Conserved Domains and Related Protein Families
Conserved Domains Detected by RPS-BLAST
Original result of RPS-BLAST against CDD database
ID Alignment Graph Length
Definition
E-value Query 131
TIGR00591 454
TIGR00591, phr2, photolyase PhrII
1e-22 TIGR00591 454
TIGR00591, phr2, photolyase PhrII
2e-17 pfam00875 164
pfam00875, DNA_photolyase, DNA photolyase
2e-06 pfam03441 276
pfam03441, FAD_binding_7, FAD binding domain of DN
2e-04
>gnl|CDD|129679 TIGR00591, phr2, photolyase PhrII
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Score = 91.0 bits (226), Expect = 1e-22
Identities = 31/60 (51%), Positives = 40/60 (66%)
Query: 72 QRAVLEVRRVLPKHSKAVDSFCEEAIVRRELADNFCYYNKNYDKVEGAFDWAKKTLNDHR 131
QRA V R ++V+ F EE +VRRELADNFC+YN YD + GA+ WA+ TL+DH
Sbjct: 271 QRAARAVERARGNAGESVEFFEEELVVRRELADNFCFYNPYYDSLCGAYWWARTTLDDHA 330
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) [DNA metabolism, DNA replication, recombination, and repair]. Length = 454
>gnl|CDD|129679 TIGR00591, phr2, photolyase PhrII
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Score = 76.4 bits (188), Expect = 2e-17
Identities = 34/68 (50%), Positives = 42/68 (61%)
Query: 5 GLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDL 64
GL EV +C++L I FH L G E+LP FV+ H AVV DF PLR+ W + + K L
Sbjct: 79 GLDEVANECERLIIPFHLLDGPPKELLPYFVDLHAAAAVVTDFSPLRQPEQWDEAVGKLL 138
Query: 65 PKDVPLIQ 72
PKDVP Q
Sbjct: 139 PKDVPFQQ 146
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) [DNA metabolism, DNA replication, recombination, and repair]. Length = 454
>gnl|CDD|216167 pfam00875, DNA_photolyase, DNA photolyase
Back Show alignment and domain information
Score = 44.1 bits (105), Expect = 2e-06
Identities = 13/69 (18%), Positives = 25/69 (36%), Gaps = 1/69 (1%)
Query: 5 GLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDL 64
L ++ E KL I G E+LP+ ++ AV + +K+ L
Sbjct: 54 SLADLDESLAKLGIRLVVRRGDPAEVLPELAKELGASAVYWNRDYEPYERQRDAAVKEAL 113
Query: 65 PK-DVPLIQ 72
+ + +
Sbjct: 114 REAGIEVHS 122
This domain binds a light harvesting cofactor. Length = 164
>gnl|CDD|217559 pfam03441, FAD_binding_7, FAD binding domain of DNA photolyase
Back Show alignment and domain information
Score = 39.2 bits (92), Expect = 2e-04
Identities = 11/65 (16%), Positives = 23/65 (35%), Gaps = 11/65 (16%)
Query: 71 IQRAVLEVRR-----VLPKHSKAVDSFCEEAIVRRELADNFCYYNKNYDKVEG-----AF 120
++ VR+ + ++F E ++ RE Y+N + ++
Sbjct: 47 PRQVYQAVRKAQGDSPEGGAKQGAEAFLSE-LIWREFYIQLLYHNPDLERENLNDAYDGL 105
Query: 121 DWAKK 125
WAK
Sbjct: 106 PWAKD 110
Conserved Domains Detected by HHsearch
Original result of HHsearch against CDD database
ID Alignment Graph Length
Definition
Probability Query
131
TIGR00591 454
phr2 photolyase PhrII. All proteins in this family
99.84 PRK10674 472
deoxyribodipyrimidine photolyase; Provisional
99.49 COG0415 461
PhrB Deoxyribodipyrimidine photolyase [DNA replica
99.3 PF00875 165
DNA_photolyase: DNA photolyase from Prosite.; Inte
99.08 TIGR02765 429
crypto_DASH cryptochrome, DASH family. Photolyases
98.9 TIGR03556 471
photolyase_8HDF deoxyribodipyrimidine photo-lyase,
98.81 KOG0133|consensus 531
98.75 TIGR02766 475
crypt_chrom_pln cryptochrome, plant family. At lea
98.39 PF03441 277
FAD_binding_7: FAD binding domain of DNA photolyas
97.02 TIGR00289 222
conserved hypothetical protein TIGR00289. Homologo
94.52 cd01994 194
Alpha_ANH_like_IV This is a subfamily of Adenine n
93.25 COG3046 505
Uncharacterized protein related to deoxyribodipyri
93.01 TIGR03556 471
photolyase_8HDF deoxyribodipyrimidine photo-lyase,
92.8 TIGR00290 223
MJ0570_dom MJ0570-related uncharacterized domain.
92.71 PRK09982 142
universal stress protein UspD; Provisional
91.87 PRK15005 144
universal stress protein F; Provisional
90.94 PRK12652 357
putative monovalent cation/H+ antiporter subunit E
90.63 PF01902 218
ATP_bind_4: ATP-binding region; InterPro: IPR00276
90.05 PRK15456 142
universal stress protein UspG; Provisional
90.04 PRK10116 142
universal stress protein UspC; Provisional
89.41 TIGR02765 429
crypto_DASH cryptochrome, DASH family. Photolyases
88.76 PRK15118 144
universal stress global response regulator UspA; P
87.67 cd01987 124
USP_OKCHK USP domain is located between the N-term
87.66 cd01988 132
Na_H_Antiporter_C The C-terminal domain of a subfa
86.55 PF00702 215
Hydrolase: haloacid dehalogenase-like hydrolase; I
86.53 PRK11175 305
universal stress protein UspE; Provisional
86.02 cd01989 146
STK_N The N-terminal domain of Eukaryotic Serine T
85.08 TIGR03679 218
arCOG00187 arCOG00187 universal archaeal metal-bin
84.59 TIGR01488 177
HAD-SF-IB Haloacid Dehalogenase superfamily, subfa
84.36 TIGR01490 202
HAD-SF-IB-hyp1 HAD-superfamily subfamily IB hydrol
82.33 TIGR01544 277
HAD-SF-IE haloacid dehalogenase superfamily, subfa
82.27 TIGR01491 201
HAD-SF-IB-PSPlk HAD-superfamily, subfamily-IB PSPa
81.29 cd00293 130
USP_Like Usp: Universal stress protein family. The
80.73 COG2102 223
Predicted ATPases of PP-loop superfamily [General
80.53 COG0560 212
SerB Phosphoserine phosphatase [Amino acid transpo
80.01
>TIGR00591 phr2 photolyase PhrII
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Probab=99.84 E-value=2.3e-20 Score=157.28 Aligned_cols=129 Identities=47% Similarity=0.795 Sum_probs=108.5
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhCCC----------------
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLPK---------------- 66 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~~---------------- 66 (131)
++||.+|+++|+++||+|+++.|+|.++|++++++++|+.|++|.+|.+..+++.+.|++.++.
T Consensus 77 ~esL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~i~~V~~~~~~~~~~~~rd~~v~~~l~~~i~~~~~~~~~l~p~~ 156 (454)
T TIGR00591 77 LGGLDEVANECERLIIPFHLLDGPPKELLPYFVDLHAAAAVVTDFSPLRQPEQWDEAVGKLLPKDVPFQQVDAHNVVPCW 156 (454)
T ss_pred HHHHHHHHHHHHHcCCceEEeecChHHHHHHHHHHcCCCEEEEecccCcHHHHHHHHHHHHhcCCCcEEEECCceEeeCc
Confidence 6899999999999999999999999999999999999999999999999999999998876521
Q ss_pred ----------------------------------C----c-h--H-------------------H-H-------------
Q psy15173 67 ----------------------------------D----V-P--L-------------------I-Q------------- 72 (131)
Q Consensus 67 ----------------------------------~----~-p--~-------------------~-~------------- 72 (131)
. . | . + .
T Consensus 157 ~~~~~~~y~~ft~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gGe~aA~~~L~~F 236 (454)
T TIGR00591 157 AASKKLEYAARTIRGKIRKLLPEYLTEFPRVLKHPSPLDLEAGPVDWDAVRDSLAVERSVEEVVWAKPGTTAGLIMLESF 236 (454)
T ss_pred ccCCceeeeeecHHHHHHHhChhhccccCCCccCCcccccccCcCCHHHHHHhccCcCCcCCcCCCCCcHHHHHHHHHHH
Confidence 0 0 0 0 1 0
Q ss_pred -----------------------------------HHHHHHHhhCCCChhhHHHHHHHHHHHHhhcchhccccCCCCccc
Q psy15173 73 -----------------------------------RAVLEVRRVLPKHSKAVDSFCEEAIVRRELADNFCYYNKNYDKVE 117 (131)
Q Consensus 73 -----------------------------------r~al~v~~~~~~~~~~~~~fleElivrRELa~Nfc~yn~~YDs~~ 117 (131)
+|..++.+.....+++++.|++||+.|||+++|||+|+|+|+++.
T Consensus 237 ~~~~l~~Y~~~Rn~p~~~~tS~LSPyL~~G~IS~R~i~~~~~~~~~~~~~~~~~fl~EL~WR~ef~~~~~~~~p~~~~~~ 316 (454)
T TIGR00591 237 IEKRLCFFRTRRNDPNNDALSMLSPWLHFGQLSAQRAARAVERARGNAGESVEFFEEELVVRRELADNFCFYNPYYDSLC 316 (454)
T ss_pred HHHHHHHHHHhcCCcccccccccchHHhcCcccHHHHHHHHHHhccCCchHHHHHHHHHHHHHHHHhHhhhcCCCccccc
Confidence 555555432222234678899999999999999999999999999
Q ss_pred chHHHHHHHHHhhC
Q psy15173 118 GAFDWAKKTLNDHR 131 (131)
Q Consensus 118 ~~p~WA~~TL~~H~ 131 (131)
+.++|+++||++|+
T Consensus 317 ~~~~w~~~~l~~~~ 330 (454)
T TIGR00591 317 GAYWWARTTLDDHA 330 (454)
T ss_pred cchHHHHHHHHHHh
Confidence 99999999999985
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).
