEG--LDDYERTRD-FPA-LDGTSRLSPYLAFGVISPREVYAALLAAESD 257 (461)
T ss_pred cc-----ccccCCCchHHHHHHHHHHHH--HHH--HHHHHHhcC-Ccc-cccccccCHHHHcCCcCHHHHHHHHHHhhhc
Confidence 00 113468999999999999999 763 899988776 444 6899999999999999999999999876543
Q ss_pred cCCCCCCchhHHHHHHHHHHHHHHHHhcCCCc-ccccCCccCCCCCCCCCCCCCcHHHHHHHhcCCCCchhhhHhhHHHh
Q psy6304 217 IHEGRPPSHFNITGQLIWREYFYTMSAHNPYY-DQMEKNPICLNIPWLPESHPNKEKYLNAWKNGQTGYPFIDAVMRQLR 295 (407)
Q Consensus 217 ~~~~~~~~~~~~~~eL~WRef~~~~~~~~p~~-~~~~~~~~~~~~~W~~~~~~~d~~~~~aW~~G~TG~PlVDAaMRqL~ 295 (407)
.++++.+|++||+|||||++++.++|++ ...++...++.++|+. |++.|++||+|+|||||||||||||+
T Consensus 258 ----~~~~~~~~~~eL~WREFy~h~~~~~p~~~~~~~~~~~~~~~~w~~-----~~~~f~aW~~G~TGyPIVDA~MRqL~ 328 (461)
T COG0415 258 ----AREGTAALINELIWREFYQHLLYHYPSLSRFEPFAEKTLNIPWED-----NPAHFQAWQEGKTGYPIVDAAMRQLN 328 (461)
T ss_pred ----ccchHHHHHHHHHHHHHHHHHHHhCCcccccccccccccCCcccc-----CHHHHHHHhcCCCCCccccHHHHHHH
Confidence 2677889999999999999999999999 6678899999999999 99999999999999999999999999
Q ss_pred --------------------------------------------------------hhhcCCCCCCcchhhhccCCCCch
Q psy6304 296 --------------------------------------------------------RLLDCTYCVCPVNFGRRLDPDGIY 319 (407)
Q Consensus 296 --------------------------------------------------------~~~~y~RifNPv~Q~~~~Dp~G~f 319 (407)
|..||||||||++|++||||+|+|
T Consensus 329 ~TG~MHNR~RMivAsFL~k~L~IdWR~GE~~F~~~LiD~D~asN~ggWQW~AstG~Da~pyfRiFNp~~Q~~kfDp~g~f 408 (461)
T COG0415 329 QTGYMHNRMRMIVASFLTKDLLIDWREGEKYFMRQLIDGDPASNNGGWQWAASTGTDAAPYFRIFNPVTQAEKFDPDGEF 408 (461)
T ss_pred HhCCcchHHHHHHHHHHHHhcCCCHHHHHHHHHHhccCCCcccCCCCeeEEeccCCCCCcceeccCHHHHHhhcCCCccc
Confidence 567899999999999999999999
Q ss_pred hhhccccccCCCCCceecCCCCChHHHhhccCccCCCCCCCCCCHHHHHHHHHHHHHHHH
Q psy6304 320 IKRYVPELRQFPIQYIYEPWKAPLGVQEKANCIISKDYPERIVNHVQASLENKQYLKKEK 379 (407)
Q Consensus 320 Ir~wvPEL~~lp~~~Ih~Pw~~~~~~~~~~~~~~g~~YP~PIVd~~~~r~~a~~~~~~~~ 379 (407)
||+|||||++||+++||+||+++. +.+|.+||.|||||+++|+.|+++|+.++
T Consensus 409 Ir~wvPeL~~~~~~~ih~p~~~~~-------~~~~~~YP~piVd~~~~r~~a~~~y~~~~ 461 (461)
T COG0415 409 IRRWVPELRNLPDKYIHEPWELSE-------VVLGVDYPKPIVDHKESREQALAAYEAAK 461 (461)
T ss_pred HHhhCHHhhCCChhhccChhhccc-------ccccCCCCccccccHHHHHHHHHHHHhcC
Confidence 999999999999999999999886 55689999999999999999999998753
No 2
>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=1.9e-77 Score=615.55 Aligned_cols=340 Identities=22% Similarity=0.302 Sum_probs=271.0
Q ss_pred CCcHHHHHHHHHHHHHHHHHHHhcCCcEEEEE-CChHHHHHHHHHHhCCceEEEEeeece-----------------eee
Q psy6304 7 HIGYNRFRFLLECLADLDRQLKSHGGQLFIVQ-GSPISIFQKLKRELNFTKLCFEQDCEG-----------------VKP 68 (407)
Q Consensus 7 ~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~-G~~~~vl~~L~~~~~i~~V~~~~~~~~-----------------v~~ 68 (407)
..|.++.+||++||.+|+++|+++|++|+|+. |+++++|.+|+++++|++||+|+++++ |++
T Consensus 40 ~~~~~~~~fl~~sL~~L~~~L~~~G~~L~v~~~g~~~~~l~~l~~~~~i~~v~~~~~~~~~~~~rd~~v~~~l~~~gi~~ 119 (475)
T TIGR02766 40 YPGRVSRWWLKQSLAHLDQSLRSLGTCLVTIRSTDTVAALLDCVRSTGATRLFFNHLYDPVSLVRDHRAKEVLTAQGISV 119 (475)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHcCCceEEEeCCCHHHHHHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHHHHcCCEE
Confidence 45788888999999999999999999999984 899999999999999999999999987 444
Q ss_pred EE-----------ecC-CCCCCCccCcchhHHHHhhhcCCC-CCCCCCCcccccccCCcchhHHhhhhccCCCCCCccCC
Q psy6304 69 YQ-----------SFP-TGSHPPRYQPCKTLLNFRDLSGLP-PRPKEDIDFRHVTFGTMSESLQREVSLFQTVPKPEQFH 135 (407)
Q Consensus 69 ~~-----------i~~-~g~~~~~ftp~~~f~~~~~~~~~~-~~p~~~p~~~~~~~~~~~~~~~~~~~~~~~~p~l~~lg 135 (407)
+. |.+ .|++|++|| +|++++.+...+ ..+.+.|.. +...+. ..+.+++++
T Consensus 120 ~~~~~~~l~~p~~i~~~~~~~~~~ft---~f~~~~~~~~~~~~~~~~~p~~--~~~~~~------------~~~~~~~~~ 182 (475)
T TIGR02766 120 QSFNADLLYEPWEVYDELGRPFTMFA---AFWERCLSMPYDPESPLLPPKK--IISGDV------------SKCSADDLG 182 (475)
T ss_pred EEecCCEEEChhhhcccCCCCCCeec---HHHHHHHhccCCCCCCCCCccc--cCCCcc------------ccCChhhcC
Confidence 43 234 678999999 777776543221 111222221 110000 000011122
Q ss_pred CCCCC---CCCCCCCCCCccHHHHHHHHHHHhhhhhhhccccccccCCCCCCCCCCCCcCCcccccCcccHHHHHHHHHH
Q psy6304 136 KYPEM---DFGDPLIRWLGGETEALIKLNERLSQEIESFKSGVYLSNQVSPDLTGPPTSQSAALKFGCLSVRRFYWALHD 212 (407)
Q Consensus 136 ~~~~~---~~~~~~~~~~gGe~~A~~~L~~Fl~~~~~~~l~~Y~~~~~~~~~~~~~tS~LSPyL~~G~IS~R~v~~~~~~ 212 (407)
+.... ........|+|||++|+++|++|+ +. .+.+|.+.++.+ + .++||+|||||+|||||||+||+++.+
T Consensus 183 ~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~Fl--~~--~~~~Y~~~Rd~p-~-~~~tS~LSPyL~~G~ISpR~v~~~~~~ 256 (475)
T TIGR02766 183 FEDDSEKGSNALLARAWSPGWSNADKALTEFI--NG--PLLEYSKNRKKA-D-SATTSLLSPYLHFGEVSVRKVFHLVRM 256 (475)
T ss_pred CCCcccccccccccccCCCccHHHHHHHHHHH--HH--HHHHHhhcCCCC-C-CCCCCCCCcccccCcccHHHHHHHHHh
Confidence 21100 000011248999999999999999 65 378998877654 4 478999999999999999999999853
Q ss_pred hh-----cccCCCCCCchhHHHHHHHHHHHHHHHHhcCCCcccccCCccCCCCCCCCCCCCCcHHHHHHHhcCCCCchhh
Q psy6304 213 HF-----NTIHEGRPPSHFNITGQLIWREYFYTMSAHNPYYDQMEKNPICLNIPWLPESHPNKEKYLNAWKNGQTGYPFI 287 (407)
Q Consensus 213 ~~-----~~~~~~~~~~~~~~~~eL~WRef~~~~~~~~p~~~~~~~~~~~~~~~W~~~~~~~d~~~~~aW~~G~TG~PlV 287 (407)
.. .+... ...+.++|++||+|||||++++.++|.+...++++.++.++|++ |++.|++|++|+||||||
T Consensus 257 ~~~~~~~~~~~~-~~~s~~~f~~eL~WRef~~~~~~~~p~~~~~~~~~~~~~~~w~~-----~~~~f~aW~~G~TG~P~V 330 (475)
T TIGR02766 257 KQIAWANEGNSA-GEESVNLFLRSIGLREYSRYISFNHPFSHEKPLLGHLKFFPWAV-----DENYFKAWRQGRTGYPLV 330 (475)
T ss_pred hhhhhhhcccCC-CcccHHHHHHHHHHHHHHHHHHHhCCcccccchhhhhhcCCCCC-----CHHHHHHHHcCCCCCcch
Confidence 11 11111 34567889999999999999999999887777777788899998 999999999999999999
Q ss_pred hHhhHHHh--------------------------------------------------------hhhcCCCCCCcchhhh
Q psy6304 288 DAVMRQLR--------------------------------------------------------RLLDCTYCVCPVNFGR 311 (407)
Q Consensus 288 DAaMRqL~--------------------------------------------------------~~~~y~RifNPv~Q~~ 311 (407)
|||||||+ |..+|||||||++|++
T Consensus 331 DA~MRqL~~TGwmhnR~Rm~vAsfl~k~L~idWr~G~~~F~~~LiD~D~a~N~g~Wqw~Ag~g~d~~~~~RifnP~~q~~ 410 (475)
T TIGR02766 331 DAGMRELWATGWLHDRIRVVVSSFFVKVLQLPWRWGMKYFWDTLLDADLESDALGWQYISGSLPDGRELDRIDNPQLEGY 410 (475)
T ss_pred hHHHHHHHHHCCCcHHHHHHHHHHHHcccCCChHHHHHHHHHHccccchhcccccccccccCCCCCCcccccCCHHHHHh
Confidence 99999999 4567899999999999
Q ss_pred ccCCCCchhhhccccccCCCCCceecCCCCChHHHhhccCccCCCCCCCCCCHHHHHHHHHHHH
Q psy6304 312 RLDPDGIYIKRYVPELRQFPIQYIYEPWKAPLGVQEKANCIISKDYPERIVNHVQASLENKQYL 375 (407)
Q Consensus 312 ~~Dp~G~fIr~wvPEL~~lp~~~Ih~Pw~~~~~~~~~~~~~~g~~YP~PIVd~~~~r~~a~~~~ 375 (407)
+|||+|+|||+|||||++||+++||+||+++..+|+++||.+|.+||.|||||+++|++|++++
T Consensus 411 ~~Dp~g~yir~wvPeL~~~p~~~ih~Pw~~~~~~~~~~~~~~g~~YP~PiVd~~~~r~~~~~~~ 474 (475)
T TIGR02766 411 KFDPNGEYVRRWLPELARLPTEWIHHPWDAPESVLQAAGVELGSNYPLPIVGLDEARARLHEAL 474 (475)
T ss_pred hcCCCcccHHHhChhhccCCHHHhcCcccCCHHHHHHcCCccCCCCCcccCCHHHHHHHHHHhh
Confidence 9999999999999999999999999999999999999999999999999999999999999875
No 3
>PRK10674 deoxyribodipyrimidine photolyase; Provisional
Probab=100.00 E-value=2.7e-73 Score=582.74 Aligned_cols=337 Identities=21% Similarity=0.263 Sum_probs=263.6
Q ss_pred CCCCcHHHHHHHHHHHHHHHHHHHhcCCcEEEEEC----ChHHHHHHHHHHhCCceEEEEeeece---------------
Q psy6304 5 TMHIGYNRFRFLLECLADLDRQLKSHGGQLFIVQG----SPISIFQKLKRELNFTKLCFEQDCEG--------------- 65 (407)
Q Consensus 5 ~~~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~G----~~~~vl~~L~~~~~i~~V~~~~~~~~--------------- 65 (407)
.+..|++|++||+|||.+|+++|+++|++|+|+.| +|.++|++|+++++|+.|++|+++++
T Consensus 44 ~~~~~~~r~~Fl~esL~~L~~~L~~~g~~L~v~~g~~~g~~~~vl~~l~~~~~i~~v~~~~~~~~~~~~rd~~v~~~l~~ 123 (472)
T PRK10674 44 AHDMAPRQAAFINAQLNALQIALAEKGIPLLFHEVDDFAASVEWLKQFCQQHQVTHLFYNYQYEVNERQRDAAVERALRN 123 (472)
T ss_pred cCCCCHHHHHHHHHHHHHHHHHHHHcCCceEEEecCCcCCHHHHHHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHcCC
Confidence 45689999999999999999999999999999975 79999999999999999999999987
Q ss_pred eeeEE-----------ecC-CCCCCCccCcchhHHHHhhhcCCCC--CCCCCCcccccccCCcchhHHhhhhccCCCCCC
Q psy6304 66 VKPYQ-----------SFP-TGSHPPRYQPCKTLLNFRDLSGLPP--RPKEDIDFRHVTFGTMSESLQREVSLFQTVPKP 131 (407)
Q Consensus 66 v~~~~-----------i~~-~g~~~~~ftp~~~f~~~~~~~~~~~--~p~~~p~~~~~~~~~~~~~~~~~~~~~~~~p~l 131 (407)
|.++. |.+ .+++|++|| +|++++++..... .+.+.|.. .. +. .. ..+.+
T Consensus 124 i~~~~~~~~~l~~~~~i~~~~~~~y~~ft---~f~~~~~~~~~~~~p~~~~~p~~--~~--~~---------~~-~~~~~ 186 (472)
T PRK10674 124 VVCQGFDDSVLLPPGSVMTGNHEMYKVFT---PFKNAFLKRLREGDPECVPAPKV--RS--SG---------AI-EPLPP 186 (472)
T ss_pred CEEEEecCceEeCccccccCCCCCCCccc---HHHHHHHHhhcccCCccCCCCcc--cc--cc---------cc-CCCCc
Confidence 33332 223 677899999 7777765522111 11221211 00 00 00 11111
Q ss_pred ccCCCCCCCCCCCCCCCCCccHHHHHHHHHHHhhhhhhhccccccccCCCCCCCCCCCCcCCcccccCcccHHHHHHHHH
Q psy6304 132 EQFHKYPEMDFGDPLIRWLGGETEALIKLNERLSQEIESFKSGVYLSNQVSPDLTGPPTSQSAALKFGCLSVRRFYWALH 211 (407)
Q Consensus 132 ~~lg~~~~~~~~~~~~~~~gGe~~A~~~L~~Fl~~~~~~~l~~Y~~~~~~~~~~~~~tS~LSPyL~~G~IS~R~v~~~~~ 211 (407)
..++..... .....++|||.+|+++|++|+ ++ .+.+|...++.+ + .++||+|||||+|||||||+||+++.
