Query 044814
Match_columns 577
No_of_seqs 254 out of 1546
Neff 7.5
Searched_HMMs 46136
Date Fri Mar 29 07:02:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044814.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044814hhsearch_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 9E-116 2E-120 924.1 36.9 440 81-550 2-452 (461)
2 TIGR02766 crypt_chrom_pln cryp 100.0 7E-112 2E-116 926.8 36.1 440 84-550 1-469 (475)
3 TIGR03556 photolyase_8HDF deox 100.0 4E-110 8E-115 909.4 38.4 443 82-549 2-462 (471)
4 PRK10674 deoxyribodipyrimidine 100.0 1E-107 3E-112 889.9 39.0 439 82-550 3-460 (472)
5 TIGR02765 crypto_DASH cryptoch 100.0 4E-107 9E-112 879.8 42.3 429 81-522 1-429 (429)
6 TIGR00591 phr2 photolyase PhrI 100.0 1.5E-87 3.2E-92 731.4 28.4 398 75-518 17-454 (454)
7 PF03441 FAD_binding_7: FAD bi 100.0 3.3E-79 7.2E-84 623.0 12.2 248 301-551 1-269 (277)
8 KOG0133 Deoxyribodipyrimidine 100.0 2.5E-76 5.5E-81 628.8 18.8 452 80-550 4-485 (531)
9 PF00875 DNA_photolyase: DNA p 100.0 4E-32 8.6E-37 256.6 14.1 163 83-264 1-163 (165)
10 COG3046 Uncharacterized protei 100.0 6E-31 1.3E-35 266.7 20.7 377 81-490 2-414 (505)
11 PF04244 DPRP: Deoxyribodipyri 97.7 0.00014 2.9E-09 72.1 9.0 151 84-259 1-161 (224)
12 KOG0133 Deoxyribodipyrimidine 95.4 0.033 7.2E-07 61.3 6.7 388 23-509 98-526 (531)
13 PRK15005 universal stress prot 73.1 50 0.0011 29.3 11.0 44 141-184 70-115 (144)
14 PRK09982 universal stress prot 72.5 27 0.00058 31.5 9.0 88 96-184 17-111 (142)
15 cd01987 USP_OKCHK USP domain i 63.9 76 0.0017 27.3 9.9 77 96-185 13-94 (124)
16 cd01988 Na_H_Antiporter_C The 62.4 96 0.0021 26.7 10.4 83 97-185 14-103 (132)
17 cd00293 USP_Like Usp: Universa 61.9 96 0.0021 26.1 10.6 75 104-184 25-101 (130)
18 PRK12652 putative monovalent c 61.4 77 0.0017 33.8 10.9 86 97-190 20-127 (357)
19 cd01989 STK_N The N-terminal d 60.6 1E+02 0.0022 27.4 10.4 88 96-184 13-111 (146)
20 cd01994 Alpha_ANH_like_IV This 54.6 72 0.0016 30.8 8.7 93 97-206 14-115 (194)
21 COG3590 PepO Predicted metallo 51.7 7.1 0.00015 43.4 1.2 45 471-521 475-519 (654)
22 TIGR00290 MJ0570_dom MJ0570-re 48.4 1.5E+02 0.0033 29.4 9.9 94 96-206 14-112 (223)
23 PRK10116 universal stress prot 47.4 1.5E+02 0.0033 26.1 9.2 90 94-185 15-111 (142)
24 TIGR00289 conserved hypothetic 47.4 1.1E+02 0.0024 30.3 8.8 93 97-206 15-112 (222)
25 PRK15118 universal stress glob 44.6 2E+02 0.0044 25.4 9.7 42 144-185 68-112 (144)
26 TIGR01490 HAD-SF-IB-hyp1 HAD-s 43.9 48 0.001 31.5 5.7 45 139-183 88-132 (202)
27 PF00582 Usp: Universal stress 41.3 1.9E+02 0.0042 24.4 8.8 31 155-185 81-111 (140)
28 TIGR01488 HAD-SF-IB Haloacid D 39.9 33 0.00071 31.7 3.7 44 141-184 76-119 (177)
29 PF00702 Hydrolase: haloacid d 39.0 65 0.0014 30.5 5.7 45 140-184 129-175 (215)
30 TIGR01491 HAD-SF-IB-PSPlk HAD- 38.5 53 0.0011 31.0 5.0 45 140-184 82-126 (201)
31 PRK10490 sensor protein KdpD; 38.0 2.1E+02 0.0045 34.5 10.8 89 81-185 251-345 (895)
32 COG0560 SerB Phosphoserine pho 37.8 41 0.0009 33.0 4.1 46 140-185 79-124 (212)
33 PRK15456 universal stress prot 36.7 78 0.0017 28.2 5.5 45 140-184 67-113 (142)
34 PF03392 OS-D: Insect pheromon 36.6 14 0.0003 31.6 0.5 13 506-518 83-95 (95)
35 TIGR01544 HAD-SF-IE haloacid d 36.1 56 0.0012 33.5 4.9 45 140-184 123-171 (277)
36 PRK11175 universal stress prot 34.7 3.3E+02 0.0072 27.5 10.5 42 143-184 225-269 (305)
37 TIGR00338 serB phosphoserine p 32.1 57 0.0012 31.5 4.1 44 140-183 87-130 (219)
38 COG2217 ZntA Cation transport 31.4 42 0.00092 39.1 3.4 43 147-191 546-588 (713)
39 PF12710 HAD: haloacid dehalog 31.2 96 0.0021 28.9 5.4 41 145-185 96-138 (192)
40 COG1139 Uncharacterized conser 30.1 1.1E+02 0.0024 33.3 5.9 56 143-198 67-124 (459)
41 COG0589 UspA Universal stress 29.9 3.7E+02 0.008 23.3 9.1 46 139-184 72-121 (154)
42 cd00008 53EXOc 5'-3' exonuclea 29.3 2.4E+02 0.0053 28.1 8.1 72 104-175 46-120 (240)
43 PLN02954 phosphoserine phospha 28.8 77 0.0017 30.7 4.4 45 139-183 85-131 (224)
44 PF13911 AhpC-TSA_2: AhpC/TSA 28.2 1.1E+02 0.0024 26.3 4.9 42 143-185 2-45 (115)
45 TIGR01545 YfhB_g-proteo haloac 27.7 1.2E+02 0.0026 29.5 5.5 43 142-184 99-144 (210)
46 KOG1615 Phosphoserine phosphat 25.9 84 0.0018 30.6 3.8 43 142-184 92-136 (227)
47 PRK11590 hypothetical protein; 25.3 1.5E+02 0.0031 28.7 5.6 42 143-184 101-145 (211)
48 TIGR03333 salvage_mtnX 2-hydro 24.6 1.2E+02 0.0025 29.4 4.8 45 139-183 71-116 (214)
49 TIGR03679 arCOG00187 arCOG0018 24.6 2.5E+02 0.0054 27.5 7.1 73 97-183 12-93 (218)
50 COG0113 HemB Delta-aminolevuli 24.6 2.7E+02 0.0059 29.0 7.3 75 87-166 7-86 (330)
51 PF01902 ATP_bind_4: ATP-bindi 24.1 1.1E+02 0.0025 30.1 4.5 93 97-206 15-112 (218)
52 PRK11175 universal stress prot 24.0 4.5E+02 0.0098 26.5 9.3 44 142-185 70-116 (305)
53 TIGR01525 ATPase-IB_hvy heavy 23.7 1.3E+02 0.0029 33.9 5.6 46 139-184 385-431 (556)
54 PRK09856 fructoselysine 3-epim 22.2 5.2E+02 0.011 25.7 9.2 49 132-180 120-176 (275)
55 TIGR00273 iron-sulfur cluster- 21.5 1.4E+02 0.0031 32.6 5.1 56 141-196 51-108 (432)
56 TIGR01512 ATPase-IB2_Cd heavy 21.0 1.7E+02 0.0036 33.0 5.7 46 139-184 363-409 (536)
57 COG2102 Predicted ATPases of P 20.5 5.7E+02 0.012 25.4 8.5 95 96-206 14-113 (223)
58 PF08444 Gly_acyl_tr_C: Aralky 20.5 1.5E+02 0.0033 25.0 3.9 46 134-179 32-77 (89)
59 COG0546 Gph Predicted phosphat 20.4 1E+02 0.0022 30.1 3.4 42 140-181 91-132 (220)
60 PRK14976 5'-3' exonuclease; Pr 20.1 5.4E+02 0.012 26.4 8.8 39 137-175 86-125 (281)
61 TIGR01670 YrbI-phosphatas 3-de 20.1 1.9E+02 0.004 26.5 4.9 37 147-183 37-73 (154)
No 1
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=100.00 E-value=8.9e-116 Score=924.10 Aligned_cols=440 Identities=31% Similarity=0.578 Sum_probs=384.9
Q ss_pred CeEEEEecCcccccCcHHHHHHHhCCCC-EEEEEEEcCCcccccccCCCCCCchhhHHHHHHHHHHHHHHHHhCCCcEEE
Q 044814 81 GVAIVWFRNDLRVLDNEALLKAWDSSEM-VLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIECLADLRKNLMNRGLNLLI 159 (577)
Q Consensus 81 ~~~L~WFRrDLRl~DN~AL~~A~~~~~~-vlpvyi~dp~~~~~~~~~~~~~~~~~r~~FllesL~dL~~~L~~lGi~L~v 159 (577)
+++|||||||||+.||+||++|++.+.+ ++.|||++|.++. ..|+++.+||.+||++|+++|+++||+|+|
T Consensus 2 ~~~l~WfrrDLR~~DN~aL~~A~~~~~~~~~~vfi~~~~~~~--------~~~~~~~~Fl~~sL~~L~~~L~~~gi~L~v 73 (461)
T COG0415 2 STVLVWFRRDLRLTDNAALAAACQSGQPVIIAVFILDPEQLG--------HASPRHAAFLLQSLQALQQSLAELGIPLLV 73 (461)
T ss_pred CeEEEEeccccccCChHHHHHHHhcCCCceEEEEEechhhcc--------ccCHHHHHHHHHHHHHHHHHHHHcCCceEE
Confidence 5799999999999999999999998877 5689999999873 369999999999999999999999999999
Q ss_pred EeCChhhHHHHHHHHhCCCEEEEecccChhhHHHHHHHHHHhhhccccccCCCcccCCCceeEeecceeccCCCCCCCCC
Q 044814 160 RHGKPEEIIPSLAKSFGAHAVYAQKETCSEELNVERLVRKNLQQVVLSSQSNDKSTNHPQLKLIWGTTMYHLDDIPFDHS 239 (577)
Q Consensus 160 ~~G~~~evL~~L~~~~~a~~V~~~~e~~~~e~~~e~~v~~~l~~~~v~~~~~g~~~~~~~~~~~w~~~l~~~~~i~~~~~ 239 (577)
..|++.++|++++++.++.+||+|.+|...+..+|..++..|.+.++. ++.+|+..++++.++.+..+
T Consensus 74 ~~~~~~~~l~~~~~~~~~~~v~~n~~~~~~~~~rD~al~~~l~~~gi~------------~~~~~d~~l~~p~~~~t~~~ 141 (461)
T COG0415 74 REGDPEQVLPELAKQLAATTVFWNRDYEEWERQRDAALAQPLTEVGIA------------VHSFWDALLHEPGEVRTGSG 141 (461)
T ss_pred EeCCHHHHHHHHHHHhCcceEEeeeeechhHHHHHHHHHHHHHhcCce------------EEEeccccccCHhhccCCCC
Confidence 999999999999999999999999999999999999999998877654 36689999999999999999
Q ss_pred CCCcccchhHHHHHHhcccCCccCCCCCCCCCCCCCCCCCCCchhhhccCCCcccCCCcccccHHHHHHHHHHHhhhccc
Q 044814 240 SLPDVYTHFRKSIEAKCTVRGCIRIPSSFGPPPSVVDWGSVPLIEQLELHSPKVSKGMRFVGGESAALGRVNEYFWKKDL 319 (577)
Q Consensus 240 ~~p~~ft~F~k~~~~~~~~~~~~~~P~~~~~~~~~~~~~~~p~l~~l~~~~~~~~~~~~~~gGe~~A~~rL~~Fl~~~~~ 319 (577)
++|++||+|++.|.....+..|.+.|..+....+... .+.... ...........|.|||.+|+++|++||. +.
T Consensus 142 ~~y~vfT~F~k~~~~~~~~~~~~~~p~~~~~~~~~~~---~~~~~~--~P~~~~~~~~~~~~Ge~aA~~~l~~F~~--~~ 214 (461)
T COG0415 142 EPYKVFTPFYKAWRDRLRILRPVPAPDVLDALRDEEP---PPEEIS--LPDFSKFDVLLFTGGEKAALARLQDFLA--EG 214 (461)
T ss_pred CCccccchHHHHHHHhcccCCCCCCcchhcccccccc---Cccccc--CCccccccccCCCchHHHHHHHHHHHHH--HH
Confidence 9999999999999876544555555543322211100 011100 1000011233689999999999999994 57
Q ss_pred hhchhhhccCCCCCCCCCccccccccCCCCHHHHHHHHHHhHhhhccCCchHhHhhhhhHHHHHHHHHHHcCCc-ccccC
Q 044814 320 LKVYKETRNEMLGPDYSTKFSPWLASGSISPRYIYEEVKSYERERVANDSTYWVLFELMWRDYFRFISLKYGNS-LFHLG 398 (577)
Q Consensus 320 l~~Y~~~Rn~~~~~~~tS~LSPyL~~G~IS~R~v~~~~~~~~~~~~~~~~~~~fl~eL~WREf~~~~~~~~~~~-~~~~~ 398 (577)
+..|++.||.| +.++||+|||||+||+||||+||+++++.... ..+++.+|++||+|||||+|++++||+. ....+
T Consensus 215 l~~Y~~~Rd~p-~~~~TS~LSpyL~~G~IS~r~v~~~~~~~~~~--~~~~~~~~~~eL~WREFy~h~~~~~p~~~~~~~~ 291 (461)
T COG0415 215 LDDYERTRDFP-ALDGTSRLSPYLAFGVISPREVYAALLAAESD--AREGTAALINELIWREFYQHLLYHYPSLSRFEPF 291 (461)
T ss_pred HHHHHHhcCCc-ccccccccCHHHHcCCcCHHHHHHHHHHhhhc--ccchHHHHHHHHHHHHHHHHHHHhCCcccccccc
Confidence 99999999975 55779999999999999999999999885432 4567889999999999999999999987 44456
Q ss_pred CCcccCCCCccchhHHHhHhcCCCCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHhcCCCchHHHHHHHHhccccCCCC
Q 044814 399 GPRKLEYKWSQDQKLFESWRDGCTGYPLIDANMKELSMTGFMSNRGRQIACSFLVRDMGIDWRMGAEWFETCLLDYDPCS 478 (577)
Q Consensus 399 ~~~~~~i~W~~d~~~~~~W~~G~TG~PlVDAaMRqL~~tG~mHnr~RmivAsFL~k~L~idWr~G~~~F~~~LiD~D~a~ 478 (577)
......++|++++++|++|++|+|||||||||||||++||||||||||||||||||+|+||||+||+||+++|||||+||
T Consensus 292 ~~~~~~~~w~~~~~~f~aW~~G~TGyPIVDA~MRqL~~TG~MHNR~RMivAsFL~k~L~IdWR~GE~~F~~~LiD~D~as 371 (461)
T COG0415 292 AEKTLNIPWEDNPAHFQAWQEGKTGYPIVDAAMRQLNQTGYMHNRMRMIVASFLTKDLLIDWREGEKYFMRQLIDGDPAS 371 (461)
T ss_pred cccccCCccccCHHHHHHHhcCCCCCccccHHHHHHHHhCCcchHHHHHHHHHHHHhcCCCHHHHHHHHHHhccCCCccc
Confidence 67778899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CchhhhhhhCCCCCCC-CCcccChhhhhhhcCCccchhhhccccccCCCccccCCC--------CCCCCcCccccccccc
Q 044814 479 NYGNWTYGAGVGNDPR-EDRYFSIPKQAQNYDREGEYVAYWLPQLKALPKERRNFP--------GGSYIEQIVSLKHGNI 549 (577)
Q Consensus 479 n~g~Wqw~ag~g~d~~-~~RifNP~~q~~kfDp~G~yIr~wvPEL~~lp~~~ih~P--------~~~Yp~PIV~~~~~~~ 549 (577)
|+|||||+||+|+|++ |||||||++|++||||+|+|||+|||||++||.++||+| +.+||+|||||+.++.
T Consensus 372 N~ggWQW~AstG~Da~pyfRiFNp~~Q~~kfDp~g~fIr~wvPeL~~~~~~~ih~p~~~~~~~~~~~YP~piVd~~~~r~ 451 (461)
T COG0415 372 NNGGWQWAASTGTDAAPYFRIFNPVTQAEKFDPDGEFIRRWVPELRNLPDKYIHEPWELSEVVLGVDYPKPIVDHKESRE 451 (461)
T ss_pred CCCCeeEEeccCCCCCcceeccCHHHHHhhcCCCcccHHhhCHHhhCCChhhccChhhcccccccCCCCccccccHHHHH
Confidence 9999999999999997 899999999999999999999999999999999999999 4599999999998765
Q ss_pred c
Q 044814 550 N 550 (577)
Q Consensus 550 ~ 550 (577)
.
T Consensus 452 ~ 452 (461)
T COG0415 452 Q 452 (461)
T ss_pred H
Confidence 4
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=7.1e-112 Score=926.84 Aligned_cols=440 Identities=27% Similarity=0.379 Sum_probs=368.5
Q ss_pred EEEecCcccccCcHHHHHHHhCCCCEEEEEEEcCCcccccccCCCCCCchhhHHHHHHHHHHHHHHHHhCCCcEEEE-eC
Q 044814 84 IVWFRNDLRVLDNEALLKAWDSSEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIECLADLRKNLMNRGLNLLIR-HG 162 (577)
Q Consensus 84 L~WFRrDLRl~DN~AL~~A~~~~~~vlpvyi~dp~~~~~~~~~~~~~~~~~r~~FllesL~dL~~~L~~lGi~L~v~-~G 162 (577)
|||||||||++||+||.+|++.+ +|+||||+||.++. .+ ..+.++.+||++||.+|+++|+++|++|+|+ .|
T Consensus 1 l~WFRrDLRl~DN~aL~~A~~~~-~vlpvyi~dp~~~~-~~-----~~~~~~~~fl~~sL~~L~~~L~~~G~~L~v~~~g 73 (475)
T TIGR02766 1 IVWFRRDLRVEDNPALAAAARAG-PVIPVFVWAPEEEG-QY-----YPGRVSRWWLKQSLAHLDQSLRSLGTCLVTIRST 73 (475)
T ss_pred CEecCCCCCcchHHHHHHHHhCC-CEEEEEEechHHhc-cc-----cccHHHHHHHHHHHHHHHHHHHHcCCceEEEeCC
Confidence 69999999999999999998766 89999999998874 22 2477888899999999999999999999988 48
Q ss_pred ChhhHHHHHHHHhCCCEEEEecccChhhHHHHHHHHHHhhhccccccCCCcccCCCceeEeecceeccCCCCCCCCCCCC
Q 044814 163 KPEEIIPSLAKSFGAHAVYAQKETCSEELNVERLVRKNLQQVVLSSQSNDKSTNHPQLKLIWGTTMYHLDDIPFDHSSLP 242 (577)
Q Consensus 163 ~~~evL~~L~~~~~a~~V~~~~e~~~~e~~~e~~v~~~l~~~~v~~~~~g~~~~~~~~~~~w~~~l~~~~~i~~~~~~~p 242 (577)
+++++|.+|+++++|++||+|.+|++++..+|..|++.|.+.++. ++.+.+.++++++++....+.+|
T Consensus 74 ~~~~~l~~l~~~~~i~~v~~~~~~~~~~~~rd~~v~~~l~~~gi~------------~~~~~~~~l~~p~~i~~~~~~~~ 141 (475)
T TIGR02766 74 DTVAALLDCVRSTGATRLFFNHLYDPVSLVRDHRAKEVLTAQGIS------------VQSFNADLLYEPWEVYDELGRPF 141 (475)
T ss_pred CHHHHHHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHHHHcCCE------------EEEecCCEEEChhhhcccCCCCC
Confidence 999999999999999999999999999999999999998776553 46777889999999998889999
Q ss_pred cccchhHHHHHHhccc-CCccCCCCCCCCCCCCCCCCCCCchhhhccCCCc---ccC--CCcccccHHHHHHHHHHHhhh
Q 044814 243 DVYTHFRKSIEAKCTV-RGCIRIPSSFGPPPSVVDWGSVPLIEQLELHSPK---VSK--GMRFVGGESAALGRVNEYFWK 316 (577)
Q Consensus 243 ~~ft~F~k~~~~~~~~-~~~~~~P~~~~~~~~~~~~~~~p~l~~l~~~~~~---~~~--~~~~~gGe~~A~~rL~~Fl~~ 316 (577)
.+|++|++++.+.... .++.+.|..+...+. ..+.++.+++.... ... ...|+|||++|+++|++|+.