>PRK10674 deoxyribodipyrimidine photolyase; Provisional
Back Show alignment and domain information
Probab=99.49 E-value=8e-14 Score=118.63 Aligned_cols=62 Identities=15% Similarity=0.188 Sum_probs=58.5
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeC----CcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIG----GAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDL 64 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G----~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l 64 (131)
++||.+|+++|+++||+|+++.| +|.++|++++++++|+.|++|++|.+..+++.++|++.+
T Consensus 56 ~esL~~L~~~L~~~g~~L~v~~g~~~g~~~~vl~~l~~~~~i~~v~~~~~~~~~~~~rd~~v~~~l 121 (472)
T PRK10674 56 NAQLNALQIALAEKGIPLLFHEVDDFAASVEWLKQFCQQHQVTHLFYNYQYEVNERQRDAAVERAL 121 (472)
T ss_pred HHHHHHHHHHHHHcCCceEEEecCCcCCHHHHHHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHc
Confidence 58999999999999999999975 699999999999999999999999999999999988865
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Back Show alignment and domain information
Probab=99.30 E-value=9e-12 Score=106.06 Aligned_cols=62 Identities=15% Similarity=0.159 Sum_probs=58.2
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDL 64 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l 64 (131)
.+||++|+++|+++||+|++..|+|.+++++++++.+|.+|++|.+|....++....++..+
T Consensus 54 ~~sL~~L~~~L~~~gi~L~v~~~~~~~~l~~~~~~~~~~~v~~n~~~~~~~~~rD~al~~~l 115 (461)
T COG0415 54 LQSLQALQQSLAELGIPLLVREGDPEQVLPELAKQLAATTVFWNRDYEEWERQRDAALAQPL 115 (461)
T ss_pred HHHHHHHHHHHHHcCCceEEEeCCHHHHHHHHHHHhCcceEEeeeeechhHHHHHHHHHHHH
Confidence 57899999999999999999999999999999999999999999999999999998877655
>PF00875 DNA_photolyase: DNA photolyase from Prosite
Back Show alignment and domain information
Probab=99.08 E-value=2.7e-10 Score=83.91 Aligned_cols=63 Identities=22% Similarity=0.281 Sum_probs=56.6
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhCC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLP 65 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~ 65 (131)
++||.+|+++|+++||+|+++.|++.+++++++++++|..|++|.+|.+..++|.+.|.+.++
T Consensus 52 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~ 114 (165)
T PF00875_consen 52 LESLADLQESLRKLGIPLLVLRGDPEEVLPELAKEYGATAVYFNEEYTPYERRRDERVRKALK 114 (165)
T ss_dssp HHHHHHHHHHHHHTTS-EEEEESSHHHHHHHHHHHHTESEEEEE---SHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhcCcceEEEecchHHHHHHHHHhcCcCeeEeccccCHHHHHHHHHHHHHHH
Confidence 689999999999999999999999999999999999999999999999999999999988764
; 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 ....
>TIGR02765 crypto_DASH cryptochrome, DASH family
Back Show alignment and domain information
Probab=98.90 E-value=4.1e-09 Score=88.39 Aligned_cols=62 Identities=18% Similarity=0.276 Sum_probs=59.7
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDL 64 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l 64 (131)
++||.+|+++|+++||+|+++.|+|.++|++++++++|+.|++|.+|.+..+++.+.|++.+
T Consensus 60 ~esL~~L~~~L~~~g~~L~v~~G~~~~vl~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l 121 (429)
T TIGR02765 60 LESLKDLRTSLRKLGSDLLVRSGKPEDVLPELIKELGVRTVFLHQEVGSEEKSVERLLQQAL 121 (429)
T ss_pred HHHHHHHHHHHHHcCCCeEEEeCCHHHHHHHHHHHhCCCEEEEeccCCHHHHHHHHHHHHHH
Confidence 58999999999999999999999999999999999999999999999999999999998766
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.
>TIGR03556 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 8-HDF type
Back Show alignment and domain information
Probab=98.81 E-value=1.1e-08 Score=87.20 Aligned_cols=62 Identities=15% Similarity=0.149 Sum_probs=59.8
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDL 64 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l 64 (131)
++||.+|+++|+++||+|+++.|+|.+++++++++++|+.|++|.+|.+..+++.+.|++.+
T Consensus 54 ~esL~~L~~~L~~~G~~L~v~~G~p~~vl~~l~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l 115 (471)
T TIGR03556 54 IGCLQELQQRYQQAGSQLLILQGDPVQLIPQLAQQLGAKAVYWNLDVEPYGRKRDRAVAAAL 115 (471)
T ss_pred HHHHHHHHHHHHHCCCCeEEEECCHHHHHHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHH
Confidence 68999999999999999999999999999999999999999999999999999999998865
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.
>KOG0133|consensus
Back Show alignment and domain information
Probab=98.75 E-value=5e-09 Score=90.56 Aligned_cols=57 Identities=12% Similarity=0.207 Sum_probs=48.1
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHH
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADT 59 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~ 59 (131)
.++|++|+++|+++|++|++.+|.|..++++..++.++..|.++..+.+..+-....
T Consensus 58 ~qsL~~ld~sl~~l~~~L~v~~~~p~~vl~~~~~~~~~~~l~~~~~~~p~~~vrD~~ 114 (531)
T KOG0133|consen 58 LQSLEDLDQSLRELNSRLFVFRGHPIAVLSRLLEQVGVQKLKFEYDMEPDGKVRDAT 114 (531)
T ss_pred HHHHHHHHHHHHHhCCceEEEeCCchHHHhhhhhccceeEEEEEEeccCccccccHH
Confidence 588999999999999999999999999999999999999988666666655444443
>TIGR02766 crypt_chrom_pln cryptochrome, plant family
Back Show alignment and domain information
Probab=98.39 E-value=8.6e-07 Score=75.50 Aligned_cols=62 Identities=10% Similarity=0.043 Sum_probs=58.1
Q ss_pred hhhHHHHHHHHhhcCCcEEEE-eCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFL-IGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDL 64 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~-~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l 64 (131)
+++|.+|+++|+++|++|+++ .|+|.++|++++++++|+.|++|.+|....++..+.|++.+
T Consensus 50 ~~sL~~L~~~L~~~G~~L~v~~~g~~~~~l~~l~~~~~i~~v~~~~~~~~~~~~rd~~v~~~l 112 (475)
T TIGR02766 50 KQSLAHLDQSLRSLGTCLVTIRSTDTVAALLDCVRSTGATRLFFNHLYDPVSLVRDHRAKEVL 112 (475)
T ss_pred HHHHHHHHHHHHHcCCceEEEeCCCHHHHHHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHH
Confidence 589999999999999999988 48999999999999999999999999999999999988765
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.
>PF03441 FAD_binding_7: FAD binding domain of DNA photolyase from Prosite
Back Show alignment and domain information
Probab=97.02 E-value=0.00024 Score=56.91 Aligned_cols=47 Identities=23% Similarity=0.285 Sum_probs=35.0
Q ss_pred HHHHHHHhhCC---CChhhHHHHHHHHHHHHhhcchhccccCCCC-cccchH
Q psy15173 73 RAVLEVRRVLP---KHSKAVDSFCEEAIVRRELADNFCYYNKNYD-KVEGAF 120 (131)
Q Consensus 73 r~al~v~~~~~---~~~~~~~~fleElivrRELa~Nfc~yn~~YD-s~~~~p 120 (131)
+|+.++.+... ...+++++|+.|| +|||+..++|+++|+++ +..+.|
T Consensus 49 ~v~~~~~~~~~~~~~~~~~~~~f~~eL-~WRef~~~~~~~~p~~~~~~~~~~ 99 (277)
T PF03441_consen 49 EVYRAVKKAQEANDAHSESAEKFIREL-IWREFYRQLLYHNPNLDMFENFNP 99 (277)
T ss_dssp HHHHHHHHHHHCHTCHHHHHHHHHHHH-HHHHHHHHHHHHSGGCTCSSTSST
T ss_pred HHHHHHHHHhhhcccccchHHHHHHHH-HHHHHHHHHHHhCCcchhhhhccH
Confidence 66666654322 2336899999999 99999999999999988 434443
; 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 ....
>TIGR00289 conserved hypothetical protein TIGR00289
Back Show alignment and domain information
Probab=94.52 E-value=0.17 Score=39.73 Aligned_cols=61 Identities=16% Similarity=0.126 Sum_probs=49.1
Q ss_pred hHHHHHHHHhhcCCcEEEEe--CC---cchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhCC
Q psy15173 5 GLKEVHEDCKKLNIEFHFLI--GG---AHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLP 65 (131)
Q Consensus 5 gL~el~~~L~~~gI~l~l~~--G~---p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~ 65 (131)
++..++...+.+|||++... |. -.+.+.+..++.++..|++-.-....+|.|++++++.+.
T Consensus 46 ~~~~~~~qA~algiPl~~~~~~~~~e~~~~~l~~~l~~~gv~~vv~GdI~s~~qr~~~e~vc~~~g 111 (222)
T TIGR00289 46 NLHLTDLVAEAVGIPLIKLYTSGEEEKEVEDLAGQLGELDVEALCIGAIESNYQKSRIDKVCRELG 111 (222)
T ss_pred CHHHHHHHHHHcCCCeEEEEcCCchhHHHHHHHHHHHHcCCCEEEECccccHHHHHHHHHHHHHcC
Confidence 67778888899999998764 32 233444556777999999999999999999999999885
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.
>cd01994 Alpha_ANH_like_IV This is a subfamily of Adenine nucleotide alpha hydrolases superfamily
Back Show alignment and domain information
Probab=93.25 E-value=0.34 Score=36.93 Aligned_cols=60 Identities=13% Similarity=0.166 Sum_probs=46.4
Q ss_pred hHHHHHHHHhhcCCcEEEEe--CCcch-------HHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhCC
Q psy15173 5 GLKEVHEDCKKLNIEFHFLI--GGAHE-------ILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLP 65 (131)
Q Consensus 5 gL~el~~~L~~~gI~l~l~~--G~p~~-------~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~ 65 (131)
.+..++...+.+|||+++.. ++..+ .+.++.++ ++..|++-......+|.|++++++.+.