T Consensus 187 ~~~~~~~~~---~~~~~~~gGe~~A~~~L~~f~--~~--~l~~Y~~~r~~p-~-~~~tS~LSPyL~~G~iS~r~v~~~~~ 257 (472)
T PRK10674 187 IPFNYPQQS---FDTALFPVGEKAAIAQLRQFC--QQ--GAGEYEQQRDFP-A-VDGTSRLSAYLATGVLSPRQCLHRLL 257 (472)
T ss_pred ccccCcccc---cccCCCCCCHHHHHHHHHHHH--HH--HHHHhccccCCC-C-ccCCCCcChhhccCcCCHHHHHHHHH
Confidence 122221111 112348999999999999999 65 388998877654 3 57899999999999999999999997
Q ss_pred HhhcccCCCCCCchhHHHHHHHHHHHHHHHHhcCCCcccc-cCCccCCCCCCCCCCCCCcHHHHHHHhcCCCCchhhhHh
Q psy6304 212 DHFNTIHEGRPPSHFNITGQLIWREYFYTMSAHNPYYDQM-EKNPICLNIPWLPESHPNKEKYLNAWKNGQTGYPFIDAV 290 (407)
Q Consensus 212 ~~~~~~~~~~~~~~~~~~~eL~WRef~~~~~~~~p~~~~~-~~~~~~~~~~W~~~~~~~d~~~~~aW~~G~TG~PlVDAa 290 (407)
+...... ...+...|++||+|||||+++++++|.+... +++..++.+.|++ |++.|++|++|+||||+||||
T Consensus 258 ~~~~~~~--~~~~~~~fl~eL~WRef~~~~~~~~p~~~~~~~~~~~~~~~~w~~-----~~~~~~~W~~G~TG~P~vDA~ 330 (472)
T PRK10674 258 AEQPQAL--DGGAGSVWLNELIWREFYRHLMVAYPSLCKHRPFIAWTDRVQWQS-----NPAHLQAWQQGKTGYPIVDAA 330 (472)
T ss_pred HHhhhhh--ccCchhHHHHHHHHHHHHHHHHHhCCchhhccCcchhhhccCccc-----CHHHHHHHHcCCCCCccHHHH
Confidence 6433211 1223456999999999999999999998653 5666667788998 989999999999999999999
Q ss_pred hHHHh--------------------------------------------------------hhhcCCCCCCcchhhhccC
Q psy6304 291 MRQLR--------------------------------------------------------RLLDCTYCVCPVNFGRRLD 314 (407)
Q Consensus 291 MRqL~--------------------------------------------------------~~~~y~RifNPv~Q~~~~D 314 (407)
||||+ |..+|+|||||++|++|||
T Consensus 331 mrqL~~tG~mhnr~Rm~vAsfL~k~L~idWr~G~~~F~~~LlD~D~a~N~g~Wqw~ag~G~d~~py~R~fnP~~q~~k~D 410 (472)
T PRK10674 331 MRQLNSTGWMHNRLRMITASFLVKDLLIDWREGERYFMSQLIDGDLAANNGGWQWAASTGTDAAPYFRIFNPTTQGERFD 410 (472)
T ss_pred HHHHHHHCCccHHHHHHHHHHHHcCcccCCHhHHHHHHHHhhcCCcccchhccceeecCCCCCCcceeecCHHHHHHHhC
Confidence 99999 3457799999999999999
Q ss_pred CCCchhhhccccccCCCCCceecCCCCChHHHhhccCccCCCCCCCCCCHHHHHHHHHHHHHHHHh
Q psy6304 315 PDGIYIKRYVPELRQFPIQYIYEPWKAPLGVQEKANCIISKDYPERIVNHVQASLENKQYLKKEKA 380 (407)
Q Consensus 315 p~G~fIr~wvPEL~~lp~~~Ih~Pw~~~~~~~~~~~~~~g~~YP~PIVd~~~~r~~a~~~~~~~~~ 380 (407)
|+|+|||+|||||++||+++||+||+++.. .++. .|||+|||||+++|++|+++|+.+++
T Consensus 411 p~g~yIr~w~PeL~~~p~~~ih~Pw~~~~~----~~~~--~~YP~PiVd~~~~r~~~~~~~~~~~~ 470 (472)
T PRK10674 411 RDGEFIRRWLPELRDVPGKAIHQPWRWAEK----AGVT--LDYPQPIVDHKQARLATLAAYEAARK 470 (472)
T ss_pred CCCChHHHhChhhccCCHHhhcCccccchh----cCCC--CCCCcCCcCHHHHHHHHHHHHHHHhc
Confidence 999999999999999999999999998743 2443 48999999999999999999998754
No 4
>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=1.8e-72 Score=576.58 Aligned_cols=342 Identities=24% Similarity=0.373 Sum_probs=268.1
Q ss_pred CCCcHHHHHHHHHHHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCceEEEEeeece-----------------eee
Q psy6304 6 MHIGYNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFEQDCEG-----------------VKP 68 (407)
Q Consensus 6 ~~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~~V~~~~~~~~-----------------v~~ 68 (407)
+..|++|++||+|||.+|+++|+++|++|+|+.|+|.++|++|+++++|++|++|++|++ |.+
T Consensus 43 ~~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~G~p~~vl~~l~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i~~ 122 (471)
T TIGR03556 43 DDMAPARVAYLIGCLQELQQRYQQAGSQLLILQGDPVQLIPQLAQQLGAKAVYWNLDVEPYGRKRDRAVAAALKEAGIAV 122 (471)
T ss_pred ccCCHHHHHHHHHHHHHHHHHHHHCCCCeEEEECCHHHHHHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHHHHCCCEE
Confidence 457899999999999999999999999999999999999999999999999999999987 444
Q ss_pred EE-----------ecC-CCCCCCccCcchhHHHHhhhcCCCCCCCCCCcccccccC-CcchhHHhhhhccCCCCCCccCC
Q psy6304 69 YQ-----------SFP-TGSHPPRYQPCKTLLNFRDLSGLPPRPKEDIDFRHVTFG-TMSESLQREVSLFQTVPKPEQFH 135 (407)
Q Consensus 69 ~~-----------i~~-~g~~~~~ftp~~~f~~~~~~~~~~~~p~~~p~~~~~~~~-~~~~~~~~~~~~~~~~p~l~~lg 135 (407)
+. |.+ .|++|++|| +|++.+.....+ .|.+.|.. +... +............ .+|++++++
T Consensus 123 ~~~~~~~l~~p~~i~~~~~~~y~~ft---~f~k~~~~~~~~-~~~~~p~~--~~~~~~~~~~~~~~~~~~-~~p~~~~~~ 195 (471)
T TIGR03556 123 VTLWDQLLHSPDEILTGSGNPYTVYT---PFWKNWSSLPKP-TPVATPTE--LEGLTEAELEAAAPLGVI-ALPTAKDLG 195 (471)
T ss_pred EEeCCcEEECccccccCCCCCCcchh---HHHHHHHhcccc-CCCCCccc--cccCCccccccccccccc-cCCcccccc
Confidence 33 323 677999999 788877654321 23333321 1100 0000000000111 245444444
Q ss_pred CCCCCCCCCCCCCCCccHHHHHHHHHHHhhhhhhhccccccccCCCCCCCCCCCCcCCcccccCcccHHHHHHHHHHhhc
Q psy6304 136 KYPEMDFGDPLIRWLGGETEALIKLNERLSQEIESFKSGVYLSNQVSPDLTGPPTSQSAALKFGCLSVRRFYWALHDHFN 215 (407)
Q Consensus 136 ~~~~~~~~~~~~~~~gGe~~A~~~L~~Fl~~~~~~~l~~Y~~~~~~~~~~~~~tS~LSPyL~~G~IS~R~v~~~~~~~~~ 215 (407)
+.... ...++|||++|+++|++|+ +. .+.+|...++.+ + .++||+|||||+|||||+|+||+++.+...
T Consensus 196 ~~~~~-----~~~~~gGe~~A~~~L~~f~--~~--~l~~Y~~~r~~p-~-~~~tS~LSpyL~~G~iS~r~v~~~~~~~~~ 264 (471)
T TIGR03556 196 FDWDG-----DLILEPGETAAQARLEEFC--DR--AIADYQEQRNFP-A-LDGTSQLSPALKFGVIGIRTVWQATQEAHE 264 (471)
T ss_pred ccccc-----ccCCCCcHHHHHHHHHHHH--HH--HHHHhhhccCCC-C-CCCCCCCChhhcCCcccHHHHHHHHHHHHh
Confidence 43221 2248999999999999999 65 389999887664 4 578999999999999999999999976443
Q ss_pred ccC-CCCCCchhHHHHHHHHHHHHHHHHhcCCCcccccCCccCCCCCCCCCCCCCcHHHHHHHhcCCCCchhhhHhhHHH
Q psy6304 216 TIH-EGRPPSHFNITGQLIWREYFYTMSAHNPYYDQMEKNPICLNIPWLPESHPNKEKYLNAWKNGQTGYPFIDAVMRQL 294 (407)
Q Consensus 216 ~~~-~~~~~~~~~~~~eL~WRef~~~~~~~~p~~~~~~~~~~~~~~~W~~~~~~~d~~~~~aW~~G~TG~PlVDAaMRqL 294 (407)
... .....+.+.|++||+|||||+++++++|++...++++.++.++|+. +++.|++|++|+||||+||||||||
T Consensus 265 ~~~~~~~~~~~~~f~~eL~WRef~~~~~~~~p~~~~~~~~~~~~~~~w~~-----~~~~~~~W~~G~TG~P~vDAaMrqL 339 (471)
T TIGR03556 265 NSRSEEARNSIRTWQQELAWREFYQHALYHFPELADGPYRSLFQNFPWEN-----NEAHFQAWCEGRTGYPIVDAAMRQL 339 (471)
T ss_pred hcccccccccHHHHHHHHHHHHHHHHHHHHCcchhccccchhhhcCCCcC-----CHHHHHHHhcCCCCCCcccHHHHHH
Confidence 211 0023456789999999999999999999998888888888999998 9899999999999999999999999
Q ss_pred h----------------------------------hhhcC---------------------CCCCCcchhhhccCCCCch
Q psy6304 295 R----------------------------------RLLDC---------------------TYCVCPVNFGRRLDPDGIY 319 (407)
Q Consensus 295 ~----------------------------------~~~~y---------------------~RifNPv~Q~~~~Dp~G~f 319 (407)
+ .++|| +|||||++|++||||+|.|
T Consensus 340 ~~tG~mhnr~Rm~vAsfl~k~L~idWr~G~~~F~~~LlD~D~a~N~g~Wqw~a~~G~d~~p~R~fnp~~q~~k~Dp~G~y 419 (471)
T TIGR03556 340 NETGWMHNRCRMIVASFLTKDLIINWQWGEKYFMQKLIDGDLAANNGGWQWSASSGMDPKPLRIFNPASQAQKFDPEAEY 419 (471)
T ss_pred HHhCCccHHHHHHHHHHHHcccCCCHHHHHHHHHHHhhhcChhhccccccchhcCCCCCCCCcccCHHHHHHHhCCCCch
Confidence 9 11222 7999999999999999999
Q ss_pred hhhccccccCCCCCceecCCCCChHHHhhccCccCCCCCCCCCCHHHHHHHHHHHHHH
Q psy6304 320 IKRYVPELRQFPIQYIYEPWKAPLGVQEKANCIISKDYPERIVNHVQASLENKQYLKK 377 (407)
Q Consensus 320 Ir~wvPEL~~lp~~~Ih~Pw~~~~~~~~~~~~~~g~~YP~PIVd~~~~r~~a~~~~~~ 377 (407)
||||||||++||+++||+||.++ .+++ ..+||.|||||+++|++|+++|++
T Consensus 420 Ir~w~PeL~~~p~~~ih~p~~~~-~~~~------~~~YP~Pivd~~~~r~~~~~~~~~ 470 (471)
T TIGR03556 420 IRRWLPELRSVDTKDLVTGKITP-LERR------AVGYPLPIVDHNQQQQLFKQLYQQ 470 (471)
T ss_pred HHHhCHhhccCCHhhhcCcccCc-hhhh------ccCCCCCCCCHHHHHHHHHHHHhh
Confidence 99999999999999999998776 3333 237999999999999999999974
No 5
>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=100.00 E-value=3.4e-64 Score=482.06 Aligned_cols=220 Identities=37% Similarity=0.640 Sum_probs=189.3
Q ss_pred ccHHHHHHHHHHHhhhhhhhccccccccCCCCCCCCCCCCcCCcccccCcccHHHHHHHHHHhhcccCCCCCCchhHHHH
Q psy6304 151 GGETEALIKLNERLSQEIESFKSGVYLSNQVSPDLTGPPTSQSAALKFGCLSVRRFYWALHDHFNTIHEGRPPSHFNITG 230 (407)
Q Consensus 151 gGe~~A~~~L~~Fl~~~~~~~l~~Y~~~~~~~~~~~~~tS~LSPyL~~G~IS~R~v~~~~~~~~~~~~~~~~~~~~~~~~ 230 (407)
|||++|+++|++|+ +. .+.+|...++.+ + .++||+|||||+|||||||+|++++.+... .......+.++|++
T Consensus 1 GGe~~A~~~L~~Fl--~~--~l~~Y~~~r~~p-~-~~~~S~LSpyL~~G~lS~r~v~~~~~~~~~-~~~~~~~~~~~f~~ 73 (277)
T PF03441_consen 1 GGETAALKRLEEFL--KE--RLADYGEQRDDP-A-ADGTSRLSPYLNFGCLSPREVYRAVKKAQE-ANDAHSESAEKFIR 73 (277)
T ss_dssp SSHHHHHHHHHHHH--HH--CGGGHHHHTT-T-T-STTS---HHHHHTTSS-HHHHHHHHHHHHH-CHTCHHHHHHHHHH
T ss_pred CcHHHHHHHHHHHH--HH--HHHhhchhccCC-C-cCCcCcccHHHhCCCcCHHHHHHHHHHHhh-hcccccchHHHHHH
Confidence 89999999999999 65 489999888765 3 579999999999999999999999988765 21101357889999
Q ss_pred HHHHHHHHHHHHhcCCCcc-cccCCccCCCCCCCCCCCCCcHHHHHHHhcCCCCchhhhHhhHHHh--------------
Q psy6304 231 QLIWREYFYTMSAHNPYYD-QMEKNPICLNIPWLPESHPNKEKYLNAWKNGQTGYPFIDAVMRQLR-------------- 295 (407)
Q Consensus 231 eL~WRef~~~~~~~~p~~~-~~~~~~~~~~~~W~~~~~~~d~~~~~aW~~G~TG~PlVDAaMRqL~-------------- 295 (407)
||+|||||+++++++|++. ..++++.++.++|+. +..+.+.|++|++|+||||+||||||||+
T Consensus 74 eL~WRef~~~~~~~~p~~~~~~~~~~~~~~~~w~~--~~~~~~~~~~w~~G~TG~p~vDAamrqL~~tG~mHn~~R~~va 151 (277)
T PF03441_consen 74 ELIWREFYRQLLYHNPNLDMFENFNPKFRQIPWED--DRENPELFEAWCEGRTGYPLVDAAMRQLRQTGWMHNRLRMIVA 151 (277)
T ss_dssp HHHHHHHHHHHHHHSGGCTCSSTSSTTCCCSHCBT--SBSTHHHHHHHHTT-SS-HHHHHHHHHHHHHS---HHHHHHHH
T ss_pred HHHHHHHHHHHHHhCCcchhhhhccHHHHhhhhcc--cccCHHHHHHHHcCCCCChHHHHHHHHHHHhCcccHHHHHHHH
Confidence 9999999999999999988 778899999999952 01177899999999999999999999999
Q ss_pred ------------------------------------------hhhcCCCCCCcchhhhccCCCCchhhhccccccCCCCC
Q psy6304 296 ------------------------------------------RLLDCTYCVCPVNFGRRLDPDGIYIKRYVPELRQFPIQ 333 (407)
Q Consensus 296 ------------------------------------------~~~~y~RifNPv~Q~~~~Dp~G~fIr~wvPEL~~lp~~ 333 (407)
+..+|+|||||++|+++|||+|+|||||||||++||++
T Consensus 152 sfl~k~l~i~W~~g~~~f~~~liD~d~a~n~~~wqw~ag~g~d~~~~~r~~np~~q~~~~Dp~g~~ir~w~PeL~~~~~~ 231 (277)
T PF03441_consen 152 SFLTKDLLIDWREGAEWFAEHLIDYDPASNYGNWQWAAGTGTDAKPYFRIFNPVKQSKKFDPDGEYIRRWVPELADLPDE 231 (277)
T ss_dssp HHHHHTSHBHHHHHHHHHHHHHTT--HHHHHHHHHHHTTSSSTGCSTTTHHHHHHHHHHHSTTSHHHHHHSGGGTTSTHH
T ss_pred HHHHHhccCCccccHHHHHHHhhccCcchHHHHHHHHHhhccccCccccccCchHHHHhhCcHHHHHHHHHHHHhcCChh
Confidence 34578999999999999999999999999999999999
Q ss_pred ceecCCCCChHHHhhccCccCCCCCCCCCCHHHHHHHHHHHHHHHH
Q psy6304 334 YIYEPWKAPLGVQEKANCIISKDYPERIVNHVQASLENKQYLKKEK 379 (407)
Q Consensus 334 ~Ih~Pw~~~~~~~~~~~~~~g~~YP~PIVd~~~~r~~a~~~~~~~~ 379 (407)
+||+||+++..+|+++||.+|.+||.|||||+++|++|+++|++++
T Consensus 232 ~ih~p~~~~~~~~~~~~~~~~~~YP~pivd~~~~r~~~~~~~~~~~ 277 (277)
T PF03441_consen 232 YIHEPWKAPPAVQKAAGCVLGNDYPKPIVDHKEARKRALKRYKAAY 277 (277)
T ss_dssp HHTSCHGSHHHHHHHCT-CTTTSSBTSSSHHHHHHHHHHHHHHHH-
T ss_pred heeChhccChHHHHHhCCccCCCCCcccCCHHHHHHHHHHHHHhcC
Confidence 9999999999999999999999999999999999999999999864
No 6
>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=1.7e-61 Score=491.99 Aligned_cols=295 Identities=24% Similarity=0.320 Sum_probs=219.3
Q ss_pred CCCCcHHHHHHHHHHHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCceEEEEeeece-----------------ee
Q psy6304 5 TMHIGYNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFEQDCEG-----------------VK 67 (407)
Q Consensus 5 ~~~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~~V~~~~~~~~-----------------v~ 67 (407)
.+..|++|++||+|||++|+++|+++||+|+|+.|++.++|++|+++++|++||+|++|++ |.
