Query 025412
Match_columns 253
No_of_seqs 122 out of 793
Neff 6.5
Searched_HMMs 46136
Date Fri Mar 29 05:31:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025412.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025412hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF01470 Peptidase_C15: Pyrogl 100.0 2.9E-52 6.3E-57 361.5 13.9 190 43-252 1-202 (202)
2 PRK13194 pyrrolidone-carboxyla 100.0 7.9E-51 1.7E-55 353.5 20.6 189 44-252 2-206 (208)
3 PRK13196 pyrrolidone-carboxyla 100.0 1.7E-50 3.6E-55 352.3 20.1 191 43-253 2-211 (211)
4 PRK13195 pyrrolidone-carboxyla 100.0 1.8E-50 3.8E-55 353.4 19.5 189 43-251 2-207 (222)
5 PRK13193 pyrrolidone-carboxyla 100.0 3.6E-50 7.7E-55 349.6 19.7 187 44-250 2-199 (209)
6 PRK13197 pyrrolidone-carboxyla 100.0 1.6E-49 3.4E-54 347.2 19.6 189 43-251 2-202 (215)
7 COG2039 Pcp Pyrrolidone-carbox 100.0 5.5E-50 1.2E-54 337.8 15.4 188 44-251 2-201 (207)
8 TIGR00504 pyro_pdase pyrogluta 100.0 1.5E-48 3.2E-53 340.4 19.2 187 44-251 1-199 (212)
9 cd00501 Peptidase_C15 Pyroglut 100.0 7.9E-47 1.7E-51 325.2 15.3 172 43-234 1-174 (194)
10 KOG4755 Predicted pyroglutamyl 99.9 5.6E-24 1.2E-28 183.5 16.1 184 43-253 20-213 (213)
11 PF06162 DUF976: Caenorhabditi 99.7 3.1E-16 6.7E-21 129.9 10.2 134 42-198 23-166 (166)
12 PF06753 Bradykinin: Bradykini 58.9 3.7 8E-05 21.9 0.3 9 48-56 6-14 (19)
13 PF04321 RmlD_sub_bind: RmlD s 56.6 17 0.00038 32.6 4.5 12 117-128 49-60 (286)
14 PF01261 AP_endonuc_2: Xylose 49.8 88 0.0019 25.5 7.4 73 179-251 29-119 (213)
15 PRK13364 protocatechuate 4,5-d 49.4 38 0.00082 30.9 5.4 107 101-229 37-151 (278)
16 PLN02778 3,5-epimerase/4-reduc 41.6 82 0.0018 28.3 6.4 24 40-69 7-30 (298)
17 PRK10667 Hha toxicity attenuat 38.7 38 0.00083 27.1 3.2 43 201-251 15-57 (122)
18 COG1091 RfbD dTDP-4-dehydrorha 34.4 70 0.0015 29.4 4.7 15 117-131 48-62 (281)
19 PRK09620 hypothetical protein; 32.9 1.6E+02 0.0035 25.9 6.7 22 118-142 86-107 (229)
20 PF10757 YbaJ: Biofilm formati 31.9 43 0.00093 26.8 2.5 43 201-251 15-57 (122)
21 PF00994 MoCF_biosynth: Probab 31.4 1.6E+02 0.0035 23.4 6.0 66 45-130 2-67 (144)
22 PRK09987 dTDP-4-dehydrorhamnos 30.4 85 0.0018 28.1 4.6 20 44-69 2-21 (299)
23 cd07949 PCA_45_Doxase_B_like_1 29.5 1.3E+02 0.0029 27.2 5.7 21 180-200 102-122 (276)
24 PF02662 FlpD: Methyl-viologen 29.2 74 0.0016 25.3 3.5 39 201-239 4-46 (124)
25 PRK13366 protocatechuate 4,5-d 28.9 1.3E+02 0.0029 27.5 5.6 101 117-230 46-153 (284)
26 cd03522 MoeA_like MoeA_like. T 27.2 2.7E+02 0.0059 25.8 7.4 78 41-137 160-238 (312)
27 PF09419 PGP_phosphatase: Mito 26.6 1.4E+02 0.003 25.2 4.9 48 178-227 63-113 (168)
28 PF10662 PduV-EutP: Ethanolami 24.0 72 0.0016 26.3 2.6 21 196-216 41-61 (143)
29 PF10542 Vitelline_membr: Vite 23.6 38 0.00082 21.5 0.7 7 4-10 10-16 (38)
30 cd04864 LigD_Pol_like_1 LigD_P 23.0 1.6E+02 0.0034 26.3 4.7 35 218-252 140-174 (228)
31 cd04861 LigD_Pol_like LigD_Pol 23.0 1.5E+02 0.0032 26.5 4.6 36 217-252 138-173 (227)
32 cd07950 Gallate_Doxase_N The N 22.7 1.9E+02 0.004 26.3 5.3 20 180-199 102-121 (277)
33 cd04863 MtLigD_Pol_like MtLigD 22.6 1.5E+02 0.0033 26.5 4.6 36 217-252 142-177 (231)
34 PF13983 YsaB: YsaB-like lipop 21.8 42 0.00092 24.4 0.7 14 42-55 34-47 (77)
35 cd04862 PaeLigD_Pol_like PaeLi 21.6 1.7E+02 0.0037 26.0 4.7 35 218-252 139-173 (227)
36 PF04127 DFP: DNA / pantothena 20.8 1.7E+02 0.0037 24.9 4.5 80 43-139 4-99 (185)
37 TIGR02778 ligD_pol DNA polymer 20.7 1.8E+02 0.0038 26.3 4.6 35 218-252 155-189 (245)
38 PF13866 zf-SAP30: SAP30 zinc- 20.6 90 0.002 23.2 2.3 32 180-211 32-64 (78)
39 PRK09989 hypothetical protein; 20.3 5.7E+02 0.012 22.1 8.4 75 177-251 40-131 (258)
40 PF02900 LigB: Catalytic LigB 20.1 2.4E+02 0.0052 25.0 5.4 100 117-229 39-147 (272)
41 cd00758 MoCF_BD MoCF_BD: molyb 20.1 4.3E+02 0.0094 20.7 7.0 76 43-138 2-78 (133)
No 1
>PF01470 Peptidase_C15: Pyroglutamyl peptidase This is family C15 in the peptidase classification. ; InterPro: IPR000816 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to MEROPS peptidase family C15 (pyroglutamyl peptidase I, clan CF). The type example being pyroglutamyl peptidase I of Bacillus amyloliquefaciens. Pyroglutamyl/pyrrolidone carboxyl peptidase (Pcp or PYRase) is an exopeptidase that hydrolytically removes the pGlu from pGlu-peptides or pGlu-proteins [, ]. PYRase has been found in prokaryotes and eukaryotes where at least two different classes have been characterised: the first containing bacterial and animal type I PYRases, and the second containing animal type II and serum PYRases. Type I and bacterial PYRases are soluble enzymes, while type II PYRases are membrane-bound. The primary application of PYRase has been its utilisation for protein or peptide sequencing, and bacterial diagnosis []. The conserved residues Cys-144 and His-168 have been identified by inhibition and mutagenesis studies [, ].; GO: 0006508 proteolysis; PDB: 1A2Z_A 1IU8_A 3RNZ_A 3RO0_D 1AUG_D 2EBJ_A 3LAC_A 1X12_B 1Z8X_B 1X10_C ....