T Consensus 46 ~~e~~~~~A~~lgipl~~i~~~~~~e~~~~~l~~~l~~~~~~-g~~~vv~G~i~sd~~~~~~e~~~~~~g 114 (194)
T cd01994 46 NHELLELQAEAMGIPLIRIEISGEEEDEVEDLKELLRKLKEE-GVDAVVFGAILSEYQRTRVERVCERLG 114 (194)
T ss_pred CHHHHHHHHHHcCCcEEEEeCCCCchHHHHHHHHHHHHHHHc-CCCEEEECccccHHHHHHHHHHHHHcC
Confidence 67778888899999998875 22112 23344444 699999999999999999999999875
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.
>COG3046 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]
Back Show alignment and domain information
Probab=93.01 E-value=1.1 Score=38.67 Aligned_cols=63 Identities=8% Similarity=-0.001 Sum_probs=49.5
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCC---cchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhCC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGG---AHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLP 65 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~---p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~ 65 (131)
..+++...++|+..|......+-+ -...|.+.++.+.++.|++-+--......|.+.+...++
T Consensus 52 ~aAMR~Fad~LraeG~~V~Y~~~~~~~~~~~l~~~l~~~~~d~~~~~~p~~~~l~~~m~~L~~~~g 117 (505)
T COG3046 52 FAAMRHFADELRAEGLKVRYERADDNSFGGELRRALEAYPGDRVQVQEPGDHRLEARMKSLSMALG 117 (505)
T ss_pred HHHHHHHHHHHhhCCceeEEEEcCCcccchHHHHHHHhcCCCeEEEecCcchhHHHHHHhhhhhcC
Confidence 457889999999999987776533 356788999999999999887666667788888775554
>TIGR03556 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 8-HDF type
Back Show alignment and domain information
Probab=92.80 E-value=0.06 Score=46.19 Aligned_cols=22 Identities=18% Similarity=0.419 Sum_probs=18.7
Q ss_pred hhHHHHHHHHHHHHhhcchhcccc
Q psy15173 87 KAVDSFCEEAIVRRELADNFCYYN 110 (131)
Q Consensus 87 ~~~~~fleElivrRELa~Nfc~yn 110 (131)
.++++|+.|| +|||+ .++|.|+
T Consensus 273 ~~~~~f~~eL-~WRef-~~~~~~~ 294 (471)
T TIGR03556 273 NSIRTWQQEL-AWREF-YQHALYH 294 (471)
T ss_pred ccHHHHHHHH-HHHHH-HHHHHHH
Confidence 4678999998 99999 7888776
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.
>TIGR00290 MJ0570_dom MJ0570-related uncharacterized domain
Back Show alignment and domain information
Probab=92.71 E-value=0.67 Score=36.39 Aligned_cols=61 Identities=15% Similarity=0.123 Sum_probs=47.3
Q ss_pred hHHHHHHHHhhcCCcEEEEe--CCc---chHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhCC
Q psy15173 5 GLKEVHEDCKKLNIEFHFLI--GGA---HEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLP 65 (131)
Q Consensus 5 gL~el~~~L~~~gI~l~l~~--G~p---~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~ 65 (131)
++.-++..-+.+|||++... |.. .+.+.+..++.++..|++-.-....++.|++++++.+.
T Consensus 46 ~~~~~~~qA~algipl~~~~~~~~~e~~~e~l~~~l~~~gv~~vv~GdI~s~~qr~~~e~v~~~lg 111 (223)
T TIGR00290 46 NAHLTDLQAESIGIPLIKLYTEGTEEDEVEELKGILHTLDVEAVVFGAIYSEYQKTRIERVCRELG 111 (223)
T ss_pred CHHHHHHHHHHcCCCeEEeecCCCccHHHHHHHHHHHHcCCCEEEECCcccHHHHHHHHHHHHhcC
Confidence 45556666789999997643 333 33455566777999999999999999999999999885
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.
>PRK09982 universal stress protein UspD; Provisional
Back Show alignment and domain information
Probab=91.87 E-value=0.66 Score=32.77 Aligned_cols=51 Identities=12% Similarity=0.065 Sum_probs=36.8
Q ss_pred HHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCchhhhHH
Q psy15173 6 LKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWA 57 (131)
Q Consensus 6 L~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~ 57 (131)
|.++.+.+...++...+..|+|.+.|.+++++.+|+.||.-.. ......+.
T Consensus 70 l~~~~~~~~~~~~~~~v~~G~p~~~I~~~A~~~~aDLIVmG~~-~~~~~~~~ 120 (142)
T PRK09982 70 LYKLTKNIQWPKTKLRIERGEMPETLLEIMQKEQCDLLVCGHH-HSFINRLM 120 (142)
T ss_pred HHHHHHhcCCCcceEEEEecCHHHHHHHHHHHcCCCEEEEeCC-hhHHHHHH
Confidence 3344444444457777889999999999999999999999865 33334444
>PRK15005 universal stress protein F; Provisional
Back Show alignment and domain information
Probab=90.94 E-value=0.48 Score=32.92 Aligned_cols=43 Identities=16% Similarity=0.251 Sum_probs=31.8
Q ss_pred HHHHHHHHhhcC--CcEEEEeCCcchHHHHHHHHcCcceEEECCC
Q psy15173 6 LKEVHEDCKKLN--IEFHFLIGGAHEILPQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 6 L~el~~~L~~~g--I~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ 48 (131)
|.++.+.+...| +...+..|+|.+.|.+++++.+++.||.-..
T Consensus 72 l~~~~~~~~~~~~~~~~~v~~G~p~~~I~~~a~~~~~DLIV~Gs~ 116 (144)
T PRK15005 72 LEEIIKKFKLPTDRVHVHVEEGSPKDRILELAKKIPADMIIIASH 116 (144)
T ss_pred HHHHHHHhCCCCCceEEEEeCCCHHHHHHHHHHHcCCCEEEEeCC
Confidence 334444443334 3567778999999999999999999999754
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Back Show alignment and domain information
Probab=90.63 E-value=0.79 Score=38.34 Aligned_cols=47 Identities=21% Similarity=0.207 Sum_probs=36.8
Q ss_pred HHHHHHHHhh------cCCcEEEE--e--------CCcchHHHHHHHHcCcceEEECCCCCch
Q psy15173 6 LKEVHEDCKK------LNIEFHFL--I--------GGAHEILPQFVEKHKLGAVVIDFMPLRE 52 (131)
Q Consensus 6 L~el~~~L~~------~gI~l~l~--~--------G~p~~~l~~l~~~~~a~~Vv~d~~ylr~ 52 (131)
|.+.++.+++ .|++.... . |+|.+.|.+++++.+++.||.|.+|.+.
T Consensus 64 le~~~~~~~~~l~~~~~gV~ve~~vv~~~~~~~~~G~pae~Iv~~Aee~~aDLIVm~~~~~~~ 126 (357)
T PRK12652 64 LERVEVWATEDLGDDASSVTIETALLGTDEYLFGPGDYAEVLIAYAEEHGIDRVVLDPEYNPG 126 (357)
T ss_pred HHHHHHHHHHhhhcccCCCceEEEEEeccccccCCCCHHHHHHHHHHHcCCCEEEECCCCCCC
Confidence 4455555544 47775543 2 8999999999999999999999999876
>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
Back Show alignment and domain information
Probab=90.05 E-value=0.95 Score=35.35 Aligned_cols=59 Identities=19% Similarity=0.264 Sum_probs=38.8
Q ss_pred HHHHHHHhhcCCcEEEEe--CCcc---hHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhCC
Q psy15173 7 KEVHEDCKKLNIEFHFLI--GGAH---EILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLP 65 (131)
Q Consensus 7 ~el~~~L~~~gI~l~l~~--G~p~---~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~ 65 (131)
.-++.+-+.+|||++... |+.. +.+.+..++.++..|++-.=.+..+|.|++++++.+.
T Consensus 48 ~~~~~qA~algipl~~~~~~g~~~~~~~~l~~~l~~~~v~~vv~GdI~~~~~r~~~e~vc~~lG 111 (218)
T PF01902_consen 48 ELIEAQAEALGIPLIEIPTSGDEEDYVEDLKEALKELKVEAVVFGDIDSEYQRNWVERVCERLG 111 (218)
T ss_dssp TCHHHHHHHHT--EEEEEE---CCCHHHHHHHHHCTC--SEEE--TTS-HHHHHHHHHHHHHCT
T ss_pred HHHHHHHHHCCCCEEEEEccCccchhhHHHHHHHHHcCCCEEEECcCCcHHHHHHHHHHHHHcC
Confidence 334555578999998853 4343 3456667889999999999999999999999999885
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.
>PRK15456 universal stress protein UspG; Provisional
Back Show alignment and domain information
Probab=90.04 E-value=0.74 Score=32.20 Aligned_cols=44 Identities=16% Similarity=0.141 Sum_probs=32.5
Q ss_pred HHHHHHHHhhcCC--cEEEEeCCcchHHHHHHHHcCcceEEECCCC
Q psy15173 6 LKEVHEDCKKLNI--EFHFLIGGAHEILPQFVEKHKLGAVVIDFMP 49 (131)
Q Consensus 6 L~el~~~L~~~gI--~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~y 49 (131)
|.++.+.+...|. ..++..|+|.+.|.+++++.+++.||.-..-
T Consensus 70 l~~~~~~~~~~~~~v~~~v~~G~~~~~I~~~a~~~~~DLIVmG~~g 115 (142)
T PRK15456 70 LQTMVSHFTIDPSRIKQHVRFGSVRDEVNELAEELGADVVVIGSRN 115 (142)
T ss_pred HHHHHHHhCCCCcceEEEEcCCChHHHHHHHHhhcCCCEEEEcCCC
Confidence 4444444433333 5666789999999999999999999987653
>PRK10116 universal stress protein UspC; Provisional
Back Show alignment and domain information
Probab=89.41 E-value=2.5 Score=29.24 Aligned_cols=43 Identities=12% Similarity=0.137 Sum_probs=31.9
Q ss_pred HHHHHhhcCCcE---EEEeCCcchHHHHHHHHcCcceEEECCCCCc
Q psy15173 9 VHEDCKKLNIEF---HFLIGGAHEILPQFVEKHKLGAVVIDFMPLR 51 (131)
Q Consensus 9 l~~~L~~~gI~l---~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr 51 (131)
+++.....|++. ++..|+|.+.+.+++++.+++.||.......