T Consensus 142 ~~ft~f~~~~~~~~~~~~~~~~~p~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~Fl~- 215 (475)
T TIGR02766 142 TMFAAFWERCLSMPYDPESPLLPPKKIISGDV-----SKCSADDLGFEDDSEKGSNALLARAWSPGWSNADKALTEFIN- 215 (475)
T ss_pred CeecHHHHHHHhccCCCCCCCCCccccCCCcc-----ccCChhhcCCCCcccccccccccccCCCccHHHHHHHHHHHH-
Confidence 9999999998653211 111222221111000 00111222322110 000 12489999999999999994
Q ss_pred ccchhchhhhccCCCCCCCCCccccccccCCCCHHHHHHHHHHh------HhhhccCCchHhHhhhhhHHHHHHHHHHHc
Q 044814 317 KDLLKVYKETRNEMLGPDYSTKFSPWLASGSISPRYIYEEVKSY------ERERVANDSTYWVLFELMWRDYFRFISLKY 390 (577)
Q Consensus 317 ~~~l~~Y~~~Rn~~~~~~~tS~LSPyL~~G~IS~R~v~~~~~~~------~~~~~~~~~~~~fl~eL~WREf~~~~~~~~ 390 (577)
+++..|+++||.|.. ++||+|||||+|||||||+|++++.+. ++....+.++++|++||+|||||++++.++
T Consensus 216 -~~~~~Y~~~Rd~p~~-~~tS~LSPyL~~G~ISpR~v~~~~~~~~~~~~~~~~~~~~~s~~~f~~eL~WRef~~~~~~~~ 293 (475)
T TIGR02766 216 -GPLLEYSKNRKKADS-ATTSLLSPYLHFGEVSVRKVFHLVRMKQIAWANEGNSAGEESVNLFLRSIGLREYSRYISFNH 293 (475)
T ss_pred -HHHHHHhhcCCCCCC-CCCCCCCcccccCcccHHHHHHHHHhhhhhhhhcccCCCcccHHHHHHHHHHHHHHHHHHHhC
Confidence 679999999999765 679999999999999999999998631 111223456788999999999999999999
Q ss_pred CCcccccCCCcccCCCCccchhHHHhHhcCCCCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHhcCCCchHHHHHHHHh
Q 044814 391 GNSLFHLGGPRKLEYKWSQDQKLFESWRDGCTGYPLIDANMKELSMTGFMSNRGRQIACSFLVRDMGIDWRMGAEWFETC 470 (577)
Q Consensus 391 ~~~~~~~~~~~~~~i~W~~d~~~~~~W~~G~TG~PlVDAaMRqL~~tG~mHnr~RmivAsFL~k~L~idWr~G~~~F~~~ 470 (577)
|........+.+..++|+.+++.|++|++|+|||||||||||||++|||||||+||||||||||+|+||||.|++||+++
T Consensus 294 p~~~~~~~~~~~~~~~w~~~~~~f~aW~~G~TG~P~VDA~MRqL~~TGwmhnR~Rm~vAsfl~k~L~idWr~G~~~F~~~ 373 (475)
T TIGR02766 294 PFSHEKPLLGHLKFFPWAVDENYFKAWRQGRTGYPLVDAGMRELWATGWLHDRIRVVVSSFFVKVLQLPWRWGMKYFWDT 373 (475)
T ss_pred CcccccchhhhhhcCCCCCCHHHHHHHHcCCCCCcchhHHHHHHHHHCCCcHHHHHHHHHHHHcccCCChHHHHHHHHHH
Confidence 95433333444567899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccCCCCCchhhhhhhCCCCCCC-CCcccChhhhhhhcCCccchhhhccccccCCCccccCCCC---------------
Q 044814 471 LLDYDPCSNYGNWTYGAGVGNDPR-EDRYFSIPKQAQNYDREGEYVAYWLPQLKALPKERRNFPG--------------- 534 (577)
Q Consensus 471 LiD~D~a~n~g~Wqw~ag~g~d~~-~~RifNP~~q~~kfDp~G~yIr~wvPEL~~lp~~~ih~P~--------------- 534 (577)
|||||+|+|+|||||+||+|+|++ |||||||++|++||||+|+|||||||||+++|+++||+||
T Consensus 374 LiD~D~a~N~g~Wqw~Ag~g~d~~~~~RifnP~~q~~~~Dp~g~yir~wvPeL~~~p~~~ih~Pw~~~~~~~~~~~~~~g 453 (475)
T TIGR02766 374 LLDADLESDALGWQYISGSLPDGRELDRIDNPQLEGYKFDPNGEYVRRWLPELARLPTEWIHHPWDAPESVLQAAGVELG 453 (475)
T ss_pred ccccchhcccccccccccCCCCCCcccccCCHHHHHhhcCCCcccHHHhChhhccCCHHHhcCcccCCHHHHHHcCCccC
Confidence 999999999999999999999987 7999999999999999999999999999999999999995
Q ss_pred CCCCcCcccccccccc
Q 044814 535 GSYIEQIVSLKHGNIN 550 (577)
Q Consensus 535 ~~Yp~PIV~~~~~~~~ 550 (577)
.+||.|||||+.++.+
T Consensus 454 ~~YP~PiVd~~~~r~~ 469 (475)
T TIGR02766 454 SNYPLPIVGLDEARAR 469 (475)
T ss_pred CCCCcccCCHHHHHHH
Confidence 3699999999886543
No 3
>TIGR03556 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 8-HDF type. This model describes a narrow clade of cyanobacterial deoxyribodipyrimidine photo-lyase. This group, in contrast to several closely related proteins, uses a chromophore that, in other lineages is modified further to become coenzyme F420. This chromophore is called 8-HDF in most articles on the DNA photolyase and FO in most literature on coenzyme F420.
Probab=100.00 E-value=3.8e-110 Score=909.44 Aligned_cols=443 Identities=28% Similarity=0.484 Sum_probs=379.4
Q ss_pred eEEEEecCcccccCcHHHHHHHhCCCCEEEEEEEcCCcccccccCCCCCCchhhHHHHHHHHHHHHHHHHhCCCcEEEEe
Q 044814 82 VAIVWFRNDLRVLDNEALLKAWDSSEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIECLADLRKNLMNRGLNLLIRH 161 (577)
Q Consensus 82 ~~L~WFRrDLRl~DN~AL~~A~~~~~~vlpvyi~dp~~~~~~~~~~~~~~~~~r~~FllesL~dL~~~L~~lGi~L~v~~ 161 (577)
.+|||||||||++||+||.+|++.+.+|+||||+||.++. . +..|++|++||+|||.+|+++|+++|++|+|+.
T Consensus 2 ~vl~WfRrDLRl~DN~AL~~A~~~~~~vl~vfi~dp~~~~-~-----~~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~ 75 (471)
T TIGR03556 2 LILFWHRRDLRLSDNIGLAAARQQSAKVVGLFCLDPNILQ-A-----DDMAPARVAYLIGCLQELQQRYQQAGSQLLILQ 75 (471)
T ss_pred CEEEEeCCCCCcchHHHHHHHHhcCCCEEEEEEEchhhhc-c-----ccCCHHHHHHHHHHHHHHHHHHHHCCCCeEEEE
Confidence 5899999999999999999999888899999999998763 1 236899999999999999999999999999999
Q ss_pred CChhhHHHHHHHHhCCCEEEEecccChhhHHHHHHHHHHhhhccccccCCCcccCCCceeEeecceeccCCCCCCCCCCC
Q 044814 162 GKPEEIIPSLAKSFGAHAVYAQKETCSEELNVERLVRKNLQQVVLSSQSNDKSTNHPQLKLIWGTTMYHLDDIPFDHSSL 241 (577)
Q Consensus 162 G~~~evL~~L~~~~~a~~V~~~~e~~~~e~~~e~~v~~~l~~~~v~~~~~g~~~~~~~~~~~w~~~l~~~~~i~~~~~~~ 241 (577)
|++.++|++|+++++|++||+|.+|++.++++|..|++.|.+.++. +..+++.++++|++++...+.+
T Consensus 76 G~p~~vl~~l~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i~------------~~~~~~~~l~~p~~i~~~~~~~ 143 (471)
T TIGR03556 76 GDPVQLIPQLAQQLGAKAVYWNLDVEPYGRKRDRAVAAALKEAGIA------------VVTLWDQLLHSPDEILTGSGNP 143 (471)
T ss_pred CCHHHHHHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHHHHCCCE------------EEEeCCcEEECccccccCCCCC
Confidence 9999999999999999999999999999999999999998766553 4677888999999999888999
Q ss_pred CcccchhHHHHHHhcccCCccCCCCCCCCCC-------CCCCCCCCCchhhhccCCCcccCCCcccccHHHHHHHHHHHh
Q 044814 242 PDVYTHFRKSIEAKCTVRGCIRIPSSFGPPP-------SVVDWGSVPLIEQLELHSPKVSKGMRFVGGESAALGRVNEYF 314 (577)
Q Consensus 242 p~~ft~F~k~~~~~~~~~~~~~~P~~~~~~~-------~~~~~~~~p~l~~l~~~~~~~~~~~~~~gGe~~A~~rL~~Fl 314 (577)
|.+||+|++.++... ...+++.|..+.+.+ ...+...+|.+++++++.. ....++|||++|+++|+.|+
T Consensus 144 y~~ft~f~k~~~~~~-~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~---~~~~~~gGe~~A~~~L~~f~ 219 (471)
T TIGR03556 144 YTVYTPFWKNWSSLP-KPTPVATPTELEGLTEAELEAAAPLGVIALPTAKDLGFDWD---GDLILEPGETAAQARLEEFC 219 (471)
T ss_pred CcchhHHHHHHHhcc-ccCCCCCccccccCCccccccccccccccCCcccccccccc---cccCCCCcHHHHHHHHHHHH
Confidence 999999999987542 112333333221110 0011112355545544421 12248999999999999999
Q ss_pred hhccchhchhhhccCCCCCCCCCccccccccCCCCHHHHHHHHHHhHhh---hccCCchHhHhhhhhHHHHHHHHHHHcC
Q 044814 315 WKKDLLKVYKETRNEMLGPDYSTKFSPWLASGSISPRYIYEEVKSYERE---RVANDSTYWVLFELMWRDYFRFISLKYG 391 (577)
Q Consensus 315 ~~~~~l~~Y~~~Rn~~~~~~~tS~LSPyL~~G~IS~R~v~~~~~~~~~~---~~~~~~~~~fl~eL~WREf~~~~~~~~~ 391 (577)
. +++.+|+..||.|. .++||+|||||+|||||+|+|++++.+.... .....+.+.|++||+|||||+++++++|
T Consensus 220 ~--~~l~~Y~~~r~~p~-~~~tS~LSpyL~~G~iS~r~v~~~~~~~~~~~~~~~~~~~~~~f~~eL~WRef~~~~~~~~p 296 (471)
T TIGR03556 220 D--RAIADYQEQRNFPA-LDGTSQLSPALKFGVIGIRTVWQATQEAHENSRSEEARNSIRTWQQELAWREFYQHALYHFP 296 (471)
T ss_pred H--HHHHHhhhccCCCC-CCCCCCCChhhcCCcccHHHHHHHHHHHHhhcccccccccHHHHHHHHHHHHHHHHHHHHCc
Confidence 4 58999999999864 4679999999999999999999999763221 1112355678999999999999999999
Q ss_pred CcccccCCCcccCCCCccchhHHHhHhcCCCCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHhcCCCchHHHHHHHHhc
Q 044814 392 NSLFHLGGPRKLEYKWSQDQKLFESWRDGCTGYPLIDANMKELSMTGFMSNRGRQIACSFLVRDMGIDWRMGAEWFETCL 471 (577)
Q Consensus 392 ~~~~~~~~~~~~~i~W~~d~~~~~~W~~G~TG~PlVDAaMRqL~~tG~mHnr~RmivAsFL~k~L~idWr~G~~~F~~~L 471 (577)
+......++.+..++|+.++++|++|++|+|||||||||||||++|||||||+||+|||||||+|+||||.|++||+++|
T Consensus 297 ~~~~~~~~~~~~~~~w~~~~~~~~~W~~G~TG~P~vDAaMrqL~~tG~mhnr~Rm~vAsfl~k~L~idWr~G~~~F~~~L 376 (471)
T TIGR03556 297 ELADGPYRSLFQNFPWENNEAHFQAWCEGRTGYPIVDAAMRQLNETGWMHNRCRMIVASFLTKDLIINWQWGEKYFMQKL 376 (471)
T ss_pred chhccccchhhhcCCCcCCHHHHHHHhcCCCCCCcccHHHHHHHHhCCccHHHHHHHHHHHHcccCCCHHHHHHHHHHHh
Confidence 76555555556778999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCCCCCchhhhhhhCCCCCCCCCcccChhhhhhhcCCccchhhhccccccCCCccccCCCCC--------CCCcCccc
Q 044814 472 LDYDPCSNYGNWTYGAGVGNDPREDRYFSIPKQAQNYDREGEYVAYWLPQLKALPKERRNFPGG--------SYIEQIVS 543 (577)
Q Consensus 472 iD~D~a~n~g~Wqw~ag~g~d~~~~RifNP~~q~~kfDp~G~yIr~wvPEL~~lp~~~ih~P~~--------~Yp~PIV~ 543 (577)
||||+|||+|||||+||+|+|+++||||||++|++||||+|+|||||||||+++|.++||+|+. +||+||||
T Consensus 377 lD~D~a~N~g~Wqw~a~~G~d~~p~R~fnp~~q~~k~Dp~G~yIr~w~PeL~~~p~~~ih~p~~~~~~~~~~~YP~Pivd 456 (471)
T TIGR03556 377 IDGDLAANNGGWQWSASSGMDPKPLRIFNPASQAQKFDPEAEYIRRWLPELRSVDTKDLVTGKITPLERRAVGYPLPIVD 456 (471)
T ss_pred hhcChhhccccccchhcCCCCCCCCcccCHHHHHHHhCCCCchHHHhCHhhccCCHhhhcCcccCchhhhccCCCCCCCC
Confidence 9999999999999999999999999999999999999999999999999999999999999952 69999999
Q ss_pred cccccc
Q 044814 544 LKHGNI 549 (577)
Q Consensus 544 ~~~~~~ 549 (577)
|+.++.
T Consensus 457 ~~~~r~ 462 (471)
T TIGR03556 457 HNQQQQ 462 (471)
T ss_pred HHHHHH
Confidence 998764
No 4
>PRK10674 deoxyribodipyrimidine photolyase; Provisional
Probab=100.00 E-value=1.2e-107 Score=889.89 Aligned_cols=439 Identities=25% Similarity=0.435 Sum_probs=366.2
Q ss_pred eEEEEecCcccccCcHHHHHHHhCC-CCEEEEEEEcCCcccccccCCCCCCchhhHHHHHHHHHHHHHHHHhCCCcEEEE
Q 044814 82 VAIVWFRNDLRVLDNEALLKAWDSS-EMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIECLADLRKNLMNRGLNLLIR 160 (577)
Q Consensus 82 ~~L~WFRrDLRl~DN~AL~~A~~~~-~~vlpvyi~dp~~~~~~~~~~~~~~~~~r~~FllesL~dL~~~L~~lGi~L~v~ 160 (577)
.+|||||||||++||+||.+|++.+ .+|+||||+||.++. .+..|.+|++||+|||.+|+++|+++|++|+|+
T Consensus 3 ~~l~WfRrDLRl~DN~aL~~A~~~~~~~vlpvyv~dp~~~~------~~~~~~~r~~Fl~esL~~L~~~L~~~g~~L~v~ 76 (472)
T PRK10674 3 THLVWFRNDLRLHDNLALAAACRDPSARVLALFIATPAQWA------AHDMAPRQAAFINAQLNALQIALAEKGIPLLFH 76 (472)
T ss_pred ceEEEECCCCCcchHHHHHHHHhCCCCCEEEEEEECchhhc------cCCCCHHHHHHHHHHHHHHHHHHHHcCCceEEE
Confidence 3699999999999999999999876 479999999998763 124799999999999999999999999999999
Q ss_pred eC----ChhhHHHHHHHHhCCCEEEEecccChhhHHHHHHHHHHhhhccccccCCCcccCCCceeEeecceeccCCCCCC
Q 044814 161 HG----KPEEIIPSLAKSFGAHAVYAQKETCSEELNVERLVRKNLQQVVLSSQSNDKSTNHPQLKLIWGTTMYHLDDIPF 236 (577)
Q Consensus 161 ~G----~~~evL~~L~~~~~a~~V~~~~e~~~~e~~~e~~v~~~l~~~~v~~~~~g~~~~~~~~~~~w~~~l~~~~~i~~ 236 (577)
.| +++++|++|+++++|+.||+++++++.++.+|..|++.|. ++ .++.+++.++++++++++
T Consensus 77 ~g~~~g~~~~vl~~l~~~~~i~~v~~~~~~~~~~~~rd~~v~~~l~--~i------------~~~~~~~~~l~~~~~i~~ 142 (472)
T PRK10674 77 EVDDFAASVEWLKQFCQQHQVTHLFYNYQYEVNERQRDAAVERALR--NV------------VCQGFDDSVLLPPGSVMT 142 (472)
T ss_pred ecCCcCCHHHHHHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHcC--CC------------EEEEecCceEeCcccccc
Confidence 75 7999999999999999999999999999999999998875 22 245677889999999999
Q ss_pred CCCCCCcccchhHHHHHHhcccC--CccCCCCCCCCCCCCCCCCCCCchhhhccCCCcccCCCcccccHHHHHHHHHHHh
Q 044814 237 DHSSLPDVYTHFRKSIEAKCTVR--GCIRIPSSFGPPPSVVDWGSVPLIEQLELHSPKVSKGMRFVGGESAALGRVNEYF 314 (577)
Q Consensus 237 ~~~~~p~~ft~F~k~~~~~~~~~--~~~~~P~~~~~~~~~~~~~~~p~l~~l~~~~~~~~~~~~~~gGe~~A~~rL~~Fl 314 (577)
..+.+|++||+|++++++..... .+++.|....+. . ...+.+..++...... ....++|||++|+++|++|+
T Consensus 143 ~~~~~y~~ft~f~~~~~~~~~~~~p~~~~~p~~~~~~----~-~~~~~~~~~~~~~~~~-~~~~~~gGe~~A~~~L~~f~ 216 (472)
T PRK10674 143 GNHEMYKVFTPFKNAFLKRLREGDPECVPAPKVRSSG----A-IEPLPPIPFNYPQQSF-DTALFPVGEKAAIAQLRQFC 216 (472)
T ss_pred CCCCCCCcccHHHHHHHHhhcccCCccCCCCcccccc----c-cCCCCcccccCccccc-ccCCCCCCHHHHHHHHHHHH
Confidence 99999999999999987643211 112222111000 0 0011222222221111 11248999999999999999
Q ss_pred hhccchhchhhhccCCCCCCCCCccccccccCCCCHHHHHHHHHH-hHhhhccCCchHhHhhhhhHHHHHHHHHHHcCCc
Q 044814 315 WKKDLLKVYKETRNEMLGPDYSTKFSPWLASGSISPRYIYEEVKS-YERERVANDSTYWVLFELMWRDYFRFISLKYGNS 393 (577)
Q Consensus 315 ~~~~~l~~Y~~~Rn~~~~~~~tS~LSPyL~~G~IS~R~v~~~~~~-~~~~~~~~~~~~~fl~eL~WREf~~~~~~~~~~~ 393 (577)
. +++.+|++.||.|. .++||+|||||+|||||||+|++++.+ ++..... .+.+.|++||+|||||+++++++|..