Probab=100.00 E-value=2.9e-52 Score=361.47 Aligned_cols=190 Identities=33% Similarity=0.544 Sum_probs=132.8
Q ss_pred eEEEEEcccCCCCCCCCchHHHHHHHHHHHHhcCCCCceeeceeeeeecccCCcchhHHHHHHHHhccccccccCCCccE
Q 025412 43 VTIHVTGFKKFHGVSENPTETIVSNLREYMKKKGMPKGLILGSCNILETAGHGAVAPLYQTLQSAINEKDSESANSRRII 122 (253)
Q Consensus 43 ~~VlVTGFgPF~~~~~NPS~~i~~~L~~~~~~~g~~~~~~i~~~~vlpv~~~~~~~~~y~~v~~~i~~~~~~~~~~~pd~ 122 (253)
++|||||||||++++.||||+++++|++.. ..++++ ...++||+|+.+. +.+.+++. +.+||+
T Consensus 1 m~ILvTGFgpF~~~~~NpS~~~v~~L~~~~-----~~~~~v-~~~~lPV~~~~~~----~~l~~~l~-------~~~Pdl 63 (202)
T PF01470_consen 1 MRILVTGFGPFGGVPVNPSWELVKRLPGEL-----IGGAEV-HTRELPVSYEKAF----EALEELLE-------EHQPDL 63 (202)
T ss_dssp EEEEEEEE-S-TT-SS-HHHHHHHHHTTSE-----ETTEEE-EEEEE-SSHHHHH----HHHHHHHH-------HH--SE
T ss_pred CEEEEecccCCCCCCCChHHHHHHHcCCCc-----CCCceE-EEEEecCchHhHH----HHHHHHHH-------hcCCcE
Confidence 489999999999999999999999998631 134555 3457888875443 33343333 468999
Q ss_pred EEEeeecCCCceeeeeEeEecCCCCCCCCCCCCCCCCccccCCCCCccccccCCCcHHHHHHHHHhCCCceEEeCCCCcc
Q 025412 123 WVHFGVNSGATRFAIEQQAVNEATFRCPDEMGWKPQKVPIFPADGEISRVRETSIPVEEITRTLAKKGYEVITSDDAGRF 202 (253)
Q Consensus 123 VIhlGva~~~~~i~lE~~A~N~~~~~~pD~~G~~p~~~~i~~~~g~~~~~~~T~lpv~~l~~~l~~~g~~v~iS~dAG~Y 202 (253)
|||+|++++++.|+||++|+|.+++++||++|++|.+++|.+ +||.. ++|+||+++|+++|+++|+|+++|+|||+|
T Consensus 64 VIhlGva~~~~~i~lEr~A~N~~d~~~pD~~G~~p~~~~i~~-~gp~~--~~t~lp~~~l~~~l~~~gip~~~S~dAG~Y 140 (202)
T PF01470_consen 64 VIHLGVAGGRKSIRLERVAINWADFRIPDNDGRQPKDEPIVP-DGPEA--YFTTLPVRALVEALREAGIPVEISNDAGRY 140 (202)
T ss_dssp EEEEEE-TT-SSEEEESEEES-BE-SS--TTS---ESB-SST-TS-SE--EE-BS-HHHHHHHHHHTT--EEEES---SS
T ss_pred EEEEeecCCcchhhHHHHhhccCCCcCCcccCCccCCccccC-CCccc--eecCCCHHHHHHHHHHcCCCCcccCChhhh
Confidence 999999999999999999999999999999999999999987 57754 569999999999999999999999999999
Q ss_pred cchHHHHHHHHhhhhc--CCceEEEecCCCCC----------CChHHHHHHHHHHHHHHHhh
Q 025412 203 VCNYVYYHSLRFAEQN--GTKSLFVHVPLFLT----------IDEETQMQFAASLLEVLATL 252 (253)
Q Consensus 203 lCN~iyY~sL~~~~~~--~~~~~FVHVP~~~~----------~~~e~~~~~v~~lI~~la~~ 252 (253)
||||+||+||++.+++ +.+++|||||++++ ++-|++.+.+...|+.+++.
T Consensus 141 lCN~~~Y~sl~~~~~~~~~~~~~FvHvP~~~~~~~~~~~~~s~~l~~~~~a~~~~~~~~~~~ 202 (202)
T PF01470_consen 141 LCNYIYYRSLHHAERRGPPIPAGFVHVPPLPEQVAEKPGAPSMSLETMVRAVRAAIEAIVDE 202 (202)
T ss_dssp HHHHHHHHHHHHHHHHSTTSEEEEEEE-B-GGGHTTCTTC-B--HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhhcCCCCceeEEeeCCchHhhccCCCCCCCCHHHHHHHHHHHHHHHhhC
Confidence 9999999999997653 58899999998654 23467778888888888763
No 2
>PRK13194 pyrrolidone-carboxylate peptidase; Provisional
Probab=100.00 E-value=7.9e-51 Score=353.45 Aligned_cols=189 Identities=28% Similarity=0.417 Sum_probs=158.2
Q ss_pred EEEEEcccCCCCCCCCchHHHHHHHHHHHHhcCCCCceeeceeeeeecccCCcchhHHHHHHHHhccccccccCCCccEE
Q 025412 44 TIHVTGFKKFHGVSENPTETIVSNLREYMKKKGMPKGLILGSCNILETAGHGAVAPLYQTLQSAINEKDSESANSRRIIW 123 (253)
Q Consensus 44 ~VlVTGFgPF~~~~~NPS~~i~~~L~~~~~~~g~~~~~~i~~~~vlpv~~~~~~~~~y~~v~~~i~~~~~~~~~~~pd~V 123 (253)
+|||||||||++++.||||++++.|++.. + .+.++ ...+|||+|..+.+.+.+.++ +.+||+|
T Consensus 2 ~ILvTGF~PF~~~~~NPS~~~~~~L~~~~----~-~~~~v-~~~~LPV~~~~~~~~l~~~l~-----------~~~Pd~v 64 (208)
T PRK13194 2 KVLVTGFEPFGGDKKNPTMDIVKALDGKK----I-GDAKV-FGRVLPVSFKRAREELEKVLD-----------EIKPDIT 64 (208)
T ss_pred EEEEEeeCCCCCCCCCcHHHHHHhccccc----c-CCcEE-EEEEeCCchHhHHHHHHHHHH-----------HhCCCEE
Confidence 79999999999999999999999998642 1 23344 345799988766544433333 3689999
Q ss_pred EEeeecCCCceeeeeEeEecCCCCCCCCCCCCCCCCccccCCCCCccccccCCCcHHHHHHHHHhCCCceEEeCCCCccc
Q 025412 124 VHFGVNSGATRFAIEQQAVNEATFRCPDEMGWKPQKVPIFPADGEISRVRETSIPVEEITRTLAKKGYEVITSDDAGRFV 203 (253)
Q Consensus 124 IhlGva~~~~~i~lE~~A~N~~~~~~pD~~G~~p~~~~i~~~~g~~~~~~~T~lpv~~l~~~l~~~g~~v~iS~dAG~Yl 203 (253)
||+|++++++.|+|||+|+|.+++++|||+|++|.+++|.+ +||.. ++|+||+++++++|++.|+|+++|+|||+||