T Consensus 69 l~~~~~~~~~~~~~~~~~~G~~~~~I~~~a~~~~~DLiV~g~~~~~ 114 (142)
T PRK10116 69 LDKLIQDADYPIEKTFIAYGELSEHILEVCRKHHFDLVICGNHNHS 114 (142)
T ss_pred HHHHHHhcCCCeEEEEEecCCHHHHHHHHHHHhCCCEEEEcCCcch
Confidence 333344557653 4457999999999999999999999665443
>TIGR02765 crypto_DASH cryptochrome, DASH family
Back Show alignment and domain information
Probab=88.76 E-value=0.21 Score=41.99 Aligned_cols=50 Identities=16% Similarity=0.191 Sum_probs=31.3
Q ss_pred HHHHHHHhhCC--CChhhHHHHHHHHHHHHhhcchhcc--ccCCCCcccch----HHHHH
Q psy15173 73 RAVLEVRRVLP--KHSKAVDSFCEEAIVRRELADNFCY--YNKNYDKVEGA----FDWAK 124 (131)
Q Consensus 73 r~al~v~~~~~--~~~~~~~~fleElivrRELa~Nfc~--yn~~YDs~~~~----p~WA~ 124 (131)
+|+.++.++.. +...+.+.|++||+ |||.. ++++ |.+.|.++.++ ++|..
T Consensus 259 ~v~~~~~~~~~~~~~~~~~~~~~~eL~-WRef~-~~~~~~~~~~~~~~~~~~~~~~~w~~ 316 (429)
T TIGR02765 259 QIYEELQRYETERGANDSTYWVIFELL-WRDYF-RFYALKYGNRLFRFGGLRGKHPKWSF 316 (429)
T ss_pred HHHHHHHHHHhhcccCCCcHHHHHHHH-HHHHH-HHHHHHcCCcccccCCCccCCCCCcc
Confidence 77777654321 11224556788987 99997 5664 33467777777 47764
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.
>PRK15118 universal stress global response regulator UspA; Provisional
Back Show alignment and domain information
Probab=87.67 E-value=1.6 Score=30.44 Aligned_cols=40 Identities=15% Similarity=0.100 Sum_probs=30.7
Q ss_pred HHHHHhhcCCcE---EEEeCCcchHHHHHHHHcCcceEEECCC
Q psy15173 9 VHEDCKKLNIEF---HFLIGGAHEILPQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 9 l~~~L~~~gI~l---~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ 48 (131)
+++-++..|++. ++..|+|.+.|.+++++.+++.||....
T Consensus 70 l~~~~~~~~~~~~~~~~~~G~p~~~I~~~a~~~~~DLIV~Gs~ 112 (144)
T PRK15118 70 LTELSTNAGYPITETLSGSGDLGQVLVDAIKKYDMDLVVCGHH 112 (144)
T ss_pred HHHHHHhCCCCceEEEEEecCHHHHHHHHHHHhCCCEEEEeCc
Confidence 333345567764 3347999999999999999999999666
>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
Back Show alignment and domain information
Probab=87.66 E-value=2.4 Score=28.60 Aligned_cols=46 Identities=20% Similarity=0.213 Sum_probs=36.3
Q ss_pred hHHHHHHHHhhcCCcEEEE-eCCcchHHHHHHHHcCcceEEECCCCC
Q psy15173 5 GLKEVHEDCKKLNIEFHFL-IGGAHEILPQFVEKHKLGAVVIDFMPL 50 (131)
Q Consensus 5 gL~el~~~L~~~gI~l~l~-~G~p~~~l~~l~~~~~a~~Vv~d~~yl 50 (131)
-|..+.+.+++.+++..+. .|+|.+.|.+++++++++.||.-..-.
T Consensus 50 ~l~~~~~~~~~~~~~~~~~~~~~~~~~I~~~~~~~~~dllviG~~~~ 96 (124)
T cd01987 50 RLAEALRLAEELGAEVVTLPGDDVAEAIVEFAREHNVTQIVVGKSRR 96 (124)
T ss_pred HHHHHHHHHHHcCCEEEEEeCCcHHHHHHHHHHHcCCCEEEeCCCCC
Confidence 3556667777888887665 457899999999999999999887643
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.
>cd01988 Na_H_Antiporter_C The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea
Back Show alignment and domain information
Probab=86.55 E-value=2.2 Score=28.71 Aligned_cols=48 Identities=6% Similarity=0.080 Sum_probs=36.6
Q ss_pred hhHHHHHHHHhhcCCcEEEE---eCCcchHHHHHHHHcCcceEEECCCCCc
Q psy15173 4 LGLKEVHEDCKKLNIEFHFL---IGGAHEILPQFVEKHKLGAVVIDFMPLR 51 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~---~G~p~~~l~~l~~~~~a~~Vv~d~~ylr 51 (131)
+-+..+.+.+++.|++.... .|+|.+.|.+++++++++.||+-..-..
T Consensus 56 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~I~~~a~~~~~dlIV~G~~~~~ 106 (132)
T cd01988 56 KLLRQAERIAASLGVPVHTIIRIDHDIASGILRTAKERQADLIIMGWHGST 106 (132)
T ss_pred HHHHHHHHHhhhcCCceEEEEEecCCHHHHHHHHHHhcCCCEEEEecCCCC
Confidence 44566666777788886543 4789999999999999999998776433
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
>PF00702 Hydrolase: haloacid dehalogenase-like hydrolase; InterPro: IPR005834 This group of hydrolase enzymes is structurally different from the alpha/beta hydrolase family (abhydrolase)
Back Show alignment and domain information
Probab=86.53 E-value=1.7 Score=31.73 Aligned_cols=45 Identities=18% Similarity=0.231 Sum_probs=38.8
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcce--EEECC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGA--VVIDF 47 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~--Vv~d~ 47 (131)
..+..++=++|++.||++.++.||.......++++.++.. |+.+.
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 4578888899999999999999999999999999999955 55554
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 ....
>PRK11175 universal stress protein UspE; Provisional
Back Show alignment and domain information
Probab=86.02 E-value=3.1 Score=32.61 Aligned_cols=45 Identities=16% Similarity=0.019 Sum_probs=33.2
Q ss_pred HHHHHHHHhhcCCcEEE--E-eCCcchHHHHHHHHcCcceEEECCCCC
Q psy15173 6 LKEVHEDCKKLNIEFHF--L-IGGAHEILPQFVEKHKLGAVVIDFMPL 50 (131)
Q Consensus 6 L~el~~~L~~~gI~l~l--~-~G~p~~~l~~l~~~~~a~~Vv~d~~yl 50 (131)
|.+..+.++..|++... . .|+|.+.|.+.+++.+++.||+...-.
T Consensus 71 l~~~~~~~~~~~~~~~~~v~~~g~~~~~i~~~a~~~~~DLiV~G~~~~ 118 (305)
T PRK11175 71 IREQAKPYLDAGIPIEIKVVWHNRPFEAIIQEVIAGGHDLVVKMTHQH 118 (305)
T ss_pred HHHHHHHHhhcCCceEEEEecCCCcHHHHHHHHHhcCCCEEEEeCCCC
Confidence 34444455566776543 3 589999999999999999999987643
>cd01989 STK_N The N-terminal domain of Eukaryotic Serine Threonine kinases
Back Show alignment and domain information
Probab=85.08 E-value=3 Score=28.92 Aligned_cols=45 Identities=13% Similarity=0.207 Sum_probs=32.5
Q ss_pred HHHHHHHHhhcCCcE--EEEeC-CcchHHHHHHHHcCcceEEECCCCC
Q psy15173 6 LKEVHEDCKKLNIEF--HFLIG-GAHEILPQFVEKHKLGAVVIDFMPL 50 (131)
Q Consensus 6 L~el~~~L~~~gI~l--~l~~G-~p~~~l~~l~~~~~a~~Vv~d~~yl 50 (131)
|.+..+.++..|++. .+..| +|.+.|.+++++.+++.||.-..-.
T Consensus 67 l~~~~~~~~~~~~~~~~~~~~g~~~~~~I~~~a~~~~~dlIV~Gs~g~ 114 (146)
T cd01989 67 LLPYRCFCSRKGVQCEDVVLEDDDVAKAIVEYVADHGITKLVMGASSD 114 (146)
T ss_pred HHHHHHHHhhcCCeEEEEEEeCCcHHHHHHHHHHHcCCCEEEEeccCC
Confidence 344445555566654 44565 8999999999999999999886533
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.