T Consensus 217 ~--~~l~~Y~~~r~~p~-~~~tS~LSPyL~~G~iS~r~v~~~~~~~~~~~~~~-~~~~~fl~eL~WRef~~~~~~~~p~~ 292 (472)
T PRK10674 217 Q--QGAGEYEQQRDFPA-VDGTSRLSAYLATGVLSPRQCLHRLLAEQPQALDG-GAGSVWLNELIWREFYRHLMVAYPSL 292 (472)
T ss_pred H--HHHHHhccccCCCC-ccCCCCcChhhccCcCCHHHHHHHHHHHhhhhhcc-CchhHHHHHHHHHHHHHHHHHhCCch
Confidence 4 57999999999865 467999999999999999999999976 3321111 23345789999999999999999965
Q ss_pred ccc-cCCCcccCCCCccchhHHHhHhcCCCCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHhcCCCchHHHHHHHHhcc
Q 044814 394 LFH-LGGPRKLEYKWSQDQKLFESWRDGCTGYPLIDANMKELSMTGFMSNRGRQIACSFLVRDMGIDWRMGAEWFETCLL 472 (577)
Q Consensus 394 ~~~-~~~~~~~~i~W~~d~~~~~~W~~G~TG~PlVDAaMRqL~~tG~mHnr~RmivAsFL~k~L~idWr~G~~~F~~~Li 472 (577)
... ........+.|+.+++.|++|++|+|||||||||||||++|||||||+||+|||||||+|+||||.|++||+++||
T Consensus 293 ~~~~~~~~~~~~~~w~~~~~~~~~W~~G~TG~P~vDA~mrqL~~tG~mhnr~Rm~vAsfL~k~L~idWr~G~~~F~~~Ll 372 (472)
T PRK10674 293 CKHRPFIAWTDRVQWQSNPAHLQAWQQGKTGYPIVDAAMRQLNSTGWMHNRLRMITASFLVKDLLIDWREGERYFMSQLI 372 (472)
T ss_pred hhccCcchhhhccCcccCHHHHHHHHcCCCCCccHHHHHHHHHHHCCccHHHHHHHHHHHHcCcccCCHhHHHHHHHHhh
Confidence 332 2333345678999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCchhhhhhhCCCCCCC-CCcccChhhhhhhcCCccchhhhccccccCCCccccCCCCC---------CCCcCcc
Q 044814 473 DYDPCSNYGNWTYGAGVGNDPR-EDRYFSIPKQAQNYDREGEYVAYWLPQLKALPKERRNFPGG---------SYIEQIV 542 (577)
Q Consensus 473 D~D~a~n~g~Wqw~ag~g~d~~-~~RifNP~~q~~kfDp~G~yIr~wvPEL~~lp~~~ih~P~~---------~Yp~PIV 542 (577)
|||+|||+|||||+||+|+|++ |+|||||++|++||||+|+|||+|||||++||.++||+||. +||+|||
T Consensus 373 D~D~a~N~g~Wqw~ag~G~d~~py~R~fnP~~q~~k~Dp~g~yIr~w~PeL~~~p~~~ih~Pw~~~~~~~~~~~YP~PiV 452 (472)
T PRK10674 373 DGDLAANNGGWQWAASTGTDAAPYFRIFNPTTQGERFDRDGEFIRRWLPELRDVPGKAIHQPWRWAEKAGVTLDYPQPIV 452 (472)
T ss_pred cCCcccchhccceeecCCCCCCcceeecCHHHHHHHhCCCCChHHHhChhhccCCHHhhcCccccchhcCCCCCCCcCCc
Confidence 9999999999999999999997 69999999999999999999999999999999999999973 7999999
Q ss_pred cccccccc
Q 044814 543 SLKHGNIN 550 (577)
Q Consensus 543 ~~~~~~~~ 550 (577)
||+.++.+
T Consensus 453 d~~~~r~~ 460 (472)
T PRK10674 453 DHKQARLA 460 (472)
T ss_pred CHHHHHHH
Confidence 99987765
No 5
>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=3.9e-107 Score=879.80 Aligned_cols=429 Identities=59% Similarity=1.080 Sum_probs=360.4
Q ss_pred CeEEEEecCcccccCcHHHHHHHhCCCCEEEEEEEcCCcccccccCCCCCCchhhHHHHHHHHHHHHHHHHhCCCcEEEE
Q 044814 81 GVAIVWFRNDLRVLDNEALLKAWDSSEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIECLADLRKNLMNRGLNLLIR 160 (577)
Q Consensus 81 ~~~L~WFRrDLRl~DN~AL~~A~~~~~~vlpvyi~dp~~~~~~~~~~~~~~~~~r~~FllesL~dL~~~L~~lGi~L~v~ 160 (577)
+.+|||||||||++||+||.+|++.+.+|+||||+||+++...+..+.+..|++|++||++||++|+++|+++|++|+|+
T Consensus 1 ~~~l~WfRrDLRl~DN~aL~~A~~~~~~vl~vfi~dp~~~~~~~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~g~~L~v~ 80 (429)
T TIGR02765 1 KVVLYWFRNDLRVHDNPALYKASSSSDTLIPLYCFDPRQFKLTHFFGFPKTGPARGKFLLESLKDLRTSLRKLGSDLLVR 80 (429)
T ss_pred CeEEEEeCCCCccccHHHHHHHHhcCCeEEEEEEECchHhccccccccCCCCHHHHHHHHHHHHHHHHHHHHcCCCeEEE
Confidence 36899999999999999999999888899999999998874333333345799999999999999999999999999999
Q ss_pred eCChhhHHHHHHHHhCCCEEEEecccChhhHHHHHHHHHHhhhccccccCCCcccCCCceeEeecceeccCCCCCCCCCC
Q 044814 161 HGKPEEIIPSLAKSFGAHAVYAQKETCSEELNVERLVRKNLQQVVLSSQSNDKSTNHPQLKLIWGTTMYHLDDIPFDHSS 240 (577)
Q Consensus 161 ~G~~~evL~~L~~~~~a~~V~~~~e~~~~e~~~e~~v~~~l~~~~v~~~~~g~~~~~~~~~~~w~~~l~~~~~i~~~~~~ 240 (577)
.|++.++|++|+++++|++||+|.+|+++++++|..|++.|.+.++. ++.+++.++++++++++..+.
T Consensus 81 ~G~~~~vl~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i~------------~~~~~~~~l~~p~~v~~~~~~ 148 (429)
T TIGR02765 81 SGKPEDVLPELIKELGVRTVFLHQEVGSEEKSVERLLQQALARLGIH------------VEQHWGSTLYHEDDLPFDLED 148 (429)
T ss_pred eCCHHHHHHHHHHHhCCCEEEEeccCCHHHHHHHHHHHHHHHhcCce------------EEEecCCEeECHHhcCCCCCC
Confidence 99999999999999999999999999999999999999998766543 467888899999999999999
Q ss_pred CCcccchhHHHHHHhcccCCccCCCCCCCCCCCCCCCCCCCchhhhccCCCcccCCCcccccHHHHHHHHHHHhhhccch
Q 044814 241 LPDVYTHFRKSIEAKCTVRGCIRIPSSFGPPPSVVDWGSVPLIEQLELHSPKVSKGMRFVGGESAALGRVNEYFWKKDLL 320 (577)
Q Consensus 241 ~p~~ft~F~k~~~~~~~~~~~~~~P~~~~~~~~~~~~~~~p~l~~l~~~~~~~~~~~~~~gGe~~A~~rL~~Fl~~~~~l 320 (577)
+|.+|++|++++........+++.|....+.+.......+|++++++.+.........++|||++|+++|++||.+ +.+
T Consensus 149 ~~~~ft~f~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~gGe~~A~~~L~~Fl~~-~~l 227 (429)
T TIGR02765 149 LPDVFTQFRKQVEAKCSIRPPLPAPEKLPPLPSVDDPGWIPTLEDLGEESSEVDRGLPFVGGETAGLARLKEYFWS-KDL 227 (429)
T ss_pred CCCCchHHHHHHHhhCCCCCCCCCcccCCCCcccccccCCCChhhcCCCcccccccCCcCchHHHHHHHHHHHHhh-ccH
Confidence 9999999999987533333333334332221211111224555555543321111224899999999999999952 469
Q ss_pred hchhhhccCCCCCCCCCccccccccCCCCHHHHHHHHHHhHhhhccCCchHhHhhhhhHHHHHHHHHHHcCCcccccCCC
Q 044814 321 KVYKETRNEMLGPDYSTKFSPWLASGSISPRYIYEEVKSYERERVANDSTYWVLFELMWRDYFRFISLKYGNSLFHLGGP 400 (577)
Q Consensus 321 ~~Y~~~Rn~~~~~~~tS~LSPyL~~G~IS~R~v~~~~~~~~~~~~~~~~~~~fl~eL~WREf~~~~~~~~~~~~~~~~~~ 400 (577)
..|++.||.+++.++||+|||||+|||||||+|++++.++.......+++++|++||+|||||++++.++|...+...+.
T Consensus 228 ~~Y~~~R~~~~~~~~tS~LSpyL~~G~iS~r~v~~~~~~~~~~~~~~~~~~~~~~eL~WRef~~~~~~~~~~~~~~~~~~ 307 (429)
T TIGR02765 228 KSYKETRNGMLGPDYSTKFSPWLALGCVSPRQIYEELQRYETERGANDSTYWVIFELLWRDYFRFYALKYGNRLFRFGGL 307 (429)
T ss_pred hhhhhccCcccCCCCcCccCHHHhCCcccHHHHHHHHHHHHhhcccCCCcHHHHHHHHHHHHHHHHHHHcCCcccccCCC
Confidence 99999999876667899999999999999999999997754322223456678889999999999888888644443233
Q ss_pred cccCCCCccchhHHHhHhcCCCCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHhcCCCchHHHHHHHHhccccCCCCCc
Q 044814 401 RKLEYKWSQDQKLFESWRDGCTGYPLIDANMKELSMTGFMSNRGRQIACSFLVRDMGIDWRMGAEWFETCLLDYDPCSNY 480 (577)
Q Consensus 401 ~~~~i~W~~d~~~~~~W~~G~TG~PlVDAaMRqL~~tG~mHnr~RmivAsFL~k~L~idWr~G~~~F~~~LiD~D~a~n~ 480 (577)
.+..++|+.+++.|++|++|+|||||||||||||++|||||||+||+|||||||+|+||||.|++||+++|||||+|||+
T Consensus 308 ~~~~~~w~~~~~~~~~W~~G~TG~PivDAamrqL~~TG~mhnr~Rm~vAsFl~k~L~idWr~G~~~F~~~LiD~D~a~n~ 387 (429)
T TIGR02765 308 RGKHPKWSFDAKRFEQWKTGTTGYPLVDANMRELNATGFMSNRGRQNVASFLVKDLGLDWRYGAEWFETQLVDYDVCSNW 387 (429)
T ss_pred ccCCCCCccCHHHHHHHhCCCCCChhhhHHHHHHHHhCCCCHHHHHHHHHHHHHccCCCHHHHHHHHHHHhhccchhcCc
Confidence 33468999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhhCCCCCCCCCcccChhhhhhhcCCccchhhhccccc
Q 044814 481 GNWTYGAGVGNDPREDRYFSIPKQAQNYDREGEYVAYWLPQL 522 (577)
Q Consensus 481 g~Wqw~ag~g~d~~~~RifNP~~q~~kfDp~G~yIr~wvPEL 522 (577)
|||||+||+|+|+++||||||++|++||||+|+|||||||||
T Consensus 388 g~Wqw~ag~g~d~~~~Rifnp~~q~~k~Dp~g~yir~wvPeL 429 (429)
T TIGR02765 388 GNWQYLAGVGNDPRGSRQFNIEKQAQDYDPDGEYVATWVPEL 429 (429)
T ss_pred ccchhhhcCcCCCCcCccCCHHHHHHhcCCCCCcHHHhcCCC
Confidence 999999999999888999999999999999999999999998
No 6
>TIGR00591 phr2 photolyase PhrII. All proteins in this family for which functions are known are DNA-photolyases used for the direct repair of UV irradiation induced DNA damage. Some repair 6-4 photoproducts while others repair cyclobutane pyrimidine dimers. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=1.5e-87 Score=731.36 Aligned_cols=398 Identities=18% Similarity=0.196 Sum_probs=314.9
Q ss_pred cccCCCCeEEEEecCcccccCcHHHHHHHh--C--CCCEEEEEEEcCCcccccccCCCCCCchhhHHHHHHHHHHHHHHH
Q 044814 75 LKRNGKGVAIVWFRNDLRVLDNEALLKAWD--S--SEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIECLADLRKNL 150 (577)
Q Consensus 75 ~~~~~~~~~L~WFRrDLRl~DN~AL~~A~~--~--~~~vlpvyi~dp~~~~~~~~~~~~~~~~~r~~FllesL~dL~~~L 150 (577)
....++.+||||||+|||++||+||.+|++ . +.+|+||||+||.++. .|.+|++||++||.+|+++|
T Consensus 17 ~~~~~~~~vL~WFRrDLRl~DN~aL~~A~~~a~~~~~~vl~vyi~dp~~~~---------~~~~r~~Fl~esL~~L~~~L 87 (454)
T TIGR00591 17 PDLRSSGVVVYWMSRDQRVQDNWALIAAQTLALKKKLPLHVCFCLVDFFLA---------ATRRHYFFMLGGLDEVANEC 87 (454)
T ss_pred ccCCCCCeEEEEecCchhccCCHHHHHHHHHHHHcCCCEEEEEEeCCCccc---------ccHHHHHHHHHHHHHHHHHH
Confidence 445556779999999999999999999975 2 6689999999998763 48899999999999999999
Q ss_pred HhCCCcEEEEeCChhhHHHHHHHHhCCCEEEEecccChhhHHHHHHHHHHhhhccccccCCCcccCCCceeEeecceecc
Q 044814 151 MNRGLNLLIRHGKPEEIIPSLAKSFGAHAVYAQKETCSEELNVERLVRKNLQQVVLSSQSNDKSTNHPQLKLIWGTTMYH 230 (577)
Q Consensus 151 ~~lGi~L~v~~G~~~evL~~L~~~~~a~~V~~~~e~~~~e~~~e~~v~~~l~~~~v~~~~~g~~~~~~~~~~~w~~~l~~ 230 (577)
+++|++|+|+.|++.++|++|+++++|++||++.++++++.+++..|++.|.+ ++. ++.+.+.++++
T Consensus 88 ~~~g~~L~v~~g~~~~~l~~l~~~~~i~~V~~~~~~~~~~~~rd~~v~~~l~~-~i~------------~~~~~~~~l~p 154 (454)
T TIGR00591 88 ERLIIPFHLLDGPPKELLPYFVDLHAAAAVVTDFSPLRQPEQWDEAVGKLLPK-DVP------------FQQVDAHNVVP 154 (454)
T ss_pred HHcCCceEEeecChHHHHHHHHHHcCCCEEEEecccCcHHHHHHHHHHHHhcC-CCc------------EEEECCceEee
Confidence 99999999999999999999999999999999999999999999999988754 332 45666777776
Q ss_pred CCCCCCCCCCCCcccchhHHHHHHhcccCCcc-CCCCCCC-CCCCCCCCC--CCCc-hhhhccCCCcccCCCcc-cccHH
Q 044814 231 LDDIPFDHSSLPDVYTHFRKSIEAKCTVRGCI-RIPSSFG-PPPSVVDWG--SVPL-IEQLELHSPKVSKGMRF-VGGES 304 (577)
Q Consensus 231 ~~~i~~~~~~~p~~ft~F~k~~~~~~~~~~~~-~~P~~~~-~~~~~~~~~--~~p~-l~~l~~~~~~~~~~~~~-~gGe~ 304 (577)
++.+... .++.+||+|++. ++.. + ..+ ..|.... +.+...... ..+. ++.++++.. . ....| +|||+
T Consensus 155 ~~~~~~~--~~y~~ft~~~k~-~~~~-~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~-~~~~~~~gGe~ 227 (454)
T TIGR00591 155 CWAASKK--LEYAARTIRGKI-RKLL-P-EYLTEFPRVLKHPSPLDLEAGPVDWDAVRDSLAVERS-V-EEVVWAKPGTT 227 (454)
T ss_pred CcccCCc--eeeeeecHHHHH-HHhC-h-hhccccCCCccCCcccccccCcCCHHHHHHhccCcCC-c-CCcCCCCCcHH
Confidence 6655543 578899988876 3321 1 001 0011100 000000000 0010 111222211 1 12236 99999
Q ss_pred HHHHHHHHHhhhccchhchhhhccCCCCCCCCCccccccccCCCCHHHHHHHHHHhHhhhccCCchHhHhhhhhHH-HHH
Q 044814 305 AALGRVNEYFWKKDLLKVYKETRNEMLGPDYSTKFSPWLASGSISPRYIYEEVKSYERERVANDSTYWVLFELMWR-DYF 383 (577)
Q Consensus 305 ~A~~rL~~Fl~~~~~l~~Y~~~Rn~~~~~~~tS~LSPyL~~G~IS~R~v~~~~~~~~~~~~~~~~~~~fl~eL~WR-Ef~ 383 (577)
+|+++|++|+ ++++.+|++.||.|.. ++||+|||||+||+||||+|++++.+... ...++.+.|++||+|| |||
T Consensus 228 aA~~~L~~F~--~~~l~~Y~~~Rn~p~~-~~tS~LSPyL~~G~IS~R~i~~~~~~~~~--~~~~~~~~fl~EL~WR~ef~ 302 (454)
T TIGR00591 228 AGLIMLESFI--EKRLCFFRTRRNDPNN-DALSMLSPWLHFGQLSAQRAARAVERARG--NAGESVEFFEEELVVRRELA 302 (454)
T ss_pred HHHHHHHHHH--HHHHHHHHHhcCCccc-ccccccchHHhcCcccHHHHHHHHHHhcc--CCchHHHHHHHHHHHHHHHH
Confidence 9999999999 4689999999999765 78999999999999999999999865321 1123456799999999 899
Q ss_pred HHHHHHcCCcccccCCCcccCCCCc--------cch----hHHHhHhcCCCCCHHHHHHHHHHHHhcccchHHHHHHHHH
Q 044814 384 RFISLKYGNSLFHLGGPRKLEYKWS--------QDQ----KLFESWRDGCTGYPLIDANMKELSMTGFMSNRGRQIACSF 451 (577)
Q Consensus 384 ~~~~~~~~~~~~~~~~~~~~~i~W~--------~d~----~~~~~W~~G~TG~PlVDAaMRqL~~tG~mHnr~RmivAsF 451 (577)
+++++++|+... ......|. .+. ..|++|++|+|||||||||||||++|||||||+||+||
T Consensus 303 ~~~~~~~p~~~~-----~~~~~~w~~~~l~~~~~d~r~~~~~~~~W~~G~Tg~pivdA~MrqL~~TG~MHNr~RMi~a-- 375 (454)
T TIGR00591 303 DNFCFYNPYYDS-----LCGAYWWARTTLDDHAKDKREHLYSLEQLEKSTTHDYLWNAAQEQLVTEGKMHGFLRMYWA-- 375 (454)
T ss_pred hHhhhcCCCccc-----cccchHHHHHHHHHHhcCCccccCCHHHHHhcCcCcHhHhHHHHHHHHhCccccceeeeee--
Confidence 999999996431 11223365 333 26999999999999999999999999999999999999
Q ss_pred HHHhcCCCchHHHHHHHH--------hccccCCCCCchhhhhhhCCCCCCC-C-----C---cccChhhhhhhcCCccch
Q 044814 452 LVRDMGIDWRMGAEWFET--------CLLDYDPCSNYGNWTYGAGVGNDPR-E-----D---RYFSIPKQAQNYDREGEY 514 (577)
Q Consensus 452 L~k~L~idWr~G~~~F~~--------~LiD~D~a~n~g~Wqw~ag~g~d~~-~-----~---RifNP~~q~~kfDp~G~y 514 (577)
|+| |||+.|++||++ +|||||+|+|+|||||+ |+|.|++ | | |+|||++|++||||+| |
T Consensus 376 --K~l-i~W~~g~~~f~~~~~~ln~~~lvDgd~a~n~~~wqW~-~~G~d~~p~~~~~~fg~iR~~np~~q~~kfd~~~-y 450 (454)
T TIGR00591 376 --KKI-LEWTHSPEEALSIAIYLNDKYILDGRDPNGYVGCMWS-ICGIHDQGWAERIVFGKIRYMNYAGCRRKFNVAY-F 450 (454)
T ss_pred --eeh-hhcCCCHHHHHHHHHHhhhhhhccCCCCCccceeeeE-eccccCCCCCCCccceeeeecChhhhhccCCHHH-H
Confidence 666 999999999999 89999999999999999 9999988 4 7 9999999999999999 9
Q ss_pred hhhc
Q 044814 515 VAYW 518 (577)
Q Consensus 515 Ir~w 518 (577)
||+|
T Consensus 451 i~~~ 454 (454)
T TIGR00591 451 ERKY 454 (454)
T ss_pred HhhC
Confidence 9998
No 7
>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=3.3e-79 Score=622.96 Aligned_cols=248 Identities=41% Similarity=0.777 Sum_probs=214.8
Q ss_pred ccHHHHHHHHHHHhhhccchhchhhhccCCCCCCCCCccccccccCCCCHHHHHHHHHHhHhh-hccCCchHhHhhhhhH
Q 044814 301 GGESAALGRVNEYFWKKDLLKVYKETRNEMLGPDYSTKFSPWLASGSISPRYIYEEVKSYERE-RVANDSTYWVLFELMW 379 (577)
Q Consensus 301 gGe~~A~~rL~~Fl~~~~~l~~Y~~~Rn~~~~~~~tS~LSPyL~~G~IS~R~v~~~~~~~~~~-~~~~~~~~~fl~eL~W 379 (577)
|||++|+++|++|| ++++..|++.||.| ..++||+|||||+|||||||+|++++.+.... .....++++|++||+|
T Consensus 1 GGe~~A~~~L~~Fl--~~~l~~Y~~~r~~p-~~~~~S~LSpyL~~G~lS~r~v~~~~~~~~~~~~~~~~~~~~f~~eL~W 77 (277)
T PF03441_consen 1 GGETAALKRLEEFL--KERLADYGEQRDDP-AADGTSRLSPYLNFGCLSPREVYRAVKKAQEANDAHSESAEKFIRELIW 77 (277)
T ss_dssp SSHHHHHHHHHHHH--HHCGGGHHHHTT-T-TSTTS---HHHHHTTSS-HHHHHHHHHHHHHCHTCHHHHHHHHHHHHHH
T ss_pred CcHHHHHHHHHHHH--HHHHHhhchhccCC-CcCCcCcccHHHhCCCcCHHHHHHHHHHHhhhcccccchHHHHHHHHHH
Confidence 89999999999999 47899999999997 55679999999999999999999999885431 1112578899999999
Q ss_pred HHHHHHHHHHcCCcc-cccCCCcccCCCCc---cchhHHHhHhcCCCCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHh
Q 044814 380 RDYFRFISLKYGNSL-FHLGGPRKLEYKWS---QDQKLFESWRDGCTGYPLIDANMKELSMTGFMSNRGRQIACSFLVRD 455 (577)
Q Consensus 380 REf~~~~~~~~~~~~-~~~~~~~~~~i~W~---~d~~~~~~W~~G~TG~PlVDAaMRqL~~tG~mHnr~RmivAsFL~k~ 455 (577)
||||+++++++|+.. ...+.+.+..++|+ ++.+.|++|++|+|||||||||||||++|||||||+||||||||||+
T Consensus 78 Ref~~~~~~~~p~~~~~~~~~~~~~~~~w~~~~~~~~~~~~w~~G~TG~p~vDAamrqL~~tG~mHn~~R~~vasfl~k~ 157 (277)
T PF03441_consen 78 REFYRQLLYHNPNLDMFENFNPKFRQIPWEDDRENPELFEAWCEGRTGYPLVDAAMRQLRQTGWMHNRLRMIVASFLTKD 157 (277)
T ss_dssp HHHHHHHHHHSGGCTCSSTSSTTCCCSHCBTSBSTHHHHHHHHTT-SS-HHHHHHHHHHHHHS---HHHHHHHHHHHHHT
T ss_pred HHHHHHHHHhCCcchhhhhccHHHHhhhhcccccCHHHHHHHHcCCCCChHHHHHHHHHHHhCcccHHHHHHHHHHHHHh
Confidence 999999999999866 44566777788995 67889999999999999999999999999999999999999999999
Q ss_pred cCCCchHHHHHHHHhccccCCCCCchhhhhhhCCCCCCC-CCcccChhhhhhhcCCccchhhhccccccCCCccccCCCC
Q 044814 456 MGIDWRMGAEWFETCLLDYDPCSNYGNWTYGAGVGNDPR-EDRYFSIPKQAQNYDREGEYVAYWLPQLKALPKERRNFPG 534 (577)
Q Consensus 456 L~idWr~G~~~F~~~LiD~D~a~n~g~Wqw~ag~g~d~~-~~RifNP~~q~~kfDp~G~yIr~wvPEL~~lp~~~ih~P~ 534 (577)
|+|||+.|++||+++|||||+|+|+|||||+||+|+|++ |+|||||++|++||||+|+|||||||||++||.++||+|+
T Consensus 158 l~i~W~~g~~~f~~~liD~d~a~n~~~wqw~ag~g~d~~~~~r~~np~~q~~~~Dp~g~~ir~w~PeL~~~~~~~ih~p~ 237 (277)
T PF03441_consen 158 LLIDWREGAEWFAEHLIDYDPASNYGNWQWAAGTGTDAKPYFRIFNPVKQSKKFDPDGEYIRRWVPELADLPDEYIHEPW 237 (277)
T ss_dssp SHBHHHHHHHHHHHHHTT--HHHHHHHHHHHTTSSSTGCSTTTHHHHHHHHHHHSTTSHHHHHHSGGGTTSTHHHHTSCH
T ss_pred ccCCccccHHHHHHHhhccCcchHHHHHHHHHhhccccCccccccCchHHHHhhCcHHHHHHHHHHHHhcCChhheeChh
Confidence 999999999999999999999999999999999999987 7999999999999999999999999999999999999993
Q ss_pred ---------------CCCCcCccccccccccc
Q 044814 535 ---------------GSYIEQIVSLKHGNINQ 551 (577)
Q Consensus 535 ---------------~~Yp~PIV~~~~~~~~~ 551 (577)
.+||+|||||+++++..