T Consensus 65 lhlG~a~~r~~i~lEr~A~N~~~~~~pD~~G~~p~~~~i~~-~gp~~--y~ttlp~~~l~~~l~~~gip~~~S~dAG~yl 141 (208)
T PRK13194 65 INLGLAPGRTHISVERVAVNAIDARIPDNDGEKPEDEPIVE-GAPAA--YFATLPTREIVEELKKNGIPAVLSYSAGTYL 141 (208)
T ss_pred EEeeccCCcceEEEEEEEEcCCCCCCCCCCCCCCCCCcccC-CCCCc--ccCCCCHHHHHHHHHhcCCCcEEeCCCccch
Confidence 99999999999999999999999999999999999999997 57754 5699999999999999999999999999999
Q ss_pred chHHHHHHHHhhhhc--CCceEEEecCCCC--------------CCChHHHHHHHHHHHHHHHhh
Q 025412 204 CNYVYYHSLRFAEQN--GTKSLFVHVPLFL--------------TIDEETQMQFAASLLEVLATL 252 (253)
Q Consensus 204 CN~iyY~sL~~~~~~--~~~~~FVHVP~~~--------------~~~~e~~~~~v~~lI~~la~~ 252 (253)
|||+||+||++.+++ +.+++|||||..+ .++-+++.+.+...|+.+.++
T Consensus 142 CN~iyY~sL~~~~~~~~~~~~~FvHVP~~~~~~~~~~~~~~~~p~~~l~~~~~~~~~~~~~~~~~ 206 (208)
T PRK13194 142 CNYVMYLTLHHSATKGYPKMAGFIHVPYTPDQVIEKIGKGKNTPSMCLEMEIEAVKIAIRVALEE 206 (208)
T ss_pred hHHHHHHHHHHHHhcCCCceeEEEEcCCcHHHhhhhcccCCCCCCCCHHHHHHHHHHHHHHHHHh
Confidence 999999999987653 4789999999533 344466777788888888765
No 3
>PRK13196 pyrrolidone-carboxylate peptidase; Provisional
Probab=100.00 E-value=1.7e-50 Score=352.34 Aligned_cols=191 Identities=25% Similarity=0.369 Sum_probs=160.6
Q ss_pred eEEEEEcccCCCCCCCCchHHHHHHHHHHHHhcCCCCceeeceeeeeecccCCcchhHHHHHHHHhccccccccCCCccE
Q 025412 43 VTIHVTGFKKFHGVSENPTETIVSNLREYMKKKGMPKGLILGSCNILETAGHGAVAPLYQTLQSAINEKDSESANSRRII 122 (253)
Q Consensus 43 ~~VlVTGFgPF~~~~~NPS~~i~~~L~~~~~~~g~~~~~~i~~~~vlpv~~~~~~~~~y~~v~~~i~~~~~~~~~~~pd~ 122 (253)
.+|||||||||++++.||||+++++|++... .+.++ ...+|||+|..+.+.+ ++++. +.+||+
T Consensus 2 ~~ILvTGF~PF~~~~~NPS~~~~~~L~~~~~-----~~~~v-~~~~LPV~~~~~~~~l----~~~~~-------~~~Pd~ 64 (211)
T PRK13196 2 PTLLLTGFEPFHTHPVNPSAQAAQALNGEQA-----GALRV-HSALLPVEPRAAMAAL----SRLLD-------ELQPSA 64 (211)
T ss_pred CEEEEEeecCCCCCCCCcHHHHHHhcccccC-----CCcEE-EEEEeCCChhHHHHHH----HHHHH-------HhCCCE
Confidence 4899999999999999999999999987521 23444 3457999987665433 33333 478999
Q ss_pred EEEeeecCCCceeeeeEeEecCCCCCCCCCCCCCCCCccc--cCCCCCccccccCCCcHHHHHHHHHhCCCceEEeCCCC
Q 025412 123 WVHFGVNSGATRFAIEQQAVNEATFRCPDEMGWKPQKVPI--FPADGEISRVRETSIPVEEITRTLAKKGYEVITSDDAG 200 (253)
Q Consensus 123 VIhlGva~~~~~i~lE~~A~N~~~~~~pD~~G~~p~~~~i--~~~~g~~~~~~~T~lpv~~l~~~l~~~g~~v~iS~dAG 200 (253)
|||+|++++|+.|+|||+|+|.+++++|||+|++|.+++| .+ +||. .++|+||+++|++++++.|+|+++|+|||
T Consensus 65 vi~~G~a~gr~~i~lEr~A~N~~d~~~pDn~G~~~~~~~i~~~~-~gp~--~y~stLpv~~l~~~l~~~gip~~iS~~AG 141 (211)
T PRK13196 65 VLLTGLAAGRPQVTLERVAVNVMDFSIPDNAGQTYRDTPVCTEP-DAPA--AYLSTLPLRAILAAWHDAGIPGHISNTAG 141 (211)
T ss_pred EEEecccCCcCcEEEEEEEeccccCCCCCCCCCCCCCCCcccCC-CCcc--ceecCCCHHHHHHHHHhcCCCceEccCCC
Confidence 9999999999999999999999999999999999999999 65 5664 45799999999999999999999999999
Q ss_pred cccchHHHHHHHHhhhhc---CCceEEEecCCC--------------CCCChHHHHHHHHHHHHHHHhhC
Q 025412 201 RFVCNYVYYHSLRFAEQN---GTKSLFVHVPLF--------------LTIDEETQMQFAASLLEVLATLC 253 (253)
Q Consensus 201 ~YlCN~iyY~sL~~~~~~---~~~~~FVHVP~~--------------~~~~~e~~~~~v~~lI~~la~~~ 253 (253)
+|||||+||++|++.+++ ++++||||||++ +.++.|.+.+.+...|+.+.+++
T Consensus 142 ~YlCN~v~Y~sL~~~~~~~~~~~~agFIHVP~~~~~~~~~~~~~~~~p~m~~~~~~~~v~~~i~~~~~~~ 211 (211)
T PRK13196 142 LYVCNFVLYHALHQLHLRGRAEVPCGFLHVPANAQVALAVAGDRPPLPYLPQEEITRAVRVAAETMAGQN 211 (211)
T ss_pred ceeehHHHHHHHHHHHhcCCCCCeeEEEEcCCCHHHhhhhccCCCCCCCCCHHHHHHHHHHHHHHHHhcC
Confidence 999999999999986543 368999999977 33456777888999999888764
No 4
>PRK13195 pyrrolidone-carboxylate peptidase; Provisional
Probab=100.00 E-value=1.8e-50 Score=353.40 Aligned_cols=189 Identities=22% Similarity=0.327 Sum_probs=156.1
Q ss_pred eEEEEEcccCCCCCCCCchHHHHHHHHHHHHhcCCCCceeeceeeeeecccCCcchhHHHHHHHHhccccccccCCCccE
Q 025412 43 VTIHVTGFKKFHGVSENPTETIVSNLREYMKKKGMPKGLILGSCNILETAGHGAVAPLYQTLQSAINEKDSESANSRRII 122 (253)
Q Consensus 43 ~~VlVTGFgPF~~~~~NPS~~i~~~L~~~~~~~g~~~~~~i~~~~vlpv~~~~~~~~~y~~v~~~i~~~~~~~~~~~pd~ 122 (253)