>TIGR03679 arCOG00187 arCOG00187 universal archaeal metal-binding-domain/4Fe-4S-binding-domain containing ABC transporter, ATP-binding protein
Back Show alignment and domain information
Probab=84.59 E-value=5.8 Score=30.62 Aligned_cols=111 Identities=11% Similarity=0.112 Sum_probs=68.8
Q ss_pred hHHHHHHHHhhcCCcEEEEeCCc--c-------hHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhCCC--CchHHH-
Q psy15173 5 GLKEVHEDCKKLNIEFHFLIGGA--H-------EILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLPK--DVPLIQ- 72 (131)
Q Consensus 5 gL~el~~~L~~~gI~l~l~~G~p--~-------~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~~--~~p~~~- 72 (131)
.+..++...+.+|||+.+..-+. . ..+.++.++ ++..|++-......++.|.++++..++- -.|+++
T Consensus 44 ~~~~~~~~A~~lgip~~~i~~~~~~~~~~~~l~~~l~~~~~~-g~~~vv~G~i~sd~~~~~~e~v~~~~gl~~~~PLw~~ 122 (218)
T TIGR03679 44 NIELTRLQAEALGIPLVKIETSGEKEKEVEDLKGALKELKRE-GVEGIVTGAIASRYQKSRIERICEELGLKVFAPLWGR 122 (218)
T ss_pred CHHHHHHHHHHhCCCEEEEECCCCChHHHHHHHHHHHHHHHc-CCCEEEECCcccHhHHHHHHHHHHhCCCeEEeehhcC
Confidence 56777788889999998875331 1 223333333 9999999888888999999999987752 126665
Q ss_pred ---HHHHHHHhhC----------CCChh-----hH-HHHHHHHHH-HHhhcchhccccCCCCcc
Q psy15173 73 ---RAVLEVRRVL----------PKHSK-----AV-DSFCEEAIV-RRELADNFCYYNKNYDKV 116 (131)
Q Consensus 73 ---r~al~v~~~~----------~~~~~-----~~-~~fleEliv-rRELa~Nfc~yn~~YDs~ 116 (131)
.++.+..+.. ...++ .. ..|+++|.- -+....|-|.=|=-|-++
T Consensus 123 ~~~el~~~~~~~G~~~~i~~v~~~~l~~~~lG~~~~~~~~~~l~~l~~~~~~~~~GE~GE~hT~ 186 (218)
T TIGR03679 123 DQEEYLRELVERGFRFIIVSVSAYGLDESWLGREIDEKYIEKLKALNKRYGINPAGEGGEYETL 186 (218)
T ss_pred CHHHHHHHHHHCCCEEEEEEEecCCCChHHCCCccCHHHHHHHHHHHhhcCccccCCCceeeEE
Confidence 4444333210 01111 12 358888763 344567777666555543
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.
>TIGR01488 HAD-SF-IB Haloacid Dehalogenase superfamily, subfamily IB, phosphoserine phosphatase-like
Back Show alignment and domain information
Probab=84.36 E-value=2.1 Score=30.66 Aligned_cols=43 Identities=21% Similarity=0.231 Sum_probs=36.8
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEEC
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVID 46 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d 46 (131)
.|..++=+.|++.|+++.+..|.+...+..+++.+++..++.+
T Consensus 76 ~g~~~~l~~l~~~g~~~~ivS~~~~~~i~~~~~~~g~~~~~~~ 118 (177)
T TIGR01488 76 PGARELISWLKERGIDTVIVSGGFDFFVEPVAEKLGIDDVFAN 118 (177)
T ss_pred cCHHHHHHHHHHCCCEEEEECCCcHHHHHHHHHHcCCchheee
Confidence 5788888889999999999999888888889998888877654
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.
>TIGR01490 HAD-SF-IB-hyp1 HAD-superfamily subfamily IB hydrolase, TIGR01490
Back Show alignment and domain information
Probab=82.33 E-value=4.2 Score=29.87 Aligned_cols=43 Identities=2% Similarity=-0.052 Sum_probs=37.1
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEEC
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVID 46 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d 46 (131)
.|..++=+.+++.|+++.+..+.+...+..+++..++..++++
T Consensus 90 ~~~~~~l~~l~~~g~~v~ivS~s~~~~v~~~~~~lg~~~~~~~ 132 (202)
T TIGR01490 90 PEARDLIRWHKAEGHTIVLVSASLTILVKPLARILGIDNAIGT 132 (202)
T ss_pred HHHHHHHHHHHHCCCEEEEEeCCcHHHHHHHHHHcCCcceEec
Confidence 4667777788899999999999999999999999999888766
A subset of these sequences, including the Caulobacter crescentus CicA protein, cluster together and may represent a separate equivalog.
>TIGR01544 HAD-SF-IE haloacid dehalogenase superfamily, subfamily IE hydrolase, TIGR01544
Back Show alignment and domain information
Probab=82.27 E-value=3.6 Score=33.32 Aligned_cols=38 Identities=11% Similarity=0.286 Sum_probs=33.7
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCc
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKL 40 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a 40 (131)
..|..++=+.|+++|||+.+..|.....+..+.++.+.
T Consensus 123 ~pG~~efl~~L~~~GIpv~IvS~G~~~~Ie~vL~~lgl 160 (277)
T TIGR01544 123 KDGYENFFDKLQQHSIPVFIFSAGIGNVLEEVLRQAGV 160 (277)
T ss_pred CcCHHHHHHHHHHCCCcEEEEeCCcHHHHHHHHHHcCC
Confidence 46888999999999999999999998888888887776
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.
>TIGR01491 HAD-SF-IB-PSPlk HAD-superfamily, subfamily-IB PSPase-like hydrolase, archaeal
Back Show alignment and domain information
Probab=81.29 E-value=4.4 Score=29.49 Aligned_cols=43 Identities=16% Similarity=0.064 Sum_probs=36.4
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEE
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVI 45 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~ 45 (131)
..|..++=+.|++.|+++.+..+.+...+..+++.+++..++.
T Consensus 82 ~~g~~e~l~~l~~~g~~~~IvS~~~~~~~~~~l~~~g~~~~~~ 124 (201)
T TIGR01491 82 RDYAEELVRWLKEKGLKTAIVSGGIMCLAKKVAEKLNPDYVYS 124 (201)
T ss_pred CccHHHHHHHHHHCCCEEEEEeCCcHHHHHHHHHHhCCCeEEE
Confidence 3577888889999999999999998888889998888876654
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.
>cd00293 USP_Like Usp: Universal stress protein family
Back Show alignment and domain information
Probab=80.73 E-value=6.5 Score=25.58 Aligned_cols=44 Identities=16% Similarity=0.190 Sum_probs=33.0
Q ss_pred HHHHHHHHhhcCCcEEE--EeCCcchHHHHHHHHcCcceEEECCCC
Q psy15173 6 LKEVHEDCKKLNIEFHF--LIGGAHEILPQFVEKHKLGAVVIDFMP 49 (131)
Q Consensus 6 L~el~~~L~~~gI~l~l--~~G~p~~~l~~l~~~~~a~~Vv~d~~y 49 (131)
|..+...+...|+++.. ..|++...|.+++++.+++.|+.....
T Consensus 58 l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~dlvvig~~~ 103 (130)
T cd00293 58 LEALREALAEAGVKVETVVLEGDPAEAILEAAEELGADLIVMGSRG 103 (130)
T ss_pred HHHHHHHHhcCCCceEEEEecCCCHHHHHHHHHHcCCCEEEEcCCC
Confidence 44444444456887644 568888999999999999999998653
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.
>COG2102 Predicted ATPases of PP-loop superfamily [General function prediction only]
Back Show alignment and domain information
Probab=80.53 E-value=7.6 Score=30.66 Aligned_cols=100 Identities=16% Similarity=0.147 Sum_probs=66.9
Q ss_pred HHHHHhhcCCcEEEEe--C---CcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhCCCC--chHHH----HHHHH
Q psy15173 9 VHEDCKKLNIEFHFLI--G---GAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLPKD--VPLIQ----RAVLE 77 (131)
Q Consensus 9 l~~~L~~~gI~l~l~~--G---~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~~~--~p~~~----r~al~ 77 (131)
+...-+..|||++... | +-.+.|..+.++.+++.|++-.=+.+.++.|.+++++.+.-. -|.++ +++.+
T Consensus 51 ~~~~Ae~~gi~l~~~~~~g~~e~eve~L~~~l~~l~~d~iv~GaI~s~yqk~rve~lc~~lGl~~~~PLWg~d~~ell~e 130 (223)
T COG2102 51 AELQAEAMGIPLVTFDTSGEEEREVEELKEALRRLKVDGIVAGAIASEYQKERVERLCEELGLKVYAPLWGRDPEELLEE 130 (223)
T ss_pred HHHHHHhcCCceEEEecCccchhhHHHHHHHHHhCcccEEEEchhhhHHHHHHHHHHHHHhCCEEeecccCCCHHHHHHH
Confidence 3334467899987764 3 234567778899999999999999999999999999988521 15444 44444
Q ss_pred HHhh----------CCCChh-----hHH-HHHHHHHHH-Hhhcchhcc
Q psy15173 78 VRRV----------LPKHSK-----AVD-SFCEEAIVR-RELADNFCY 108 (131)
Q Consensus 78 v~~~----------~~~~~~-----~~~-~fleElivr-RELa~Nfc~ 108 (131)
..+. ..+.++ ..+ .|+|+|.-. |....|.|.
T Consensus 131 ~~~~Gf~~~Iv~Vsa~gL~~~~lGr~i~~~~~e~l~~l~~~ygi~~~G 178 (223)
T COG2102 131 MVEAGFEAIIVAVSAEGLDESWLGRRIDREFLEELKSLNRRYGIHPAG 178 (223)
T ss_pred HHHcCCeEEEEEEeccCCChHHhCCccCHHHHHHHHHHHHhcCCCccC
Confidence 4321 111211 233 588888876 667777764
>COG0560 SerB Phosphoserine phosphatase [Amino acid transport and metabolism]
Back Show alignment and domain information
Probab=80.01 E-value=3.3 Score=31.91 Aligned_cols=45 Identities=18% Similarity=0.212 Sum_probs=40.2
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDF 47 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~ 47 (131)
..|..++-+.+++.|...++.+|.+...+..++++.+++.++.|.