T Consensus 238 ~~~~~~~~~~~~~~~~~YP~pivd~~~~r~~~ 269 (277)
T PF03441_consen 238 KAPPAVQKAAGCVLGNDYPKPIVDHKEARKRA 269 (277)
T ss_dssp GSHHHHHHHCT-CTTTSSBTSSSHHHHHHHHH
T ss_pred ccChHHHHHhCCccCCCCCcccCCHHHHHHHH
Confidence 48999999999977653
No 8
>KOG0133 consensus Deoxyribodipyrimidine photolyase/cryptochrome [Replication, recombination and repair; Signal transduction mechanisms]
Probab=100.00 E-value=2.5e-76 Score=628.84 Aligned_cols=452 Identities=26% Similarity=0.393 Sum_probs=356.3
Q ss_pred CCeEEEEecCcccccCcHHHHHHHhCCCCEEEEEEEcCCcccccccCCCCCCchhhHHHHHHHHHHHHHHHHhCCCcEEE
Q 044814 80 KGVAIVWFRNDLRVLDNEALLKAWDSSEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIECLADLRKNLMNRGLNLLI 159 (577)
Q Consensus 80 ~~~~L~WFRrDLRl~DN~AL~~A~~~~~~vlpvyi~dp~~~~~~~~~~~~~~~~~r~~FllesL~dL~~~L~~lGi~L~v 159 (577)
++.+|+|||+|||++|||||.+|+..+++++||||+||+... .+ ..|..|++||+|+|++|+++|+++|++|++
T Consensus 4 ~~~~v~wfr~~lR~~dnpal~~a~~~~~~~~~v~i~d~~~~~-~~-----~~g~~~~~~l~qsL~~ld~sl~~l~~~L~v 77 (531)
T KOG0133|consen 4 GSKSVHWFRKGLRLHDNPALLAAAAGKEPVRPVFILDPEEAG-SS-----NVGRNRWRFLLQSLEDLDQSLRELNSRLFV 77 (531)
T ss_pred ccceEEecccCcccccChhhHHHhccCCCceeEEEeCHhHhh-cc-----ccchhHHHHHHHHHHHHHHHHHHhCCceEE
Confidence 467999999999999999998888888899999999999874 22 579999999999999999999999999999
Q ss_pred EeCChhhHHHHHHHHhCCCEEEEecccChhhHHHHHHHHHHhhhccccccCCCcccCCCceeEeecceeccCCC-CCCCC
Q 044814 160 RHGKPEEIIPSLAKSFGAHAVYAQKETCSEELNVERLVRKNLQQVVLSSQSNDKSTNHPQLKLIWGTTMYHLDD-IPFDH 238 (577)
Q Consensus 160 ~~G~~~evL~~L~~~~~a~~V~~~~e~~~~e~~~e~~v~~~l~~~~v~~~~~g~~~~~~~~~~~w~~~l~~~~~-i~~~~ 238 (577)
.+|.|..+|.++.+..+++.|.++..+.+....+|..++..+.+.++.+ ......+++.++. |..+.
T Consensus 78 ~~~~p~~vl~~~~~~~~~~~l~~~~~~~p~~~vrD~~~~~~a~~l~i~v------------~s~~s~~~~~~~~~i~~n~ 145 (531)
T KOG0133|consen 78 FRGHPIAVLSRLLEQVGVQKLKFEYDMEPDGKVRDATIKSLATELGLSV------------VSPVSHTLYLPDKIIEANG 145 (531)
T ss_pred EeCCchHHHhhhhhccceeEEEEEEeccCccccccHHHHHHHHHhhhhh------------cccCchhhhcHHHHHHhcC
Confidence 9999999999999999999999888888888888888888877765543 1111223333322 34567
Q ss_pred CCCCcccchhHHHHHHhcccCCccCCCCC-C-CCCCC----CCCCCCCCchhhhccCCCcccCCCcccccHHHHHHHHHH
Q 044814 239 SSLPDVYTHFRKSIEAKCTVRGCIRIPSS-F-GPPPS----VVDWGSVPLIEQLELHSPKVSKGMRFVGGESAALGRVNE 312 (577)
Q Consensus 239 ~~~p~~ft~F~k~~~~~~~~~~~~~~P~~-~-~~~~~----~~~~~~~p~l~~l~~~~~~~~~~~~~~gGe~~A~~rL~~ 312 (577)
+++|..|..|+...........|.-+... . ...+. ......+|+++.+++..+..... .|+||++.|+.+|++
T Consensus 146 ~k~pls~~~~~~~~~~~~~~~~p~~v~~~~~~~~~~~~~~~~~~~~~v~~~e~l~~~~~~~~~~-~~~~g~s~al~~l~~ 224 (531)
T KOG0133|consen 146 GKPPLSYKTFRGVCQSMSAPKIPALVLSGLAVEKHPNFLANSKASAVVPTLELLRFIPSNYGEV-VWRGGESEALKRLDA 224 (531)
T ss_pred CCCccccccccccccccccccccccccccccCCCChhhhhhcccccccCCchhhccCccccccc-ccCCcccchhHHHHH
Confidence 88999999998876432111111000000 0 00110 01112357777776655433223 389999999999999
Q ss_pred HhhhccchhchhhhccCCCC--CCCCCccccccccCCCCHHHHHHH--HHH-hHhhhccCCchH-hHhhhhhHHHHHHHH
Q 044814 313 YFWKKDLLKVYKETRNEMLG--PDYSTKFSPWLASGSISPRYIYEE--VKS-YERERVANDSTY-WVLFELMWRDYFRFI 386 (577)
Q Consensus 313 Fl~~~~~l~~Y~~~Rn~~~~--~~~tS~LSPyL~~G~IS~R~v~~~--~~~-~~~~~~~~~~~~-~fl~eL~WREf~~~~ 386 (577)
|+.......++......... ..+++.|||||+|||+|+|.+++. .++ ..+......+.+ .|+.||+|||||++.
T Consensus 225 ~l~~~~~~an~~~~~~~~~~~~~~s~~~Ls~yL~fg~~svr~~~~~~~~k~V~~~~~~~s~~~es~~~~qv~Wre~~y~~ 304 (531)
T KOG0133|consen 225 HLKVPLWVANLELRYSNANSRVKISTTVLSPYLKFGCLSVRYFYRCVRLKQVKWKAKKNSLPPESLFLGQVAWREFFYTA 304 (531)
T ss_pred HhhHHHHHhhhhccccccchhcCCCccccccceeeccceeEeehhHhHHHHHHHhhhcccCCccccccceeeeechhhHh
Confidence 99543223444433332222 234679999999999999999962 222 222222222344 489999999999999
Q ss_pred HHHcCCcccccCCCcccCCCCccchhHHHhHhcCCCCCHHHHHHHHHHHHhcccchHHHHHHHHHHHH-hcCCCchHHHH
Q 044814 387 SLKYGNSLFHLGGPRKLEYKWSQDQKLFESWRDGCTGYPLIDANMKELSMTGFMSNRGRQIACSFLVR-DMGIDWRMGAE 465 (577)
Q Consensus 387 ~~~~~~~~~~~~~~~~~~i~W~~d~~~~~~W~~G~TG~PlVDAaMRqL~~tG~mHnr~RmivAsFL~k-~L~idWr~G~~ 465 (577)
..+.|......++..+..|+|+.|+..+++|.+|+||||+|||+||||++||||||+.|++||||++| +|+|+|++|.+
T Consensus 305 ~~n~p~~~~m~~n~~~~~ipw~~n~~~~~aw~~G~tG~P~ida~m~~l~~~gw~h~~~R~~vasf~tr~~L~i~w~eg~~ 384 (531)
T KOG0133|consen 305 AFNTPYFDDMPGNKILLQIPWDKNPPKLAAWLEGLTGYPWLDAGMRQLLASGWEHHRSRTIVASFLTRGDLLISWREGLD 384 (531)
T ss_pred hcCCccccccccccccccCCcccChhhhHHHHcCCCCCCchhHHHHHHHHHHHHhcccchhhHhHhhccceeeeHHHHHH
Confidence 99888632235677788999999999999999999999999999999999999999999999999999 99999999999
Q ss_pred HHHHhccccCCCCCchhhhhhhCCCCCCC-CCcccChhhhhhhcCCccchhhhccccccCCCccccCCCC----------
Q 044814 466 WFETCLLDYDPCSNYGNWTYGAGVGNDPR-EDRYFSIPKQAQNYDREGEYVAYWLPQLKALPKERRNFPG---------- 534 (577)
Q Consensus 466 ~F~~~LiD~D~a~n~g~Wqw~ag~g~d~~-~~RifNP~~q~~kfDp~G~yIr~wvPEL~~lp~~~ih~P~---------- 534 (577)
+|+++|+|+|..+|.|||||.+|++.+.+ ++|+|||+.+++++||+|.|||+|+|||++.|..+||+||
T Consensus 385 ~F~~~llD~D~~~~agnW~~~S~~s~f~~~~~~~ysp~~~~kk~dP~g~yir~~lp~l~~~p~~~i~~pW~~p~~~~~~~ 464 (531)
T KOG0133|consen 385 VFMEYLLDADSSKNAGNWMWLSSTSHFFDQFDRVYSPVALGKKLDPDGLYIRQWLPELRSGPMHFIYEPWAAPEGVQTAA 464 (531)
T ss_pred HHHHHhcchhhhcCCCccceeccccccccccccccCHHHHhCcCCcchhhHHHHhHHHhcCCcceeccCCCCcHHHhhhh
Confidence 99999999999999999999998887765 7899999999999999999999999999999999999995
Q ss_pred -----CCCCcCcccccccccc
Q 044814 535 -----GSYIEQIVSLKHGNIN 550 (577)
Q Consensus 535 -----~~Yp~PIV~~~~~~~~ 550 (577)
.+||+|||+|+.+++.
T Consensus 465 ~~~lg~~Yp~~iv~~~~a~k~ 485 (531)
T KOG0133|consen 465 GELLGVDYPKPIVKLASAAKR 485 (531)
T ss_pred hhhhhcccchhhhhhHHhhHh
Confidence 4899999999997765
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=99.98 E-value=4e-32 Score=256.64 Aligned_cols=163 Identities=37% Similarity=0.575 Sum_probs=132.9
Q ss_pred EEEEecCcccccCcHHHHHHHhCCCCEEEEEEEcCCcccccccCCCCCCchhhHHHHHHHHHHHHHHHHhCCCcEEEEeC
Q 044814 83 AIVWFRNDLRVLDNEALLKAWDSSEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIECLADLRKNLMNRGLNLLIRHG 162 (577)
Q Consensus 83 ~L~WFRrDLRl~DN~AL~~A~~~~~~vlpvyi~dp~~~~~~~~~~~~~~~~~r~~FllesL~dL~~~L~~lGi~L~v~~G 162 (577)
+|||||+|||++||+||++|++.+.+++||||+||..... ...|.+|++||++||.+|+++|+++|++|+|+.|
T Consensus 1 ~l~Wfr~DLRl~DN~aL~~A~~~~~~v~~vfv~d~~~~~~------~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g 74 (165)
T PF00875_consen 1 VLVWFRRDLRLHDNPALHAAAQNGDPVLPVFVFDPEEFHP------YRIGPRRRRFLLESLADLQESLRKLGIPLLVLRG 74 (165)
T ss_dssp EEEEESS--SSTT-HHHHHHHHTTSEEEEEEEE-HHGGTT------CSSCHHHHHHHHHHHHHHHHHHHHTTS-EEEEES
T ss_pred CEEEEcCCCchhhhHHHHHHHHcCCCeEEEEEeccccccc------ccCcchHHHHHHHHHHHHHHHHHhcCcceEEEec
Confidence 6999999999999999999999999999999999983210 0359999999999999999999999999999999
Q ss_pred ChhhHHHHHHHHhCCCEEEEecccChhhHHHHHHHHHHhhhccccccCCCcccCCCceeEeecceeccCCCCCCCCCCCC
Q 044814 163 KPEEIIPSLAKSFGAHAVYAQKETCSEELNVERLVRKNLQQVVLSSQSNDKSTNHPQLKLIWGTTMYHLDDIPFDHSSLP 242 (577)
Q Consensus 163 ~~~evL~~L~~~~~a~~V~~~~e~~~~e~~~e~~v~~~l~~~~v~~~~~g~~~~~~~~~~~w~~~l~~~~~i~~~~~~~p 242 (577)
++.++|.+|+++++|++||++++|++++.+++..+++.|.+.++. +..+++.++++++++++..+.+|
T Consensus 75 ~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i~------------~~~~~~~~L~~~~~i~~~~~~~~ 142 (165)
T PF00875_consen 75 DPEEVLPELAKEYGATAVYFNEEYTPYERRRDERVRKALKKHGIK------------VHTFDDHTLVPPDDIPKKDGEPY 142 (165)
T ss_dssp SHHHHHHHHHHHHTESEEEEE---SHHHHHHHHHHHHHHHHTTSE------------EEEE--SSSS-HHHCHSTTSSSH
T ss_pred chHHHHHHHHHhcCcCeeEeccccCHHHHHHHHHHHHHHHhcceE------------EEEECCcEEEeccccccCCCCCc
Confidence 999999999999999999999999999999999999998875543 57888899999999999999999
Q ss_pred cccchhHHHHHHhcccCCccCC
Q 044814 243 DVYTHFRKSIEAKCTVRGCIRI 264 (577)
Q Consensus 243 ~~ft~F~k~~~~~~~~~~~~~~ 264 (577)
.+||+|+|+|++... ..|+|.
T Consensus 143 ~vFtpf~k~~~~~~~-~~p~p~ 163 (165)
T PF00875_consen 143 KVFTPFRKKWEKQLL-EEPLPA 163 (165)
T ss_dssp SSHHHHHHHHHCHCS-C-----
T ss_pred ccHHHHHHHHHhcCC-CCCCCC
Confidence 999999999997653 334433
No 10
>COG3046 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]
Probab=99.97 E-value=6e-31 Score=266.71 Aligned_cols=377 Identities=13% Similarity=0.157 Sum_probs=265.0
Q ss_pred CeEEEEecCcccccCcHHHHHHHhCCCCEEEEEEEcCCcccccccCCCCCCchhhHHHHHHHHHHHHHHHHhCCCcEEEE
Q 044814 81 GVAIVWFRNDLRVLDNEALLKAWDSSEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIECLADLRKNLMNRGLNLLIR 160 (577)
Q Consensus 81 ~~~L~WFRrDLRl~DN~AL~~A~~~~~~vlpvyi~dp~~~~~~~~~~~~~~~~~r~~FllesL~dL~~~L~~lGi~L~v~ 160 (577)
..+++|.-.|+-.+++.||.. ...-.+|.+++...+.. ..+.+..+..++..+++++.++|+..|..+...
T Consensus 2 ~~~~~lvLgdQL~~~~~al~~----d~~~~~vllvE~~~~a~-----~~r~HkqKl~lv~aAMR~Fad~LraeG~~V~Y~ 72 (505)
T COG3046 2 MSSVVLVLGDQLSEDHSALGD----DRSQDGVLLVESAAEAR-----YRRHHKQKLVLVFAAMRHFADELRAEGLKVRYE 72 (505)
T ss_pred CceEEEEeccccccccchhcc----CcccCcEEEehhHhHhh-----hhhcchhhhHHHHHHHHHHHHHHhhCCceeEEE
Confidence 357899999999999999854 11224555565544421 124577889999999999999999999999866
Q ss_pred eCC---hhhHHHHHHHHhCCCEEEEecccChhhHHHHHHHHHHhhhccccccCCCcccCCCceeEeecceeccCCCCCCC
Q 044814 161 HGK---PEEIIPSLAKSFGAHAVYAQKETCSEELNVERLVRKNLQQVVLSSQSNDKSTNHPQLKLIWGTTMYHLDDIPFD 237 (577)
Q Consensus 161 ~G~---~~evL~~L~~~~~a~~V~~~~e~~~~e~~~e~~v~~~l~~~~v~~~~~g~~~~~~~~~~~w~~~l~~~~~i~~~ 237 (577)
.-+ ....|.+.++.++.++|+..+. .+...+..++...-..++++ +....-+.+|....+. .+.
T Consensus 73 ~~~~~~~~~~l~~~l~~~~~d~~~~~~p---~~~~l~~~m~~L~~~~g~~i------~~~~~~~Fl~s~a~f~----~w~ 139 (505)
T COG3046 73 RADDNSFGGELRRALEAYPGDRVQVQEP---GDHRLEARMKSLSMALGIEI------TEVENPHFLCSRAEFD----AWA 139 (505)
T ss_pred EcCCcccchHHHHHHHhcCCCeEEEecC---cchhHHHHHHhhhhhcCcee------EEecCcceecCHHHhh----hhh
Confidence 533 4677888999999999988753 34455555544432333332 0011113444433332 233
Q ss_pred CCCCCcccchhHHHHHHhcccC------------------CccC----CCCCCCCCCCCCCCCCCCchhhhccCCCcccC
Q 044814 238 HSSLPDVYTHFRKSIEAKCTVR------------------GCIR----IPSSFGPPPSVVDWGSVPLIEQLELHSPKVSK 295 (577)
Q Consensus 238 ~~~~p~~ft~F~k~~~~~~~~~------------------~~~~----~P~~~~~~~~~~~~~~~p~l~~l~~~~~~~~~ 295 (577)
.+.++..++.||+.++++..+. .+.+ .|+.+..+|+....+.+..++++-.+..+...