.+|||||||||++++.||||++++.|++.. + .+.++. ..++||+|..+.+.+ ++++. +.+||+
T Consensus 2 ~~ILvTGF~PFgg~~~NPS~~~v~~L~~~~----~-~~~~v~-~~~lPv~f~~~~~~l----~~~i~-------~~~Pd~ 64 (222)
T PRK13195 2 SKVLVTGFGPYGVTPVNPAQLTAEELDGRT----I-AGATVI-SRIVPNTFFESIAAA----QQAIA-------EIEPAL 64 (222)
T ss_pred CEEEEeeecCCCCCCcCchHHHHHhccccc----c-CCeEEE-EEEeCeEehHHHHHH----HHHHH-------HHCCCE
Confidence 379999999999999999999999997631 1 334443 347999987665444 33333 468999
Q ss_pred EEEeeecCCCceeeeeEeEecCCCCC---CCCCCCCCCCCccccCCCCCccccccCCCcHHHHHHHHHhCCCceEEeCCC
Q 025412 123 WVHFGVNSGATRFAIEQQAVNEATFR---CPDEMGWKPQKVPIFPADGEISRVRETSIPVEEITRTLAKKGYEVITSDDA 199 (253)
Q Consensus 123 VIhlGva~~~~~i~lE~~A~N~~~~~---~pD~~G~~p~~~~i~~~~g~~~~~~~T~lpv~~l~~~l~~~g~~v~iS~dA 199 (253)
|||+|++++++.|++||+|+|.++++ +|||+|++|.+++|++ +||.. ++|+||+++|+++|+++|+|+++|+||
T Consensus 65 Vi~~G~a~gr~~itlErvAiN~~d~~~~~ipDn~G~~p~~~~I~~-~gp~a--y~stLpv~~iv~~l~~~gipa~vS~~A 141 (222)
T PRK13195 65 VIMLGEYPGRSMITVERLAQNVNDCGRYGLADCAGRVLVGEPTDP-AGPVA--YHATVPVRAMVLAMRKAGVPADVSDAA 141 (222)
T ss_pred EEEeCccCCcCceEeEEEEEecccccccCCCCCCCCcCCCCcccC-CCcce--eecCCCHHHHHHHHHhcCCCceEecCC
Confidence 99999999999999999999998754 9999999999999997 67765 569999999999999999999999999
Q ss_pred CcccchHHHHHHHHhhhhc--CCceEEEecCCCCC------------CChHHHHHHHHHHHHHHHh
Q 025412 200 GRFVCNYVYYHSLRFAEQN--GTKSLFVHVPLFLT------------IDEETQMQFAASLLEVLAT 251 (253)
Q Consensus 200 G~YlCN~iyY~sL~~~~~~--~~~~~FVHVP~~~~------------~~~e~~~~~v~~lI~~la~ 251 (253)
|+|||||+||++|++.++. +.++||||||++++ ++-|++.+.+...|+.+.+
T Consensus 142 GtYvCN~v~Y~sL~~~~~~~~~~~agFIHVP~~p~q~~~~~~~~~psm~l~~~~~av~~~i~~~~~ 207 (222)
T PRK13195 142 GTFVCNHLMYGVLHHLAQKGLPVRAGWIHLPCLPSVAALDHNLGVPSMSVQTAVAGVTAGIEAAIR 207 (222)
T ss_pred CcceehHHHHHHHHHHhhcCCCceEEEEEcCCCHHHhhhcCCCCCCCCcHHHHHHHHHHHHHHHHc
Confidence 9999999999999987653 36899999996643 3345666777777777653
No 5
>PRK13193 pyrrolidone-carboxylate peptidase; Provisional
Probab=100.00 E-value=3.6e-50 Score=349.58 Aligned_cols=187 Identities=26% Similarity=0.312 Sum_probs=153.4
Q ss_pred EEEEEcccCCCCCCCCchHHHHHHHHHHHHhcCCCCceeeceeeeeecccCCcchhHHHHHHHHhccccccccCCCccEE
Q 025412 44 TIHVTGFKKFHGVSENPTETIVSNLREYMKKKGMPKGLILGSCNILETAGHGAVAPLYQTLQSAINEKDSESANSRRIIW 123 (253)
Q Consensus 44 ~VlVTGFgPF~~~~~NPS~~i~~~L~~~~~~~g~~~~~~i~~~~vlpv~~~~~~~~~y~~v~~~i~~~~~~~~~~~pd~V 123 (253)
+|||||||||++++.||||++++.|++... .+.++. ..++||+|+.+.+.+ .+++. +.+||+|
T Consensus 2 ~vLiTGF~PF~g~~~NPS~~~v~~L~~~~~-----~~~~v~-~~~LPv~~~~~~~~l----~~~~~-------~~~Pd~v 64 (209)
T PRK13193 2 TVLLFGFEPFLEYKENPSQLIVEALNGSTI-----LKEEVK-GVILPVEYEKIEDLI----VTKIR-------EMKPILT 64 (209)
T ss_pred EEEEEeeCCCCCCCCCcHHHHHHHhhcccc-----CCceEE-EEEeCCcHHHHHHHH----HHHHH-------HHCCCEE
Confidence 699999999999999999999999987421 223442 357898876554333 32222 3689999
Q ss_pred EEeeecCCCceeeeeEeEecCCCCCCCCCCCCCCCCccccCCCCCccccccCCCcHHHHHHHHHhCCCceEEeCCCCccc
Q 025412 124 VHFGVNSGATRFAIEQQAVNEATFRCPDEMGWKPQKVPIFPADGEISRVRETSIPVEEITRTLAKKGYEVITSDDAGRFV 203 (253)
Q Consensus 124 IhlGva~~~~~i~lE~~A~N~~~~~~pD~~G~~p~~~~i~~~~g~~~~~~~T~lpv~~l~~~l~~~g~~v~iS~dAG~Yl 203 (253)
||+|++++++.|++||+|+|.+++++|||+|++|.+++|++ +||.. ++|+||+++|+++|+++|+|+++|+|||+||
T Consensus 65 l~~G~a~~r~~i~lEr~AiN~~d~~~pDn~G~~p~~~~I~~-~gp~~--~~t~lp~~~l~~~l~~~Gip~~~S~~AG~yv 141 (209)
T PRK13193 65 LGIGVAPGRAKITPEKIAINYKYSREGDNAGKKYKGEKIDP-LGQDG--IFTNIPVEDLVDLLNENGIPAELSLSAGSYL 141 (209)
T ss_pred EEecccCCcCceEEEEEEEccCcCcCCccCCCCcCCCcccC-CCcce--eecCCCHHHHHHHHHhcCCCceEecCCccch
Confidence 99999999999999999999999999999999999999997 67754 5699999999999999999999999999999
Q ss_pred chHHHHHHHHhhhhcCCceEEEecCCCCCCCh-----------HHHHHHHHHHHHHHH
Q 025412 204 CNYVYYHSLRFAEQNGTKSLFVHVPLFLTIDE-----------ETQMQFAASLLEVLA 250 (253)
Q Consensus 204 CN~iyY~sL~~~~~~~~~~~FVHVP~~~~~~~-----------e~~~~~v~~lI~~la 250 (253)
|||+||+||++.++.+.++||||||++++... +++.+.+...|+.+.