T Consensus 79 ~~ga~elv~~lk~~G~~v~iiSgg~~~lv~~ia~~lg~d~~~an~ 123 (212)
T COG0560 79 TPGAEELVAALKAAGAKVVIISGGFTFLVEPIAERLGIDYVVANE 123 (212)
T ss_pred CccHHHHHHHHHHCCCEEEEEcCChHHHHHHHHHHhCCchheeeE
Confidence 357889999999999999999999999999999999998877654
Homologous Structure Domains
Homologous Domains Detected by HHsearch
Original result of HHsearch against SCOP70(version1.75) database
ID Alignment Graph Length
Definition
Probability Query 131
d2j07a2 170
DNA photolyase {Thermus thermophilus [TaxId: 274]}
98.99 d1np7a2 204
Cryptochrome {Synechocystis sp., pcc 6803 [TaxId:
98.94 d1owla2 202
DNA photolyase {Synechococcus elongatus [TaxId: 32
98.8 d1u3da2 185
Cryptochrome {Thale cress (Arabidopsis thaliana) [
98.65 d1dnpa2 200
DNA photolyase {Escherichia coli [TaxId: 562]}
98.58 d2b8ea1 135
Cation-transporting ATPase {Archaeon Archaeoglobus
93.29 d1mjha_ 160
"Hypothetical" protein MJ0577 {Archaeon Methanococ
93.12 d1tq8a_ 147
Hypothetical protein Rv1636 {Mycobacterium tubercu
91.55 d1q77a_ 138
Hypothetical protein Aq_178 {Aquifex aeolicus [Tax
89.09 d1dnpa1 269
C-terminal domain of DNA photolyase {Escherichia c
88.93 d2gm3a1 171
Putative ethylene-responsive protein AT3g01520/F4P
87.98 d2z3va1 135
Hypothetical protein TTHA0895 {Thermus thermophilu
87.81 d2d13a1 226
Hypothetical protein PH1257 {Archaeon Pyrococcus h
87.7 d1nnla_ 217
Phosphoserine phosphatase {Human (Homo sapiens) [T
87.08 d2bdua1 291
Cytosolic 5'-nucleotidase III {Mouse (Mus musculus
86.52 d1rxwa2 217
Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Arc
86.17 d1ul1x2 216
Flap endonuclease-1 (Fen-1 nuclease) {Human (Homo
85.0 d1a77a2 207
Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Met
85.0 d1b43a2 219
Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Pyr
82.73 d1jmva_ 140
Universal stress protein A, UspA {Haemophilus infl
81.61
>d2j07a2 c.28.1.1 (A:2-171) DNA photolyase {Thermus thermophilus [TaxId: 274]}
Back Hide information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: Cryptochrome/photolyase, N-terminal domain
superfamily: Cryptochrome/photolyase, N-terminal domain
family: Cryptochrome/photolyase, N-terminal domain
domain: DNA photolyase
species: Thermus thermophilus [TaxId: 274]
Probab=98.99 E-value=5.8e-10 Score=80.29 Aligned_cols=63 Identities=16% Similarity=0.091 Sum_probs=60.3
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhCC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLP 65 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~ 65 (131)
+++|.+|+++|+++|++|+++.|++.++|++++++++|+.|++|.+|....++..+.|++.+.
T Consensus 50 ~~sL~~L~~~L~~~g~~L~v~~G~~~~~l~~l~~~~~i~~V~~n~~~~~~~~~rd~~v~~~l~ 112 (170)
T d2j07a2 50 LENVRALREAYRARGGALWVLEGLPWEKVPEAARRLKAKAVYALTSHTPYGRYRDGRVREALP 112 (170)
T ss_dssp HHHHHHHHHHHHHTTCCEEEEESCHHHHHHHHHHHTTCSEEEEECCCSHHHHHHHHHHHHHCS
T ss_pred HHHHHHHHHhhhccccchhhhhhhHHHHHHHHHHHhhhhHHHhhccchhhhhHHHHHHHhhhc
Confidence 589999999999999999999999999999999999999999999999999999999998875
>d1np7a2 c.28.1.1 (A:1-204) Cryptochrome {Synechocystis sp., pcc 6803 [TaxId: 1143]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: Cryptochrome/photolyase, N-terminal domain
superfamily: Cryptochrome/photolyase, N-terminal domain
family: Cryptochrome/photolyase, N-terminal domain
domain: Cryptochrome
species: Synechocystis sp., pcc 6803 [TaxId: 1143]
Probab=98.94 E-value=6.9e-10 Score=81.29 Aligned_cols=62 Identities=16% Similarity=0.239 Sum_probs=58.6
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDL 64 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l 64 (131)
+++|.+|+++|+++||+|+++.|+|.++|++++++++|+.|++|++|....++..+.|.+.+
T Consensus 64 ~~sL~~L~~~L~~~g~~L~v~~G~~~~~l~~l~~~~~i~~V~~n~~~~~~e~~rd~~v~~~l 125 (204)
T d1np7a2 64 QQSVQNLAESLQKVGNKLLVTTGLPEQVIPQIAKQINAKTIYYHREVTQEELDVERNLVKQL 125 (204)
T ss_dssp HHHHHHHHHHHHHTTCCEEEEESCHHHHHHHHHHHTTEEEEEEECCCSHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhccchhhhhhhhhHHHHHHHHHHhhhhheeeeccccHHHHHHHHHHhhhh
Confidence 58999999999999999999999999999999999999999999999999999888887655
>d1owla2 c.28.1.1 (A:3-204) DNA photolyase {Synechococcus elongatus [TaxId: 32046]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: Cryptochrome/photolyase, N-terminal domain
superfamily: Cryptochrome/photolyase, N-terminal domain
family: Cryptochrome/photolyase, N-terminal domain
domain: DNA photolyase
species: Synechococcus elongatus [TaxId: 32046]
Probab=98.80 E-value=4.6e-09 Score=76.95 Aligned_cols=62 Identities=16% Similarity=0.175 Sum_probs=58.0
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDL 64 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l 64 (131)
.++|.+|+++|+++|++|+++.|++.+++++++++++++.|+++.+|....++..+.|.+.+
T Consensus 54 ~~sL~~L~~~L~~~g~~L~i~~G~~~~~l~~l~~~~~i~~v~~~~~~~~~~~~rd~~i~~~~ 115 (202)
T d1owla2 54 QGCLQELQQRYQQAGSRLLLLQGDPQHLIPQLAQQLQAEAVYWNQDIEPYGRDRDGQVAAAL 115 (202)
T ss_dssp HHHHHHHHHHHHHHTSCEEEEESCHHHHHHHHHHHTTCSEEEEECCCSHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhhhccccceEEEEeeeeccchhhccccccceeEEeeeccchhhhHHHHHhhhh
Confidence 58999999999999999999999999999999999999999999999999888888877654
>d1u3da2 c.28.1.1 (A:13-197) Cryptochrome {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: Cryptochrome/photolyase, N-terminal domain
superfamily: Cryptochrome/photolyase, N-terminal domain
family: Cryptochrome/photolyase, N-terminal domain
domain: Cryptochrome
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]
Probab=98.65 E-value=2.5e-08 Score=72.03 Aligned_cols=62 Identities=10% Similarity=0.019 Sum_probs=57.5
Q ss_pred hhhHHHHHHHHhhcCCcEEEEe-CCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLI-GGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDL 64 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~-G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l 64 (131)
+++|.+|+++|+++|++|+++. |++.++|++++++++|..|++|.+|....++..+.|.+.+
T Consensus 52 ~~sL~~L~~~L~~~g~~L~v~~~g~~~~~l~~l~~~~~i~~v~~n~~~~~~e~~rd~~v~~~l 114 (185)
T d1u3da2 52 KNSLAQLDSSLRSLGTCLITKRSTDSVASLLDVVKSTGASQIFFNHLYDPLSLVRDHRAKDVL 114 (185)
T ss_dssp HHHHHHHHHHHHHTTCCEEEEECSCHHHHHHHHHHHHTCCEEEEECCCSHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhcCCcceEeeccchHHHHHHHHHhcCCceEEEeccccHHHHHHHHHHHHHH
Confidence 5899999999999999999985 8999999999999999999999999999999988887655
>d1dnpa2 c.28.1.1 (A:1-200) DNA photolyase {Escherichia coli [TaxId: 562]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: Cryptochrome/photolyase, N-terminal domain
superfamily: Cryptochrome/photolyase, N-terminal domain
family: Cryptochrome/photolyase, N-terminal domain
domain: DNA photolyase
species: Escherichia coli [TaxId: 562]
Probab=98.58 E-value=7.4e-08 Score=70.30 Aligned_cols=63 Identities=11% Similarity=0.103 Sum_probs=58.5
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCC----cchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhCC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGG----AHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLP 65 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~----p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~ 65 (131)
.++|.+|+++|+++|++|+++.|+ +.++|++++++++|..|+++.+|....++..++|.+.++
T Consensus 55 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~~~~~l~~l~~~~~i~~v~~n~~~~~~~~~rd~~v~~~l~ 121 (200)
T d1dnpa2 55 NAQLNGLQIALAEKGIPLLFREVDDFVASVEIVKQVCAENSVTHLFYNYQYEVNERARDVEVERALR 121 (200)
T ss_dssp HHHHHHHHHHHHHTTCCEEEEECSSHHHHHHHHHHHHHHHTCCEEEEECCCSHHHHHHHHHHHHHCT
T ss_pred HHHHHHHHhhhhhccceeEEEEecccccchhHHHHHHHhcCCcEEEEeccccHHHHHHHHHHHHHhh
Confidence 589999999999999999999997 567899999999999999999999999999999998875
>d2b8ea1 c.108.1.7 (A:416-434,A:548-663) Cation-transporting ATPase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: HAD-like
superfamily: HAD-like
family: Meta-cation ATPase, catalytic domain P
domain: Cation-transporting ATPase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]
Probab=93.29 E-value=0.066 Score=35.80 Aligned_cols=58 Identities=14% Similarity=0.250 Sum_probs=47.0
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHH
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLK 61 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~ 61 (131)
..+..+.=+.|++.||..+++.||..+....++++.++..|+.+-.|. ....+.+...