T Consensus 48 ~~~~~~~r~~Fl~esL~~L~~~L~~~g~~L~v~~G~~~~vl~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i~ 127 (429)
T TIGR02765 48 FPKTGPARGKFLLESLKDLRTSLRKLGSDLLVRSGKPEDVLPELIKELGVRTVFLHQEVGSEEKSVERLLQQALARLGIH 127 (429)
T ss_pred cCCCCHHHHHHHHHHHHHHHHHHHHcCCCeEEEeCCHHHHHHHHHHHhCCCEEEEeccCCHHHHHHHHHHHHHHHhcCce
Confidence 3568999999999999999999999999999999999999999999999999999999987 44
Q ss_pred eEE-----e-----cC--CCCCCCccCcchhHHHHhhhcCCCCCCCCCCcccccccCCcchhHHhhhhccCCCCCCccCC
Q psy6304 68 PYQ-----S-----FP--TGSHPPRYQPCKTLLNFRDLSGLPPRPKEDIDFRHVTFGTMSESLQREVSLFQTVPKPEQFH 135 (407)
Q Consensus 68 ~~~-----i-----~~--~g~~~~~ftp~~~f~~~~~~~~~~~~p~~~p~~~~~~~~~~~~~~~~~~~~~~~~p~l~~lg 135 (407)
+++ | ++ .|++|.+|| +|+++++.......+.+.|.. +...+.. ... ..+|++++++
T Consensus 128 ~~~~~~~~l~~p~~v~~~~~~~~~~ft---~f~~~~~~~~~~~~~~~~p~~--~~~~~~~------~~~-~~~~~l~~~~ 195 (429)
T TIGR02765 128 VEQHWGSTLYHEDDLPFDLEDLPDVFT---QFRKQVEAKCSIRPPLPAPEK--LPPLPSV------DDP-GWIPTLEDLG 195 (429)
T ss_pred EEEecCCEeECHHhcCCCCCCCCCCch---HHHHHHHhhCCCCCCCCCccc--CCCCccc------ccc-cCCCChhhcC
Confidence 433 3 22 578899999 787777642222233333321 1111100 000 0134444444
Q ss_pred CCCCCCCCCCCCCCCccHHHHHHHHHHHhhhhhhhccccccccCCCCCCCCCCCCcCCcccccCcccHHHHHHHHHHhhc
Q psy6304 136 KYPEMDFGDPLIRWLGGETEALIKLNERLSQEIESFKSGVYLSNQVSPDLTGPPTSQSAALKFGCLSVRRFYWALHDHFN 215 (407)
Q Consensus 136 ~~~~~~~~~~~~~~~gGe~~A~~~L~~Fl~~~~~~~l~~Y~~~~~~~~~~~~~tS~LSPyL~~G~IS~R~v~~~~~~~~~ 215 (407)
..... ......++|||.+|+++|++|+ ..+ .+..|...++.+++ .++||+|||||+|||||||+|++++.+...
T Consensus 196 ~~~~~--~~~~~~~~gGe~~A~~~L~~Fl--~~~-~l~~Y~~~R~~~~~-~~~tS~LSpyL~~G~iS~r~v~~~~~~~~~ 269 (429)
T TIGR02765 196 EESSE--VDRGLPFVGGETAGLARLKEYF--WSK-DLKSYKETRNGMLG-PDYSTKFSPWLALGCVSPRQIYEELQRYET 269 (429)
T ss_pred CCccc--ccccCCcCchHHHHHHHHHHHH--hhc-cHhhhhhccCcccC-CCCcCccCHHHhCCcccHHHHHHHHHHHHh
Confidence 32211 0012348999999999999999 532 37788776654443 468999999999999999999999876422
Q ss_pred ccCCCCCCchhHHHHHHHHHHHHHHHHhcCCC-ccc-ccCCccCCCCCCCCCCCCCcHHHHHHHhcCCCCchhhhHhhHH
Q psy6304 216 TIHEGRPPSHFNITGQLIWREYFYTMSAHNPY-YDQ-MEKNPICLNIPWLPESHPNKEKYLNAWKNGQTGYPFIDAVMRQ 293 (407)
Q Consensus 216 ~~~~~~~~~~~~~~~eL~WRef~~~~~~~~p~-~~~-~~~~~~~~~~~W~~~~~~~d~~~~~aW~~G~TG~PlVDAaMRq 293 (407)
... ...+.+++++||+|||||++++.++|. +.. ..+. ...+.|+. |++.|++|++|+||||||||||||
T Consensus 270 ~~~--~~~~~~~~~~eL~WRef~~~~~~~~~~~~~~~~~~~--~~~~~w~~-----~~~~~~~W~~G~TG~PivDAamrq 340 (429)
T TIGR02765 270 ERG--ANDSTYWVIFELLWRDYFRFYALKYGNRLFRFGGLR--GKHPKWSF-----DAKRFEQWKTGTTGYPLVDANMRE 340 (429)
T ss_pred hcc--cCCCcHHHHHHHHHHHHHHHHHHHcCCcccccCCCc--cCCCCCcc-----CHHHHHHHhCCCCCChhhhHHHHH
Confidence 111 233455678899999999998888874 332 1222 23578998 999999999999999999999999
Q ss_pred Hh--------------------------------------------------------hhhcCCCCCCcchhhhccCCCC
Q psy6304 294 LR--------------------------------------------------------RLLDCTYCVCPVNFGRRLDPDG 317 (407)
Q Consensus 294 L~--------------------------------------------------------~~~~y~RifNPv~Q~~~~Dp~G 317 (407)
|+ |..+ ||||||++|++||||+|
T Consensus 341 L~~TG~mhnr~Rm~vAsFl~k~L~idWr~G~~~F~~~LiD~D~a~n~g~Wqw~ag~g~d~~~-~Rifnp~~q~~k~Dp~g 419 (429)
T TIGR02765 341 LNATGFMSNRGRQNVASFLVKDLGLDWRYGAEWFETQLVDYDVCSNWGNWQYLAGVGNDPRG-SRQFNIEKQAQDYDPDG 419 (429)
T ss_pred HHHhCCCCHHHHHHHHHHHHHccCCCHHHHHHHHHHHhhccchhcCcccchhhhcCcCCCCc-CccCCHHHHHHhcCCCC
Confidence 99 2234 89999999999999999
Q ss_pred chhhhccccc
Q psy6304 318 IYIKRYVPEL 327 (407)
Q Consensus 318 ~fIr~wvPEL 327 (407)
+|||||||||
T Consensus 420 ~yir~wvPeL 429 (429)
T TIGR02765 420 EYVATWVPEL 429 (429)
T ss_pred CcHHHhcCCC
Confidence 9999999998
No 7
>KOG0133|consensus
Probab=100.00 E-value=6.1e-56 Score=445.27 Aligned_cols=367 Identities=34% Similarity=0.568 Sum_probs=286.9
Q ss_pred CCCCCCcHHHHHHHHHHHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCceEEEEeeece-----------------
Q psy6304 3 PGTMHIGYNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFEQDCEG----------------- 65 (407)
Q Consensus 3 ~~~~~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~~V~~~~~~~~----------------- 65 (407)
.|....|..|++||.|+|++|+++|+++|++|++++|.|.++|..+.+..+++.|.++.+++|
T Consensus 44 ~~~~~~g~~~~~~l~qsL~~ld~sl~~l~~~L~v~~~~p~~vl~~~~~~~~~~~l~~~~~~~p~~~vrD~~~~~~a~~l~ 123 (531)
T KOG0133|consen 44 AGSSNVGRNRWRFLLQSLEDLDQSLRELNSRLFVFRGHPIAVLSRLLEQVGVQKLKFEYDMEPDGKVRDATIKSLATELG 123 (531)
T ss_pred hhccccchhHHHHHHHHHHHHHHHHHHhCCceEEEeCCchHHHhhhhhccceeEEEEEEeccCccccccHHHHHHHHHhh
Confidence 456789999999999999999999999999999999999999999999999999999999987
Q ss_pred eeeEE-----------ecC--CCCCCCccCcchhHHHHhhhcCCCCCCCCCCcccccccCCcchhHHhhhhccCCCCCCc
Q psy6304 66 VKPYQ-----------SFP--TGSHPPRYQPCKTLLNFRDLSGLPPRPKEDIDFRHVTFGTMSESLQREVSLFQTVPKPE 132 (407)
Q Consensus 66 v~~~~-----------i~~--~g~~~~~ftp~~~f~~~~~~~~~~~~p~~~p~~~~~~~~~~~~~~~~~~~~~~~~p~l~ 132 (407)
+.++. ++. .+++|..|. .|+....++..+..|.-..... ..+..+...........+|+++
T Consensus 124 i~v~s~~s~~~~~~~~~i~~n~~k~pls~~---~~~~~~~~~~~~~~p~~v~~~~---~~~~~~~~~~~~~~~~~v~~~e 197 (531)
T KOG0133|consen 124 LSVVSPVSHTLYLPDKIIEANGGKPPLSYK---TFRGVCQSMSAPKIPALVLSGL---AVEKHPNFLANSKASAVVPTLE 197 (531)
T ss_pred hhhcccCchhhhcHHHHHHhcCCCCccccc---cccccccccccccccccccccc---cCCCChhhhhhcccccccCCch
Confidence 22222 222 678888888 7777766654433321100100 1111111000011112467777
Q ss_pred cCCCCCCCCCCCCCCCCCccHHHHHHHHHHHhhhhhhhccccccccCCCCCCC-CCCCCcCCcccccCcccHHHHHH--H
Q psy6304 133 QFHKYPEMDFGDPLIRWLGGETEALIKLNERLSQEIESFKSGVYLSNQVSPDL-TGPPTSQSAALKFGCLSVRRFYW--A 209 (407)
Q Consensus 133 ~lg~~~~~~~~~~~~~~~gGe~~A~~~L~~Fl~~~~~~~l~~Y~~~~~~~~~~-~~~tS~LSPyL~~G~IS~R~v~~--~ 209 (407)
.+++.+.. .....|.||++.|+.+|+.|| ...-...+++....+.+.+ ..+|+.|||||+|||+|.|.+++ .
T Consensus 198 ~l~~~~~~---~~~~~~~~g~s~al~~l~~~l--~~~~~~an~~~~~~~~~~~~~~s~~~Ls~yL~fg~~svr~~~~~~~ 272 (531)
T KOG0133|consen 198 LLRFIPSN---YGEVVWRGGESEALKRLDAHL--KVPLWVANLELRYSNANSRVKISTTVLSPYLKFGCLSVRYFYRCVR 272 (531)
T ss_pred hhccCccc---ccccccCCcccchhHHHHHHh--hHHHHHhhhhccccccchhcCCCccccccceeeccceeEeehhHhH
Confidence 77665433 223348999999999999999 4332345555544454443 35778999999999999999995 2
Q ss_pred HHHhhcccCCCCCCchh-HHHHHHHHHHHHHHHHhcCCCcccccCCccCCCCCCCCCCCCCcHHHHHHHhcCCCCchhhh
Q psy6304 210 LHDHFNTIHEGRPPSHF-NITGQLIWREYFYTMSAHNPYYDQMEKNPICLNIPWLPESHPNKEKYLNAWKNGQTGYPFID 288 (407)
Q Consensus 210 ~~~~~~~~~~~~~~~~~-~~~~eL~WRef~~~~~~~~p~~~~~~~~~~~~~~~W~~~~~~~d~~~~~aW~~G~TG~PlVD 288 (407)
+.+...+... .+.+.+ .++.|++|||||++....+|.++.++++..+.+++|+. |+..+++|++|+||||+||
T Consensus 273 ~k~V~~~~~~-~s~~~es~~~~qv~Wre~~y~~~~n~p~~~~m~~n~~~~~ipw~~-----n~~~~~aw~~G~tG~P~id 346 (531)
T KOG0133|consen 273 LKQVKWKAKK-NSLPPESLFLGQVAWREFFYTAAFNTPYFDDMPGNKILLQIPWDK-----NPPKLAAWLEGLTGYPWLD 346 (531)
T ss_pred HHHHHHhhhc-ccCCccccccceeeeechhhHhhcCCccccccccccccccCCccc-----ChhhhHHHHcCCCCCCchh
Confidence 2222222111 123334 48999999999999999999999999999999999999 9999999999999999999
Q ss_pred HhhHHHh---------------------------------------------------------hhhcCCCCCCcchhhh
Q psy6304 289 AVMRQLR---------------------------------------------------------RLLDCTYCVCPVNFGR 311 (407)
Q Consensus 289 AaMRqL~---------------------------------------------------------~~~~y~RifNPv~Q~~ 311 (407)
|+||||. +...|+|||||+.+++
T Consensus 347 a~m~~l~~~gw~h~~~R~~vasf~tr~~L~i~w~eg~~~F~~~llD~D~~~~agnW~~~S~~s~f~~~~~~~ysp~~~~k 426 (531)
T KOG0133|consen 347 AGMRQLLASGWEHHRSRTIVASFLTRGDLLISWREGLDVFMEYLLDADSSKNAGNWMWLSSTSHFFDQFDRVYSPVALGK 426 (531)
T ss_pred HHHHHHHHHHHHhcccchhhHhHhhccceeeeHHHHHHHHHHHhcchhhhcCCCccceeccccccccccccccCHHHHhC
Confidence 9999999 2345689999999999
Q ss_pred ccCCCCchhhhccccccCCCCCceecCCCCChHHHhhccCccCCCCCCCCCCHHHHHHHHHHHHHHHHhcccccC
Q psy6304 312 RLDPDGIYIKRYVPELRQFPIQYIYEPWKAPLGVQEKANCIISKDYPERIVNHVQASLENKQYLKKEKANCIINK 386 (407)
Q Consensus 312 ~~Dp~G~fIr~wvPEL~~lp~~~Ih~Pw~~~~~~~~~~~~~~g~~YP~PIVd~~~~r~~a~~~~~~~~~~~~~~~ 386 (407)
++||+|.|||+|+|||++.|..+||+||.+|..+|.+++|.+|.+||+|||+|+.+++...++++.+.+......
T Consensus 427 k~dP~g~yir~~lp~l~~~p~~~i~~pW~~p~~~~~~~~~~lg~~Yp~~iv~~~~a~k~~~e~~~~~~~~~~~~~ 501 (531)
T KOG0133|consen 427 KLDPDGLYIRQWLPELRSGPMHFIYEPWAAPEGVQTAAGELLGVDYPKPIVKLASAAKRNMEAMGCMWSIGAVHD 501 (531)
T ss_pred cCCcchhhHHHHhHHHhcCCcceeccCCCCcHHHhhhhhhhhhcccchhhhhhHHhhHhHHHHHHHHHhhccccc
Confidence 999999999999999999999999999999999999999999999999999999999999999999988765544
No 8
>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=7.7e-52 Score=423.68 Aligned_cols=285 Identities=15% Similarity=0.090 Sum_probs=202.2
Q ss_pred CCCcHHHHHHHHHHHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCceEEEEeeece----------------eeeE
Q psy6304 6 MHIGYNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFEQDCEG----------------VKPY 69 (407)
Q Consensus 6 ~~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~~V~~~~~~~~----------------v~~~ 69 (407)
...|++|++||+|||.+|+++|+++|++|+|+.|+|.++|.+|+++++|++||+|+++++ |.++
T Consensus 66 ~~~~~~r~~Fl~esL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~i~~V~~~~~~~~~~~~rd~~v~~~l~~~i~~~ 145 (454)
T TIGR00591 66 LAATRRHYFFMLGGLDEVANECERLIIPFHLLDGPPKELLPYFVDLHAAAAVVTDFSPLRQPEQWDEAVGKLLPKDVPFQ 145 (454)
T ss_pred ccccHHHHHHHHHHHHHHHHHHHHcCCceEEeecChHHHHHHHHHHcCCCEEEEecccCcHHHHHHHHHHHHhcCCCcEE
Confidence 456899999999999999999999999999999999999999999999999999999987 3343
Q ss_pred E-----ecC-----CCCCCCccCcchhHHHHhhhcCCC-CCCCCCCcccc--cccCCcchhHHhhhhccCCCCCCccCCC
Q psy6304 70 Q-----SFP-----TGSHPPRYQPCKTLLNFRDLSGLP-PRPKEDIDFRH--VTFGTMSESLQREVSLFQTVPKPEQFHK 136 (407)
Q Consensus 70 ~-----i~~-----~g~~~~~ftp~~~f~~~~~~~~~~-~~p~~~p~~~~--~~~~~~~~~~~~~~~~~~~~p~l~~lg~ 136 (407)
+ |++ .+.+|.+|||+ .+. .+.... ..+.+.+.... ....+....+ . .+ ++.++.