T Consensus 142 CN~vyY~sl~~~~~~~~~a~FIHVP~~~~~~~~~~~~~~~~~l~~~~~a~~~~~~~~~ 199 (209)
T PRK13193 142 CNNAMYIIIREARKYNSLGGFIHVPLHESYAARIQRPIPSMSLDTMIRGIRLSMEFIL 199 (209)
T ss_pred hHHHHHHHHHHHhccCCeeEEEEeCCchhhhhhcCCCCCCccHHHHHHHHHHHHHHHH
Confidence 99999999998766567999999998776543 334444555555544
No 6
>PRK13197 pyrrolidone-carboxylate peptidase; Provisional
Probab=100.00 E-value=1.6e-49 Score=347.22 Aligned_cols=189 Identities=25% Similarity=0.382 Sum_probs=159.2
Q ss_pred eEEEEEcccCCCCCCCCchHHHHHHHHHHHHhcCCCCceeeceeeeeecccCCcchhHHHHHHHHhccccccccCCCccE
Q 025412 43 VTIHVTGFKKFHGVSENPTETIVSNLREYMKKKGMPKGLILGSCNILETAGHGAVAPLYQTLQSAINEKDSESANSRRII 122 (253)
Q Consensus 43 ~~VlVTGFgPF~~~~~NPS~~i~~~L~~~~~~~g~~~~~~i~~~~vlpv~~~~~~~~~y~~v~~~i~~~~~~~~~~~pd~ 122 (253)
.+|||||||||++++.||||+++++|++.. . .+.++. ..+|||+|+.+.+.+.+.++ +.+||+
T Consensus 2 ~~ILvTGF~PF~~~~~NPS~~~~~~L~~~~----~-~~~~i~-~~~lPV~y~~~~~~l~~~l~-----------~~~Pd~ 64 (215)
T PRK13197 2 MKILVTGFDPFGGEKINPSWEAVKQLPGKE----I-GGAEII-KRQLPTVFGKSAEVLKEAIE-----------EVQPDA 64 (215)
T ss_pred CEEEEeeccCCCCCCCCcHHHHHHHccccc----c-CCcEEE-EEEECCChHHHHHHHHHHHH-----------HhCCCE
Confidence 379999999999999999999999998642 1 334553 35799998776555443333 368999
Q ss_pred EEEeeecCCCceeeeeEeEecCCCCCCCCCCCCCCCCccccCCCCCccccccCCCcHHHHHHHHHhCCCceEEeCCCCcc
Q 025412 123 WVHFGVNSGATRFAIEQQAVNEATFRCPDEMGWKPQKVPIFPADGEISRVRETSIPVEEITRTLAKKGYEVITSDDAGRF 202 (253)
Q Consensus 123 VIhlGva~~~~~i~lE~~A~N~~~~~~pD~~G~~p~~~~i~~~~g~~~~~~~T~lpv~~l~~~l~~~g~~v~iS~dAG~Y 202 (253)
|||+|++++++.|+|||+|+|.+++++|||+|.+|.+++|.+ +||. .++|+||+++|++++++.|+|+++|+|||+|
T Consensus 65 vih~G~a~~~~~i~lEr~A~N~~~~~~pDn~G~~p~~~~i~~-~gp~--~~~t~Lp~~~l~~~l~~~gip~~~S~dAG~Y 141 (215)
T PRK13197 65 VICIGQAGGRTDITPERVAINIDDARIPDNEGNQPIDEPIVE-DGPA--AYFSTLPIKAMVKAIREAGIPASVSNTAGTF 141 (215)
T ss_pred EEEeccCCCCCcEEeEeeecccCCccCCCCCCCCcCCCcccC-CCCc--eeEcCCCHHHHHHHHHHcCCCceeccCCCce
Confidence 999999999999999999999989999999999999999997 5775 3679999999999999999999999999999
Q ss_pred cchHHHHHHHHhhhhc--CCceEEEecCCCCC----------CChHHHHHHHHHHHHHHHh
Q 025412 203 VCNYVYYHSLRFAEQN--GTKSLFVHVPLFLT----------IDEETQMQFAASLLEVLAT 251 (253)
Q Consensus 203 lCN~iyY~sL~~~~~~--~~~~~FVHVP~~~~----------~~~e~~~~~v~~lI~~la~ 251 (253)
||||+||++|++.+++ +++++|||||+++. ++-|.+.+.+..+|+.+.+
T Consensus 142 lCN~i~Y~sl~~~~~~~~~~~a~FIHvP~~~~~~~~~~~~p~~~~~~~~~av~~~i~~~~~ 202 (215)
T PRK13197 142 VCNHVMYGLLHLLDKKYPNIRAGFIHIPYLPEQAVNKPGTPSMSLEDIVRGLELAIEAIVE 202 (215)
T ss_pred eehHHHHHHHHHHHhcCCCceeEEEEcCCchhhhhcCCCCCCccHHHHHHHHHHHHHHHHh
Confidence 9999999999987643 47899999998833 4456777778888887765
No 7
>COG2039 Pcp Pyrrolidone-carboxylate peptidase (N-terminal pyroglutamyl peptidase) [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=5.5e-50 Score=337.82 Aligned_cols=188 Identities=26% Similarity=0.425 Sum_probs=157.7
Q ss_pred EEEEEcccCCCCCCCCchHHHHHHHHHHHHhcCCCCceeeceeeeeecccCCcchhHHHHHHHHhccccccccCCCccEE
Q 025412 44 TIHVTGFKKFHGVSENPTETIVSNLREYMKKKGMPKGLILGSCNILETAGHGAVAPLYQTLQSAINEKDSESANSRRIIW 123 (253)
Q Consensus 44 ~VlVTGFgPF~~~~~NPS~~i~~~L~~~~~~~g~~~~~~i~~~~vlpv~~~~~~~~~y~~v~~~i~~~~~~~~~~~pd~V 123 (253)
+||||||+||++++.||||++++.|++... .+.++ ....+|++|.++..++-+.++ +.+||+|
T Consensus 2 kvLvTGFePF~~~~~NPs~e~vk~L~~~~i-----~g~~V-~~~~lP~~f~~s~~~l~~~i~-----------~~qPd~v 64 (207)
T COG2039 2 KVLVTGFEPFGGEPINPSWEAVKELNGRII-----GGAEV-KGRILPVVFKKSIDALVQAIA-----------EVQPDLV 64 (207)
T ss_pred eEEEEeccCCCCCCCChHHHHHHhcCcccc-----cCceE-EEEEcCccHHHHHHHHHHHHH-----------hhCCCeE
Confidence 799999999999999999999999987532 12333 345799999877655544444 4899999
Q ss_pred EEeeecCCCceeeeeEeEecCCCCCCCCCCCCCCCCccccCCCCCccccccCCCcHHHHHHHHHhCCCceEEeCCCCccc
Q 025412 124 VHFGVNSGATRFAIEQQAVNEATFRCPDEMGWKPQKVPIFPADGEISRVRETSIPVEEITRTLAKKGYEVITSDDAGRFV 203 (253)
Q Consensus 124 IhlGva~~~~~i~lE~~A~N~~~~~~pD~~G~~p~~~~i~~~~g~~~~~~~T~lpv~~l~~~l~~~g~~v~iS~dAG~Yl 203 (253)
|++|+++||..|++||+|+|..|+++|||+|++|.+++|.+ +||++| +|+||+++|+++++++|+|+.+|++||+|+
T Consensus 65 l~iG~A~GR~~iT~ERVAINv~DarIpDN~G~qpiDepI~~-dGpaAY--fstlPvkamv~~~~~~GiPA~vS~sAGTyv 141 (207)
T COG2039 65 LAIGQAGGRTKITPERVAINVDDARIPDNAGNQPIDEPIDP-DGPAAY--FSTLPVKAMVQAIREAGIPASVSNSAGTYV 141 (207)
T ss_pred EEecccCCCCcCChhheeeccccccCCCCCCCCcCCCccCC-CCchhh--hhcCcHHHHHHHHHHcCCChhhhcccchhh
Confidence 99999999999999999999999999999999999999998 688776 499999999999999999999999999999
Q ss_pred chHHHHHHHHhhhhc--CCceEEEecCCCCC----------CChHHHHHHHHHHHHHHHh
Q 025412 204 CNYVYYHSLRFAEQN--GTKSLFVHVPLFLT----------IDEETQMQFAASLLEVLAT 251 (253)
Q Consensus 204 CN~iyY~sL~~~~~~--~~~~~FVHVP~~~~----------~~~e~~~~~v~~lI~~la~ 251 (253)
||++||..||+..++ +.++||||||..++ ++-++..+-+..-|+.+.+
T Consensus 142 CNhvmY~~l~~~~~~~~~~~~GFiHvPy~peqa~~~~~~PsMsl~~ivrgv~~aIe~~~~ 201 (207)
T COG2039 142 CNHVMYGLLHHLAKKGPPVRAGFIHVPYLPEQAARKPNTPSMSLDTIVRGVRAAIEAILR 201 (207)
T ss_pred hHHHHHHHHHHHHHhCCCCcceeEeecCCHHHHhCCCCCCCCCHHHHHHHHHHHHHHHHh
Confidence 999999999998764 47999999997543 3334444555555555543
No 8
>TIGR00504 pyro_pdase pyroglutamyl-peptidase I. Alternate names include pyroglutamate aminopeptidase, pyrrolidone-carboxylate peptidase, and 5-oxoprolyl-peptidase. It removes pyroglutamate (pyrrolidone-carboxylate, a modified glutamine) that can otherwise block hydrolysis of a polypeptide at the amino end, and so can be extremely useful in the biochemical studies of proteins. The biological role in the various species in which it is found is not fully understood. The enzyme appears to be a homodimer. It does not closely resemble any other peptidases.