T Consensus 23 r~~a~~~I~~L~~~Gi~v~ilTGD~~~~a~~ia~~lgI~~v~~~~~p~-~k~~~v~~~q 80 (135)
T d2b8ea1 23 KESAKPAVQELKRMGIKVGMITGDNWRSAEAISRELNLDLVIAEVLPH-QKSEEVKKLQ 80 (135)
T ss_dssp CTTHHHHHHHHHHTTCEEEEECSSCHHHHHHHHHHHTCSEEECSCCHH-HHHHHHHHHT
T ss_pred CccHHHHHHHHHHcCCEEEEEcCcchhhhhHHHhhhhhhhhccccchh-HHHHHHHHHH
Confidence 356677778899999999999999999999999999999999887764 3445555443
>d1mjha_ c.26.2.4 (A:) "Hypothetical" protein MJ0577 {Archaeon Methanococcus jannaschii [TaxId: 2190]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: Universal stress protein-like
domain: "Hypothetical" protein MJ0577
species: Archaeon Methanococcus jannaschii [TaxId: 2190]
Probab=93.12 E-value=0.084 Score=34.65 Aligned_cols=43 Identities=9% Similarity=0.335 Sum_probs=36.3
Q ss_pred hhHHHHHHHHhhcCCcE--EEEeCCcchHHHHHHHHcCcceEEEC
Q psy15173 4 LGLKEVHEDCKKLNIEF--HFLIGGAHEILPQFVEKHKLGAVVID 46 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l--~l~~G~p~~~l~~l~~~~~a~~Vv~d 46 (131)
+.|.++...+...|++. .+..|+|.+.|.+++++.+++.||.-
T Consensus 81 ~~l~~~~~~~~~~gv~~~~~~~~G~~~~~I~~~a~~~~~dliV~G 125 (160)
T d1mjha_ 81 NKMENIKKELEDVGFKVKDIIVVGIPHEEIVKIAEDEGVDIIIMG 125 (160)
T ss_dssp HHHHHHHHHHHHTTCEEEEEEEEECHHHHHHHHHHHTTCSEEEEE
T ss_pred HHHHHHHHHHHhcCCeEEEEEEeccHHHHHhhhhhccccceEEec
Confidence 45677778888889874 55689999999999999999999974
>d1tq8a_ c.26.2.4 (A:) Hypothetical protein Rv1636 {Mycobacterium tuberculosis [TaxId: 1773]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: Universal stress protein-like
domain: Hypothetical protein Rv1636
species: Mycobacterium tuberculosis [TaxId: 1773]
Probab=91.55 E-value=0.43 Score=30.34 Aligned_cols=46 Identities=13% Similarity=0.198 Sum_probs=36.9
Q ss_pred hhHHHHHHHHhhcCCc---EEEEeCCcchHHHHHHHHcCcceEEECCCC
Q psy15173 4 LGLKEVHEDCKKLNIE---FHFLIGGAHEILPQFVEKHKLGAVVIDFMP 49 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~---l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~y 49 (131)
+-+..+.+.+.+.|++ ..+..|++.+.|.+++++.+++.||....-
T Consensus 69 ~~l~~~~~~~~~~~~~~~~~~~~~G~~~~~i~~~a~~~~~dlIv~g~~~ 117 (147)
T d1tq8a_ 69 EILHDAKERAHNAGAKNVEERPIVGAPVDALVNLADEEKADLLVVGNVG 117 (147)
T ss_dssp HHHHHHHHHHHTTTCCEEEEEEECSSHHHHHHHHHHHTTCSEEEEECCC
T ss_pred HHHHHHHHHHHHcCCCcEEEEEEecChHHHHHHhhhccceeEEEecCCC
Confidence 4566777777788875 344689999999999999999999987654
>d1q77a_ c.26.2.4 (A:) Hypothetical protein Aq_178 {Aquifex aeolicus [TaxId: 63363]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: Universal stress protein-like
domain: Hypothetical protein Aq 178
species: Aquifex aeolicus [TaxId: 63363]
Probab=89.09 E-value=0.52 Score=29.45 Aligned_cols=48 Identities=27% Similarity=0.275 Sum_probs=36.4
Q ss_pred hHHHHHHHHhhcC--CcEEEEeCCcchHHHHHHHHcCcceEEECCCCCch
Q psy15173 5 GLKEVHEDCKKLN--IEFHFLIGGAHEILPQFVEKHKLGAVVIDFMPLRE 52 (131)
Q Consensus 5 gL~el~~~L~~~g--I~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ylr~ 52 (131)
-|.++.+.+...| +.+.+..|+|.+.|.+++++.+++.||+-..+...
T Consensus 73 ~l~~~~~~~~~~~~~~~~~v~~G~~~~~I~~~a~~~~~DLIV~Gs~g~~~ 122 (138)
T d1q77a_ 73 RLREVWEKLTGSTEIPGVEYRIGPLSEEVKKFVEGKGYELVVWACYPSAY 122 (138)
T ss_dssp HHHHHHHHHHSCCCCCCEEEECSCHHHHHHHHHTTSCCSEEEECSCCGGG
T ss_pred cchhhcccccccceeEEEeeecchhHHHHHHhhhhccCCEEEEecCCCcH
Confidence 3444445555455 45677899999999999999999999998776443
>d1dnpa1 a.99.1.1 (A:201-469) C-terminal domain of DNA photolyase {Escherichia coli [TaxId: 562]}
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class: All alpha proteins
fold: Cryptochrome/photolyase FAD-binding domain
superfamily: Cryptochrome/photolyase FAD-binding domain
family: Cryptochrome/photolyase FAD-binding domain
domain: C-terminal domain of DNA photolyase
species: Escherichia coli [TaxId: 562]
Probab=88.93 E-value=0.067 Score=39.34 Aligned_cols=43 Identities=19% Similarity=0.193 Sum_probs=30.3
Q ss_pred HHHHHHHhhCC--CChhhHHHHHHHHHHHHhhcchhccccCCCCcc
Q psy15173 73 RAVLEVRRVLP--KHSKAVDSFCEEAIVRRELADNFCYYNKNYDKV 116 (131)
Q Consensus 73 r~al~v~~~~~--~~~~~~~~fleElivrRELa~Nfc~yn~~YDs~ 116 (131)
+|+.++.+... ....+.+.|++||+ |||...+.|+++|.+...
T Consensus 50 ev~~~v~~~~~~~~~~~~~~~~l~eL~-wRe~~~~~~~~~~~~~~~ 94 (269)
T d1dnpa1 50 QCLHRLLAEQPQALDGGAGSVWLNELI-WREFYRHLITYHPSLCKH 94 (269)
T ss_dssp HHHHHHHHHCGGGGGTSTTHHHHHHHH-HHHHHHHHHHHCGGGGGT
T ss_pred HHHHHHHHhhhhccccccchhHHhhhh-hhhhhhhhhhccchhhhh
Confidence 77777755432 22335778999976 999999999988765443
>d2gm3a1 c.26.2.4 (A:5-175) Putative ethylene-responsive protein AT3g01520/F4P13_7 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}
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class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: Universal stress protein-like
domain: Putative ethylene-responsive protein AT3g01520/F4P13 7
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]
Probab=87.98 E-value=0.45 Score=31.53 Aligned_cols=43 Identities=14% Similarity=0.287 Sum_probs=34.5
Q ss_pred HHHHHHHHhhcCCcEE--EEeCCcchHHHHHHHHcCcceEEECCC
Q psy15173 6 LKEVHEDCKKLNIEFH--FLIGGAHEILPQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 6 L~el~~~L~~~gI~l~--l~~G~p~~~l~~l~~~~~a~~Vv~d~~ 48 (131)
|..+...+...|++.. +..|+|.+.|.+++++.+++.||....
T Consensus 85 l~~~~~~~~~~~~~~~~~v~~G~~~~~I~~~a~~~~~dlIV~G~~ 129 (171)
T d2gm3a1 85 LEFFVNKCHEIGVGCEAWIKTGDPKDVICQEVKRVRPDFLVVGSR 129 (171)
T ss_dssp HHHHHHHHHHHTCEEEEEEEESCHHHHHHHHHHHHCCSEEEEEEC
T ss_pred HHHHHHHHHhcCCceEEEEEeCChHHHHHHHHhhcCCcEEEeccC
Confidence 4556777777786644 568999999999999999999997644
>d2z3va1 c.26.2.4 (A:2-136) Hypothetical protein TTHA0895 {Thermus thermophilus [TaxId: 274]}
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class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: Universal stress protein-like
domain: Hypothetical protein TTHA0895
species: Thermus thermophilus [TaxId: 274]
Probab=87.81 E-value=0.41 Score=30.13 Aligned_cols=33 Identities=18% Similarity=0.117 Sum_probs=27.4
Q ss_pred CCcEEEEeCCcchHHHHHHHHcCcceEEECCCC
Q psy15173 17 NIEFHFLIGGAHEILPQFVEKHKLGAVVIDFMP 49 (131)
Q Consensus 17 gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~y 49 (131)
.+..++..|+|.+.|.+++++.+++.||.....
T Consensus 76 ~~~~~~~~g~~~~~I~~~a~~~~~dliV~G~~~ 108 (135)
T d2z3va1 76 KEDALLLEGVPAEAILQAARAEKADLIVMGTRG 108 (135)
T ss_dssp GGGEEEEESCHHHHHHHHHHHTTCSEEEEESSC
T ss_pred eEEEEEEcCChHHHHHHHhhhhheeeEEeccCC
Confidence 445667789999999999999999999876543
>d2d13a1 c.26.2.1 (A:2-227) Hypothetical protein PH1257 {Archaeon Pyrococcus horikoshii [TaxId: 53953]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: N-type ATP pyrophosphatases
domain: Hypothetical protein PH1257
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]
Probab=87.70 E-value=0.52 Score=34.00 Aligned_cols=58 Identities=16% Similarity=0.126 Sum_probs=46.0
Q ss_pred HHHHHHhhcCCcEEEEe-----CCcchHHHHHHHHcCcceEEECCCCCchhhhHHHHHHhhCC
Q psy15173 8 EVHEDCKKLNIEFHFLI-----GGAHEILPQFVEKHKLGAVVIDFMPLREHMGWADTLKKDLP 65 (131)
Q Consensus 8 el~~~L~~~gI~l~l~~-----G~p~~~l~~l~~~~~a~~Vv~d~~ylr~~r~w~~~v~~~l~ 65 (131)
-++.+-+.+|||++... .+-.+.+..+.++.++..|++-.-....++.|+++++..+.