T Consensus 146 ~~~~~~l~p~~~~~~~~~y~~ft~~---~k~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~---~~--~~~~~~ 212 (454)
T TIGR00591 146 QVDAHNVVPCWAASKKLEYAARTIR---GKI-RKLLPEYLTEFPRVLKHPSPLDLEAGPVDW----D---AV--RDSLAV 212 (454)
T ss_pred EECCceEeeCcccCCceeeeeecHH---HHH-HHhChhhccccCCCccCCcccccccCcCCH----H---HH--HHhccC
Confidence 3 333 34678889943 332 221100 00001000000 0000000000 0 00 001111
Q ss_pred CCCCCCCCCCCCC-CccHHHHHHHHHHHhhhhhhhccccccccCCCCCCCCCCCCcCCcccccCcccHHHHHHHHHHhhc
Q psy6304 137 YPEMDFGDPLIRW-LGGETEALIKLNERLSQEIESFKSGVYLSNQVSPDLTGPPTSQSAALKFGCLSVRRFYWALHDHFN 215 (407)
Q Consensus 137 ~~~~~~~~~~~~~-~gGe~~A~~~L~~Fl~~~~~~~l~~Y~~~~~~~~~~~~~tS~LSPyL~~G~IS~R~v~~~~~~~~~ 215 (407)
... .....| +|||.+|+++|++|+ .+ .+.+|...++.+ + .++||+|||||+|||||||+|++++.+...
T Consensus 213 ~~~----~~~~~~~~gGe~aA~~~L~~F~--~~--~l~~Y~~~Rn~p-~-~~~tS~LSPyL~~G~IS~R~i~~~~~~~~~ 282 (454)
T TIGR00591 213 ERS----VEEVVWAKPGTTAGLIMLESFI--EK--RLCFFRTRRNDP-N-NDALSMLSPWLHFGQLSAQRAARAVERARG 282 (454)
T ss_pred cCC----cCCcCCCCCcHHHHHHHHHHHH--HH--HHHHHHHhcCCc-c-cccccccchHHhcCcccHHHHHHHHHHhcc
Confidence 111 112236 999999999999998 65 488998877664 4 479999999999999999999999865322
Q ss_pred ccCCCCCCchhHHHHHHHHH-HHHHHHHhcCCCcccccCCccCCCCCCCCCC---CCCcH----HHHHHHhcCCCCchhh
Q psy6304 216 TIHEGRPPSHFNITGQLIWR-EYFYTMSAHNPYYDQMEKNPICLNIPWLPES---HPNKE----KYLNAWKNGQTGYPFI 287 (407)
Q Consensus 216 ~~~~~~~~~~~~~~~eL~WR-ef~~~~~~~~p~~~~~~~~~~~~~~~W~~~~---~~~d~----~~~~aW~~G~TG~PlV 287 (407)
. ...+...|++||+|| |||+++++++|++.. +... ..|...+ |..|. ..|++||+|+||||||
T Consensus 283 ~----~~~~~~~fl~EL~WR~ef~~~~~~~~p~~~~--~~~~---~~w~~~~l~~~~~d~r~~~~~~~~W~~G~Tg~piv 353 (454)
T TIGR00591 283 N----AGESVEFFEEELVVRRELADNFCFYNPYYDS--LCGA---YWWARTTLDDHAKDKREHLYSLEQLEKSTTHDYLW 353 (454)
T ss_pred C----CchHHHHHHHHHHHHHHHHhHhhhcCCCccc--cccc---hHHHHHHHHHHhcCCccccCCHHHHHhcCcCcHhH
Confidence 1 134467899999999 899999999998775 2221 2265100 11133 2699999999999999
Q ss_pred hHhhHHHh----------------------------------------------------------hhhcC-----C---
Q psy6304 288 DAVMRQLR----------------------------------------------------------RLLDC-----T--- 301 (407)
Q Consensus 288 DAaMRqL~----------------------------------------------------------~~~~y-----~--- 301 (407)
|||||||+ |..|| |
T Consensus 354 dA~MrqL~~TG~MHNr~RMi~aK~li~W~~g~~~f~~~~~~ln~~~lvDgd~a~n~~~wqW~~~G~d~~p~~~~~~fg~i 433 (454)
T TIGR00591 354 NAAQEQLVTEGKMHGFLRMYWAKKILEWTHSPEEALSIAIYLNDKYILDGRDPNGYVGCMWSICGIHDQGWAERIVFGKI 433 (454)
T ss_pred hHHHHHHHHhCccccceeeeeeeehhhcCCCHHHHHHHHHHhhhhhhccCCCCCccceeeeEeccccCCCCCCCccceee
Confidence 99999999 45677 8
Q ss_pred CCCCcchhhhccCCCCchhhhc
Q psy6304 302 YCVCPVNFGRRLDPDGIYIKRY 323 (407)
Q Consensus 302 RifNPv~Q~~~~Dp~G~fIr~w 323 (407)
|+|||++|++||||+| |||+|
T Consensus 434 R~~np~~q~~kfd~~~-yi~~~ 454 (454)
T TIGR00591 434 RYMNYAGCRRKFNVAY-FERKY 454 (454)
T ss_pred eecChhhhhccCCHHH-HHhhC
Confidence 9999999999999999 99998
No 9
>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=99.55 E-value=1.7e-14 Score=128.06 Aligned_cols=94 Identities=27% Similarity=0.385 Sum_probs=73.4
Q ss_pred CCcHHHHHHHHHHHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCceEEEEeeece-----------------eeeE
Q psy6304 7 HIGYNRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFEQDCEG-----------------VKPY 69 (407)
Q Consensus 7 ~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~~V~~~~~~~~-----------------v~~~ 69 (407)
..|++|++||+|||.+|+++|+++|++|+|+.|++.++|.+|+++++|++|++|++|++ |.++
T Consensus 42 ~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i~~~ 121 (165)
T PF00875_consen 42 RIGPRRRRFLLESLADLQESLRKLGIPLLVLRGDPEEVLPELAKEYGATAVYFNEEYTPYERRRDERVRKALKKHGIKVH 121 (165)
T ss_dssp SSCHHHHHHHHHHHHHHHHHHHHTTS-EEEEESSHHHHHHHHHHHHTESEEEEE---SHHHHHHHHHHHHHHHHTTSEEE
T ss_pred cCcchHHHHHHHHHHHHHHHHHhcCcceEEEecchHHHHHHHHHhcCcCeeEeccccCHHHHHHHHHHHHHHHhcceEEE
Confidence 46999999999999999999999999999999999999999999999999999999987 4454
Q ss_pred E-----------ecC-CCCCCCccCcchhHHHHhhhcCCCCCCCCCC
Q psy6304 70 Q-----------SFP-TGSHPPRYQPCKTLLNFRDLSGLPPRPKEDI 104 (407)
Q Consensus 70 ~-----------i~~-~g~~~~~ftp~~~f~~~~~~~~~~~~p~~~p 104 (407)
. +.+ .|.+|++|| +|++++++... ..|.|+|
T Consensus 122 ~~~~~~L~~~~~i~~~~~~~~~vFt---pf~k~~~~~~~-~~p~p~p 164 (165)
T PF00875_consen 122 TFDDHTLVPPDDIPKKDGEPYKVFT---PFRKKWEKQLL-EEPLPAP 164 (165)
T ss_dssp EE--SSSS-HHHCHSTTSSSHSSHH---HHHHHHHCHCS-C------
T ss_pred EECCcEEEeccccccCCCCCcccHH---HHHHHHHhcCC-CCCCCCC
Confidence 4 323 688999999 88888877554 2445544
No 10
>COG3046 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]
Probab=99.23 E-value=5.1e-10 Score=108.64 Aligned_cols=132 Identities=17% Similarity=0.094 Sum_probs=96.2
Q ss_pred CCCCCccHHHHHHHHHHHhhhhhhhccccccccCCCCCC--CCCCCCcCCcccccCcccHHHHHHHHHHhhcccCCCCCC
Q psy6304 146 LIRWLGGETEALIKLNERLSQEIESFKSGVYLSNQVSPD--LTGPPTSQSAALKFGCLSVRRFYWALHDHFNTIHEGRPP 223 (407)
Q Consensus 146 ~~~~~gGe~~A~~~L~~Fl~~~~~~~l~~Y~~~~~~~~~--~~~~tS~LSPyL~~G~IS~R~v~~~~~~~~~~~~~~~~~ 223 (407)
.+.|+..+++|++.|++|+ +. .|.+|....+.... ..-..|.||+||..|.|+|.+|..++.+++..... .-.
T Consensus 220 ~F~wpvtr~~A~~~L~~Fi--~~--~L~nFG~yQDam~~d~~~L~HSllS~alNigLL~PleVi~Aa~~Ay~~g~i-pLN 294 (505)
T COG3046 220 GFGWPVTRTQALRALKHFI--AD--RLPNFGSYQDAMSADDPHLWHSLLSFALNIGLLTPLEVIRAALKAYREGDI-PLN 294 (505)
T ss_pred cCCCCCCHHHHHHHHHHHH--HH--hhhcCCcHHHHHhcCCchhHHHHHHHHhhccCCCHHHHHHHHHHhhccCCC-chH
Confidence 4679999999999999999 65 37777665433221 01258999999999999999999999887654222 234
Q ss_pred chhHHHHHHH-HHHHHHHHHhcC-CCcccccCCccCCCCCCCCCCCCCcHHHHHHHhcCCCCchhhhHhhHHHh
Q psy6304 224 SHFNITGQLI-WREYFYTMSAHN-PYYDQMEKNPICLNIPWLPESHPNKEKYLNAWKNGQTGYPFIDAVMRQLR 295 (407)
Q Consensus 224 ~~~~~~~eL~-WRef~~~~~~~~-p~~~~~~~~~~~~~~~W~~~~~~~d~~~~~aW~~G~TG~PlVDAaMRqL~ 295 (407)
+++.|++|++ ||||.+.+++.. |++.+.++... +-..-.-..+|+|+.-.++-+..+-.
T Consensus 295 ~VEGFvRQiiGWREfmRgiY~~~~P~y~trN~f~~-------------d~~Lp~~yw~g~T~M~cl~~av~~v~ 355 (505)
T COG3046 295 SVEGFVRQIIGWREFMRGIYWLKMPDYATRNFFNA-------------DRKLPPFYWTGQTKMACLAIAVGRVL 355 (505)
T ss_pred HHHHHHHHHhhHHHHHHHhhhhcCCchhhhhhhcc-------------CCCCCCccccCCcCchHHHHHHHHHh
Confidence 6788999986 999999999876 88776554221 11112234578998888877777766
No 11
>PRK09982 universal stress protein UspD; Provisional
Probab=60.12 E-value=26 Score=29.56 Aligned_cols=42 Identities=14% Similarity=0.121 Sum_probs=32.3
Q ss_pred HHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCceEEEE
Q psy6304 19 CLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFE 60 (407)
Q Consensus 19 sL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~~V~~~ 60 (407)
.|+++.+.+...++...+..|+|.+.|.+.+++.+++-|++-
T Consensus 69 ~l~~~~~~~~~~~~~~~v~~G~p~~~I~~~A~~~~aDLIVmG 110 (142)
T PRK09982 69 KLYKLTKNIQWPKTKLRIERGEMPETLLEIMQKEQCDLLVCG 110 (142)
T ss_pred HHHHHHHhcCCCcceEEEEecCHHHHHHHHHHHcCCCEEEEe
Confidence 355555544444567788899999999999999999988774
No 12
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=58.32 E-value=25 Score=35.15 Aligned_cols=47 Identities=6% Similarity=0.106 Sum_probs=36.4
Q ss_pred HHHHHHHHHHh------cCCcEEEEE----------CChHHHHHHHHHHhCCceEEEEeeece
Q psy6304 19 CLADLDRQLKS------HGGQLFIVQ----------GSPISIFQKLKRELNFTKLCFEQDCEG 65 (407)
Q Consensus 19 sL~~L~~~L~~------~G~~L~v~~----------G~~~~vl~~L~~~~~i~~V~~~~~~~~ 65 (407)
-|+.+.+.+++ .|+...... |+|.+.|.+.+++++++.|++..+|.|
T Consensus 63 lle~~~~~~~~~l~~~~~gV~ve~~vv~~~~~~~~~G~pae~Iv~~Aee~~aDLIVm~~~~~~ 125 (357)
T PRK12652 63 LLERVEVWATEDLGDDASSVTIETALLGTDEYLFGPGDYAEVLIAYAEEHGIDRVVLDPEYNP 125 (357)
T ss_pred HHHHHHHHHHHhhhcccCCCceEEEEEeccccccCCCCHHHHHHHHHHHcCCCEEEECCCCCC
Confidence 35555555544 477755543 899999999999999999999999966
No 13
>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=56.80 E-value=26 Score=31.17 Aligned_cols=44 Identities=23% Similarity=0.191 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCceEEEE
Q psy6304 17 LECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFE 60 (407)
Q Consensus 17 ~esL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~~V~~~ 60 (407)
.....++=+.|++.|.++.|..|.+...+..+++.+++..++.+
T Consensus 89 ~~~~~~~l~~l~~~g~~v~ivS~s~~~~v~~~~~~lg~~~~~~~ 132 (202)
T TIGR01490 89 YPEARDLIRWHKAEGHTIVLVSASLTILVKPLARILGIDNAIGT 132 (202)
T ss_pred cHHHHHHHHHHHHCCCEEEEEeCCcHHHHHHHHHHcCCcceEec
Confidence 34555555667888999999999999999999999999988765
No 14
>PRK15456 universal stress protein UspG; Provisional
Probab=56.35 E-value=25 Score=29.38 Aligned_cols=44 Identities=16% Similarity=0.142 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHhcCC--cEEEEECChHHHHHHHHHHhCCceEEEEe
Q psy6304 18 ECLADLDRQLKSHGG--QLFIVQGSPISIFQKLKRELNFTKLCFEQ 61 (407)
Q Consensus 18 esL~~L~~~L~~~G~--~L~v~~G~~~~vl~~L~~~~~i~~V~~~~ 61 (407)
+.|.++.+.+...|. ..++..|+|.+.|.+++++++++-|++-.
T Consensus 68 ~~l~~~~~~~~~~~~~v~~~v~~G~~~~~I~~~a~~~~~DLIVmG~ 113 (142)
T PRK15456 68 ERLQTMVSHFTIDPSRIKQHVRFGSVRDEVNELAEELGADVVVIGS 113 (142)
T ss_pred HHHHHHHHHhCCCCcceEEEEcCCChHHHHHHHHhhcCCCEEEEcC
Confidence 445555555533333 56678899999999999999999887633
No 15
>PRK15005 universal stress protein F; Provisional
Probab=55.05 E-value=29 Score=28.92 Aligned_cols=44 Identities=14% Similarity=0.249 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHhcC--CcEEEEECChHHHHHHHHHHhCCceEEEEe
Q psy6304 18 ECLADLDRQLKSHG--GQLFIVQGSPISIFQKLKRELNFTKLCFEQ 61 (407)
Q Consensus 18 esL~~L~~~L~~~G--~~L~v~~G~~~~vl~~L~~~~~i~~V~~~~ 61 (407)
+.|+.+.+.+...| ....+..|+|.+.|.+.+++.+++-|++-.
T Consensus 70 ~~l~~~~~~~~~~~~~~~~~v~~G~p~~~I~~~a~~~~~DLIV~Gs 115 (144)
T PRK15005 70 SQLEEIIKKFKLPTDRVHVHVEEGSPKDRILELAKKIPADMIIIAS 115 (144)
T ss_pred HHHHHHHHHhCCCCCceEEEEeCCCHHHHHHHHHHHcCCCEEEEeC
Confidence 34444444443333 357788999999999999999999888753
No 16
>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=53.14 E-value=18 Score=31.31 Aligned_cols=44 Identities=18% Similarity=0.168 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCceEEEEe
Q psy6304 18 ECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFEQ 61 (407)
Q Consensus 18 esL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~~V~~~~ 61 (407)
....++=+.|++.|.++.|..|.....+..+++.+++..++.+.