Probab=100.00 E-value=1.5e-48 Score=340.42 Aligned_cols=187 Identities=26% Similarity=0.391 Sum_probs=155.3
Q ss_pred EEEEEcccCCCCCCCCchHHHHHHHHHHHHhcCCCCceeeceeeeeecccCCcchhHHHHHHHHhccccccccCCCccEE
Q 025412 44 TIHVTGFKKFHGVSENPTETIVSNLREYMKKKGMPKGLILGSCNILETAGHGAVAPLYQTLQSAINEKDSESANSRRIIW 123 (253)
Q Consensus 44 ~VlVTGFgPF~~~~~NPS~~i~~~L~~~~~~~g~~~~~~i~~~~vlpv~~~~~~~~~y~~v~~~i~~~~~~~~~~~pd~V 123 (253)
+|||||||||++++.||||++++.|++... ++++ ...+|||+|..+.+.+.+.++ +.+||+|
T Consensus 1 ~ILvTGF~PF~~~~~NPS~~~v~~L~~~~~------g~~i-~~~~lPV~~~~~~~~l~~~l~-----------~~~Pd~v 62 (212)
T TIGR00504 1 KVLLTGFEPFGVDPVNPSWEAAEELDGRTI------GATV-VAEILPNTFFEAIEALQQAID-----------EIEPDIV 62 (212)
T ss_pred CEEEEeccCCCCCCCCcHHHHHHhcccCcC------CcEE-EEEEeCCChHHHHHHHHHHHH-----------HHCCCEE
Confidence 499999999999999999999999986421 2344 235799998776554444333 3689999
Q ss_pred EEeeecCCCceeeeeEeEecCCCCCCCCCCCCCCCCccccCCCCCccccccCCCcHHHHHHHHHhCCCceEEeCCCCccc
Q 025412 124 VHFGVNSGATRFAIEQQAVNEATFRCPDEMGWKPQKVPIFPADGEISRVRETSIPVEEITRTLAKKGYEVITSDDAGRFV 203 (253)
Q Consensus 124 IhlGva~~~~~i~lE~~A~N~~~~~~pD~~G~~p~~~~i~~~~g~~~~~~~T~lpv~~l~~~l~~~g~~v~iS~dAG~Yl 203 (253)
||+|+++++..|+|||+|+|.+++++|||+|++|.+++|.+ +||. .++|+||+++|++++++.|+|+++|+|||+||
T Consensus 63 i~~G~a~g~~~i~lEr~A~N~~~~~~pDn~G~~p~~~~i~~-~gp~--~~~ttLpv~~l~~~l~~~gip~~~S~dAG~yl 139 (212)
T TIGR00504 63 IMLGLAPGRSMITVERVAINVNDARIPDNAGEQPIDEPIVP-DGPA--AYFATLPVRAMVLAMKKAGIPADVSYTAGTFV 139 (212)
T ss_pred EEeccCCCcCceeeEEeEeccCcCCCCCCCCCccCCCcccC-CCCc--eeecCCCHHHHHHHHHHcCCCeeEeCCCCcee
Confidence 99999999999999999999989999999999999999997 5775 35799999999999999999999999999999
Q ss_pred chHHHHHHHHhhhhc--CCceEEEecCCCCCC----------ChHHHHHHHHHHHHHHHh
Q 025412 204 CNYVYYHSLRFAEQN--GTKSLFVHVPLFLTI----------DEETQMQFAASLLEVLAT 251 (253)
Q Consensus 204 CN~iyY~sL~~~~~~--~~~~~FVHVP~~~~~----------~~e~~~~~v~~lI~~la~ 251 (253)
|||+||+||++.+++ +.+++|||||++++. +-+++.+.+...|+++.+
T Consensus 140 CN~i~Y~sL~~~~~~~~~~~agFIHVP~~~~~~~~~~~~~~~~~~~~~~a~~~~i~~~~~ 199 (212)
T TIGR00504 140 CNHLMYGLLHHLAQKGLPVRAGFIHVPYLPSQVALKHGVPSMSLDTAVAGVTIAIETAIR 199 (212)
T ss_pred eHHHHHHHHHHHHhcCCCceeEEEEcCCchhhhhcCCCCCCccHHHHHHHHHHHHHHHHh
Confidence 999999999987643 478999999966543 334556667777777653
No 9
>cd00501 Peptidase_C15 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from proteolysis by other proteases until the pGlu is removed by a PGP. PGPs are cysteine proteases with a Cys-His-Glu/Asp catalytic triad. Type I PGPs are found in a wide variety of prokaryotes and eukaryotes. It is not clear whether the functional form is a monomer, a homodimer, or a homotetramer.
Probab=100.00 E-value=7.9e-47 Score=325.17 Aligned_cols=172 Identities=31% Similarity=0.473 Sum_probs=144.8
Q ss_pred eEEEEEcccCCCCCCCCchHHHHHHHHHHHHhcCCCCceeeceeeeeecccCCcchhHHHHHHHHhccccccccCCCccE
Q 025412 43 VTIHVTGFKKFHGVSENPTETIVSNLREYMKKKGMPKGLILGSCNILETAGHGAVAPLYQTLQSAINEKDSESANSRRII 122 (253)
Q Consensus 43 ~~VlVTGFgPF~~~~~NPS~~i~~~L~~~~~~~g~~~~~~i~~~~vlpv~~~~~~~~~y~~v~~~i~~~~~~~~~~~pd~ 122 (253)
++|||||||||++++.||||+++++|++... .++++. ..++||+|..+. +.+.+.+. +.+||+
T Consensus 1 ~~vLvTGF~PF~~~~~NpS~~~v~~L~~~~~-----~~~~i~-~~~lpv~y~~~~----~~~~~~~~-------~~~pd~ 63 (194)
T cd00501 1 KKVLVTGFGPFGGEPVNPSWEAVKELPKLIL-----GGAEVV-GLELPVVFQKAV----EVLPELIE-------EHKPDL 63 (194)
T ss_pred CEEEEEecCCCCCCCCChHHHHHHhcccccc-----CCcEEE-EEEcCccHHHHH----HHHHHHHH-------HhCCCE
Confidence 3799999999999999999999999987532 234443 346888875443 33333333 468999
Q ss_pred EEEeeecCCCceeeeeEeEecCCCCCCCCCCCCCCCCccccCCCCCccccccCCCcHHHHHHHHHhCCCceEEeCCCCcc
Q 025412 123 WVHFGVNSGATRFAIEQQAVNEATFRCPDEMGWKPQKVPIFPADGEISRVRETSIPVEEITRTLAKKGYEVITSDDAGRF 202 (253)
Q Consensus 123 VIhlGva~~~~~i~lE~~A~N~~~~~~pD~~G~~p~~~~i~~~~g~~~~~~~T~lpv~~l~~~l~~~g~~v~iS~dAG~Y 202 (253)
|||+|++++++.++||++|+|.+++++||++|++|.+++|.+ +|+. .++|++|++++++++++.|+++++|+|||+|
T Consensus 64 vlhlG~~~~~~~i~lE~~A~n~~~~~~pD~~G~~p~~~~i~~-~g~~--~~~t~lp~~~l~~~l~~~g~~~~~S~dAG~Y 140 (194)
T cd00501 64 VIHVGLAGGRSTITIERVAINIDDARIPDNEGNQPIDEPIVP-GGPA--AYFSTLPVKAIVKALREAGIPARVSNDAGTY 140 (194)
T ss_pred EEEecccCCCCceeEEeEEEccCCCCCCCCCCCcCCCCcccC-CCCC--eeeecCCHHHHHHHHHhcCCCceEcCCCCce
Confidence 999999999999999999999988889999999999999987 5664 4679999999999999999999999999999
Q ss_pred cchHHHHHHHHhhhhcC--CceEEEecCCCCCCC
Q 025412 203 VCNYVYYHSLRFAEQNG--TKSLFVHVPLFLTID 234 (253)
Q Consensus 203 lCN~iyY~sL~~~~~~~--~~~~FVHVP~~~~~~ 234 (253)
||||+||+||++...++ ++++|||||++++..