T Consensus 140 ~~~k~~lme~FYr~mRkr~g~LM~~dqP~GGrWnFDaeNR~~~~pdL~~P~pl~fppd~~vq~v~e~Ve~~f~~~~G~~e 219 (505)
T COG3046 140 GDRKPLLMESFYRRMRKRTGILMEDDQPEGGRWNFDAENRKKLPPDLLPPKPLKFPPDEIVQEVKERVERLFPDNFGQVE 219 (505)
T ss_pred ccCcchhhHHHHHHHHHhhceeccCCCCCCCcCCcCcccccCCCCcCCCCCCCCCCCcchhHHHHHHHHhhCCCCCCccc
Confidence 5667789999999998765431 1111 11111111111100011123333333223335
Q ss_pred CCcccccHHHHHHHHHHHhhhccchhchhhhccCCCCCC---CCCccccccccCCCCHHHHHHHHHH-hHhhhccCCchH
Q 044814 296 GMRFVGGESAALGRVNEYFWKKDLLKVYKETRNEMLGPD---YSTKFSPWLASGSISPRYIYEEVKS-YERERVANDSTY 371 (577)
Q Consensus 296 ~~~~~gGe~~A~~rL~~Fl~~~~~l~~Y~~~Rn~~~~~~---~tS~LSPyL~~G~IS~R~v~~~~~~-~~~~~~~~~~~~ 371 (577)
++.||..+++|+..|+.|| +..|.+|+...|+|...+ .+|.|||||+.|.|+|.+|++++.+ +..+..+.++++
T Consensus 220 ~F~wpvtr~~A~~~L~~Fi--~~~L~nFG~yQDam~~d~~~L~HSllS~alNigLL~PleVi~Aa~~Ay~~g~ipLN~VE 297 (505)
T COG3046 220 GFGWPVTRTQALRALKHFI--ADRLPNFGSYQDAMSADDPHLWHSLLSFALNIGLLTPLEVIRAALKAYREGDIPLNSVE 297 (505)
T ss_pred cCCCCCCHHHHHHHHHHHH--HHhhhcCCcHHHHHhcCCchhHHHHHHHHhhccCCCHHHHHHHHHHhhccCCCchHHHH
Confidence 6779999999999999999 579999999999886644 4899999999999999999999987 554555567899
Q ss_pred hHhhhh-hHHHHHHHHHHHcCCccccc--CCCcccCCCCccchhHHHhHhcCCCCCHHHHHHHHHHHHhcccchHHHHHH
Q 044814 372 WVLFEL-MWRDYFRFISLKYGNSLFHL--GGPRKLEYKWSQDQKLFESWRDGCTGYPLIDANMKELSMTGFMSNRGRQIA 448 (577)
Q Consensus 372 ~fl~eL-~WREf~~~~~~~~~~~~~~~--~~~~~~~i~W~~d~~~~~~W~~G~TG~PlVDAaMRqL~~tG~mHnr~Rmiv 448 (577)
+|++|| +||||.+.+++.-...+... ++.. ..+ -....+|+|++.|++-+..+...+||.||+.|.||
T Consensus 298 GFvRQiiGWREfmRgiY~~~~P~y~trN~f~~d-~~L--------p~~yw~g~T~M~cl~~av~~v~d~gYAHHIqRLMV 368 (505)
T COG3046 298 GFVRQIIGWREFMRGIYWLKMPDYATRNFFNAD-RKL--------PPFYWTGQTKMACLAIAVGRVLDHGYAHHIQRLMV 368 (505)
T ss_pred HHHHHHhhHHHHHHHhhhhcCCchhhhhhhccC-CCC--------CCccccCCcCchHHHHHHHHHhhhhHHHHHHHHHH
Confidence 999999 99999999988754322211 1111 111 12245899999999999999999999999999999
Q ss_pred HHHHHHhcCCCchHHHHHHHHhcccc----CCCCCchhhhhhhCCC
Q 044814 449 CSFLVRDMGIDWRMGAEWFETCLLDY----DPCSNYGNWTYGAGVG 490 (577)
Q Consensus 449 AsFL~k~L~idWr~G~~~F~~~LiD~----D~a~n~g~Wqw~ag~g 490 (577)
.+.|+..+++|.....+||+..+||+ ..++-.|.=|++-|.-
T Consensus 369 ~gNfALl~G~dPd~v~~Wf~~~fiDAYdWV~~PNv~GM~qFADGG~ 414 (505)
T COG3046 369 TGNFALLLGVDPDAVDRWFMEVFIDAYDWVELPNVRGMSQFADGGL 414 (505)
T ss_pred HhhHHHHhCCCHHHHHHHHHHHHhhHhhheecccccchhhcccCce
Confidence 99999999999999999999999995 4588889988888753
No 11
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=97.72 E-value=0.00014 Score=72.07 Aligned_cols=151 Identities=11% Similarity=0.102 Sum_probs=83.7
Q ss_pred EEEecCcccccCcHHHHHHHhCCCCEEEEEEEcCCcccccccCCCCCCchhhHHHHHHHHHHHHHHHHhCCCcEEEEe-C
Q 044814 84 IVWFRNDLRVLDNEALLKAWDSSEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIECLADLRKNLMNRGLNLLIRH-G 162 (577)
Q Consensus 84 L~WFRrDLRl~DN~AL~~A~~~~~~vlpvyi~dp~~~~~~~~~~~~~~~~~r~~FllesL~dL~~~L~~lGi~L~v~~-G 162 (577)
|.|.-.|+-..++++|.. - .....|++++...+. . ..+.+..++.+++.||++.+++|++.|..+.++. .
T Consensus 1 L~lIlgdQL~~~~~~l~~-~---~~~~~v~mvE~~~~~-~----~~~~HkqKl~l~~saMRhfa~~L~~~G~~V~Y~~~~ 71 (224)
T PF04244_consen 1 LRLILGDQLFEDHPALRD-D---PADDRVLMVEVPEEF-T----YVPHHKQKLVLFFSAMRHFADELRAKGFRVHYIELD 71 (224)
T ss_dssp EEE--TT---TT-HHHHT-----TTT-EEEEE--HHHH-H----SS---HHHHHHHHHHHHHHHHHHHHTT--EEEE-TT
T ss_pred CeEeccCCCCCccccccc-C---CCCCEEEEEEchHHh-C----cCcccHHHHHHHHHHHHHHHHHHHhCCCEEEEEeCC
Confidence 578889999999999965 2 233567777654432 1 2256889999999999999999999999999775 2
Q ss_pred ------ChhhHHHHHHHHhCCCEEEEecccChhhHHHHHHHHHHhhhccccc---cCCCcccCCCceeEeecceeccCCC
Q 044814 163 ------KPEEIIPSLAKSFGAHAVYAQKETCSEELNVERLVRKNLQQVVLSS---QSNDKSTNHPQLKLIWGTTMYHLDD 233 (577)
Q Consensus 163 ------~~~evL~~L~~~~~a~~V~~~~e~~~~e~~~e~~v~~~l~~~~v~~---~~~g~~~~~~~~~~~w~~~l~~~~~ 233 (577)
+..+.|.+++++++++.|.+.. +.+.+.++.+++++++.++++ .+..+.+.+..+.
T Consensus 72 ~~~~~~s~~~~L~~~~~~~~~~~~~~~~---P~d~~l~~~l~~~~~~~~i~~~~~~~~~Fl~s~~~f~------------ 136 (224)
T PF04244_consen 72 DPENTQSFEDALARALKQHGIDRLHVME---PGDYRLEQRLESLAQQLGIPLEVLEDPHFLTSREEFA------------ 136 (224)
T ss_dssp -TT--SSHHHHHHHHHHHH----EEEE-----S-HHHHHHHHH----SSS-EEEE--TTSSS-HHHHH------------
T ss_pred CccccccHHHHHHHHHHHcCCCEEEEEC---CCCHHHHHHHHhhhcccCCceEEeCCCCccCCHHHHH------------
Confidence 4578899999999999998875 457778888888887766654 2322222111010
Q ss_pred CCCCCCCCCcccchhHHHHHHhcccC
Q 044814 234 IPFDHSSLPDVYTHFRKSIEAKCTVR 259 (577)
Q Consensus 234 i~~~~~~~p~~ft~F~k~~~~~~~~~ 259 (577)
.+..+.....|+.||+.++++..+.
T Consensus 137 -~~~~~~k~~~Me~FYR~mRkr~~IL 161 (224)
T PF04244_consen 137 -EWFEGRKRLRMEYFYREMRKRFGIL 161 (224)
T ss_dssp -HHHTT-SS--HHHHHHHHHHHHTTT
T ss_pred -HHHccCCceeHHHHHHHHHHHcCcc
Confidence 1123455668999999999876553
No 12
>KOG0133 consensus Deoxyribodipyrimidine photolyase/cryptochrome [Replication, recombination and repair; Signal transduction mechanisms]
Probab=95.36 E-value=0.033 Score=61.30 Aligned_cols=388 Identities=11% Similarity=-0.062 Sum_probs=203.2
Q ss_pred eeeeehhhccCCCCChhhhhccccccccccCCCchhhhhhHHHhhhhcc-cc---------ccccCC-CCeEEEEecCcc
Q 044814 23 FRTMNIIASKNRNPNQNIQQKVIPHCQVIPGADSREINHIVEETFGRYT-SK---------ALKRNG-KGVAIVWFRNDL 91 (577)
Q Consensus 23 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~---------~~~~~~-~~~~L~WFRrDL 91 (577)
.-|++.+-.-.+-.-.+++..+...-..+...++..+..|........- .+ ..+-.- ....++|+..++
T Consensus 98 l~~~~~~~p~~~vrD~~~~~~a~~l~i~v~s~~s~~~~~~~~~i~~n~~k~pls~~~~~~~~~~~~~~~~p~~v~~~~~~ 177 (531)
T KOG0133|consen 98 LKFEYDMEPDGKVRDATIKSLATELGLSVVSPVSHTLYLPDKIIEANGGKPPLSYKTFRGVCQSMSAPKIPALVLSGLAV 177 (531)
T ss_pred EEEEEeccCccccccHHHHHHHHHhhhhhcccCchhhhcHHHHHHhcCCCCccccccccccccccccccccccccccccC
Confidence 3355665544443444444444445555666666666666555543111 11 111111 112679999999
Q ss_pred cccCcHHHHHHHhCCCCEEEEEEEcCCcccccc-cCCCCCCchhhHHHHHHHHHHHHHHHHhCCCcEEEEeCChhhHHHH
Q 044814 92 RVLDNEALLKAWDSSEMVLPVYCVDPRHSQTTY-HFGFPKTGALRAQFLIECLADLRKNLMNRGLNLLIRHGKPEEIIPS 170 (577)
Q Consensus 92 Rl~DN~AL~~A~~~~~~vlpvyi~dp~~~~~~~-~~~~~~~~~~r~~FllesL~dL~~~L~~lGi~L~v~~G~~~evL~~ 170 (577)
+.++|.....++....++++.+.++++...... ..|...+..+.-.||... .+..++++.+....++.+..+.+|..
T Consensus 178 ~~~~~~~~~~~~~~~v~~~e~l~~~~~~~~~~~~~~g~s~al~~l~~~l~~~--~~~an~~~~~~~~~~~~~~s~~~Ls~ 255 (531)
T KOG0133|consen 178 EKHPNFLANSKASAVVPTLELLRFIPSNYGEVVWRGGESEALKRLDAHLKVP--LWVANLELRYSNANSRVKISTTVLSP 255 (531)
T ss_pred CCChhhhhhcccccccCCchhhccCcccccccccCCcccchhHHHHHHhhHH--HHHhhhhccccccchhcCCCcccccc
Confidence 999998766665555566777788776553211 122233334444555555 55777777888888777777777877
Q ss_pred HHHHhCCCEEEEecccChhhHHHHHHHHHHhhhccccccCCCcccCCCceeEeecceeccCCCCCCCCCCCCcccchhHH
Q 044814 171 LAKSFGAHAVYAQKETCSEELNVERLVRKNLQQVVLSSQSNDKSTNHPQLKLIWGTTMYHLDDIPFDHSSLPDVYTHFRK 250 (577)
Q Consensus 171 L~~~~~a~~V~~~~e~~~~e~~~e~~v~~~l~~~~v~~~~~g~~~~~~~~~~~w~~~l~~~~~i~~~~~~~p~~ft~F~k 250 (577)
.++...++..+.+...+. +.|....+....+..+ ++ --+..|..+. |.
T Consensus 256 yL~fg~~svr~~~~~~~~------k~V~~~~~~~s~~~es-~~-----~~qv~Wre~~--------------------y~ 303 (531)
T KOG0133|consen 256 YLKFGCLSVRYFYRCVRL------KQVKWKAKKNSLPPES-LF-----LGQVAWREFF--------------------YT 303 (531)
T ss_pred ceeeccceeEeehhHhHH------HHHHHhhhcccCCccc-cc-----cceeeeechh--------------------hH
Confidence 777766666655542111 2232221111111100 00 0123333322 22
Q ss_pred HHHHhcccCCccCCCCCCCCCCCCCCCCCCCchhhhccCCCcccCCCcccccHHHHHHHHHHHhhhccchhchhhhccCC
Q 044814 251 SIEAKCTVRGCIRIPSSFGPPPSVVDWGSVPLIEQLELHSPKVSKGMRFVGGESAALGRVNEYFWKKDLLKVYKETRNEM 330 (577)
Q Consensus 251 ~~~~~~~~~~~~~~P~~~~~~~~~~~~~~~p~l~~l~~~~~~~~~~~~~~gGe~~A~~rL~~Fl~~~~~l~~Y~~~Rn~~ 330 (577)
..- ..| ..+++ ++ ...+..+.-.+|.+
T Consensus 304 ~~~---------n~p----------------~~~~m--------------------------~~--n~~~~~ipw~~n~~ 330 (531)
T KOG0133|consen 304 AAF---------NTP----------------YFDDM--------------------------PG--NKILLQIPWDKNPP 330 (531)
T ss_pred hhc---------CCc----------------ccccc--------------------------cc--ccccccCCcccChh
Confidence 100 000 00000 00 01222333333432
Q ss_pred CCCCCCCccc--cccccCCCCHHHHHHHHHHhHhhhccCCchHhHhhhh-hHHHH---HHHHHHHcCCcc------ccc-
Q 044814 331 LGPDYSTKFS--PWLASGSISPRYIYEEVKSYERERVANDSTYWVLFEL-MWRDY---FRFISLKYGNSL------FHL- 397 (577)
Q Consensus 331 ~~~~~tS~LS--PyL~~G~IS~R~v~~~~~~~~~~~~~~~~~~~fl~eL-~WREf---~~~~~~~~~~~~------~~~- 397 (577)
......+.++ |++.+|+++.++.-......... -.+...+...+ .|||- |+.++.+++... +..
T Consensus 331 ~~~aw~~G~tG~P~ida~m~~l~~~gw~h~~~R~~---vasf~tr~~L~i~w~eg~~~F~~~llD~D~~~~agnW~~~S~ 407 (531)
T KOG0133|consen 331 KLAAWLEGLTGYPWLDAGMRQLLASGWEHHRSRTI---VASFLTRGDLLISWREGLDVFMEYLLDADSSKNAGNWMWLSS 407 (531)
T ss_pred hhHHHHcCCCCCCchhHHHHHHHHHHHHhcccchh---hHhHhhccceeeeHHHHHHHHHHHhcchhhhcCCCccceecc
Confidence 2223466777 99999999998877765432111 11111221223 78864 444444332110 001
Q ss_pred CCCcccCCCCccchhHHHhHhcCCCCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHhcCCCchHH-HH----HH---HH
Q 044814 398 GGPRKLEYKWSQDQKLFESWRDGCTGYPLIDANMKELSMTGFMSNRGRQIACSFLVRDMGIDWRMG-AE----WF---ET 469 (577)
Q Consensus 398 ~~~~~~~i~W~~d~~~~~~W~~G~TG~PlVDAaMRqL~~tG~mHnr~RmivAsFL~k~L~idWr~G-~~----~F---~~ 469 (577)
..+...++.=- ....+...+-|=...+++..-+....|-|| .++|.|++ -...|+.+ +. |+ -.
T Consensus 408 ~s~f~~~~~~~---ysp~~~~kk~dP~g~yir~~lp~l~~~p~~-~i~~pW~~-----p~~~~~~~~~~lg~~Yp~~iv~ 478 (531)
T KOG0133|consen 408 TSHFFDQFDRV---YSPVALGKKLDPDGLYIRQWLPELRSGPMH-FIYEPWAA-----PEGVQTAAGELLGVDYPKPIVK 478 (531)
T ss_pred ccccccccccc---cCHHHHhCcCCcchhhHHHHhHHHhcCCcc-eeccCCCC-----cHHHhhhhhhhhhcccchhhhh
Confidence 01111111101 124556677788899999999999999999 99999988 44445443 32 22 25
Q ss_pred hccccCCCCCchhhhhhhCCCCCCC--------CCcccChhhhhhhcC
Q 044814 470 CLLDYDPCSNYGNWTYGAGVGNDPR--------EDRYFSIPKQAQNYD 509 (577)
Q Consensus 470 ~LiD~D~a~n~g~Wqw~ag~g~d~~--------~~RifNP~~q~~kfD 509 (577)
+-.|+..++-+++.+|+.|.-.|.. .+|.+|+...-++++
T Consensus 479 ~~~a~k~~~e~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~ 526 (531)
T KOG0133|consen 479 LASAAKRNMEAMGCMWSIGAVHDMGWKEEPSFRKGRYMNYSGCRRKFN 526 (531)
T ss_pred hHHhhHhHHHHHHHHHhhccccccccccccchhhhhhhchhhcccccC
Confidence 6677888899999999999877743 355666655544443
No 13
>PRK15005 universal stress protein F; Provisional
Probab=73.12 E-value=50 Score=29.31 Aligned_cols=44 Identities=20% Similarity=0.274 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHhCCC--cEEEEeCChhhHHHHHHHHhCCCEEEEec
Q 044814 141 ECLADLRKNLMNRGL--NLLIRHGKPEEIIPSLAKSFGAHAVYAQK 184 (577)
Q Consensus 141 esL~dL~~~L~~lGi--~L~v~~G~~~evL~~L~~~~~a~~V~~~~ 184 (577)
+.|+.+.+.+...|. ...+..|+|.+.|.+.+++.+++-|+.-.
T Consensus 70 ~~l~~~~~~~~~~~~~~~~~v~~G~p~~~I~~~a~~~~~DLIV~Gs 115 (144)
T PRK15005 70 SQLEEIIKKFKLPTDRVHVHVEEGSPKDRILELAKKIPADMIIIAS 115 (144)
T ss_pred HHHHHHHHHhCCCCCceEEEEeCCCHHHHHHHHHHHcCCCEEEEeC
Confidence 444445455544443 55677899999999999999999887653
No 14
>PRK09982 universal stress protein UspD; Provisional
Probab=72.53 E-value=27 Score=31.50 Aligned_cols=88 Identities=17% Similarity=0.058 Sum_probs=50.4
Q ss_pred cHHHHHHHh----CCCCEEEEEEEcCCcccccccCCCCCCch---hhHHHHHHHHHHHHHHHHhCCCcEEEEeCChhhHH
Q 044814 96 NEALLKAWD----SSEMVLPVYCVDPRHSQTTYHFGFPKTGA---LRAQFLIECLADLRKNLMNRGLNLLIRHGKPEEII 168 (577)
Q Consensus 96 N~AL~~A~~----~~~~vlpvyi~dp~~~~~~~~~~~~~~~~---~r~~FllesL~dL~~~L~~lGi~L~v~~G~~~evL 168 (577)
..||.+|++ .+..+..++|+++........ .++.... .......+.|+.+.+.+...++...+..|+|.+.|
T Consensus 17 ~~al~~A~~lA~~~~a~l~llhV~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~v~~G~p~~~I 95 (142)
T PRK09982 17 ALLVNKALELARHNDAHLTLIHIDDGLSELYPGI-YFPATEDILQLLKNKSDNKLYKLTKNIQWPKTKLRIERGEMPETL 95 (142)
T ss_pred HHHHHHHHHHHHHhCCeEEEEEEccCcchhchhh-hccchHHHHHHHHHHHHHHHHHHHHhcCCCcceEEEEecCHHHHH
Confidence 356666653 355677888887532100000 0000001 11122223355555555444566778889999999
Q ss_pred HHHHHHhCCCEEEEec
Q 044814 169 PSLAKSFGAHAVYAQK 184 (577)
Q Consensus 169 ~~L~~~~~a~~V~~~~ 184 (577)
.+.+++.+++-|+.-.
T Consensus 96 ~~~A~~~~aDLIVmG~ 111 (142)
T PRK09982 96 LEIMQKEQCDLLVCGH 111 (142)
T ss_pred HHHHHHcCCCEEEEeC
Confidence 9999999999987653
No 15
>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=63.90 E-value=76 Score=27.30 Aligned_cols=77 Identities=16% Similarity=0.128 Sum_probs=48.8
Q ss_pred cHHHHHHHh----CCCCEEEEEEEcCCcccccccCCCCCCchhhHHHHHHHHHHHHHHHHhCCCcEEEE-eCChhhHHHH
Q 044814 96 NEALLKAWD----SSEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIECLADLRKNLMNRGLNLLIR-HGKPEEIIPS 170 (577)
Q Consensus 96 N~AL~~A~~----~~~~vlpvyi~dp~~~~~~~~~~~~~~~~~r~~FllesL~dL~~~L~~lGi~L~v~-~G~~~evL~~ 170 (577)
..+|..|+. .+..+..|+|.++.... .. .+. -+-|+.+.+.+++.|+...+. .|++.+.|.+
T Consensus 13 ~~al~~a~~la~~~~~~l~ll~v~~~~~~~---------~~-~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~~~~I~~ 79 (124)
T cd01987 13 ERLIRRAARLADRLKAPWYVVYVETPRLNR---------LS-EAE---RRRLAEALRLAEELGAEVVTLPGDDVAEAIVE 79 (124)
T ss_pred HHHHHHHHHHHHHhCCCEEEEEEecCcccc---------CC-HHH---HHHHHHHHHHHHHcCCEEEEEeCCcHHHHHHH
Confidence 345555543 35678888888764310 01 111 133455555566677776544 4689999999
Q ss_pred HHHHhCCCEEEEecc
Q 044814 171 LAKSFGAHAVYAQKE 185 (577)
Q Consensus 171 L~~~~~a~~V~~~~e 185 (577)
.+++++++.|+.-..
T Consensus 80 ~~~~~~~dllviG~~ 94 (124)
T cd01987 80 FAREHNVTQIVVGKS 94 (124)
T ss_pred HHHHcCCCEEEeCCC
Confidence 999999999876644
No 16
>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=62.38 E-value=96 Score=26.68 Aligned_cols=83 Identities=12% Similarity=0.030 Sum_probs=53.2
Q ss_pred HHHHHHHh----CCCCEEEEEEEcCCcccccccCCCCCCchhhHHHHHHHHHHHHHHHHhCCCcEEEE---eCChhhHHH
Q 044814 97 EALLKAWD----SSEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIECLADLRKNLMNRGLNLLIR---HGKPEEIIP 169 (577)
Q Consensus 97 ~AL~~A~~----~~~~vlpvyi~dp~~~~~~~~~~~~~~~~~r~~FllesL~dL~~~L~~lGi~L~v~---~G~~~evL~ 169 (577)
.+|.+|.. .+..+..++++++....... .......-..+.+..+.+.+++.|++.... .|++.+.|.