T Consensus 76 ~g~~~~l~~l~~~g~~~~ivS~~~~~~i~~~~~~~g~~~~~~~~ 119 (177)
T TIGR01488 76 PGARELISWLKERGIDTVIVSGGFDFFVEPVAEKLGIDDVFANR 119 (177)
T ss_pred cCHHHHHHHHHHCCCEEEEECCCcHHHHHHHHHHcCCchheeee
Confidence 45666667788899999999999999999999999998877665
No 17
>COG0560 SerB Phosphoserine phosphatase [Amino acid transport and metabolism]
Probab=52.14 E-value=23 Score=32.57 Aligned_cols=44 Identities=16% Similarity=0.255 Sum_probs=40.1
Q ss_pred HHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCceEEEEee
Q psy6304 19 CLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFEQD 62 (407)
Q Consensus 19 sL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~~V~~~~~ 62 (407)
...+|-..|++.|....|..|.+......+++.+|++.++.|.-
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 37788999999999999999999999999999999999887764
No 18
>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=49.67 E-value=35 Score=30.19 Aligned_cols=44 Identities=25% Similarity=0.310 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCceEEEEe
Q psy6304 18 ECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFEQ 61 (407)
Q Consensus 18 esL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~~V~~~~ 61 (407)
....++=+.|++.|.++.|+.+.+...+..+++.+|+..++.+.
T Consensus 83 ~g~~e~l~~l~~~g~~~~IvS~~~~~~~~~~l~~~g~~~~~~~~ 126 (201)
T TIGR01491 83 DYAEELVRWLKEKGLKTAIVSGGIMCLAKKVAEKLNPDYVYSNE 126 (201)
T ss_pred ccHHHHHHHHHHCCCEEEEEeCCcHHHHHHHHHHhCCCeEEEEE
Confidence 34556667778889999999999999999999999998776544
No 19
>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=48.52 E-value=33 Score=32.99 Aligned_cols=44 Identities=14% Similarity=0.220 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCc----eEEEEe
Q psy6304 18 ECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFT----KLCFEQ 61 (407)
Q Consensus 18 esL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~----~V~~~~ 61 (407)
.+..+|=..|++.|+++.|+.|.....+..++++.++. .|+.|+
T Consensus 124 pG~~efl~~L~~~GIpv~IvS~G~~~~Ie~vL~~lgl~~~~~~IvSN~ 171 (277)
T TIGR01544 124 DGYENFFDKLQQHSIPVFIFSAGIGNVLEEVLRQAGVYHPNVKVVSNF 171 (277)
T ss_pred cCHHHHHHHHHHCCCcEEEEeCCcHHHHHHHHHHcCCCCcCceEEeee
Confidence 45677888899999999999999999999999988874 455554
No 20
>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=48.15 E-value=58 Score=26.28 Aligned_cols=49 Identities=12% Similarity=0.033 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHHHhcCCcEEEE---ECChHHHHHHHHHHhCCceEEEEee
Q psy6304 14 RFLLECLADLDRQLKSHGGQLFIV---QGSPISIFQKLKRELNFTKLCFEQD 62 (407)
Q Consensus 14 ~Fl~esL~~L~~~L~~~G~~L~v~---~G~~~~vl~~L~~~~~i~~V~~~~~ 62 (407)
.-..+.+..+.+.+++.|++.... .|++.+.|.+++++++++-|++-..
T Consensus 52 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~I~~~a~~~~~dlIV~G~~ 103 (132)
T cd01988 52 QRARKLLRQAERIAASLGVPVHTIIRIDHDIASGILRTAKERQADLIIMGWH 103 (132)
T ss_pred HHHHHHHHHHHHHhhhcCCceEEEEEecCCHHHHHHHHHHhcCCCEEEEecC
Confidence 345577778888888889885543 4789999999999999998877543
No 21
>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=47.82 E-value=67 Score=25.85 Aligned_cols=44 Identities=18% Similarity=0.244 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHhcCCcEEEE-ECChHHHHHHHHHHhCCceEEEEe
Q psy6304 18 ECLADLDRQLKSHGGQLFIV-QGSPISIFQKLKRELNFTKLCFEQ 61 (407)
Q Consensus 18 esL~~L~~~L~~~G~~L~v~-~G~~~~vl~~L~~~~~i~~V~~~~ 61 (407)
+-|+.+.+.+++.|....+. .|++.+.|.+.+++++++.|++-.
T Consensus 49 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~I~~~~~~~~~dllviG~ 93 (124)
T cd01987 49 RRLAEALRLAEELGAEVVTLPGDDVAEAIVEFAREHNVTQIVVGK 93 (124)
T ss_pred HHHHHHHHHHHHcCCEEEEEeCCcHHHHHHHHHHHcCCCEEEeCC
Confidence 34555666666778776554 457889999999999999887643
No 22
>PF12710 HAD: haloacid dehalogenase-like hydrolase; PDB: 3P96_A 3N28_A 3FVV_A 1RKU_A 1RKV_A 1Y8A_A 2FEA_B 3KD3_B.
Probab=47.30 E-value=48 Score=28.93 Aligned_cols=41 Identities=29% Similarity=0.435 Sum_probs=35.1
Q ss_pred HHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCce--EEEEee
Q psy6304 22 DLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTK--LCFEQD 62 (407)
Q Consensus 22 ~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~~--V~~~~~ 62 (407)
++=+.|++.|.+++|+.|++...+..+++.+++.. |+.+.-
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 44455778899999999999999999999999998 777775
No 23
>KOG1615|consensus
Probab=45.61 E-value=30 Score=31.51 Aligned_cols=43 Identities=16% Similarity=0.416 Sum_probs=38.1
Q ss_pred HHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCce--EEEEe
Q psy6304 19 CLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTK--LCFEQ 61 (407)
Q Consensus 19 sL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~~--V~~~~ 61 (407)
++.+|=..|++.|..+++..|-....+.-++.+.||.. +|.|.
T Consensus 92 Gi~eLv~~L~~~~~~v~liSGGF~~~i~~Va~~Lgi~~~n~yAN~ 136 (227)
T KOG1615|consen 92 GIRELVSRLHARGTQVYLISGGFRQLIEPVAEQLGIPKSNIYANE 136 (227)
T ss_pred CHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHhCCcHhhhhhhe
Confidence 57788899999999999999999999999999999987 77665
No 24
>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=44.09 E-value=32 Score=30.57 Aligned_cols=40 Identities=18% Similarity=0.194 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCce
Q psy6304 17 LECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTK 56 (407)
Q Consensus 17 ~esL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~~ 56 (407)
.....++=+.|++.|+++.++.||.......+++..|+..
T Consensus 129 ~~~~~~~l~~L~~~Gi~~~i~TGD~~~~a~~~~~~lgi~~ 168 (215)
T PF00702_consen 129 RPGAKEALQELKEAGIKVAILTGDNESTASAIAKQLGIFD 168 (215)
T ss_dssp HTTHHHHHHHHHHTTEEEEEEESSEHHHHHHHHHHTTSCS
T ss_pred hhhhhhhhhhhhccCcceeeeecccccccccccccccccc
Confidence 3445666677888899999999999999999999999954
No 25
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=43.66 E-value=84 Score=26.10 Aligned_cols=41 Identities=7% Similarity=0.087 Sum_probs=29.7
Q ss_pred HHHHHHHHhcCCcE---EEEECChHHHHHHHHHHhCCceEEEEe
Q psy6304 21 ADLDRQLKSHGGQL---FIVQGSPISIFQKLKRELNFTKLCFEQ 61 (407)
Q Consensus 21 ~~L~~~L~~~G~~L---~v~~G~~~~vl~~L~~~~~i~~V~~~~ 61 (407)
+.|+.-+++.|+.. ++..|+|.+.|.+.+++.+++-|++-.
T Consensus 68 ~~l~~~~~~~~~~~~~~~~~~G~p~~~I~~~a~~~~~DLIV~Gs 111 (144)
T PRK15118 68 HALTELSTNAGYPITETLSGSGDLGQVLVDAIKKYDMDLVVCGH 111 (144)
T ss_pred HHHHHHHHhCCCCceEEEEEecCHHHHHHHHHHHhCCCEEEEeC
Confidence 33444445567663 445799999999999999999887743
No 26
>PF03392 OS-D: Insect pheromone-binding family, A10/OS-D; InterPro: IPR005055 A class of small (14-20 Kd) water-soluble proteins, called odorant binding proteins (OBPs), first discovered in the insect sensillar lymph but also in the mucus of vertebrates, is postulated to mediate the solubilisation of hydrophobic odorant molecules, and thereby to facilitate their transport to the receptor neurons. The product of a gene expressed in the olfactory system of Drosophila melanogaster (Fruit fly), OS-D, shares features common to vertebrate odorant-binding proteins, but has a primary structure unlike odorant-binding proteins []. OS-D derivatives have subsequently been found in chemosensory organs of phylogenetically distinct insects, including cockroaches, phasmids and moths, suggesting that OS-D-like proteins seem to be conserved in the insect phylum.; PDB: 1KX9_A 1N8U_A 1KX8_A 1K19_A 1N8V_A 2GVS_A 2JNT_A.
Probab=43.64 E-value=8.5 Score=30.74 Aligned_cols=13 Identities=46% Similarity=1.127 Sum_probs=9.8
Q ss_pred hccCCCCchhhhc
Q psy6304 311 RRLDPDGIYIKRY 323 (407)
Q Consensus 311 ~~~Dp~G~fIr~w 323 (407)
.+|||+|.|.++|
T Consensus 83 ~KyDp~~~y~~ky 95 (95)
T PF03392_consen 83 KKYDPEGKYRKKY 95 (95)
T ss_dssp HHHTTT-TTHHHH
T ss_pred HHHCCCcchhhcC
Confidence 5899999998875
No 27
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=41.52 E-value=1.2e+02 Score=28.26 Aligned_cols=57 Identities=7% Similarity=0.146 Sum_probs=38.7
Q ss_pred CCcHHHHHHHHHHHHHHHHHHHhcCCcEEEEEC-------ChHHHHHHHHHHhCCceEEEEeee
Q psy6304 7 HIGYNRFRFLLECLADLDRQLKSHGGQLFIVQG-------SPISIFQKLKRELNFTKLCFEQDC 63 (407)
Q Consensus 7 ~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~G-------~~~~vl~~L~~~~~i~~V~~~~~~ 63 (407)
.....+..++..|++.-.+.|++.|-.+..+.- +..+.|..++++++++.|.+.+-.
T Consensus 38 ~~HkqKl~l~~saMRhfa~~L~~~G~~V~Y~~~~~~~~~~s~~~~L~~~~~~~~~~~~~~~~P~ 101 (224)
T PF04244_consen 38 PHHKQKLVLFFSAMRHFADELRAKGFRVHYIELDDPENTQSFEDALARALKQHGIDRLHVMEPG 101 (224)
T ss_dssp ---HHHHHHHHHHHHHHHHHHHHTT--EEEE-TT-TT--SSHHHHHHHHHHHH----EEEE--S
T ss_pred cccHHHHHHHHHHHHHHHHHHHhCCCEEEEEeCCCccccccHHHHHHHHHHHcCCCEEEEECCC
Confidence 445677889999999999999999999888763 346889899999999999886643
No 28
>PRK11590 hypothetical protein; Provisional
Probab=40.22 E-value=73 Score=28.88 Aligned_cols=42 Identities=19% Similarity=0.287 Sum_probs=33.7
Q ss_pred HHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhC---CceEEEEe
Q psy6304 20 LADLDRQLKSHGGQLFIVQGSPISIFQKLKRELN---FTKLCFEQ 61 (407)
Q Consensus 20 L~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~---i~~V~~~~ 61 (407)
++-|++.|++.|.++.|..+.+...+..+++.++ +.+|++++
T Consensus 101 ~e~L~~~l~~~G~~l~IvSas~~~~~~~il~~l~~~~~~~~i~t~ 145 (211)
T PRK11590 101 QERLTTYLLSSDADVWLITGSPQPLVEQVYFDTPWLPRVNLIASQ 145 (211)
T ss_pred HHHHHHHHHhCCCEEEEEeCCcHHHHHHHHHHccccccCceEEEE
Confidence 4555567778899999999999999999999888 46666654
No 29
>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=40.18 E-value=72 Score=29.12 Aligned_cols=43 Identities=19% Similarity=0.313 Sum_probs=32.6
Q ss_pred HHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHh---CCceEEEEe
Q psy6304 19 CLADLDRQLKSHGGQLFIVQGSPISIFQKLKREL---NFTKLCFEQ 61 (407)
Q Consensus 19 sL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~---~i~~V~~~~ 61 (407)
.++-|++.|++.|.++.|..+.+...+..+++.. ++.+|++++
T Consensus 99 a~e~L~~~l~~~G~~v~IvSas~~~~~~~ia~~~~~~~~~~~i~t~ 144 (210)
T TIGR01545 99 VAERLRQYLESSDADIWLITGSPQPLVEAVYFDSNFIHRLNLIASQ 144 (210)
T ss_pred HHHHHHHHHHhCCCEEEEEcCCcHHHHHHHHHhccccccCcEEEEE
Confidence 4455556777789999999999999999999874 445565443
No 30
>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=39.01 E-value=46 Score=30.07 Aligned_cols=44 Identities=18% Similarity=0.253 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCceEEEEe
Q psy6304 18 ECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFEQ 61 (407)
Q Consensus 18 esL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~~V~~~~ 61 (407)
.+..++=+.|++.|.++.|+.|.....+..+++.+++..++.+.
T Consensus 88 ~g~~~~l~~l~~~g~~~~IvS~~~~~~~~~~l~~~~i~~~~~~~ 131 (219)
T TIGR00338 88 EGAEELVKTLKEKGYKVAVISGGFDLFAEHVKDKLGLDAAFANR 131 (219)
T ss_pred CCHHHHHHHHHHCCCEEEEECCCcHHHHHHHHHHcCCCceEeeE
Confidence 35556667788889999999999999999999999998877553
No 31
>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=38.28 E-value=1.2e+02 Score=25.12 Aligned_cols=43 Identities=14% Similarity=0.091 Sum_probs=30.1
Q ss_pred HHHHHHHHHHhcCCc--EEEEEC-ChHHHHHHHHHHhCCceEEEEe
Q psy6304 19 CLADLDRQLKSHGGQ--LFIVQG-SPISIFQKLKRELNFTKLCFEQ 61 (407)
Q Consensus 19 sL~~L~~~L~~~G~~--L~v~~G-~~~~vl~~L~~~~~i~~V~~~~ 61 (407)
.|+...+.+.+.|.. ..+..| +|.+.|.+.+++++++.|++-.
T Consensus 66 ~l~~~~~~~~~~~~~~~~~~~~g~~~~~~I~~~a~~~~~dlIV~Gs 111 (146)
T cd01989 66 LLLPYRCFCSRKGVQCEDVVLEDDDVAKAIVEYVADHGITKLVMGA 111 (146)
T ss_pred HHHHHHHHHhhcCCeEEEEEEeCCcHHHHHHHHHHHcCCCEEEEec
Confidence 344444455555654 455565 8999999999999999987754
No 32
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=36.77 E-value=33 Score=37.52 Aligned_cols=40 Identities=18% Similarity=0.249 Sum_probs=34.7
Q ss_pred HHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCceEEEEe
Q psy6304 22 DLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFEQ 61 (407)
Q Consensus 22 ~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~~V~~~~ 61 (407)
+.=++|+++|+.++++.||...+-..++++.||+.|+.+-
T Consensus 544 ~aI~~L~~~Gi~~~mLTGDn~~~A~~iA~~lGId~v~Ael 583 (713)
T COG2217 544 EAIAALKALGIKVVMLTGDNRRTAEAIAKELGIDEVRAEL 583 (713)
T ss_pred HHHHHHHHCCCeEEEEcCCCHHHHHHHHHHcChHhheccC
Confidence 3345788999999999999999999999999999887754
No 33
>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=36.50 E-value=1.2e+02 Score=23.69 Aligned_cols=47 Identities=17% Similarity=0.251 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHHHhcCCcE--EEEECChHHHHHHHHHHhCCceEEEEe
Q psy6304 15 FLLECLADLDRQLKSHGGQL--FIVQGSPISIFQKLKRELNFTKLCFEQ 61 (407)
Q Consensus 15 Fl~esL~~L~~~L~~~G~~L--~v~~G~~~~vl~~L~~~~~i~~V~~~~ 61 (407)
-..+.|..+...+...|+++ .+..|++.+.|.+.+++.+++.|+.-.