T Consensus 53 ll~~qAealgiPl~~~~~~~~~e~~~~~l~~~l~~~~v~~vv~Gdi~~~~~r~r~e~~c~~~g 115 (226)
T d2d13a1 53 LTSLQARALGIPIIKGFTKGEKEKEVEDLKNVLEGLKVDGIVAGALASRYQKERIENVARELG 115 (226)
T ss_dssp THHHHHHHHTCCEEEEEC--CTTSHHHHHHHHHHTBCCSEEECCCSSCHHHHHHHHHHHHHHT
T ss_pred HHHHHHHhcCCCceEEecCCcchHHHHHHHHHHHhcCccceEecceecHHHHHHHHhhHHhcC
Confidence 35555678999987753 23344566778999999999999999999999999998774
>d1nnla_ c.108.1.4 (A:) Phosphoserine phosphatase {Human (Homo sapiens) [TaxId: 9606]}
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class: Alpha and beta proteins (a/b)
fold: HAD-like
superfamily: HAD-like
family: Phosphoserine phosphatase
domain: Phosphoserine phosphatase
species: Human (Homo sapiens) [TaxId: 9606]
Probab=87.08 E-value=0.38 Score=33.33 Aligned_cols=43 Identities=19% Similarity=0.373 Sum_probs=37.8
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcc--eEEE
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLG--AVVI 45 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~--~Vv~ 45 (131)
..|..++=+.|+++|+++.+..|.....+..+++.+++. .|++
T Consensus 84 ~pg~~~~i~~lk~~G~~~~ivS~~~~~~v~~i~~~lgi~~~~v~a 128 (217)
T d1nnla_ 84 TPGIRELVSRLQERNVQVFLISGGFRSIVEHVASKLNIPATNVFA 128 (217)
T ss_dssp CTTHHHHHHHHHHTTCEEEEEEEEEHHHHHHHHHHTTCCGGGEEE
T ss_pred CHHHHHHHHHHHhCCCEEEEECCCchHHHHHHHHHhCCcccceee
Confidence 468999999999999999999999999999999999986 3554
>d2bdua1 c.108.1.21 (A:7-297) Cytosolic 5'-nucleotidase III {Mouse (Mus musculus) [TaxId: 10090]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: HAD-like
superfamily: HAD-like
family: Pyrimidine 5'-nucleotidase (UMPH-1)
domain: Cytosolic 5'-nucleotidase III
species: Mouse (Mus musculus) [TaxId: 10090]
Probab=86.52 E-value=0.41 Score=35.66 Aligned_cols=45 Identities=16% Similarity=0.313 Sum_probs=40.1
Q ss_pred hhhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcce----EEECC
Q psy15173 3 QLGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGA----VVIDF 47 (131)
Q Consensus 3 ~~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~----Vv~d~ 47 (131)
..|..++=+.|++.|||+++++|.....+..++++.+... |++|+
T Consensus 137 r~G~~e~~~~l~~~~i~~~IvSgG~~~~ie~vl~~lg~~~~ni~I~sN~ 185 (291)
T d2bdua1 137 KEGYENFFGKLQQHGIPVFIFSAGIGDVLEEVIRQAGVYHSNVKVVSNF 185 (291)
T ss_dssp CBTHHHHHHHHHHHTCCEEEEEEEEHHHHHHHHHHTTCCBTTEEEEEEC
T ss_pred ccCHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHcCCCccCceEEeeE
Confidence 4789999999999999999999999899999999988864 88865
>d1rxwa2 c.120.1.2 (A:3-219) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: PIN domain-like
superfamily: PIN domain-like
family: 5' to 3' exonuclease catalytic domain
domain: Flap endonuclease-1 (Fen-1 nuclease)
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]
Probab=86.17 E-value=0.59 Score=32.92 Aligned_cols=44 Identities=7% Similarity=-0.115 Sum_probs=39.0
Q ss_pred hHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCC
Q psy15173 5 GLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 5 gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ 48 (131)
-...+.+-|+.+|||+++-.+.+...+..|++.-.++.|+++.+
T Consensus 128 ~~~~~~~lL~~~gi~~i~Ap~EAeaqcA~L~~~g~vd~v~seDs 171 (217)
T d1rxwa2 128 IVDSAKTLLSYMGIPFVDAPSEGEAQAAYMAAKGDVEYTGSQDY 171 (217)
T ss_dssp HHHHHHHHHHHTTCCEEECSSCHHHHHHHHHHTTSSSEEECSSS
T ss_pred HHHHHHHHHHHcCceEEecCchHHHHHHHHHhCCCeEEEEeccc
Confidence 45677888999999999999999999999999999999999875
>d1ul1x2 c.120.1.2 (X:2-217) Flap endonuclease-1 (Fen-1 nuclease) {Human (Homo sapiens) [TaxId: 9606]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: PIN domain-like
superfamily: PIN domain-like
family: 5' to 3' exonuclease catalytic domain
domain: Flap endonuclease-1 (Fen-1 nuclease)
species: Human (Homo sapiens) [TaxId: 9606]
Probab=85.00 E-value=0.66 Score=32.34 Aligned_cols=43 Identities=16% Similarity=0.047 Sum_probs=37.8
Q ss_pred HHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCC
Q psy15173 6 LKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 6 L~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ 48 (131)
...+.+-|+.+||+++...+.+...+..|++.-.++.|+++.+
T Consensus 137 ~~~~~~ll~~~gv~~i~Ap~EAdaq~A~L~~~g~vd~v~S~Ds 179 (216)
T d1ul1x2 137 NDECKHLLSLMGIPYLDAPSEAEASCAALVKAGKVYAAATEDM 179 (216)
T ss_dssp HHHHHHHHHHHTCCEEECSSCHHHHHHHHHHHTSSSEEECSCT
T ss_pred HHHHHHHHHhcCeeeEeccchHHHHHHHHHhcCceEEEEcccc
Confidence 4567788999999999999999899999999999999999865
>d1a77a2 c.120.1.2 (A:2-208) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Methanococcus jannaschii [TaxId: 2190]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: PIN domain-like
superfamily: PIN domain-like
family: 5' to 3' exonuclease catalytic domain
domain: Flap endonuclease-1 (Fen-1 nuclease)
species: Archaeon Methanococcus jannaschii [TaxId: 2190]
Probab=85.00 E-value=0.77 Score=32.10 Aligned_cols=45 Identities=11% Similarity=-0.045 Sum_probs=39.4
Q ss_pred hhHHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCC
Q psy15173 4 LGLKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 4 ~gL~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ 48 (131)
+-..++.+-|+.+||+++...|.+...+..|++.--+.+|+++.+
T Consensus 129 ~~~~~~~~ll~~~gi~yi~Ap~EAeaqcA~L~~~g~vd~v~seDs 173 (207)
T d1a77a2 129 KMVENCKYLLSLMGIPYVEAPSEGEAQASYMAKKGDVWAVVSQDY 173 (207)
T ss_dssp HHHHHHHHHHHHHTCCEEECSSCHHHHHHHHHHHTSSSEEECSSS
T ss_pred HHHHHHHHHHHHcCCceEecCccHHHHHHHHHHcCCeEEEEeccc
Confidence 446778888999999999999999999999999999999999543
>d1b43a2 c.120.1.2 (A:1-219) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Pyrococcus furiosus [TaxId: 2261]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: PIN domain-like
superfamily: PIN domain-like
family: 5' to 3' exonuclease catalytic domain
domain: Flap endonuclease-1 (Fen-1 nuclease)
species: Archaeon Pyrococcus furiosus [TaxId: 2261]
Probab=82.73 E-value=0.9 Score=32.02 Aligned_cols=43 Identities=7% Similarity=-0.038 Sum_probs=37.9
Q ss_pred HHHHHHHHhhcCCcEEEEeCCcchHHHHHHHHcCcceEEECCC
Q psy15173 6 LKEVHEDCKKLNIEFHFLIGGAHEILPQFVEKHKLGAVVIDFM 48 (131)
Q Consensus 6 L~el~~~L~~~gI~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~~ 48 (131)
...+..-|+.+|||++...|.+...+..+++.-.++.|+++.+
T Consensus 131 ~~~~~~lL~~~gv~~i~Ap~EAdaqcA~L~~~g~vd~v~SeDs 173 (219)
T d1b43a2 131 IEDAKKLLELMGIPIVQAPSEGEAQAAYMAAKGSVYASASQDY 173 (219)
T ss_dssp HHHHHHHHHHHTCCEEECSSCHHHHHHHHHHHTSSSEEECSSS
T ss_pred HHHHHHHHHHcCCceeeCchHHHHHHHHHHhcCCeEEEEeccc
Confidence 4567788999999999999999999999999999999999764
>d1jmva_ c.26.2.4 (A:) Universal stress protein A, UspA {Haemophilus influenzae [TaxId: 727]}
Back Show information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: Adenine nucleotide alpha hydrolase-like
superfamily: Adenine nucleotide alpha hydrolases-like
family: Universal stress protein-like
domain: Universal stress protein A, UspA
species: Haemophilus influenzae [TaxId: 727]
Probab=81.61 E-value=0.94 Score=28.35 Aligned_cols=40 Identities=13% Similarity=0.133 Sum_probs=30.0
Q ss_pred HHHHHHhhcC---CcEEEEeCCcchHHHHHHHHcCcceEEECC
Q psy15173 8 EVHEDCKKLN---IEFHFLIGGAHEILPQFVEKHKLGAVVIDF 47 (131)
Q Consensus 8 el~~~L~~~g---I~l~l~~G~p~~~l~~l~~~~~a~~Vv~d~ 47 (131)
.+++...+.+ ...++..|++.+.|.+++++++++.||.-.
T Consensus 68 ~~~~~~~~~~~~~~~~~~~~~~~~~~I~~~a~~~~~dliV~G~ 110 (140)
T d1jmva_ 68 ALLDLAESVDYPISEKLSGSGDLGQVLSDAIEQYDVDLLVTGH 110 (140)
T ss_dssp HHHHHHHHSSSCCCCEEEEEECHHHHHHHHHHHTTCCEEEEEE
T ss_pred HHHHHHHhcCCceEEEEEEecCHHHHHHHhhhhchhhEEEecc
Confidence 3334444444 445667899999999999999999999863