T Consensus 14 ~~l~~a~~la~~~~~~v~ll~v~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~I~ 87 (132)
T cd01988 14 DLLELAAALARAQNGEIIPLNVIEVPNHSSPS------QLEVNVQRARKLLRQAERIAASLGVPVHTIIRIDHDIASGIL 87 (132)
T ss_pred HHHHHHHHHhhcCCCeEEEEEEEecCCCCCcc------hhHHHHHHHHHHHHHHHHHhhhcCCceEEEEEecCCHHHHHH
Confidence 45666543 34578888888864321000 011223345567777777777888886532 378999999
Q ss_pred HHHHHhCCCEEEEecc
Q 044814 170 SLAKSFGAHAVYAQKE 185 (577)
Q Consensus 170 ~L~~~~~a~~V~~~~e 185 (577)
+++++++++.|+.-..
T Consensus 88 ~~a~~~~~dlIV~G~~ 103 (132)
T cd01988 88 RTAKERQADLIIMGWH 103 (132)
T ss_pred HHHHhcCCCEEEEecC
Confidence 9999999998876543
No 17
>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=61.85 E-value=96 Score=26.06 Aligned_cols=75 Identities=23% Similarity=0.304 Sum_probs=48.9
Q ss_pred hCCCCEEEEEEEcCCcccccccCCCCCCchhhHHHHHHHHHHHHHHHHhCCCcEE--EEeCChhhHHHHHHHHhCCCEEE
Q 044814 104 DSSEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIECLADLRKNLMNRGLNLL--IRHGKPEEIIPSLAKSFGAHAVY 181 (577)
Q Consensus 104 ~~~~~vlpvyi~dp~~~~~~~~~~~~~~~~~r~~FllesL~dL~~~L~~lGi~L~--v~~G~~~evL~~L~~~~~a~~V~ 181 (577)
..+.++..++|.++...... ........-..+.|..+...+...|+++. +..|++.+.|.+.+++.+++.|+
T Consensus 25 ~~~~~i~~l~v~~~~~~~~~------~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~dlvv 98 (130)
T cd00293 25 RLGAELVLLHVVDPPPSSAA------ELAELLEEEARALLEALREALAEAGVKVETVVLEGDPAEAILEAAEELGADLIV 98 (130)
T ss_pred hcCCEEEEEEEecCCCCcch------hHHHHHHHHHHHHHHHHHHHHhcCCCceEEEEecCCCHHHHHHHHHHcCCCEEE
Confidence 34667888888876432100 00112223345677777777767788875 45688889999999999999887
Q ss_pred Eec
Q 044814 182 AQK 184 (577)
Q Consensus 182 ~~~ 184 (577)
.-.
T Consensus 99 ig~ 101 (130)
T cd00293 99 MGS 101 (130)
T ss_pred EcC
Confidence 654
No 18
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=61.38 E-value=77 Score=33.79 Aligned_cols=86 Identities=16% Similarity=0.091 Sum_probs=52.2
Q ss_pred HHHHHHHhC------CCCEEEEEEEcCCcccccccCCCCCCchhhHHHHHHHHHHHHHHHHh------CCCcEEE--Ee-
Q 044814 97 EALLKAWDS------SEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIECLADLRKNLMN------RGLNLLI--RH- 161 (577)
Q Consensus 97 ~AL~~A~~~------~~~vlpvyi~dp~~~~~~~~~~~~~~~~~r~~FllesL~dL~~~L~~------lGi~L~v--~~- 161 (577)
.||.+|++. +..+..|+|.++.... . . ........ -+-|+.+.+.+++ .|+.... ..
T Consensus 20 ~Al~~AielA~~~g~~AeL~lL~Vv~~~~~~--~--~-~~~~~~~~---eelle~~~~~~~~~l~~~~~gV~ve~~vv~~ 91 (357)
T PRK12652 20 QTVAYAVESAEEAAETPTVHLVAAASGRAVD--P--E-GQDELAAA---EELLERVEVWATEDLGDDASSVTIETALLGT 91 (357)
T ss_pred HHHHHHHHHHHhcCCCCEEEEEEEecCcccc--c--c-hhHHHHHH---HHHHHHHHHHHHHhhhcccCCCceEEEEEec
Confidence 456666542 2467788888864321 0 0 00001111 1234444444443 4777653 33
Q ss_pred -------CChhhHHHHHHHHhCCCEEEEecccChhh
Q 044814 162 -------GKPEEIIPSLAKSFGAHAVYAQKETCSEE 190 (577)
Q Consensus 162 -------G~~~evL~~L~~~~~a~~V~~~~e~~~~e 190 (577)
|+|.+.|.+.+++++++.|+..-||.+..
T Consensus 92 ~~~~~~~G~pae~Iv~~Aee~~aDLIVm~~~~~~~~ 127 (357)
T PRK12652 92 DEYLFGPGDYAEVLIAYAEEHGIDRVVLDPEYNPGG 127 (357)
T ss_pred cccccCCCCHHHHHHHHHHHcCCCEEEECCCCCCCC
Confidence 89999999999999999999999987653
No 19
>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=60.62 E-value=1e+02 Score=27.41 Aligned_cols=88 Identities=17% Similarity=0.117 Sum_probs=48.7
Q ss_pred cHHHHHHHhC----CCCEEEEEEEcCCcccccccCCCCCC-ch---hhHHHHHHHHHHHHHHHHhCCCcE--EEEeC-Ch
Q 044814 96 NEALLKAWDS----SEMVLPVYCVDPRHSQTTYHFGFPKT-GA---LRAQFLIECLADLRKNLMNRGLNL--LIRHG-KP 164 (577)
Q Consensus 96 N~AL~~A~~~----~~~vlpvyi~dp~~~~~~~~~~~~~~-~~---~r~~FllesL~dL~~~L~~lGi~L--~v~~G-~~ 164 (577)
..||.+|++. +..+..++++++....... .+.... .. ....-..+.|+...+.+++.|+.. .+..| ++
T Consensus 13 ~~al~~a~~~a~~~~~~l~ll~v~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~g~~~ 91 (146)
T cd01989 13 KNALKWALDNLATKGQTIVLVHVHPPITSIPSS-SGKLEVASAYKQEEDKEAKELLLPYRCFCSRKGVQCEDVVLEDDDV 91 (146)
T ss_pred HHHHHHHHHhccCCCCcEEEEEeccCcccCCCC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCeEEEEEEeCCcH
Confidence 4567776643 4578888998764321000 000000 00 001122334444455555566654 34555 89
Q ss_pred hhHHHHHHHHhCCCEEEEec
Q 044814 165 EEIIPSLAKSFGAHAVYAQK 184 (577)
Q Consensus 165 ~evL~~L~~~~~a~~V~~~~ 184 (577)
.+.|.+.+++++++.|+.-.
T Consensus 92 ~~~I~~~a~~~~~dlIV~Gs 111 (146)
T cd01989 92 AKAIVEYVADHGITKLVMGA 111 (146)
T ss_pred HHHHHHHHHHcCCCEEEEec
Confidence 99999999999999887553
No 20
>cd01994 Alpha_ANH_like_IV This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=54.63 E-value=72 Score=30.82 Aligned_cols=93 Identities=18% Similarity=0.181 Sum_probs=49.7
Q ss_pred HHHHHHHhCCCCEEEEEEEcCCcccccccCCCCCCchhhHHHHHHHHHHHHHHHHhCCCcEEEEe--C---ChhhH----
Q 044814 97 EALLKAWDSSEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIECLADLRKNLMNRGLNLLIRH--G---KPEEI---- 167 (577)
Q Consensus 97 ~AL~~A~~~~~~vlpvyi~dp~~~~~~~~~~~~~~~~~r~~FllesL~dL~~~L~~lGi~L~v~~--G---~~~ev---- 167 (577)
-+|+.|.+.+..+++|++..|.... +..|-...++.+++..+.+|+++++.. + +..+.
T Consensus 14 ~al~~a~~~G~~v~~l~~~~~~~~~-------------~~~~h~~~~e~~~~~A~~lgipl~~i~~~~~~e~~~~~l~~~ 80 (194)
T cd01994 14 YALYRALEEGHEVVALLNLTPEEGS-------------SMMYHTVNHELLELQAEAMGIPLIRIEISGEEEDEVEDLKEL 80 (194)
T ss_pred HHHHHHHHcCCEEEEEEEEecCCCC-------------cccccccCHHHHHHHHHHcCCcEEEEeCCCCchHHHHHHHHH
Confidence 3567777777778888888664321 001111245566666778899999775 2 22233
Q ss_pred HHHHHHHhCCCEEEEecccChhhHHHHHHHHHHhhhccc
Q 044814 168 IPSLAKSFGAHAVYAQKETCSEELNVERLVRKNLQQVVL 206 (577)
Q Consensus 168 L~~L~~~~~a~~V~~~~e~~~~e~~~e~~v~~~l~~~~v 206 (577)
|.++.++ |+..|+.-.-.. +.++ ..+.+.|.+.++
T Consensus 81 l~~~~~~-g~~~vv~G~i~s--d~~~-~~~e~~~~~~gl 115 (194)
T cd01994 81 LRKLKEE-GVDAVVFGAILS--EYQR-TRVERVCERLGL 115 (194)
T ss_pred HHHHHHc-CCCEEEECcccc--HHHH-HHHHHHHHHcCC
Confidence 3333444 577765443221 2222 344455555444
No 21
>COG3590 PepO Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]
Probab=51.66 E-value=7.1 Score=43.38 Aligned_cols=45 Identities=22% Similarity=0.404 Sum_probs=33.9
Q ss_pred ccccCCCCCchhhhhhhCCCCCCCCCcccChhhhhhhcCCccchhhhcccc
Q 044814 471 LLDYDPCSNYGNWTYGAGVGNDPREDRYFSIPKQAQNYDREGEYVAYWLPQ 521 (577)
Q Consensus 471 LiD~D~a~n~g~Wqw~ag~g~d~~~~RifNP~~q~~kfDp~G~yIr~wvPE 521 (577)
-.|.|.++||||.+-+.|--.... | -.|+.|||++|....=|.+|
T Consensus 475 d~ea~~a~NYGgIGaVIgHEI~Hg----F--DdqGakfD~~GnL~dWWT~e 519 (654)
T COG3590 475 DPEADSAANYGGIGAVIGHEIGHG----F--DDQGAKFDGDGNLNDWWTDE 519 (654)
T ss_pred CCCcchhhcccCccceehhhhccc----c--cCCccccCCCCcHHhhcCHH
Confidence 378999999999987765311111 1 25889999999999988887
No 22
>TIGR00290 MJ0570_dom MJ0570-related uncharacterized domain. Proteins with this uncharacterized domain include two apparent ortholog families in the Archaea, one of which is universal among the first four completed archaeal genomes, and YLR143W, a much longer protein from Saccharomyces cerevisiae. The domain comprises the full length of the archaeal proteins and the first third of the yeast protein.
Probab=48.37 E-value=1.5e+02 Score=29.39 Aligned_cols=94 Identities=13% Similarity=0.056 Sum_probs=51.2
Q ss_pred cHHHHHHHhCCCCEEEEEEEcCCcccccccCCCCCCchhhHHHHHHHHHHHHHHHHhCCCcEEEEe-----CChhhHHHH
Q 044814 96 NEALLKAWDSSEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIECLADLRKNLMNRGLNLLIRH-----GKPEEIIPS 170 (577)
Q Consensus 96 N~AL~~A~~~~~~vlpvyi~dp~~~~~~~~~~~~~~~~~r~~FllesL~dL~~~L~~lGi~L~v~~-----G~~~evL~~ 170 (577)
+-||+.|.+. ..++.+..+-|.... +..|-.=.++-++.+-+.+|+||+... ++-.+.|.+
T Consensus 14 ~~al~~a~~~-~~v~~L~t~~~~~~~-------------s~~~H~~~~~~~~~qA~algipl~~~~~~~~~e~~~e~l~~ 79 (223)
T TIGR00290 14 CLALYHALKE-HEVISLVNIMPENEE-------------SYMFHGVNAHLTDLQAESIGIPLIKLYTEGTEEDEVEELKG 79 (223)
T ss_pred HHHHHHHHHh-CeeEEEEEEecCCCC-------------cccccccCHHHHHHHHHHcCCCeEEeecCCCccHHHHHHHH
Confidence 3578888887 667776666554211 111111123334444566799997643 235566666
Q ss_pred HHHHhCCCEEEEecccChhhHHHHHHHHHHhhhccc
Q 044814 171 LAKSFGAHAVYAQKETCSEELNVERLVRKNLQQVVL 206 (577)
Q Consensus 171 L~~~~~a~~V~~~~e~~~~e~~~e~~v~~~l~~~~v 206 (577)
++++.|+++|++-.-..-+.+ ..+.+.|++.++
T Consensus 80 ~l~~~gv~~vv~GdI~s~~qr---~~~e~v~~~lgl 112 (223)
T TIGR00290 80 ILHTLDVEAVVFGAIYSEYQK---TRIERVCRELGL 112 (223)
T ss_pred HHHHcCCCEEEECCcccHHHH---HHHHHHHHhcCC
Confidence 777779988876543222112 334455555444
No 23
>PRK10116 universal stress protein UspC; Provisional
Probab=47.44 E-value=1.5e+02 Score=26.10 Aligned_cols=90 Identities=17% Similarity=0.115 Sum_probs=48.5
Q ss_pred cCcHHHHHHHh----CCCCEEEEEEEcCCcccccccCCCCCCchhhHHHHHHHHHHHHHHHHhCCCc---EEEEeCChhh
Q 044814 94 LDNEALLKAWD----SSEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIECLADLRKNLMNRGLN---LLIRHGKPEE 166 (577)
Q Consensus 94 ~DN~AL~~A~~----~~~~vlpvyi~dp~~~~~~~~~~~~~~~~~r~~FllesL~dL~~~L~~lGi~---L~v~~G~~~e 166 (577)
....+|.+|+. .+..+..++++++.... .. .........+....-+..+.|++...+.|++ ..+..|++.+
T Consensus 15 ~s~~al~~A~~lA~~~~a~l~ll~v~~~~~~~-~~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~G~~~~ 92 (142)
T PRK10116 15 ESQQLLAKAVSIARPVNGKISLITLASDPEMY-NQ-FAAPMLEDLRSVMQEETQSFLDKLIQDADYPIEKTFIAYGELSE 92 (142)
T ss_pred chHHHHHHHHHHHHHhCCEEEEEEEccCcccc-hh-hhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeEEEEEecCCHHH
Confidence 34577877754 24466677777543210 00 0000000111111112223344334455754 3456799999
Q ss_pred HHHHHHHHhCCCEEEEecc
Q 044814 167 IIPSLAKSFGAHAVYAQKE 185 (577)
Q Consensus 167 vL~~L~~~~~a~~V~~~~e 185 (577)
.|.+.+++.+++-|+.-..
T Consensus 93 ~I~~~a~~~~~DLiV~g~~ 111 (142)
T PRK10116 93 HILEVCRKHHFDLVICGNH 111 (142)
T ss_pred HHHHHHHHhCCCEEEEcCC
Confidence 9999999999999887544
No 24
>TIGR00289 conserved hypothetical protein TIGR00289. Homologous proteins related to MJ0570 of Methanococcus jannaschii include both the apparent orthologs found by this model above the trusted cutoff, the much longer protein YLR143W from Saccharomyces cerevisiae, and second homologous proteins from Archaeoglobus fulgidus and Pyrococcus horikoshii that appear to represent a second orthologous group.
Probab=47.36 E-value=1.1e+02 Score=30.31 Aligned_cols=93 Identities=16% Similarity=0.088 Sum_probs=52.1
Q ss_pred HHHHHHHhCCCCEEEEEEEcCCcccccccCCCCCCchhhHHHHHHHHHHHHHHHHhCCCcEEEEe--CC---hhhHHHHH
Q 044814 97 EALLKAWDSSEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIECLADLRKNLMNRGLNLLIRH--GK---PEEIIPSL 171 (577)
Q Consensus 97 ~AL~~A~~~~~~vlpvyi~dp~~~~~~~~~~~~~~~~~r~~FllesL~dL~~~L~~lGi~L~v~~--G~---~~evL~~L 171 (577)
-||+.|.+. ..+..++..-|.... +..|-...+..++..-+.+|+||+... |. -.+-+.+.
T Consensus 15 lAl~~~~~~-~~V~~L~~~~~~~~~-------------s~~~h~~~~~~~~~qA~algiPl~~~~~~~~~e~~~~~l~~~ 80 (222)
T TIGR00289 15 LALYKALEE-HEVISLVGVFSENEE-------------SYMFHSPNLHLTDLVAEAVGIPLIKLYTSGEEEKEVEDLAGQ 80 (222)
T ss_pred HHHHHHHHc-CeeEEEEEEcCCCCC-------------ccccccCCHHHHHHHHHHcCCCeEEEEcCCchhHHHHHHHHH
Confidence 467778776 567777777664321 112222345556667778899998654 32 33444455
Q ss_pred HHHhCCCEEEEecccChhhHHHHHHHHHHhhhccc
Q 044814 172 AKSFGAHAVYAQKETCSEELNVERLVRKNLQQVVL 206 (577)
Q Consensus 172 ~~~~~a~~V~~~~e~~~~e~~~e~~v~~~l~~~~v 206 (577)
+++.|+++|++-.-... .++ ..+.+.|++.++
T Consensus 81 l~~~gv~~vv~GdI~s~--~qr-~~~e~vc~~~gl 112 (222)
T TIGR00289 81 LGELDVEALCIGAIESN--YQK-SRIDKVCRELGL 112 (222)
T ss_pred HHHcCCCEEEECccccH--HHH-HHHHHHHHHcCC
Confidence 56778888765533211 121 344455555544
No 25
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=44.64 E-value=2e+02 Score=25.37 Aligned_cols=42 Identities=17% Similarity=0.232 Sum_probs=30.3
Q ss_pred HHHHHHHHhCCCcE---EEEeCChhhHHHHHHHHhCCCEEEEecc
Q 044814 144 ADLRKNLMNRGLNL---LIRHGKPEEIIPSLAKSFGAHAVYAQKE 185 (577)
Q Consensus 144 ~dL~~~L~~lGi~L---~v~~G~~~evL~~L~~~~~a~~V~~~~e 185 (577)
+.|++-+++.|+.. .+..|+|.+.|.+.+++.+++.|+.-..
T Consensus 68 ~~l~~~~~~~~~~~~~~~~~~G~p~~~I~~~a~~~~~DLIV~Gs~ 112 (144)
T PRK15118 68 HALTELSTNAGYPITETLSGSGDLGQVLVDAIKKYDMDLVVCGHH 112 (144)
T ss_pred HHHHHHHHhCCCCceEEEEEecCHHHHHHHHHHHhCCCEEEEeCc
Confidence 33444445567664 3457999999999999999999887543
No 26
>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=43.94 E-value=48 Score=31.46 Aligned_cols=45 Identities=16% Similarity=0.201 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHHHhCCCcEEEEeCChhhHHHHHHHHhCCCEEEEe
Q 044814 139 LIECLADLRKNLMNRGLNLLIRHGKPEEIIPSLAKSFGAHAVYAQ 183 (577)
Q Consensus 139 llesL~dL~~~L~~lGi~L~v~~G~~~evL~~L~~~~~a~~V~~~ 183 (577)
+.....++=+.|++.|.++.|.++.+...+..+++..|+..++++
T Consensus 88 ~~~~~~~~l~~l~~~g~~v~ivS~s~~~~v~~~~~~lg~~~~~~~ 132 (202)
T TIGR01490 88 LYPEARDLIRWHKAEGHTIVLVSASLTILVKPLARILGIDNAIGT 132 (202)
T ss_pred ccHHHHHHHHHHHHCCCEEEEEeCCcHHHHHHHHHHcCCcceEec
Confidence 444556666667888999999999999999999999999888766
No 27
>PF00582 Usp: Universal stress protein family; InterPro: IPR006016 The universal stress protein UspA P28242 from SWISSPROT [] is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. UspA enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae UspA [] reveals an alpha/beta fold similar to that of the Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0577 protein, which binds ATP [], though UspA lacks ATP-binding activity.; GO: 0006950 response to stress; PDB: 3DLO_C 3QTB_A 2PFS_A 3TNJ_A 1JMV_D 3FH0_B 3FDX_B 3AB7_A 3AB8_A 2GM3_F ....
Probab=41.28 E-value=1.9e+02 Score=24.36 Aligned_cols=31 Identities=16% Similarity=0.311 Sum_probs=25.3
Q ss_pred CcEEEEeCChhhHHHHHHHHhCCCEEEEecc
Q 044814 155 LNLLIRHGKPEEIIPSLAKSFGAHAVYAQKE 185 (577)
Q Consensus 155 i~L~v~~G~~~evL~~L~~~~~a~~V~~~~e 185 (577)
....+..|++.+.|.+++++.+++.|+.-..
T Consensus 81 ~~~~~~~~~~~~~i~~~~~~~~~dliv~G~~ 111 (140)
T PF00582_consen 81 IEVVIESGDVADAIIEFAEEHNADLIVMGSR 111 (140)
T ss_dssp EEEEEEESSHHHHHHHHHHHTTCSEEEEESS
T ss_pred eEEEEEeeccchhhhhccccccceeEEEecc
Confidence 3344567999999999999999999887755
No 28
>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=39.87 E-value=33 Score=31.71 Aligned_cols=44 Identities=23% Similarity=0.386 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHhCCCcEEEEeCChhhHHHHHHHHhCCCEEEEec
Q 044814 141 ECLADLRKNLMNRGLNLLIRHGKPEEIIPSLAKSFGAHAVYAQK 184 (577)
Q Consensus 141 esL~dL~~~L~~lGi~L~v~~G~~~evL~~L~~~~~a~~V~~~~ 184 (577)
.++.++=+.|++.|+++.|.++.....+..+++.+|+..++++.