T Consensus 53 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~dlvvig~ 101 (130)
T cd00293 53 EARALLEALREALAEAGVKVETVVLEGDPAEAILEAAEELGADLIVMGS 101 (130)
T ss_pred HHHHHHHHHHHHHhcCCCceEEEEecCCCHHHHHHHHHHcCCCEEEEcC
Confidence 34566667776666678876 445688889999999999999887754
No 34
>PLN02954 phosphoserine phosphatase
Probab=36.23 E-value=59 Score=29.43 Aligned_cols=43 Identities=14% Similarity=0.353 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCc--eEEEE
Q psy6304 18 ECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFT--KLCFE 60 (407)
Q Consensus 18 esL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~--~V~~~ 60 (407)
.+..++=+.|++.|+++.|..|.+...+..+++.+|+. .++.+
T Consensus 87 pg~~e~l~~l~~~g~~~~IvS~~~~~~i~~~l~~~gi~~~~~~~~ 131 (224)
T PLN02954 87 PGIPELVKKLRARGTDVYLVSGGFRQMIAPVAAILGIPPENIFAN 131 (224)
T ss_pred ccHHHHHHHHHHCCCEEEEECCCcHHHHHHHHHHhCCChhhEEEe
Confidence 45666777888899999999999999999999999987 46554
No 35
>PF13911 AhpC-TSA_2: AhpC/TSA antioxidant enzyme
Probab=33.99 E-value=77 Score=25.52 Aligned_cols=42 Identities=24% Similarity=0.412 Sum_probs=30.5
Q ss_pred HHHHHHHHHhcCCcEEEEE-CChHHHHHHHHHHh--CCceEEEEeee
Q psy6304 20 LADLDRQLKSHGGQLFIVQ-GSPISIFQKLKREL--NFTKLCFEQDC 63 (407)
Q Consensus 20 L~~L~~~L~~~G~~L~v~~-G~~~~vl~~L~~~~--~i~~V~~~~~~ 63 (407)
|.....+|++.|+.|+++- |++.. +..+++.. ... ||++.+.
T Consensus 2 L~~~~~~l~~~gv~lv~I~~g~~~~-~~~f~~~~~~p~~-ly~D~~~ 46 (115)
T PF13911_consen 2 LSRRKPELEAAGVKLVVIGCGSPEG-IEKFCELTGFPFP-LYVDPER 46 (115)
T ss_pred hhHhHHHHHHcCCeEEEEEcCCHHH-HHHHHhccCCCCc-EEEeCcH
Confidence 6777889999999988875 66655 88888654 344 6666543
No 36
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=33.31 E-value=1.3e+02 Score=24.60 Aligned_cols=46 Identities=22% Similarity=0.214 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHHhcCCc---EEEEECCh-HHHHHHHHHHhCCceEEEEe
Q psy6304 16 LLECLADLDRQLKSHGGQ---LFIVQGSP-ISIFQKLKRELNFTKLCFEQ 61 (407)
Q Consensus 16 l~esL~~L~~~L~~~G~~---L~v~~G~~-~~vl~~L~~~~~i~~V~~~~ 61 (407)
..+.+..+.+.+.+.|+. ..+..|+| .+.|..++.+.+++.|++-.
T Consensus 72 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~i~~~a~~~~adliV~G~ 121 (154)
T COG0589 72 AEELLAEAKALAEAAGVPVVETEVVEGSPSAEEILELAEEEDADLIVVGS 121 (154)
T ss_pred HHHHHHHHHHHHHHcCCCeeEEEEecCCCcHHHHHHHHHHhCCCEEEECC
Confidence 357778888888888866 57778999 68888899998888877633
No 37
>PRK03669 mannosyl-3-phosphoglycerate phosphatase; Reviewed
Probab=32.46 E-value=1e+02 Score=29.08 Aligned_cols=36 Identities=11% Similarity=0.169 Sum_probs=29.0
Q ss_pred HHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCc
Q psy6304 19 CLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFT 55 (407)
Q Consensus 19 sL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~ 55 (407)
..+.| ++|++.|+++++..|.+...+..+++++++.
T Consensus 29 ~~~ai-~~l~~~Gi~~viaTGR~~~~i~~~~~~l~~~ 64 (271)
T PRK03669 29 AAPWL-TRLREAQVPVILCSSKTAAEMLPLQQTLGLQ 64 (271)
T ss_pred HHHHH-HHHHHcCCeEEEEcCCCHHHHHHHHHHhCCC
Confidence 33444 3467789999999999999999999999874
No 38
>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=32.18 E-value=82 Score=28.53 Aligned_cols=46 Identities=11% Similarity=0.218 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhC-CceEEEEe
Q psy6304 16 LLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELN-FTKLCFEQ 61 (407)
Q Consensus 16 l~esL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~-i~~V~~~~ 61 (407)
+..+..++=+.|++.|+++.|..|.....+..+++.++ ...|++|.
T Consensus 71 l~pg~~e~l~~l~~~g~~~~IvS~~~~~~i~~il~~~~~~~~i~~n~ 117 (214)
T TIGR03333 71 IREGFREFVAFINEHGIPFYVISGGMDFFVYPLLEGIVEKDRIYCNE 117 (214)
T ss_pred ccccHHHHHHHHHHCCCeEEEECCCcHHHHHHHHHhhCCcccEEece
Confidence 33566677788889999999999999998988888763 34454443
No 39
>PRK10116 universal stress protein UspC; Provisional
Probab=31.61 E-value=2.6e+02 Score=22.91 Aligned_cols=39 Identities=18% Similarity=0.241 Sum_probs=28.9
Q ss_pred HHHHHHhcCCc---EEEEECChHHHHHHHHHHhCCceEEEEe
Q psy6304 23 LDRQLKSHGGQ---LFIVQGSPISIFQKLKRELNFTKLCFEQ 61 (407)
Q Consensus 23 L~~~L~~~G~~---L~v~~G~~~~vl~~L~~~~~i~~V~~~~ 61 (407)
|++...+.|++ .++..|++.+.|.+.+++.+++-|++..
T Consensus 69 l~~~~~~~~~~~~~~~~~~G~~~~~I~~~a~~~~~DLiV~g~ 110 (142)
T PRK10116 69 LDKLIQDADYPIEKTFIAYGELSEHILEVCRKHHFDLVICGN 110 (142)
T ss_pred HHHHHHhcCCCeEEEEEecCCHHHHHHHHHHHhCCCEEEEcC
Confidence 43333455654 5666899999999999999999887743
No 40
>smart00475 53EXOc 5'-3' exonuclease.
Probab=31.22 E-value=1.5e+02 Score=28.20 Aligned_cols=48 Identities=19% Similarity=0.265 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHHHhcCCcEEEEEC-ChHHHHHHHHHHh---CCceEEEEeee
Q psy6304 16 LLECLADLDRQLKSHGGQLFIVQG-SPISIFQKLKREL---NFTKLCFEQDC 63 (407)
Q Consensus 16 l~esL~~L~~~L~~~G~~L~v~~G-~~~~vl~~L~~~~---~i~~V~~~~~~ 63 (407)
|.+.+..+++-|+.+|++.+...| ++.+++..|++.. |...+++..|.
T Consensus 82 L~~q~~~~~~~l~~~gi~~i~~~g~EADD~iatla~~~~~~g~~~~IvS~Dk 133 (259)
T smart00475 82 LLEQIPLIKELLDALGIPVLEVEGYEADDVIATLAKKAEAEGYEVRIVSGDK 133 (259)
T ss_pred HHHHHHHHHHHHHHCCCCEEeeCCcCHHHHHHHHHHHHHhCCCeEEEEeCCC
Confidence 556678899999999999999999 9999999998764 44455566555
No 41
>KOG3167|consensus
Probab=30.47 E-value=91 Score=26.59 Aligned_cols=39 Identities=15% Similarity=0.383 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHhcCCcEEEEECC--hHHHH---HHHHHHhCC
Q psy6304 16 LLECLADLDRQLKSHGGQLFIVQGS--PISIF---QKLKRELNF 54 (407)
Q Consensus 16 l~esL~~L~~~L~~~G~~L~v~~G~--~~~vl---~~L~~~~~i 54 (407)
|..++.+.+..+++=--.|.|+.|| |.+++ +.||.+.++
T Consensus 60 lrrGvKevqK~vrkGeKGl~VlAgd~sPiDvi~HlP~lCEd~~v 103 (153)
T KOG3167|consen 60 LRRGVKEVQKRVRKGEKGLCVLAGDTSPIDVITHLPALCEDRGV 103 (153)
T ss_pred HHHHHHHHHHHHhcCCcceEEEecCCccHHHHhccchhhhccCC
Confidence 7889999999998755568888885 66654 566665544
No 42
>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=30.34 E-value=94 Score=32.92 Aligned_cols=45 Identities=22% Similarity=0.215 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHHHhcC-CcEEEEECChHHHHHHHHHHhCCceEEEE
Q psy6304 16 LLECLADLDRQLKSHG-GQLFIVQGSPISIFQKLKRELNFTKLCFE 60 (407)
Q Consensus 16 l~esL~~L~~~L~~~G-~~L~v~~G~~~~vl~~L~~~~~i~~V~~~ 60 (407)
+.....++=+.|++.| +++.+..|++......++++.|+..++..
T Consensus 385 ~~~g~~e~l~~L~~~g~i~v~ivTgd~~~~a~~i~~~lgi~~~f~~ 430 (556)
T TIGR01525 385 LRPEAKEAIAALKRAGGIKLVMLTGDNRSAAEAVAAELGIDEVHAE 430 (556)
T ss_pred chHhHHHHHHHHHHcCCCeEEEEeCCCHHHHHHHHHHhCCCeeecc
Confidence 3455666667788899 99999999999999999999999877653
No 43
>COG0546 Gph Predicted phosphatases [General function prediction only]
Probab=29.85 E-value=57 Score=29.81 Aligned_cols=42 Identities=26% Similarity=0.290 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCceEE
Q psy6304 17 LECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLC 58 (407)
Q Consensus 17 ~esL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~~V~ 58 (407)
+..+.++=..|++.|++|.|..+.+...+..+++.+|+...|
T Consensus 91 ~~gv~e~L~~L~~~g~~l~i~T~k~~~~~~~~l~~~gl~~~F 132 (220)
T COG0546 91 FPGVKELLAALKSAGYKLGIVTNKPERELDILLKALGLADYF 132 (220)
T ss_pred CCCHHHHHHHHHhCCCeEEEEeCCcHHHHHHHHHHhCCcccc
Confidence 344566667788999999999999999999999999887544
No 44
>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=29.79 E-value=66 Score=27.94 Aligned_cols=38 Identities=8% Similarity=0.179 Sum_probs=29.6
Q ss_pred HHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCceE
Q psy6304 20 LADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKL 57 (407)
Q Consensus 20 L~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~~V 57 (407)
+.++=+.|++.|+++.|..+.....+..+++.+++...
T Consensus 77 ~~~ll~~l~~~g~~~~i~S~~~~~~~~~~l~~~~l~~~ 114 (188)
T TIGR01489 77 FKEFIAFIKEHGIDFIVISDGNDFFIDPVLEGIGEKDV 114 (188)
T ss_pred HHHHHHHHHHcCCcEEEEeCCcHHHHHHHHHHcCChhh
Confidence 44555677788999999998888888888888877643
No 45
>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=29.33 E-value=1.3e+02 Score=23.94 Aligned_cols=39 Identities=18% Similarity=0.243 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCc
Q psy6304 17 LECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFT 55 (407)
Q Consensus 17 ~esL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~ 55 (407)
+..|.+|..++++.|..++.+.-++.+.+.+++++++..
T Consensus 45 l~~l~~~~~~~~~~~~~vi~is~d~~~~~~~~~~~~~~~ 83 (124)
T PF00578_consen 45 LPELNELYKKYKDKGVQVIGISTDDPEEIKQFLEEYGLP 83 (124)
T ss_dssp HHHHHHHHHHHHTTTEEEEEEESSSHHHHHHHHHHHTCS
T ss_pred hhHHHHHhhhhccceEEeeecccccccchhhhhhhhccc
Confidence 356888889999999999999999999999999998855
No 46
>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=28.80 E-value=96 Score=26.62 Aligned_cols=36 Identities=19% Similarity=0.212 Sum_probs=30.4
Q ss_pred HHHHHhcCCcEEEEECChHHHHHHHHHHhCCceEEE
Q psy6304 24 DRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCF 59 (407)
Q Consensus 24 ~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~~V~~ 59 (407)
=+.|++.|..+.|..|.+......+++.+++...+.
T Consensus 37 i~~Lk~~G~~i~IvTn~~~~~~~~~l~~~gi~~~~~ 72 (154)
T TIGR01670 37 IRCALKSGIEVAIITGRKAKLVEDRCKTLGITHLYQ 72 (154)
T ss_pred HHHHHHCCCEEEEEECCCCHHHHHHHHHcCCCEEEe
Confidence 345677899999999999888889999999987654
No 47
>TIGR01512 ATPase-IB2_Cd heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase. .
Probab=28.18 E-value=77 Score=33.44 Aligned_cols=44 Identities=18% Similarity=0.249 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHHHhcCC-cEEEEECChHHHHHHHHHHhCCceEEE
Q psy6304 16 LLECLADLDRQLKSHGG-QLFIVQGSPISIFQKLKRELNFTKLCF 59 (407)
Q Consensus 16 l~esL~~L~~~L~~~G~-~L~v~~G~~~~vl~~L~~~~~i~~V~~ 59 (407)
+.+...++=+.|++.|+ ++.+..|++......++++.|+..++.
T Consensus 363 l~~~~~e~i~~L~~~Gi~~v~vvTgd~~~~a~~i~~~lgi~~~f~ 407 (536)
T TIGR01512 363 PRPDAAEAIAELKALGIEKVVMLTGDRRAVAERVARELGIDEVHA 407 (536)
T ss_pred chHHHHHHHHHHHHcCCCcEEEEcCCCHHHHHHHHHHcCChhhhh
Confidence 34566677778888999 999999999999999999999987654
No 48
>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=28.09 E-value=69 Score=29.11 Aligned_cols=42 Identities=21% Similarity=0.243 Sum_probs=34.2
Q ss_pred HHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCceEEEEe
Q psy6304 19 CLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFEQ 61 (407)
Q Consensus 19 sL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~~V~~~~ 61 (407)
...++=..|++. +++.|..|.....+..+++.+|+..++.|+
T Consensus 72 ga~ell~~lk~~-~~~~IVS~~~~~~~~~il~~lgi~~~~an~ 113 (203)
T TIGR02137 72 GAVEFVDWLRER-FQVVILSDTFYEFSQPLMRQLGFPTLLCHK 113 (203)
T ss_pred cHHHHHHHHHhC-CeEEEEeCChHHHHHHHHHHcCCchhhcee
Confidence 445566666665 499999999999999999999999888875
No 49
>PRK11175 universal stress protein UspE; Provisional
Probab=28.01 E-value=1.4e+02 Score=28.42 Aligned_cols=42 Identities=14% Similarity=0.235 Sum_probs=31.6
Q ss_pred HHHHHHHHHhcCCc---EEEEECChHHHHHHHHHHhCCceEEEEe
Q psy6304 20 LADLDRQLKSHGGQ---LFIVQGSPISIFQKLKRELNFTKLCFEQ 61 (407)
Q Consensus 20 L~~L~~~L~~~G~~---L~v~~G~~~~vl~~L~~~~~i~~V~~~~ 61 (407)
.+.|++-+++.|++ .++..|+|.+.|.+.+++.+++-|++-.
T Consensus 225 ~~~l~~~~~~~~~~~~~~~v~~G~~~~~I~~~a~~~~~DLIVmG~ 269 (305)
T PRK11175 225 LLAMKALRQKFGIDEEQTHVEEGLPEEVIPDLAEHLDAELVILGT 269 (305)
T ss_pred HHHHHHHHHHhCCChhheeeccCCHHHHHHHHHHHhCCCEEEECC
Confidence 34455545556664 6778899999999999999999887744
No 50
>PRK01158 phosphoglycolate phosphatase; Provisional
Probab=27.21 E-value=1.5e+02 Score=26.75 Aligned_cols=30 Identities=7% Similarity=0.185 Sum_probs=26.0
Q ss_pred HHHhcCCcEEEEECChHHHHHHHHHHhCCc
Q psy6304 26 QLKSHGGQLFIVQGSPISIFQKLKRELNFT 55 (407)
Q Consensus 26 ~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~ 55 (407)
+|++.|+.+.+..|.+...+..+.+.+++.