T Consensus 141 lCn~~~Y~sL~~~~~~~~~~~a~FvHvP~~~~~~ 174 (194)
T cd00501 141 LCNHVYYGSLHESATRGPFIRAGFIHVPYSPEQV 174 (194)
T ss_pred eeHHHHHHHHHHHhccCCCceeceeecCCCHHHh
Confidence 99999999999876543 689999999887643
No 10
>KOG4755 consensus Predicted pyroglutamyl peptidase [Posttranslational modification, protein turnover, chaperones]
Probab=99.92 E-value=5.6e-24 Score=183.46 Aligned_cols=184 Identities=28% Similarity=0.410 Sum_probs=142.7
Q ss_pred eEEEEEcccCCCCCCCCchHHHHHHHHHHHHhcCCCCceeeceeeeeecccCCcchhHHHHHHHHhccccccccCCCccE
Q 025412 43 VTIHVTGFKKFHGVSENPTETIVSNLREYMKKKGMPKGLILGSCNILETAGHGAVAPLYQTLQSAINEKDSESANSRRII 122 (253)
Q Consensus 43 ~~VlVTGFgPF~~~~~NPS~~i~~~L~~~~~~~g~~~~~~i~~~~vlpv~~~~~~~~~y~~v~~~i~~~~~~~~~~~pd~ 122 (253)
.+|+.+.++||.|...||++.+++.|.+. .+....+. +. .-..|+++.+.++++|. .+-..
T Consensus 20 rkvv~v~~~p~~g~~~~~aviv~dEl~k~---~~~s~~l~----------~~--~~~sy~~v~~~i~e~~~----~~~~~ 80 (213)
T KOG4755|consen 20 RKVVTVFDFPFFGKQPSPAVIVLDELVKK---GGVSKYLC----------FK--MCTSYETVDEIILELWE----EHLQS 80 (213)
T ss_pred eEEEEeccCCccCccCCchhhhHHHHHHc---CCceecce----------ec--ceechhhHhHHHHHhhc----cceeE
Confidence 34555556666664449999999999752 11111111 11 12267888888888764 23389
Q ss_pred EEEeeecCCCceeeeeEeEecCCCCCCCCCCCCCCCCccccCCCCCccccccCCCcHHHHHHHHHhC---------CCce
Q 025412 123 WVHFGVNSGATRFAIEQQAVNEATFRCPDEMGWKPQKVPIFPADGEISRVRETSIPVEEITRTLAKK---------GYEV 193 (253)
Q Consensus 123 VIhlGva~~~~~i~lE~~A~N~~~~~~pD~~G~~p~~~~i~~~~g~~~~~~~T~lpv~~l~~~l~~~---------g~~v 193 (253)
.||+|.++..+.+.+|+.|++. +|...|.+|++|.+.+..- +++. ....|..++..+++...+. |++|
T Consensus 81 aIhl~sh~~knti~i~~~af~~-gy~~~d~~g~vp~~nkv~~-~~~d-~~~~s~i~c~~vv~~v~e~~~~~~~~~~gl~V 157 (213)
T KOG4755|consen 81 AIHLGSHSQKNTIQIEQSAFSS-GYTQKDKCGKVPEGNKVKC-DGPD-TGGRSCINCEIVVKDVNERCASDGQKFGGLEV 157 (213)
T ss_pred EEEecccccCcEEEEEEecccC-CccchhhcccccCCceeEe-cccc-ccccccccHHHHHHhhhhhhhhccccCCceEE
Confidence 9999999999999999999998 7999999999999998875 4553 3456889988887776642 6999
Q ss_pred EEeCCCCcccchHHHHHHHHhhhhcCCceEEEecCCCCC-CChHHHHHHHHHHHHHHHhhC
Q 025412 194 ITSDDAGRFVCNYVYYHSLRFAEQNGTKSLFVHVPLFLT-IDEETQMQFAASLLEVLATLC 253 (253)
Q Consensus 194 ~iS~dAG~YlCN~iyY~sL~~~~~~~~~~~FVHVP~~~~-~~~e~~~~~v~~lI~~la~~~ 253 (253)
++|+|||||||||+||++|+.. +.+.+||||||+.. ...|+|.++++++| +++.|
T Consensus 158 ~~s~dagR~lc~y~y~~fl~q~---~~rslfv~VPpl~~~~tke~~~~~i~~il--~~~~c 213 (213)
T KOG4755|consen 158 EISEDAGRYLCGYVYYSFLKQK---PCRSLFVHVPPLEGACTKEVQMRVIRSIL--FLSYC 213 (213)
T ss_pred EEcCcccceechhhhhhhhhhc---ccccceEecCccccccCHHHHHHHHHHHH--HHhhC
Confidence 9999999999999999988876 68999999998876 56889999999999 77655
No 11
>PF06162 DUF976: Caenorhabditis elegans protein of unknown function (DUF976); InterPro: IPR010381 This family consists of proteins of unknown function found in Caenorhabditis species.
Probab=99.67 E-value=3.1e-16 Score=129.87 Aligned_cols=134 Identities=24% Similarity=0.349 Sum_probs=104.3
Q ss_pred ceEEEEEccc-CCCCCCCCchHHHHHHHHHHHHhcCCCCceeeceeeeeecccCCcchhHHHHHHHHhccccccccCCCc
Q 025412 42 AVTIHVTGFK-KFHGVSENPTETIVSNLREYMKKKGMPKGLILGSCNILETAGHGAVAPLYQTLQSAINEKDSESANSRR 120 (253)
Q Consensus 42 ~~~VlVTGFg-PF~~~~~NPS~~i~~~L~~~~~~~g~~~~~~i~~~~vlpv~~~~~~~~~y~~v~~~i~~~~~~~~~~~p 120 (253)
...++||||+ ||.+.+.||+..|...|... | .. . .++. -++++|+.|.+.+|++|. .+|
T Consensus 23 ~~~~vvTgF~~~fe~~nps~~viv~DEL~k~----~--~~-~-----~l~~----K~~~sYe~V~ekvpel~~----~~~ 82 (166)
T PF06162_consen 23 KKKVVVTGFDGPFEGENPSSAVIVLDELEKE----G--ED-K-----ILFF----KMEVSYEEVDEKVPELWK----EQP 82 (166)
T ss_pred ecceeEEecCCCccCCCCCcceeeHHHhhcC----C--cc-c-----eeee----eccchHHHHHHHhHHHHh----hCC
Confidence 3468899995 99875444444444888652 1 11 1 1221 367889999999999883 579
Q ss_pred cEEEEeeecCCCceeeeeEeEecCCCCCCCCCCCCCCCCccccCCCCCccccccCCCcHHHHHHHHHhC---------CC
Q 025412 121 IIWVHFGVNSGATRFAIEQQAVNEATFRCPDEMGWKPQKVPIFPADGEISRVRETSIPVEEITRTLAKK---------GY 191 (253)
Q Consensus 121 d~VIhlGva~~~~~i~lE~~A~N~~~~~~pD~~G~~p~~~~i~~~~g~~~~~~~T~lpv~~l~~~l~~~---------g~ 191 (253)
|++||||.|+..+.|.+|+.|+-. +|..||.+|+.|.+.++.-+ +. ...++|.++++.+++.+++. |+
T Consensus 83 ~~viHL~~Hs~kNtI~ieq~AFsd-GY~~~D~nG~vPegnkv~~~-~~-e~~lkt~vdce~Lvkev~E~cglDg~KyGgL 159 (166)
T PF06162_consen 83 DFVIHLASHSVKNTIYIEQKAFSD-GYCQPDKNGCVPEGNKVKCE-SE-ETVLKTFVDCEELVKEVNEKCGLDGEKYGGL 159 (166)
T ss_pred CeEEEecCCCCcceEEEEehhhcC-CCcCCCCCCcCCCCCeeccC-cc-ccccccccCHHHHHHHHHHHhcccccccCcE
Confidence 999999999999999999999998 79999999999999988542 22 24678999999999999974 67
Q ss_pred ceEEeCC
Q 025412 192 EVITSDD 198 (253)
Q Consensus 192 ~v~iS~d 198 (253)
.|+.|.|
T Consensus 160 ~Veksed 166 (166)
T PF06162_consen 160 KVEKSED 166 (166)
T ss_pred EEEecCC
Confidence 7888875
No 12
>PF06753 Bradykinin: Bradykinin; InterPro: IPR009608 This family consists of several bradykinin sequences. The skins of anuran amphibians, in addition to mucus glands, contain highly specialised poison glands, which, in reaction to stress or attack, exude a complex noxious cocktail of biologically active molecules. These secretions often contain a plethora of peptides among which bradykinin or structural variants have been identified [].; GO: 0005179 hormone activity, 0006950 response to stress, 0005576 extracellular region
Probab=58.95 E-value=3.7 Score=21.92 Aligned_cols=9 Identities=44% Similarity=0.951 Sum_probs=7.6
Q ss_pred EcccCCCCC
Q 025412 48 TGFKKFHGV 56 (253)
Q Consensus 48 TGFgPF~~~ 56 (253)
+||.||.+.