T Consensus 76 ~g~~~~l~~l~~~g~~~~ivS~~~~~~i~~~~~~~g~~~~~~~~ 119 (177)
T TIGR01488 76 PGARELISWLKERGIDTVIVSGGFDFFVEPVAEKLGIDDVFANR 119 (177)
T ss_pred cCHHHHHHHHHHCCCEEEEECCCcHHHHHHHHHHcCCchheeee
Confidence 34555556677889999999999888889999998888777664
No 29
>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=39.02 E-value=65 Score=30.51 Aligned_cols=45 Identities=22% Similarity=0.351 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHhCCCcEEEEeCChhhHHHHHHHHhCCCE--EEEec
Q 044814 140 IECLADLRKNLMNRGLNLLIRHGKPEEIIPSLAKSFGAHA--VYAQK 184 (577)
Q Consensus 140 lesL~dL~~~L~~lGi~L~v~~G~~~evL~~L~~~~~a~~--V~~~~ 184 (577)
.....++=++|++.|+++.+.+|+.......+++..|+.. |++..
T Consensus 129 ~~~~~~~l~~L~~~Gi~~~i~TGD~~~~a~~~~~~lgi~~~~v~a~~ 175 (215)
T PF00702_consen 129 RPGAKEALQELKEAGIKVAILTGDNESTASAIAKQLGIFDSIVFARV 175 (215)
T ss_dssp HTTHHHHHHHHHHTTEEEEEEESSEHHHHHHHHHHTTSCSEEEEESH
T ss_pred hhhhhhhhhhhhccCcceeeeeccccccccccccccccccccccccc
Confidence 3445555566778899999999999999999999999965 55554
No 30
>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=38.49 E-value=53 Score=30.97 Aligned_cols=45 Identities=20% Similarity=0.293 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHhCCCcEEEEeCChhhHHHHHHHHhCCCEEEEec
Q 044814 140 IECLADLRKNLMNRGLNLLIRHGKPEEIIPSLAKSFGAHAVYAQK 184 (577)
Q Consensus 140 lesL~dL~~~L~~lGi~L~v~~G~~~evL~~L~~~~~a~~V~~~~ 184 (577)
..+..++=+.|++.|+++.|.++.....+..+++.+|+..++.+.
T Consensus 82 ~~g~~e~l~~l~~~g~~~~IvS~~~~~~~~~~l~~~g~~~~~~~~ 126 (201)
T TIGR01491 82 RDYAEELVRWLKEKGLKTAIVSGGIMCLAKKVAEKLNPDYVYSNE 126 (201)
T ss_pred CccHHHHHHHHHHCCCEEEEEeCCcHHHHHHHHHHhCCCeEEEEE
Confidence 344555566677789999999999988899999999988777653
No 31
>PRK10490 sensor protein KdpD; Provisional
Probab=37.96 E-value=2.1e+02 Score=34.52 Aligned_cols=89 Identities=12% Similarity=0.201 Sum_probs=56.6
Q ss_pred CeEEEEecCcccccCcHHHHHH-----HhCCCCEEEEEEEcCCcccccccCCCCCCchhhHHHHHHHHHHHHHHHHhCCC
Q 044814 81 GVAIVWFRNDLRVLDNEALLKA-----WDSSEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIECLADLRKNLMNRGL 155 (577)
Q Consensus 81 ~~~L~WFRrDLRl~DN~AL~~A-----~~~~~~vlpvyi~dp~~~~~~~~~~~~~~~~~r~~FllesL~dL~~~L~~lGi 155 (577)
..+|+=.-.+ ..+..|... ...+.+.+.|||-++..- ........-+.+.++ |.++ +|.
T Consensus 251 eriLV~v~~~---~~~~~lIr~~~rlA~~~~a~~~~l~V~~~~~~---------~~~~~~~~~l~~~~~-lA~~---lGa 314 (895)
T PRK10490 251 DAILLCIGHN---TGSEKLVRTAARLAARLGSVWHAVYVETPRLH---------RLPEKKRRAILSALR-LAQE---LGA 314 (895)
T ss_pred CeEEEEECCC---cchHHHHHHHHHHHHhcCCCEEEEEEecCCcC---------cCCHHHHHHHHHHHH-HHHH---cCC
Confidence 3455555443 345555432 223568899999876421 112223334555553 5554 499
Q ss_pred cEEEEeC-ChhhHHHHHHHHhCCCEEEEecc
Q 044814 156 NLLIRHG-KPEEIIPSLAKSFGAHAVYAQKE 185 (577)
Q Consensus 156 ~L~v~~G-~~~evL~~L~~~~~a~~V~~~~e 185 (577)
...+..| ++.+.|.+++++.+++.|+.-+.
T Consensus 315 ~~~~~~~~dva~~i~~~A~~~~vt~IViG~s 345 (895)
T PRK10490 315 ETATLSDPAEEKAVLRYAREHNLGKIIIGRR 345 (895)
T ss_pred EEEEEeCCCHHHHHHHHHHHhCCCEEEECCC
Confidence 9876665 79999999999999999987765
No 32
>COG0560 SerB Phosphoserine phosphatase [Amino acid transport and metabolism]
Probab=37.84 E-value=41 Score=32.96 Aligned_cols=46 Identities=20% Similarity=0.234 Sum_probs=40.5
Q ss_pred HHHHHHHHHHHHhCCCcEEEEeCChhhHHHHHHHHhCCCEEEEecc
Q 044814 140 IECLADLRKNLMNRGLNLLIRHGKPEEIIPSLAKSFGAHAVYAQKE 185 (577)
Q Consensus 140 lesL~dL~~~L~~lGi~L~v~~G~~~evL~~L~~~~~a~~V~~~~e 185 (577)
.....+|-+.|++.|....|.+|.+...+..+++..|++.+++|.-
T Consensus 79 ~~ga~elv~~lk~~G~~v~iiSgg~~~lv~~ia~~lg~d~~~an~l 124 (212)
T COG0560 79 TPGAEELVAALKAAGAKVVIISGGFTFLVEPIAERLGIDYVVANEL 124 (212)
T ss_pred CccHHHHHHHHHHCCCEEEEEcCChHHHHHHHHHHhCCchheeeEE
Confidence 3347788899999999999999999999999999999999888753
No 33
>PRK15456 universal stress protein UspG; Provisional
Probab=36.70 E-value=78 Score=28.17 Aligned_cols=45 Identities=20% Similarity=0.237 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHhCCC--cEEEEeCChhhHHHHHHHHhCCCEEEEec
Q 044814 140 IECLADLRKNLMNRGL--NLLIRHGKPEEIIPSLAKSFGAHAVYAQK 184 (577)
Q Consensus 140 lesL~dL~~~L~~lGi--~L~v~~G~~~evL~~L~~~~~a~~V~~~~ 184 (577)
.+.|..+.+.+...|. ...+..|+|.+.|.+.+++++++-|+.-.
T Consensus 67 ~~~l~~~~~~~~~~~~~v~~~v~~G~~~~~I~~~a~~~~~DLIVmG~ 113 (142)
T PRK15456 67 EERLQTMVSHFTIDPSRIKQHVRFGSVRDEVNELAEELGADVVVIGS 113 (142)
T ss_pred HHHHHHHHHHhCCCCcceEEEEcCCChHHHHHHHHhhcCCCEEEEcC
Confidence 3445555555544444 45567899999999999999999887543
No 34
>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=36.55 E-value=14 Score=31.55 Aligned_cols=13 Identities=38% Similarity=0.838 Sum_probs=7.0
Q ss_pred hhcCCccchhhhc
Q 044814 506 QNYDREGEYVAYW 518 (577)
Q Consensus 506 ~kfDp~G~yIr~w 518 (577)
.||||+|+|.++|
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 4666666666553
No 35
>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=36.11 E-value=56 Score=33.52 Aligned_cols=45 Identities=9% Similarity=0.154 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHHhCCCcEEEEeCChhhHHHHHHHHhCCC----EEEEec
Q 044814 140 IECLADLRKNLMNRGLNLLIRHGKPEEIIPSLAKSFGAH----AVYAQK 184 (577)
Q Consensus 140 lesL~dL~~~L~~lGi~L~v~~G~~~evL~~L~~~~~a~----~V~~~~ 184 (577)
..+..+|=+.|++.|+++.|..+.....+..+++..+.. .|++|.
T Consensus 123 ~pG~~efl~~L~~~GIpv~IvS~G~~~~Ie~vL~~lgl~~~~~~IvSN~ 171 (277)
T TIGR01544 123 KDGYENFFDKLQQHSIPVFIFSAGIGNVLEEVLRQAGVYHPNVKVVSNF 171 (277)
T ss_pred CcCHHHHHHHHHHCCCcEEEEeCCcHHHHHHHHHHcCCCCcCceEEeee
Confidence 346677778889999999999999889999998887764 666664
No 36
>PRK11175 universal stress protein UspE; Provisional
Probab=34.74 E-value=3.3e+02 Score=27.53 Aligned_cols=42 Identities=29% Similarity=0.457 Sum_probs=30.7
Q ss_pred HHHHHHHHHhCCCc---EEEEeCChhhHHHHHHHHhCCCEEEEec
Q 044814 143 LADLRKNLMNRGLN---LLIRHGKPEEIIPSLAKSFGAHAVYAQK 184 (577)
Q Consensus 143 L~dL~~~L~~lGi~---L~v~~G~~~evL~~L~~~~~a~~V~~~~ 184 (577)
.+.|++-+++.|++ ..+..|++.+.|.+.+++.+++-|+.-.
T Consensus 225 ~~~l~~~~~~~~~~~~~~~v~~G~~~~~I~~~a~~~~~DLIVmG~ 269 (305)
T PRK11175 225 LLAMKALRQKFGIDEEQTHVEEGLPEEVIPDLAEHLDAELVILGT 269 (305)
T ss_pred HHHHHHHHHHhCCChhheeeccCCHHHHHHHHHHHhCCCEEEECC
Confidence 33444444555664 4567899999999999999999987553
No 37
>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=32.12 E-value=57 Score=31.46 Aligned_cols=44 Identities=20% Similarity=0.339 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHhCCCcEEEEeCChhhHHHHHHHHhCCCEEEEe
Q 044814 140 IECLADLRKNLMNRGLNLLIRHGKPEEIIPSLAKSFGAHAVYAQ 183 (577)
Q Consensus 140 lesL~dL~~~L~~lGi~L~v~~G~~~evL~~L~~~~~a~~V~~~ 183 (577)
..+..++=+.|++.|+++.|.++.....+..+++..++..++.+
T Consensus 87 ~~g~~~~l~~l~~~g~~~~IvS~~~~~~~~~~l~~~~i~~~~~~ 130 (219)
T TIGR00338 87 TEGAEELVKTLKEKGYKVAVISGGFDLFAEHVKDKLGLDAAFAN 130 (219)
T ss_pred CCCHHHHHHHHHHCCCEEEEECCCcHHHHHHHHHHcCCCceEee
Confidence 34555566667778999999999888888889999998887765
No 38
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=31.43 E-value=42 Score=39.13 Aligned_cols=43 Identities=21% Similarity=0.305 Sum_probs=36.2
Q ss_pred HHHHHhCCCcEEEEeCChhhHHHHHHHHhCCCEEEEecccChhhH
Q 044814 147 RKNLMNRGLNLLIRHGKPEEIIPSLAKSFGAHAVYAQKETCSEEL 191 (577)
Q Consensus 147 ~~~L~~lGi~L~v~~G~~~evL~~L~~~~~a~~V~~~~e~~~~e~ 191 (577)
=+.|+++|+.+++++||....-..++++.|+++|+++-- |++.
T Consensus 546 I~~L~~~Gi~~~mLTGDn~~~A~~iA~~lGId~v~Aell--PedK 588 (713)
T COG2217 546 IAALKALGIKVVMLTGDNRRTAEAIAKELGIDEVRAELL--PEDK 588 (713)
T ss_pred HHHHHHCCCeEEEEcCCCHHHHHHHHHHcChHhheccCC--cHHH
Confidence 345677899999999999999999999999999988753 5444
No 39
>PF12710 HAD: haloacid dehalogenase-like hydrolase; PDB: 3P96_A 3N28_A 3FVV_A 1RKU_A 1RKV_A 1Y8A_A 2FEA_B 3KD3_B.
Probab=31.21 E-value=96 Score=28.86 Aligned_cols=41 Identities=29% Similarity=0.598 Sum_probs=34.7
Q ss_pred HHHHHHHhCCCcEEEEeCChhhHHHHHHHHhCCCE--EEEecc
Q 044814 145 DLRKNLMNRGLNLLIRHGKPEEIIPSLAKSFGAHA--VYAQKE 185 (577)
Q Consensus 145 dL~~~L~~lGi~L~v~~G~~~evL~~L~~~~~a~~--V~~~~e 185 (577)
++=+.|++.|++++|.+|.+...+..+++..++.. |+++..
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 44455778899999999999999999999999987 777765
No 40
>COG1139 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]
Probab=30.07 E-value=1.1e+02 Score=33.28 Aligned_cols=56 Identities=21% Similarity=0.333 Sum_probs=45.3
Q ss_pred HHHHHHHHHhCCCcEEEEe--CChhhHHHHHHHHhCCCEEEEecccChhhHHHHHHHH
Q 044814 143 LADLRKNLMNRGLNLLIRH--GKPEEIIPSLAKSFGAHAVYAQKETCSEELNVERLVR 198 (577)
Q Consensus 143 L~dL~~~L~~lGi~L~v~~--G~~~evL~~L~~~~~a~~V~~~~e~~~~e~~~e~~v~ 198 (577)
|..+.++++++|+.+++.. .++.+++.+++++.+++.|+-.+....+|......+.
T Consensus 67 l~~~~~~v~~~Gg~vy~A~~aedA~~ii~~iv~~k~~k~vVKsKSmvseEIgln~~Le 124 (459)
T COG1139 67 LEQLEENVTRNGGHVYFAKDAEDAREIIGEIVGEKNGKKVVKSKSMVSEEIGLNHYLE 124 (459)
T ss_pred HHHHHHHHHHcCCEEEEeCCHHHHHHHHHHHHhhccCcEEEEecchhHHHhhhHHHHH
Confidence 4556778889999999876 4688999999999999999999988777776554443
No 41
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=29.93 E-value=3.7e+02 Score=23.33 Aligned_cols=46 Identities=24% Similarity=0.242 Sum_probs=35.9
Q ss_pred HHHHHHHHHHHHHhCCCcE---EEEeCCh-hhHHHHHHHHhCCCEEEEec
Q 044814 139 LIECLADLRKNLMNRGLNL---LIRHGKP-EEIIPSLAKSFGAHAVYAQK 184 (577)
Q Consensus 139 llesL~dL~~~L~~lGi~L---~v~~G~~-~evL~~L~~~~~a~~V~~~~ 184 (577)
..+.+..+++.+++.|+.. .+..|++ .+.+...+.+.+++.|+.-.
T Consensus 72 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~i~~~a~~~~adliV~G~ 121 (154)
T COG0589 72 AEELLAEAKALAEAAGVPVVETEVVEGSPSAEEILELAEEEDADLIVVGS 121 (154)
T ss_pred HHHHHHHHHHHHHHcCCCeeEEEEecCCCcHHHHHHHHHHhCCCEEEECC
Confidence 4677778888888888763 4677999 69999999998888877553
No 42
>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=29.26 E-value=2.4e+02 Score=28.07 Aligned_cols=72 Identities=15% Similarity=0.142 Sum_probs=44.3
Q ss_pred hCCCCEEEEEEEcCC--cccccccCCCCCCchhhHHHHHHHHHHHHHHHHhCCCcEEEEeC-ChhhHHHHHHHHh
Q 044814 104 DSSEMVLPVYCVDPR--HSQTTYHFGFPKTGALRAQFLIECLADLRKNLMNRGLNLLIRHG-KPEEIIPSLAKSF 175 (577)
Q Consensus 104 ~~~~~vlpvyi~dp~--~~~~~~~~~~~~~~~~r~~FllesL~dL~~~L~~lGi~L~v~~G-~~~evL~~L~~~~ 175 (577)
+...+-.++++||.. .|....+..+...-...-.-+.+.+..+++-|+..|++.+...| ++.+++..|++..
T Consensus 46 ~~~~p~~~~~~fD~~~~~~R~~l~p~YK~~R~~~p~~l~~q~~~~~~~l~~~gi~~i~~~~~EADD~ia~la~~~ 120 (240)
T cd00008 46 KEYKPTYVAVVFDAGGKTFRHELYPEYKANRKKMPEELREQIPLIKELLEALGIPVLEIEGYEADDVIGTLAKKA 120 (240)
T ss_pred HhcCCCeEEEEEeCCCCcccccccHHHHcCCCCCCHHHHHHHHHHHHHHHHCCCCEEecCCcCHHHHHHHHHHHH
Confidence 334466678888854 23111110000000012334678899999999999999987776 7888888888653
No 43
>PLN02954 phosphoserine phosphatase
Probab=28.79 E-value=77 Score=30.65 Aligned_cols=45 Identities=24% Similarity=0.437 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHHhCCCcEEEEeCChhhHHHHHHHHhCCC--EEEEe
Q 044814 139 LIECLADLRKNLMNRGLNLLIRHGKPEEIIPSLAKSFGAH--AVYAQ 183 (577)
Q Consensus 139 llesL~dL~~~L~~lGi~L~v~~G~~~evL~~L~~~~~a~--~V~~~ 183 (577)
+..++.++=+.|++.|+++.|.++.....+..+++.+|+. .++++
T Consensus 85 l~pg~~e~l~~l~~~g~~~~IvS~~~~~~i~~~l~~~gi~~~~~~~~ 131 (224)
T PLN02954 85 LSPGIPELVKKLRARGTDVYLVSGGFRQMIAPVAAILGIPPENIFAN 131 (224)
T ss_pred CCccHHHHHHHHHHCCCEEEEECCCcHHHHHHHHHHhCCChhhEEEe
Confidence 3456666667777889999999999999999999998886 46654
No 44
>PF13911 AhpC-TSA_2: AhpC/TSA antioxidant enzyme
Probab=28.21 E-value=1.1e+02 Score=26.31 Aligned_cols=42 Identities=26% Similarity=0.464 Sum_probs=31.0
Q ss_pred HHHHHHHHHhCCCcEEEE-eCChhhHHHHHHHHhCCC-EEEEecc
Q 044814 143 LADLRKNLMNRGLNLLIR-HGKPEEIIPSLAKSFGAH-AVYAQKE 185 (577)
Q Consensus 143 L~dL~~~L~~lGi~L~v~-~G~~~evL~~L~~~~~a~-~V~~~~e 185 (577)
|.....+|++.|+.|+++ .|++.. +.++++..+.. .||++.+
T Consensus 2 L~~~~~~l~~~gv~lv~I~~g~~~~-~~~f~~~~~~p~~ly~D~~ 45 (115)
T PF13911_consen 2 LSRRKPELEAAGVKLVVIGCGSPEG-IEKFCELTGFPFPLYVDPE 45 (115)
T ss_pred hhHhHHHHHHcCCeEEEEEcCCHHH-HHHHHhccCCCCcEEEeCc
Confidence 667788999999999965 577756 88898665442 3777754
No 45
>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=27.68 E-value=1.2e+02 Score=29.50 Aligned_cols=43 Identities=14% Similarity=0.237 Sum_probs=30.0
Q ss_pred HHHHHHHHHHhCCCcEEEEeCChhhHHHHHHHHh---CCCEEEEec
Q 044814 142 CLADLRKNLMNRGLNLLIRHGKPEEIIPSLAKSF---GAHAVYAQK 184 (577)
Q Consensus 142 sL~dL~~~L~~lGi~L~v~~G~~~evL~~L~~~~---~a~~V~~~~ 184 (577)
.++-|++.|++.|.++.|.++.+...+..+++.. ++.+|++.+
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 3444445667779999999998888888888774 335665553
No 46
>KOG1615 consensus Phosphoserine phosphatase [Amino acid transport and metabolism]
Probab=25.94 E-value=84 Score=30.59 Aligned_cols=43 Identities=23% Similarity=0.451 Sum_probs=34.7
Q ss_pred HHHHHHHHHHhCCCcEEEEeCChhhHHHHHHHHhCCCE--EEEec
Q 044814 142 CLADLRKNLMNRGLNLLIRHGKPEEIIPSLAKSFGAHA--VYAQK 184 (577)
Q Consensus 142 sL~dL~~~L~~lGi~L~v~~G~~~evL~~L~~~~~a~~--V~~~~ 184 (577)
++++|=..|.++|..+++..|-....+.-++.+.|+.. +|+|.