T Consensus 31 ~l~~~G~~~~iaTGR~~~~~~~~~~~l~~~ 60 (230)
T PRK01158 31 KAEKLGIPVILATGNVLCFARAAAKLIGTS 60 (230)
T ss_pred HHHHCCCEEEEEcCCchHHHHHHHHHhCCC
Confidence 366789999999999999888888888876
No 51
>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=26.61 E-value=1e+02 Score=24.49 Aligned_cols=38 Identities=18% Similarity=0.218 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCC
Q psy6304 17 LECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNF 54 (407)
Q Consensus 17 ~esL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i 54 (407)
.+.+.++=+.|++.|..++++.|.+...+..+++..++
T Consensus 26 ~~~~~~~l~~l~~~g~~i~ivS~~~~~~~~~~~~~~~~ 63 (139)
T cd01427 26 YPGVKEALKELKEKGIKLALATNKSRREVLELLEELGL 63 (139)
T ss_pred CcCHHHHHHHHHHCCCeEEEEeCchHHHHHHHHHHcCC
Confidence 34455555677778999999999999999999988876
No 52
>PF08282 Hydrolase_3: haloacid dehalogenase-like hydrolase; InterPro: IPR013200 The Haloacid Dehydrogenase (HAD) superfamily includes phosphatases, phosphonatases, P-type ATPases, beta-phosphoglucomutases, phosphomannomutases, and dehalogenases, which are involved in a variety of cellular processes ranging from amino acid biosynthesis to detoxification []. This HAD domain is found in several distinct enzymes including: Phospholipid-transporting ATPase 1 (3.6.3.1 from EC), a putative lipid-flipping enzyme involved in cold tolerance in Arabidopsis [] 3-deoxy-D-manno-octulosonate (KDO) 8-phosphate phosphatase (3.1.3.45 from EC), which catalyses the final step in the biosynthesis of KDO - a component of lipopolysaccharide in Gram-negative bacteria [] Mannosyl-3-phosphoglycerate phosphatase (3.1.3.70 from EC), which hydrolyzes mannosyl-3-phosphoglycerate to form the osmolyte mannosylglycerate [] Phosphoglycolate phopshatase (3.1.3.18 from EC), which catalyses the dephosphorylation of 2-phosphoglycolate [] ; PDB: 2B30_B 3R4C_A 1XVI_B 3IJ5_B 3MMZ_C 3L7Y_A 1XPJ_C 1RLT_B 1RLM_B 2HF2_A ....
Probab=26.51 E-value=1.5e+02 Score=26.70 Aligned_cols=37 Identities=30% Similarity=0.486 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCc
Q psy6304 18 ECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFT 55 (407)
Q Consensus 18 esL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~ 55 (407)
+.++.|++ |.+.|+.|.+..|.+...+..+..++++.
T Consensus 19 ~~~~al~~-l~~~g~~~~i~TGR~~~~~~~~~~~~~~~ 55 (254)
T PF08282_consen 19 ETIEALKE-LQEKGIKLVIATGRSYSSIKRLLKELGID 55 (254)
T ss_dssp HHHHHHHH-HHHTTCEEEEECSSTHHHHHHHHHHTTHC
T ss_pred HHHHHHHh-hcccceEEEEEccCcccccccccccccch
Confidence 44555554 77789999999999999999999999887
No 53
>PF08444 Gly_acyl_tr_C: Aralkyl acyl-CoA:amino acid N-acyltransferase, C-terminal region; InterPro: IPR013652 This entry represents mammalian-specific glycine N-acyltransferase (also called aralkyl acyl-CoA:amino acid N-acyltransferase; 2.3.1.13 from EC). Mitochondrial acyltransferases catalyse the transfer of an acyl group from acyl-CoA to the N terminus of glycine to produce N-acylglycine. These enzymes can conjugate a multitude of substrates to form a variety of N-acylglycines. The CoA derivatives of a number of aliphatic and aromatic acids, but not phenylacetyl-CoA or (indol-3-yl)acetyl-CoA, can act as donor [, ].
Probab=26.33 E-value=1.1e+02 Score=24.23 Aligned_cols=46 Identities=15% Similarity=0.154 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCce
Q psy6304 11 NRFRFLLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTK 56 (407)
Q Consensus 11 ~r~~Fl~esL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~~ 56 (407)
|+..++..-...+-+.|.++|+|++....+.-+...++.+..+...
T Consensus 32 R~~G~~~~v~~~~~~~L~~~g~P~Y~hv~~~N~~~~r~~~~lg~~~ 77 (89)
T PF08444_consen 32 RGQGLMSQVMYHLAQYLHKLGFPFYGHVDEDNEASQRLSKSLGFIF 77 (89)
T ss_pred hcCCHHHHHHHHHHHHHHHCCCCeEeehHhccHHHHHHHHHCCCee
Confidence 4455777888889999999999999999888888888888877654
No 54
>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=25.96 E-value=1.1e+02 Score=29.85 Aligned_cols=43 Identities=7% Similarity=0.006 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCceEEE
Q psy6304 17 LECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCF 59 (407)
Q Consensus 17 ~esL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~~V~~ 59 (407)
.+.+..+++-|+.+|++.++.-+++.+.+..|++...+..|+.
T Consensus 127 ~~~~~~~~~lL~~~gi~~i~ap~EAdaq~a~l~~~g~v~~i~S 169 (316)
T cd00128 127 PQMIEEAKELLRLMGIPYIVAPYEAEAQCAYLAKKGLVDAIIT 169 (316)
T ss_pred HHHHHHHHHHHHHcCCCEEECCcCHHHHHHHHHhCCCeeEEEe
Confidence 3556788888999999999999999999999888655656655
No 55
>TIGR02463 MPGP_rel mannosyl-3-phosphoglycerate phosphatase-related protein. This family consists of members of the HAD superfamily, subfamily IIB. All members are closely related to mannosyl-3-phosphoglycerate phosphatase, the second enzyme in a two-step pathway for biosynthesis of mannosylglycerate, a compatible solute present in some thermophiles and in Dehalococcoides ethenogenes. However, members of this family are separable in a neighbor-joining tree constructed from a multiple sequence alignment and are found only in mesophiles that lack the companion mannosyl-3-phosphoglycerate synthase (TIGR02460). Members of this family are like to act on a compound related to yet distinct from mannosyl-3-phosphoglycerate.
Probab=25.74 E-value=1.2e+02 Score=27.47 Aligned_cols=29 Identities=17% Similarity=0.316 Sum_probs=25.9
Q ss_pred HHhcCCcEEEEECChHHHHHHHHHHhCCc
Q psy6304 27 LKSHGGQLFIVQGSPISIFQKLKRELNFT 55 (407)
Q Consensus 27 L~~~G~~L~v~~G~~~~vl~~L~~~~~i~ 55 (407)
|++.|+++.+..|.+...+..+++.++..
T Consensus 28 l~~~gi~~~i~TgR~~~~~~~~~~~l~~~ 56 (221)
T TIGR02463 28 LQEAGIPVILCTSKTAAEVEYLQKALGLT 56 (221)
T ss_pred HHHCCCeEEEEcCCCHHHHHHHHHHcCCC
Confidence 57789999999999999999999998865
No 56
>PRK14976 5'-3' exonuclease; Provisional
Probab=25.67 E-value=1.9e+02 Score=27.88 Aligned_cols=49 Identities=24% Similarity=0.306 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHHhcCCcEEEEEC-ChHHHHHHHHHHh---CCceEEEEeeec
Q psy6304 16 LLECLADLDRQLKSHGGQLFIVQG-SPISIFQKLKREL---NFTKLCFEQDCE 64 (407)
Q Consensus 16 l~esL~~L~~~L~~~G~~L~v~~G-~~~~vl~~L~~~~---~i~~V~~~~~~~ 64 (407)
+.+.+..+++-|..+|++.+...| ++.++|..|+.+. +...++++.|..
T Consensus 88 l~~q~~~i~~~l~~~gi~~~~~~g~EADDviatla~~~~~~g~~v~IvS~DkD 140 (281)
T PRK14976 88 LISQIPLLKKILKLAGIKWEEQPGYEADDLIGSLAKKLSKQNITVLIYSSDKD 140 (281)
T ss_pred HHHHHHHHHHHHHHCCCCEEecCCcCHHHHHHHHHHHHHHCCCeEEEEeCCCC
Confidence 567788888889999999999998 8999999998765 344555555543
No 57
>PRK10513 sugar phosphate phosphatase; Provisional
Probab=25.39 E-value=1.4e+02 Score=27.81 Aligned_cols=29 Identities=17% Similarity=0.423 Sum_probs=25.6
Q ss_pred HHhcCCcEEEEECChHHHHHHHHHHhCCc
Q psy6304 27 LKSHGGQLFIVQGSPISIFQKLKRELNFT 55 (407)
Q Consensus 27 L~~~G~~L~v~~G~~~~vl~~L~~~~~i~ 55 (407)
|++.|+.+.+..|.+...+..+++++++.
T Consensus 32 l~~~G~~~~iaTGR~~~~~~~~~~~l~~~ 60 (270)
T PRK10513 32 ARAKGVNVVLTTGRPYAGVHRYLKELHME 60 (270)
T ss_pred HHHCCCEEEEecCCChHHHHHHHHHhCCC
Confidence 67789999999999999888899988874
No 58
>PF11520 Cren7: Chromatin protein Cren7; InterPro: IPR020906 Cren7 is a chromatin protein found in Crenarchaeota and has a higher affinity for double-stranded DNA than for single-stranded DNA. The protein contains negative DNA supercoils and is associated with genomic DNA in vivo. Cren7 interacts with duplex DNA through a beta-sheet and a long flexible loop. Its binding to double-stranded DNA is without sequence specificity. There is approximately 1 Cren7 molecule for 12 bp of DNA. The function of Cren7 has not been completely determined but it is thought that the protein may have a role similar to that of archaeal proteins in Euryarchaea [].; GO: 0003690 double-stranded DNA binding, 0005737 cytoplasm; PDB: 3KXT_A 3LWH_A 3LWI_A 2JTM_A.
Probab=25.20 E-value=22 Score=25.50 Aligned_cols=16 Identities=38% Similarity=0.750 Sum_probs=8.9
Q ss_pred ccCCC-Cchhhhccccc
Q psy6304 312 RLDPD-GIYIKRYVPEL 327 (407)
Q Consensus 312 ~~Dp~-G~fIr~wvPEL 327 (407)
=-||+ |.|+|+-||++
T Consensus 42 Fk~P~tGk~fR~~v~~~ 58 (60)
T PF11520_consen 42 FKDPETGKYFRKKVPDD 58 (60)
T ss_dssp EE-TTT--EEEEEE-TT
T ss_pred EeCCCCCcchhhhcccc
Confidence 35788 88888888764
No 59
>KOG0635|consensus
Probab=25.06 E-value=43 Score=29.37 Aligned_cols=53 Identities=30% Similarity=0.472 Sum_probs=36.1
Q ss_pred hHhhHHHhhhhcCCCCC--CcchhhhccCCCCchhhhccccccCCCCCceecCCCCCh
Q psy6304 288 DAVMRQLRRLLDCTYCV--CPVNFGRRLDPDGIYIKRYVPELRQFPIQYIYEPWKAPL 343 (407)
Q Consensus 288 DAaMRqL~~~~~y~Rif--NPv~Q~~~~Dp~G~fIr~wvPEL~~lp~~~Ih~Pw~~~~ 343 (407)
||| |+|..--+|..|| .|+...+.-||.|-|=+.---+.++... |-.|+++|.
T Consensus 119 dac-Rel~~~~~FiEvfmdvpl~vcE~RDPKGLYK~ARaGkIKgFTG--IddPYEaP~ 173 (207)
T KOG0635|consen 119 DAC-RELLPEGDFIEVFMDVPLEVCEARDPKGLYKLARAGKIKGFTG--IDDPYEAPL 173 (207)
T ss_pred HHH-HHhccCCCeEEEEecCcHHHhhccCchhHHHHHhccccccccc--CCCcccCCC
Confidence 344 7777333555555 6999999999999998866555554432 556777665
No 60
>PRK11133 serB phosphoserine phosphatase; Provisional
Probab=24.60 E-value=1.5e+02 Score=29.16 Aligned_cols=44 Identities=18% Similarity=0.218 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCceEEEEe
Q psy6304 18 ECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLCFEQ 61 (407)
Q Consensus 18 esL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~~V~~~~ 61 (407)
.+..+|=+.|++.|.++.|..|........+.+++++..++.|.
T Consensus 184 pGa~elL~~Lk~~G~~~aIvSgg~~~~~~~l~~~Lgld~~~an~ 227 (322)
T PRK11133 184 PGLTELVLKLQALGWKVAIASGGFTYFADYLRDKLRLDAAVANE 227 (322)
T ss_pred hhHHHHHHHHHHcCCEEEEEECCcchhHHHHHHHcCCCeEEEeE
Confidence 45566678889999999999999888888888899999988764
No 61
>PRK08384 thiamine biosynthesis protein ThiI; Provisional
Probab=23.64 E-value=2.3e+02 Score=28.61 Aligned_cols=54 Identities=17% Similarity=0.233 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhcC----------CcEEEEECChHHHHHHHHHHhCCceEEEEeee
Q psy6304 10 YNRFRFLLECLADLDRQLKSHG----------GQLFIVQGSPISIFQKLKRELNFTKLCFEQDC 63 (407)
Q Consensus 10 ~~r~~Fl~esL~~L~~~L~~~G----------~~L~v~~G~~~~vl~~L~~~~~i~~V~~~~~~ 63 (407)
..|..|...-...++..|+.+| ++++|...++.+++..|.+-+||..+.--..+
T Consensus 18 ~~R~~fe~~L~~Ni~~~l~~~~~~~~~v~~~~~ri~v~~~~~~~~~~~l~~vfGI~~~s~~~~~ 81 (381)
T PRK08384 18 QTRRWFENILMNNIREALVSEGIEFKKVEAKHGRILVKTNRAEEAVEVLTRVFGIVSLSPAMEI 81 (381)
T ss_pred chHHHHHHHHHHHHHHHHHhcCCccceEEEECCEEEEEcCCHHHHHHHHhhCCCceeEEEEEEe
Confidence 3478899999999999999887 45666655666788888888899876544433
No 62
>PRK09552 mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase; Reviewed
Probab=23.59 E-value=1.4e+02 Score=27.12 Aligned_cols=44 Identities=14% Similarity=0.188 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCc--eEEEEe
Q psy6304 17 LECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFT--KLCFEQ 61 (407)
Q Consensus 17 ~esL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~--~V~~~~ 61 (407)
..+..++=+.|++.|+++.|..|.....+..+++.+ +. .|+++.
T Consensus 76 ~pG~~e~l~~l~~~g~~~~IvS~~~~~~i~~il~~~-~~~~~i~~n~ 121 (219)
T PRK09552 76 REGFHEFVQFVKENNIPFYVVSGGMDFFVYPLLQGL-IPKEQIYCNG 121 (219)
T ss_pred CcCHHHHHHHHHHcCCeEEEECCCcHHHHHHHHHHh-CCcCcEEEeE
Confidence 345566777788999999999999998898888886 53 355443
No 63
>PRK10826 2-deoxyglucose-6-phosphatase; Provisional
Probab=23.30 E-value=80 Score=28.62 Aligned_cols=39 Identities=10% Similarity=0.231 Sum_probs=32.1
Q ss_pred HHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCceEE
Q psy6304 20 LADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKLC 58 (407)
Q Consensus 20 L~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~~V~ 58 (407)
+.++=+.|++.|.++.|+.+.....+..+++.+++...+
T Consensus 97 ~~~~l~~l~~~g~~~~i~S~~~~~~~~~~l~~~~l~~~f 135 (222)
T PRK10826 97 VREALALCKAQGLKIGLASASPLHMLEAVLTMFDLRDYF 135 (222)
T ss_pred HHHHHHHHHHCCCeEEEEeCCcHHHHHHHHHhCcchhcc
Confidence 566667788889999999998888888888888877665
No 64
>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=23.25 E-value=2.2e+02 Score=26.52 Aligned_cols=49 Identities=14% Similarity=0.217 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEEC-ChHHHHHHHHHHh---CCceEEEEeee
Q psy6304 15 FLLECLADLDRQLKSHGGQLFIVQG-SPISIFQKLKREL---NFTKLCFEQDC 63 (407)
Q Consensus 15 Fl~esL~~L~~~L~~~G~~L~v~~G-~~~~vl~~L~~~~---~i~~V~~~~~~ 63 (407)
-+.+.+..+++-|+..|++.+...| ++.+++..|+... |...++++.|.