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 56777788889999999999988888888888888865 66664
No 47
>PRK11590 hypothetical protein; Provisional
Probab=25.33 E-value=1.5e+02 Score=28.74 Aligned_cols=42 Identities=12% Similarity=0.214 Sum_probs=30.2
Q ss_pred HHHHHHHHHhCCCcEEEEeCChhhHHHHHHHHhC---CCEEEEec
Q 044814 143 LADLRKNLMNRGLNLLIRHGKPEEIIPSLAKSFG---AHAVYAQK 184 (577)
Q Consensus 143 L~dL~~~L~~lGi~L~v~~G~~~evL~~L~~~~~---a~~V~~~~ 184 (577)
++-|++.|++.|.++.|.++.+...+..+++..+ +.+|++.+
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 3334455667788888988888888888888877 46666554
No 48
>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=24.65 E-value=1.2e+02 Score=29.42 Aligned_cols=45 Identities=11% Similarity=0.243 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHHhCCCcEEEEeCChhhHHHHHHHHhC-CCEEEEe
Q 044814 139 LIECLADLRKNLMNRGLNLLIRHGKPEEIIPSLAKSFG-AHAVYAQ 183 (577)
Q Consensus 139 llesL~dL~~~L~~lGi~L~v~~G~~~evL~~L~~~~~-a~~V~~~ 183 (577)
+..++.++=+.|++.|+++.|.++.....+..+++.++ ...|++|
T Consensus 71 l~pg~~e~l~~l~~~g~~~~IvS~~~~~~i~~il~~~~~~~~i~~n 116 (214)
T TIGR03333 71 IREGFREFVAFINEHGIPFYVISGGMDFFVYPLLEGIVEKDRIYCN 116 (214)
T ss_pred ccccHHHHHHHHHHCCCeEEEECCCcHHHHHHHHHhhCCcccEEec
Confidence 34556666677778899999999988888888877753 3455555
No 49
>TIGR03679 arCOG00187 arCOG00187 universal archaeal metal-binding-domain/4Fe-4S-binding-domain containing ABC transporter, ATP-binding protein. This model has the same scope as an archaeal COG (arCOG00187) and is found in all completely sequenced archaea and does not recognize any known non-archaeal genes.
Probab=24.57 E-value=2.5e+02 Score=27.54 Aligned_cols=73 Identities=18% Similarity=0.158 Sum_probs=39.0
Q ss_pred HHHHHHHhCCCCEEEEEEEcCCcccccccCCCCCCchhhHHHHHHHHHHHHHHHHhCCCcEEEEeCC-----hh----hH
Q 044814 97 EALLKAWDSSEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIECLADLRKNLMNRGLNLLIRHGK-----PE----EI 167 (577)
Q Consensus 97 ~AL~~A~~~~~~vlpvyi~dp~~~~~~~~~~~~~~~~~r~~FllesL~dL~~~L~~lGi~L~v~~G~-----~~----ev 167 (577)
-+|+.|.+.+..+++++.+.+.... .+ .+ + -..++.++...+.+|+++.+..-+ .. +.
T Consensus 12 ~al~~a~~~G~~v~~l~~~~~~~~~--~~-~~---~-------~~~~~~~~~~A~~lgip~~~i~~~~~~~~~~~~l~~~ 78 (218)
T TIGR03679 12 YALYKALEEGHEVRCLITVVPENEE--SY-MF---H-------TPNIELTRLQAEALGIPLVKIETSGEKEKEVEDLKGA 78 (218)
T ss_pred HHHHHHHHcCCEEEEEEEeccCCCC--cc-cc---C-------CCCHHHHHHHHHHhCCCEEEEECCCCChHHHHHHHHH
Confidence 3566676777667666666554210 00 00 0 113444555667789999877532 22 23
Q ss_pred HHHHHHHhCCCEEEEe
Q 044814 168 IPSLAKSFGAHAVYAQ 183 (577)
Q Consensus 168 L~~L~~~~~a~~V~~~ 183 (577)
|.++.++ |++.|+.-
T Consensus 79 l~~~~~~-g~~~vv~G 93 (218)
T TIGR03679 79 LKELKRE-GVEGIVTG 93 (218)
T ss_pred HHHHHHc-CCCEEEEC
Confidence 3333343 88887654
No 50
>COG0113 HemB Delta-aminolevulinic acid dehydratase [Coenzyme metabolism]
Probab=24.56 E-value=2.7e+02 Score=28.96 Aligned_cols=75 Identities=19% Similarity=0.418 Sum_probs=48.6
Q ss_pred ecCcccccCcHHHHHHHhC-----CCCEEEEEEEcCCcccccccCCCCCCchhhHHHHHHHHHHHHHHHHhCCCcEEEEe
Q 044814 87 FRNDLRVLDNEALLKAWDS-----SEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIECLADLRKNLMNRGLNLLIRH 161 (577)
Q Consensus 87 FRrDLRl~DN~AL~~A~~~-----~~~vlpvyi~dp~~~~~~~~~~~~~~~~~r~~FllesL~dL~~~L~~lGi~L~v~~ 161 (577)
++|=-|+.-|+.+-.-+.. ++-++|+||.+-.... ....+. .|- .++=++.|.+-.+++.++|++-+++-
T Consensus 7 ~~R~RRlRk~~~~R~lv~Et~L~~~dLI~PiFV~eg~~~~-~~I~SM--Pgv--~r~s~d~l~~~~~~~~~lGi~av~LF 81 (330)
T COG0113 7 FRRPRRLRKSPALRRLVRETRLTPNDLIYPIFVVEGENIK-EEIPSM--PGV--YRYSLDRLVEEAEELVDLGIPAVILF 81 (330)
T ss_pred hhhhhhccCCHHHHHHHHhcCCCHHHeeEeEEEecCCCCc-cccCCC--CCc--eeccHHHHHHHHHHHHhcCCCEEEEe
Confidence 4555566777777666543 4568999999854221 111111 132 33447788888888999999999988
Q ss_pred CChhh
Q 044814 162 GKPEE 166 (577)
Q Consensus 162 G~~~e 166 (577)
|-|.+
T Consensus 82 gvp~~ 86 (330)
T COG0113 82 GVPDD 86 (330)
T ss_pred CCCcc
Confidence 76654
No 51
>PF01902 ATP_bind_4: ATP-binding region; InterPro: IPR002761 This domain is about 200 amino acids long with a strongly conserved motif SGGKD at the N-terminal. The structure of Q8U2K6 from SWISSPROT from Pyrococcus furiosus has been resolved to 2.7A and is suggested to be a putative N-type pytophosphatase. In some members of the family e.g. Q12429 from SWISSPROT, this domain is associated with IPR006175 from INTERPRO, another domain of unknown function. Proteins with this uncharacterised domain include two apparent ortholog families in the archaea, one of which is universal among the first four completed archaeal genomes. The domain comprises the full length of the archaeal proteins and the first third of fungal proteins.; PDB: 3RK0_A 3RK1_A 3RJZ_A 2D13_D.
Probab=24.10 E-value=1.1e+02 Score=30.15 Aligned_cols=93 Identities=17% Similarity=0.144 Sum_probs=42.1
Q ss_pred HHHHHHHhCCCCEEEEEEEcCCcccccccCCCCCCchhhHHHHHHHHHHHHHHHHhCCCcEEEEe-----CChhhHHHHH
Q 044814 97 EALLKAWDSSEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIECLADLRKNLMNRGLNLLIRH-----GKPEEIIPSL 171 (577)
Q Consensus 97 ~AL~~A~~~~~~vlpvyi~dp~~~~~~~~~~~~~~~~~r~~FllesL~dL~~~L~~lGi~L~v~~-----G~~~evL~~L 171 (577)
-||+.|.+. ..|..+..+-|.... .. . .+... ++-+..+-+.+|+||+... .+-.+.|.+.
T Consensus 15 lAl~~a~~~-~~v~~L~t~~~~~~~-s~--~---~H~~~-------~~~~~~qA~algipl~~~~~~g~~~~~~~~l~~~ 80 (218)
T PF01902_consen 15 LALYRALRQ-HEVVCLLTMVPEEED-SY--M---FHGVN-------IELIEAQAEALGIPLIEIPTSGDEEDYVEDLKEA 80 (218)
T ss_dssp HHHHHHHHT--EEEEEEEEEESTTT--S--S---S-STT-------GTCHHHHHHHHT--EEEEEE---CCCHHHHHHHH
T ss_pred HHHHHHHHh-CCccEEEEeccCCCC-cc--c---ccccC-------HHHHHHHHHHCCCCEEEEEccCccchhhHHHHHH
Confidence 478888887 666666655443321 00 0 01111 1222333355699998653 3344566666
Q ss_pred HHHhCCCEEEEecccChhhHHHHHHHHHHhhhccc
Q 044814 172 AKSFGAHAVYAQKETCSEELNVERLVRKNLQQVVL 206 (577)
Q Consensus 172 ~~~~~a~~V~~~~e~~~~e~~~e~~v~~~l~~~~v 206 (577)
+++.++++|++-.-. . +..+ ..+.+.|.+.++
T Consensus 81 l~~~~v~~vv~GdI~-~-~~~r-~~~e~vc~~lGl 112 (218)
T PF01902_consen 81 LKELKVEAVVFGDID-S-EYQR-NWVERVCERLGL 112 (218)
T ss_dssp HCTC--SEEE--TTS---HHHH-HHHHHHHHHCT-
T ss_pred HHHcCCCEEEECcCC-c-HHHH-HHHHHHHHHcCC
Confidence 777888887654321 1 1122 345555555544
No 52
>PRK11175 universal stress protein UspE; Provisional
Probab=24.02 E-value=4.5e+02 Score=26.51 Aligned_cols=44 Identities=18% Similarity=0.249 Sum_probs=32.4
Q ss_pred HHHHHHHHHHhCCCcEE--EE-eCChhhHHHHHHHHhCCCEEEEecc
Q 044814 142 CLADLRKNLMNRGLNLL--IR-HGKPEEIIPSLAKSFGAHAVYAQKE 185 (577)
Q Consensus 142 sL~dL~~~L~~lGi~L~--v~-~G~~~evL~~L~~~~~a~~V~~~~e 185 (577)
.|+.+.+.++..|++.. +. .|++.+.|.+.+++.+++-|+.-..
T Consensus 70 ~l~~~~~~~~~~~~~~~~~v~~~g~~~~~i~~~a~~~~~DLiV~G~~ 116 (305)
T PRK11175 70 WIREQAKPYLDAGIPIEIKVVWHNRPFEAIIQEVIAGGHDLVVKMTH 116 (305)
T ss_pred HHHHHHHHHhhcCCceEEEEecCCCcHHHHHHHHHhcCCCEEEEeCC
Confidence 34444455556677764 33 5899999999999999999987654
No 53
>TIGR01525 ATPase-IB_hvy heavy metal translocating P-type ATPase. This alignment encompasses two equivalog models for the copper and cadmium-type heavy metal transporting P-type ATPases (TIGR01511 and TIGR01512) as well as those species which score ambiguously between both models. For more comments and references, see the files on TIGR01511 and 01512.
Probab=23.66 E-value=1.3e+02 Score=33.95 Aligned_cols=46 Identities=20% Similarity=0.251 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHHHhCC-CcEEEEeCChhhHHHHHHHHhCCCEEEEec
Q 044814 139 LIECLADLRKNLMNRG-LNLLIRHGKPEEIIPSLAKSFGAHAVYAQK 184 (577)
Q Consensus 139 llesL~dL~~~L~~lG-i~L~v~~G~~~evL~~L~~~~~a~~V~~~~ 184 (577)
+..+..++=+.|++.| +++.+.+|++......++++.|+..+|...
T Consensus 385 ~~~g~~e~l~~L~~~g~i~v~ivTgd~~~~a~~i~~~lgi~~~f~~~ 431 (556)
T TIGR01525 385 LRPEAKEAIAALKRAGGIKLVMLTGDNRSAAEAVAAELGIDEVHAEL 431 (556)
T ss_pred chHhHHHHHHHHHHcCCCeEEEEeCCCHHHHHHHHHHhCCCeeeccC
Confidence 5666666677778889 999999999999999999999999988753
No 54
>PRK09856 fructoselysine 3-epimerase; Provisional
Probab=22.22 E-value=5.2e+02 Score=25.74 Aligned_cols=49 Identities=14% Similarity=0.071 Sum_probs=37.3
Q ss_pred chhhHHHHHHHHHHHHHHHHhCCCcEEEEeCC--------hhhHHHHHHHHhCCCEE
Q 044814 132 GALRAQFLIECLADLRKNLMNRGLNLLIRHGK--------PEEIIPSLAKSFGAHAV 180 (577)
Q Consensus 132 ~~~r~~FllesL~dL~~~L~~lGi~L~v~~G~--------~~evL~~L~~~~~a~~V 180 (577)
....+.++.++|+.|.+..++.|+.|.+..-. ..+.+.+++++.+-..|
T Consensus 120 ~~~~~~~~~~~l~~l~~~a~~~gv~l~iE~~~~~~~~~~~t~~~~~~l~~~~~~~~v 176 (275)
T PRK09856 120 PNVIWGRLAENLSELCEYAENIGMDLILEPLTPYESNVVCNANDVLHALALVPSPRL 176 (275)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCEEEEecCCCCcccccCCHHHHHHHHHHcCCCcc
Confidence 45667899999999999999999999988521 24556678887664444
No 55
>TIGR00273 iron-sulfur cluster-binding protein. Members of this family have a perfect 4Fe-4S binding motif C-x(2)-C-x(2)-C-x(3)-CP followed by either a perfect or imperfect (the first Cys replaced by Ser) second copy. Members probably bind two 4fe-4S iron-sulfur clusters.
Probab=21.48 E-value=1.4e+02 Score=32.63 Aligned_cols=56 Identities=23% Similarity=0.346 Sum_probs=42.4
Q ss_pred HHHHHHHHHHHhCCCcEEEEe--CChhhHHHHHHHHhCCCEEEEecccChhhHHHHHH
Q 044814 141 ECLADLRKNLMNRGLNLLIRH--GKPEEIIPSLAKSFGAHAVYAQKETCSEELNVERL 196 (577)
Q Consensus 141 esL~dL~~~L~~lGi~L~v~~--G~~~evL~~L~~~~~a~~V~~~~e~~~~e~~~e~~ 196 (577)
+=|+.+.+++++.|..++... .+..+.+.+++++.++..|+.......+|......
T Consensus 51 ~~l~~~~~~~~~~g~~v~~a~t~~eA~~~v~~i~~~~~~~~vv~~kS~~~eeigl~~~ 108 (432)
T TIGR00273 51 FYLDQLKENVTQRGGHVYYAKTAEEARKIIGKVAQEKNGKKVVKSKSMVSEEIGLNEV 108 (432)
T ss_pred HHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHHHhCCCEEEEcCchHHHHhCCHHH
Confidence 445556777888999998775 46778899999999999999887766666544333
No 56
>TIGR01512 ATPase-IB2_Cd heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase. .
Probab=20.98 E-value=1.7e+02 Score=33.02 Aligned_cols=46 Identities=17% Similarity=0.241 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHHHhCCC-cEEEEeCChhhHHHHHHHHhCCCEEEEec
Q 044814 139 LIECLADLRKNLMNRGL-NLLIRHGKPEEIIPSLAKSFGAHAVYAQK 184 (577)
Q Consensus 139 llesL~dL~~~L~~lGi-~L~v~~G~~~evL~~L~~~~~a~~V~~~~ 184 (577)
+.++..++=+.|++.|+ ++.+.+|++......++++.|+..+|...
T Consensus 363 l~~~~~e~i~~L~~~Gi~~v~vvTgd~~~~a~~i~~~lgi~~~f~~~ 409 (536)
T TIGR01512 363 PRPDAAEAIAELKALGIEKVVMLTGDRRAVAERVARELGIDEVHAEL 409 (536)
T ss_pred chHHHHHHHHHHHHcCCCcEEEEcCCCHHHHHHHHHHcCChhhhhcc
Confidence 56666677777788999 99999999999999999999999887654
No 57
>COG2102 Predicted ATPases of PP-loop superfamily [General function prediction only]
Probab=20.49 E-value=5.7e+02 Score=25.37 Aligned_cols=95 Identities=17% Similarity=0.177 Sum_probs=54.5
Q ss_pred cHHHHHHHhCCCCEEEEEEEcCCcccccccCCCCCCchhhHHHHHHHHHHHHHHHHhCCCcEEEEe--C---ChhhHHHH
Q 044814 96 NEALLKAWDSSEMVLPVYCVDPRHSQTTYHFGFPKTGALRAQFLIECLADLRKNLMNRGLNLLIRH--G---KPEEIIPS 170 (577)
Q Consensus 96 N~AL~~A~~~~~~vlpvyi~dp~~~~~~~~~~~~~~~~~r~~FllesL~dL~~~L~~lGi~L~v~~--G---~~~evL~~ 170 (577)
+-||+.|.+.+-.|..+.++-|..-. ..- |-.-.+.-....=+..|++++... | .-.+.|.+
T Consensus 14 ~~Al~~a~~~G~eV~~Ll~~~p~~~d-S~m------------~H~~n~~~~~~~Ae~~gi~l~~~~~~g~~e~eve~L~~ 80 (223)
T COG2102 14 FYALYLALEEGHEVVYLLTVKPENGD-SYM------------FHTPNLELAELQAEAMGIPLVTFDTSGEEEREVEELKE 80 (223)
T ss_pred HHHHHHHHHcCCeeEEEEEEecCCCC-eee------------eeccchHHHHHHHHhcCCceEEEecCccchhhHHHHHH
Confidence 67899999998888888888776431 110 111112222222244699988654 3 24466777
Q ss_pred HHHHhCCCEEEEecccChhhHHHHHHHHHHhhhccc
Q 044814 171 LAKSFGAHAVYAQKETCSEELNVERLVRKNLQQVVL 206 (577)
Q Consensus 171 L~~~~~a~~V~~~~e~~~~e~~~e~~v~~~l~~~~v 206 (577)
+.+..+++.|++-.-+..+.. ..+...|++.++
T Consensus 81 ~l~~l~~d~iv~GaI~s~yqk---~rve~lc~~lGl 113 (223)
T COG2102 81 ALRRLKVDGIVAGAIASEYQK---ERVERLCEELGL 113 (223)
T ss_pred HHHhCcccEEEEchhhhHHHH---HHHHHHHHHhCC
Confidence 778888888776543322222 345555555544
No 58
>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=20.46 E-value=1.5e+02 Score=25.00 Aligned_cols=46 Identities=17% Similarity=0.178 Sum_probs=36.9
Q ss_pred hhHHHHHHHHHHHHHHHHhCCCcEEEEeCChhhHHHHHHHHhCCCE
Q 044814 134 LRAQFLIECLADLRKNLMNRGLNLLIRHGKPEEIIPSLAKSFGAHA 179 (577)
Q Consensus 134 ~r~~FllesL~dL~~~L~~lGi~L~v~~G~~~evL~~L~~~~~a~~ 179 (577)
|+.-++..-+..+.+.|.++|+|++....+.-+...++.+..|...
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 4556788888999999999999999887666677778888766543
No 59
>COG0546 Gph Predicted phosphatases [General function prediction only]
Probab=20.42 E-value=1e+02 Score=30.12 Aligned_cols=42 Identities=26% Similarity=0.362 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHhCCCcEEEEeCChhhHHHHHHHHhCCCEEE
Q 044814 140 IECLADLRKNLMNRGLNLLIRHGKPEEIIPSLAKSFGAHAVY 181 (577)
Q Consensus 140 lesL~dL~~~L~~lGi~L~v~~G~~~evL~~L~~~~~a~~V~ 181 (577)
+.++.++=..|++.|++|.|.++++...+..+++.+|....|
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 445566666777889999999998888888888888876543
No 60
>PRK14976 5'-3' exonuclease; Provisional
Probab=20.14 E-value=5.4e+02 Score=26.36 Aligned_cols=39 Identities=31% Similarity=0.402 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHHHhCCCcEEEEeC-ChhhHHHHHHHHh
Q 044814 137 QFLIECLADLRKNLMNRGLNLLIRHG-KPEEIIPSLAKSF 175 (577)
Q Consensus 137 ~FllesL~dL~~~L~~lGi~L~v~~G-~~~evL~~L~~~~ 175 (577)
.-+.+.+..+++-|+.+|++.+...| ++.++|..|++..
T Consensus 86 ~~l~~q~~~i~~~l~~~gi~~~~~~g~EADDviatla~~~ 125 (281)
T PRK14976 86 ESLISQIPLLKKILKLAGIKWEEQPGYEADDLIGSLAKKL 125 (281)
T ss_pred HHHHHHHHHHHHHHHHCCCCEEecCCcCHHHHHHHHHHHH
Confidence 34677788888999999999998887 8889999888765
No 61
>TIGR01670 YrbI-phosphatas 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase, YrbI family. The Methanosarcina sequence is distinctive in that it is linked to an N-terminal cytidylyltransferase domain (pfam02348) and is annotated as acylneuraminate cytidylyltransferase. This may give some clue as the function of these phosphatases. Several eukaryotic sequences scoring between trusted and noise are also closely related to this function such as the CMP-N-acetylneuraminic acid synthetase from mouse, but in these cases the phosphatase domain is clearly inactive as many of the active site residues are not conserved.
Probab=20.06 E-value=1.9e+02 Score=26.53 Aligned_cols=37 Identities=16% Similarity=0.423 Sum_probs=31.1
Q ss_pred HHHHHhCCCcEEEEeCChhhHHHHHHHHhCCCEEEEe
Q 044814 147 RKNLMNRGLNLLIRHGKPEEIIPSLAKSFGAHAVYAQ 183 (577)
Q Consensus 147 ~~~L~~lGi~L~v~~G~~~evL~~L~~~~~a~~V~~~ 183 (577)
=+.|++.|+.+.|.++.+...+..+++.+++...+..
T Consensus 37 i~~Lk~~G~~i~IvTn~~~~~~~~~l~~~gi~~~~~~ 73 (154)
T TIGR01670 37 IRCALKSGIEVAIITGRKAKLVEDRCKTLGITHLYQG 73 (154)
T ss_pred HHHHHHCCCEEEEEECCCCHHHHHHHHHcCCCEEEec
Confidence 3445678999999999998888999999999887754
Done!