T Consensus 82 ~l~~q~~~~~~~l~~~gi~~i~~~~~EADD~ia~la~~~~~~g~~~~I~S~Dk 134 (240)
T cd00008 82 ELREQIPLIKELLEALGIPVLEIEGYEADDVIGTLAKKAEAEGYKVVIVSGDK 134 (240)
T ss_pred HHHHHHHHHHHHHHHCCCCEEecCCcCHHHHHHHHHHHHHHcCCeEEEEeCCC
Confidence 3567889999999999999998888 8889999888643 44445566555
No 65
>PRK10530 pyridoxal phosphate (PLP) phosphatase; Provisional
Probab=23.18 E-value=1.7e+02 Score=27.18 Aligned_cols=35 Identities=20% Similarity=0.326 Sum_probs=27.9
Q ss_pred HHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCc
Q psy6304 20 LADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFT 55 (407)
Q Consensus 20 L~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~ 55 (407)
.+.|+ +|++.|+.+.+..|.+...+..+++++++.
T Consensus 26 ~~ai~-~~~~~G~~~~iaTGR~~~~~~~~~~~l~~~ 60 (272)
T PRK10530 26 LEALA-RAREAGYKVIIVTGRHHVAIHPFYQALALD 60 (272)
T ss_pred HHHHH-HHHHCCCEEEEEcCCChHHHHHHHHhcCCC
Confidence 34444 367789999999999998888888888876
No 66
>COG0561 Cof Predicted hydrolases of the HAD superfamily [General function prediction only]
Probab=22.97 E-value=1.8e+02 Score=27.14 Aligned_cols=32 Identities=19% Similarity=0.418 Sum_probs=29.1
Q ss_pred HHHHhcCCcEEEEECChHHHHHHHHHHhCCce
Q psy6304 25 RQLKSHGGQLFIVQGSPISIFQKLKRELNFTK 56 (407)
Q Consensus 25 ~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~~ 56 (407)
++|++.|+.+.+..|.+...+..+.++.+.+.
T Consensus 30 ~~~~~~g~~v~iaTGR~~~~~~~~~~~l~~~~ 61 (264)
T COG0561 30 ARLREKGVKVVLATGRPLPDVLSILEELGLDG 61 (264)
T ss_pred HHHHHCCCEEEEECCCChHHHHHHHHHcCCCc
Confidence 38889999999999999999999999999984
No 67
>PRK09484 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional
Probab=22.70 E-value=1.4e+02 Score=26.48 Aligned_cols=32 Identities=19% Similarity=0.255 Sum_probs=27.6
Q ss_pred HhcCCcEEEEECChHHHHHHHHHHhCCceEEE
Q psy6304 28 KSHGGQLFIVQGSPISIFQKLKRELNFTKLCF 59 (407)
Q Consensus 28 ~~~G~~L~v~~G~~~~vl~~L~~~~~i~~V~~ 59 (407)
++.|+++.|..|.+...+..+++++++..++.
T Consensus 61 ~~~Gi~v~I~T~~~~~~v~~~l~~lgl~~~f~ 92 (183)
T PRK09484 61 LTSGIEVAIITGRKSKLVEDRMTTLGITHLYQ 92 (183)
T ss_pred HHCCCEEEEEeCCCcHHHHHHHHHcCCceeec
Confidence 45899999999999999999999999887654
No 68
>PF02739 5_3_exonuc_N: 5'-3' exonuclease, N-terminal resolvase-like domain; InterPro: IPR020046 The N-terminal and internal 5'3'-exonuclease domains are commonly found together, and are most often associated with 5' to 3' nuclease activities. The XPG protein signatures (PDOC00658 from PROSITEDOC) are never found outside the '53EXO' domains. The latter are found in more diverse proteins [, , ]. The number of amino acids that separate the two 53EXO domains, and the presence of accompanying motifs allow the diagnosis of several protein families. In the eubacterial type A DNA-polymerases, the N-terminal and internal domains are separated by a few amino acids, usually four. The pattern DNA_POLYMERASE_A (IPR001098 from INTERPRO) is always present towards the C terminus. Several eukaryotic structure-dependent endonucleases and exonucleases have the 53EXO domains separated by 24 to 27 amino acids, and the XPG protein signatures are always present. In several proteins from herpesviridae, the two 53EXO domains are separated by 50 to 120 amino acids. These proteins are implicated in the inhibition of the expression of the host genes. Eukaryotic DNA repair proteins with 600 to 700 amino acids between the 53_EXO domains all carry the XPG protein signatures. This entry represents the N-terminal resolvase-like domain, which has a 3-layer alpha/beta/alpha core structure and contains an alpha-helical arch [, ].; GO: 0003677 DNA binding, 0008409 5'-3' exonuclease activity; PDB: 1TAQ_A 1BGX_T 1TAU_A 1XO1_B 1EXN_A 1UT8_A 1UT5_B 3H7I_A 3H8J_A 3H8S_A ....
Probab=22.35 E-value=2.5e+02 Score=24.74 Aligned_cols=48 Identities=19% Similarity=0.284 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHHhcCCcEEEEEC-ChHHHHHHHHHHh---CCceEEEEeee
Q psy6304 16 LLECLADLDRQLKSHGGQLFIVQG-SPISIFQKLKREL---NFTKLCFEQDC 63 (407)
Q Consensus 16 l~esL~~L~~~L~~~G~~L~v~~G-~~~~vl~~L~~~~---~i~~V~~~~~~ 63 (407)
+...+..+++-|.++|++.+...| ++.++|..|++.. +...++++.|-
T Consensus 84 l~~q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~IvS~Dk 135 (169)
T PF02739_consen 84 LIPQLPYIKELLEALGIPVLEVPGYEADDVIATLAKKASEEGFEVIIVSGDK 135 (169)
T ss_dssp HHHHHHHHHHHHHHTTSEEEEETTB-HHHHHHHHHHHHHHTTCEEEEE-SSG
T ss_pred HHHHHHHHHHHHHHCCCCEecCCCCcHHHHHHHHHhhhccCCCEEEEEcCCC
Confidence 556688889999999999998888 7888888888754 34445544443
No 69
>PRK15126 thiamin pyrimidine pyrophosphate hydrolase; Provisional
Probab=22.19 E-value=1.7e+02 Score=27.46 Aligned_cols=29 Identities=17% Similarity=0.244 Sum_probs=25.8
Q ss_pred HHhcCCcEEEEECChHHHHHHHHHHhCCc
Q psy6304 27 LKSHGGQLFIVQGSPISIFQKLKRELNFT 55 (407)
Q Consensus 27 L~~~G~~L~v~~G~~~~vl~~L~~~~~i~ 55 (407)
|++.|+.+.+..|.+...+..++++.++.
T Consensus 31 l~~~G~~~~iaTGR~~~~~~~~~~~l~~~ 59 (272)
T PRK15126 31 LRERDITLTFATGRHVLEMQHILGALSLD 59 (272)
T ss_pred HHHCCCEEEEECCCCHHHHHHHHHHcCCC
Confidence 67789999999999999888899988876
No 70
>COG0220 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]
Probab=22.01 E-value=1.2e+02 Score=28.30 Aligned_cols=44 Identities=16% Similarity=0.252 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHhcCC-cEEEEECChHHHHHHHHHHhCCceEEEEe
Q psy6304 18 ECLADLDRQLKSHGG-QLFIVQGSPISIFQKLKRELNFTKLCFEQ 61 (407)
Q Consensus 18 esL~~L~~~L~~~G~-~L~v~~G~~~~vl~~L~~~~~i~~V~~~~ 61 (407)
.++..+-....+.|+ .|.|.++|+.++|..+...-.++.|+.+-
T Consensus 83 ~~v~~~l~k~~~~~l~Nlri~~~DA~~~l~~~~~~~sl~~I~i~F 127 (227)
T COG0220 83 PGVAKALKKIKELGLKNLRLLCGDAVEVLDYLIPDGSLDKIYINF 127 (227)
T ss_pred HHHHHHHHHHHHcCCCcEEEEcCCHHHHHHhcCCCCCeeEEEEEC
Confidence 456677778889999 99999999999999998877788888776
No 71
>TIGR02461 osmo_MPG_phos mannosyl-3-phosphoglycerate phosphatase. Members of this family are mannosyl-3-phosphoglycerate phosphatase (EC 3.1.3.70). It acts sequentially after mannosyl-3-phosphoglycerate synthase (EC 2.4.1.217) in a two-step pathway of biosynthesis of the compatible solute mannosylglycerate, a typical osmolyte of thermophiles.
Probab=21.79 E-value=2e+02 Score=26.40 Aligned_cols=37 Identities=19% Similarity=0.228 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCc
Q psy6304 18 ECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFT 55 (407)
Q Consensus 18 esL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~ 55 (407)
++.+.|+ +|++.|+++++..|.+...+..++++.++.
T Consensus 19 ~~~~ai~-~l~~~G~~~vi~TgR~~~~~~~~~~~lg~~ 55 (225)
T TIGR02461 19 PAREALE-ELKDLGFPIVFVSSKTRAEQEYYREELGVE 55 (225)
T ss_pred HHHHHHH-HHHHCCCEEEEEeCCCHHHHHHHHHHcCCC
Confidence 3444444 567789999999999888888899998874
No 72
>TIGR01486 HAD-SF-IIB-MPGP mannosyl-3-phosphoglycerate phosphatase family. This small group of proteins is a member of the IIB subfamily (TIGR01484) of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. Several members of this family from thermophiles (and from Dehalococcoides ethenogenes) are now known to act as mannosyl-3-phosphoglycerate (MPG) phosphatase. In these cases, the enzyme acts after MPG synthase to make the compatible solute mannosylglycerate. We propose that other mesophilic members of this family do not act as mannosyl-3-phosphoglycerate phosphatase. A member of this family is found in Escherichia coli, which appears to lack MPG synthase. Mannosylglycerate is imported in E. coli by phosphoenolpyruvate-dependent transporter (PubMed:14645248), but it appears the phosphorylation is not on the glycerate moiety, that the phosphorylated import is degraded by an alpha-mannosidase from an adjacent gene, and that E. coli would have no pathway to obta
Probab=21.57 E-value=2e+02 Score=26.75 Aligned_cols=30 Identities=17% Similarity=0.275 Sum_probs=26.0
Q ss_pred HHHhcCCcEEEEECChHHHHHHHHHHhCCc
Q psy6304 26 QLKSHGGQLFIVQGSPISIFQKLKRELNFT 55 (407)
Q Consensus 26 ~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~ 55 (407)
.|++.|+++.+..|.+...+..+++++++.
T Consensus 27 ~l~~~g~~~~~~TgR~~~~~~~~~~~~~~~ 56 (256)
T TIGR01486 27 RLQELGIPVIPCTSKTAAEVEYLRKELGLE 56 (256)
T ss_pred HHHHCCCeEEEEcCCCHHHHHHHHHHcCCC
Confidence 366779999999999999888999998874
No 73
>PF05822 UMPH-1: Pyrimidine 5'-nucleotidase (UMPH-1); InterPro: IPR006434 This family is a small group of metazoan sequences with sequences from Arabidopsis thaliana (Mouse-ear cress) and rice. The sequences represent pyrimidine 5-nucleotidases, apparently in reference to HSPC233, the Homo sapiens (Human) homologue []. The structure of mouse sequence has been reported []. This group of sequences was originally found during searches for members of the haloacid dehalogenase (HAD) superfamily (IPR005834 from INTERPRO). 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 of that subfamily (IA-ID) 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.; GO: 0000287 magnesium ion binding, 0008253 5'-nucleotidase activity, 0005737 cytoplasm; PDB: 2BDU_B 2G07_A 2G06_A 2G0A_A 2Q4T_A 2G09_A 2G08_A 2VKQ_A 2CN1_A 2JGA_A.
Probab=20.95 E-value=70 Score=30.20 Aligned_cols=39 Identities=15% Similarity=0.259 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCC
Q psy6304 16 LLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNF 54 (407)
Q Consensus 16 l~esL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i 54 (407)
|.++..+|=..|.+.++|++|+.+--.+||..++++.+.
T Consensus 91 LRdg~~~~f~~L~~~~IP~lIFSAGlgdvI~~vL~q~~~ 129 (246)
T PF05822_consen 91 LRDGVEEFFDKLEEHNIPLLIFSAGLGDVIEEVLRQAGV 129 (246)
T ss_dssp B-BTHHHHHHHHHCTT--EEEEEEEEHHHHHHHHHHTT-
T ss_pred hhcCHHHHHHHHHhcCCCEEEEeCCcHHHHHHHHHHcCC
Confidence 345667777889999999999998899999999998643
No 74
>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=20.92 E-value=2.8e+02 Score=22.94 Aligned_cols=40 Identities=15% Similarity=0.108 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCc
Q psy6304 16 LLECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFT 55 (407)
Q Consensus 16 l~esL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~ 55 (407)
-...|+++.+++.+.|+.++.+..++.+.+.+++++++..
T Consensus 47 ~~~~l~~~~~~~~~~~v~vi~vs~d~~~~~~~~~~~~~~~ 86 (149)
T cd03018 47 ELCALRDSLELFEAAGAEVLGISVDSPFSLRAWAEENGLT 86 (149)
T ss_pred HHHHHHHHHHHHHhCCCEEEEecCCCHHHHHHHHHhcCCC
Confidence 4567778888888889998888878888888888887764
No 75
>cd03017 PRX_BCP Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing and detoxifying hydroperoxides. The protein was named BCP based on its electrophoretic mobility before its function was known. BCP shows substrate selectivity toward fatty acid hydroperoxides rather than hydrogen peroxide or alkyl hydroperoxides. BCP contains the peroxidatic cysteine but appears not to possess a resolving cysteine (some sequences, not all, contain a second cysteine but its role is still unknown). Unlike other PRXs, BCP exists as a monomer. The plant homolog of BCP is PRX Q, which is expressed only in leaves and is cellularly localized in the chloroplasts and the guard cells of stomata. Also included in this subfamily is the fungal nuclear protein, Dot5p (for disrupter of telomere silencing protein 5), w
Probab=20.86 E-value=3.4e+02 Score=22.09 Aligned_cols=39 Identities=15% Similarity=0.201 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCc
Q psy6304 17 LECLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFT 55 (407)
Q Consensus 17 ~esL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~ 55 (407)
...|..+..+|.+.|+.++.+.-+..+.+.++++++++.
T Consensus 43 ~~~l~~~~~~~~~~~~~vv~is~d~~~~~~~~~~~~~~~ 81 (140)
T cd03017 43 ACDFRDLYEEFKALGAVVIGVSPDSVESHAKFAEKYGLP 81 (140)
T ss_pred HHHHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHhCCC
Confidence 467788888888889998888777778888899887765
No 76
>PRK13288 pyrophosphatase PpaX; Provisional
Probab=20.59 E-value=1.4e+02 Score=26.85 Aligned_cols=39 Identities=15% Similarity=0.089 Sum_probs=30.7
Q ss_pred HHHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCceE
Q psy6304 19 CLADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFTKL 57 (407)
Q Consensus 19 sL~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~~V 57 (407)
+..++=..|++.|+++.|..+.+...+...++.+|+...
T Consensus 86 g~~~~l~~L~~~g~~~~i~S~~~~~~~~~~l~~~gl~~~ 124 (214)
T PRK13288 86 TVYETLKTLKKQGYKLGIVTTKMRDTVEMGLKLTGLDEF 124 (214)
T ss_pred CHHHHHHHHHHCCCeEEEEeCCCHHHHHHHHHHcCChhc
Confidence 345566677788999999999888888888888887654
No 77
>PRK10976 putative hydrolase; Provisional
Probab=20.36 E-value=2e+02 Score=26.74 Aligned_cols=35 Identities=14% Similarity=0.226 Sum_probs=28.1
Q ss_pred HHHHHHHHHhcCCcEEEEECChHHHHHHHHHHhCCc
Q psy6304 20 LADLDRQLKSHGGQLFIVQGSPISIFQKLKRELNFT 55 (407)
Q Consensus 20 L~~L~~~L~~~G~~L~v~~G~~~~vl~~L~~~~~i~ 55 (407)
.+.|++ |++.|+.+.+..|.+...+..++++.++.
T Consensus 25 ~~ai~~-l~~~G~~~~iaTGR~~~~~~~~~~~l~~~ 59 (266)
T PRK10976 25 KETLKL-LTARGIHFVFATGRHHVDVGQIRDNLEIK 59 (266)
T ss_pred HHHHHH-HHHCCCEEEEEcCCChHHHHHHHHhcCCC
Confidence 334443 67789999999999998888888888876
Done!