T Consensus 6 ~gftpfrgk 14 (19)
T PF06753_consen 6 PGFTPFRGK 14 (19)
T ss_pred CCCCccccc
Confidence 699999974
No 13
>PF04321 RmlD_sub_bind: RmlD substrate binding domain; InterPro: IPR005913 dTDP-4-dehydrorhamnose reductase (1.1.1.133 from EC) catalyzes the last of 4 steps in making dTDP-rhamnose, a precursor of LPS molecules such as core antigen and O-antigen. dTDP-6-deoxy-L-mannose + NADP+ = dTDP-4-dehydro-6-deoxy-L-mannose + NADPH ; GO: 0008831 dTDP-4-dehydrorhamnose reductase activity, 0045226 extracellular polysaccharide biosynthetic process; PDB: 2YDX_D 2YDY_A 3SC6_C 1VL0_B 2GGS_A 1KBZ_A 1KC3_A 1KC1_A 1N2S_A.
Probab=56.64 E-value=17 Score=32.64 Aligned_cols=12 Identities=0% Similarity=-0.011 Sum_probs=5.9
Q ss_pred CCCccEEEEeee
Q 025412 117 NSRRIIWVHFGV 128 (253)
Q Consensus 117 ~~~pd~VIhlGv 128 (253)
..+||+|||++-
T Consensus 49 ~~~pd~Vin~aa 60 (286)
T PF04321_consen 49 AFKPDVVINCAA 60 (286)
T ss_dssp HH--SEEEE---
T ss_pred HhCCCeEeccce
Confidence 358999999974
No 14
>PF01261 AP_endonuc_2: Xylose isomerase-like TIM barrel; InterPro: IPR012307 This TIM alpha/beta barrel structure is found in xylose isomerase (P19148 from SWISSPROT) and in endonuclease IV (P12638 from SWISSPROT, 3.1.21.2 from EC). This domain is also found in the N termini of bacterial myo-inositol catabolism proteins. These are involved in the myo-inositol catabolism pathway, and is required for growth on myo-inositol in Rhizobium leguminosarum bv. viciae []. ; PDB: 3KWS_B 3DX5_A 3CQH_B 3CQI_A 3CQK_A 3CQJ_B 2G0W_B 1DXI_A 2ZDS_D 3TVA_B ....
Probab=49.81 E-value=88 Score=25.53 Aligned_cols=73 Identities=23% Similarity=0.206 Sum_probs=44.6
Q ss_pred HHHHHHHHHhCCCceEEeCCCCccc---------c------hHHHHHHHHhhhhcCCceEEEecC---CCCCCChHHHHH
Q 025412 179 VEEITRTLAKKGYEVITSDDAGRFV---------C------NYVYYHSLRFAEQNGTKSLFVHVP---LFLTIDEETQMQ 240 (253)
Q Consensus 179 v~~l~~~l~~~g~~v~iS~dAG~Yl---------C------N~iyY~sL~~~~~~~~~~~FVHVP---~~~~~~~e~~~~ 240 (253)
.+++.+.+++.|+.+....-..... . -..+.+.+..++.-+.+.+-+|.+ .......+...+
T Consensus 29 ~~~~~~~~~~~gl~i~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~i~~a~~lg~~~i~~~~g~~~~~~~~~~~~~~~ 108 (213)
T PF01261_consen 29 AEELRRLLEDYGLKIASLHPPTNFWSPDEENGSANDEREEALEYLKKAIDLAKRLGAKYIVVHSGRYPSGPEDDTEENWE 108 (213)
T ss_dssp HHHHHHHHHHTTCEEEEEEEEESSSCTGTTSTTSSSHHHHHHHHHHHHHHHHHHHTBSEEEEECTTESSSTTSSHHHHHH
T ss_pred HHHHHHHHHHcCCeEEEEecccccccccccccCcchhhHHHHHHHHHHHHHHHHhCCCceeecCcccccccCCCHHHHHH
Confidence 5788899999999853221111111 1 335566666666668899999988 444455555555
Q ss_pred HHHHHHHHHHh
Q 025412 241 FAASLLEVLAT 251 (253)
Q Consensus 241 ~v~~lI~~la~ 251 (253)
.+.+-++.|++
T Consensus 109 ~~~~~l~~l~~ 119 (213)
T PF01261_consen 109 RLAENLRELAE 119 (213)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHHh
Confidence 55555555544
No 15
>PRK13364 protocatechuate 4,5-dioxygenase subunit beta; Provisional
Probab=49.43 E-value=38 Score=30.91 Aligned_cols=107 Identities=15% Similarity=0.232 Sum_probs=55.3
Q ss_pred HHHHHHHhccccccccCCCccEEEEee-ecCCCceeeee---EeEecCCCCCCCCCCCCCCCCc-cccCCCCCccccccC
Q 025412 101 YQTLQSAINEKDSESANSRRIIWVHFG-VNSGATRFAIE---QQAVNEATFRCPDEMGWKPQKV-PIFPADGEISRVRET 175 (253)
Q Consensus 101 y~~v~~~i~~~~~~~~~~~pd~VIhlG-va~~~~~i~lE---~~A~N~~~~~~pD~~G~~p~~~-~i~~~~g~~~~~~~T 175 (253)
|+++.+.+. +.+||+||-+| -|. ..+-.+ ..+....+....|..++-+... ++ .+..+ .
T Consensus 37 ~~~~~~~v~-------~~~PDvvVvis~dH~--~~ff~d~~p~f~i~~~~~~~g~~~~~g~~~~~~~---~~~~~-l--- 100 (278)
T PRK13364 37 FPPVREWLE-------KVKPDVAVVFYNDHG--LNFFLDKMPTFAVGAAPEYSNADEGWGIPTLAPF---KGDTE-L--- 100 (278)
T ss_pred HHHHHHHHH-------HhCCCEEEEECCchH--hhhccccCCeEEEeeCceecCChhhcCCCCCCCC---CCCHH-H---
Confidence 445555444 57899999999 432 333334 5555554433344333222111 11 11110 0
Q ss_pred CCcHHHHHHHHHhCCCceEEeCCCCcccchHHHHHHHHhhhh---cCCceEEEecCC
Q 025412 176 SIPVEEITRTLAKKGYEVITSDDAGRFVCNYVYYHSLRFAEQ---NGTKSLFVHVPL 229 (253)
Q Consensus 176 ~lpv~~l~~~l~~~g~~v~iS~dAG~YlCN~iyY~sL~~~~~---~~~~~~FVHVP~ 229 (253)
.+++.+.+.+.|+++..|++.+. .+=.+--|++... .+.|.+=|-++.
T Consensus 101 ---A~~i~~~l~~~gid~~~~~~~~l---DHG~~vPL~~l~~~~d~~~pvVpv~ln~ 151 (278)
T PRK13364 101 ---SWHIIESLVEEEFDITTCQEMLV---DHAFTLPLELFWPGRDYPVKVVPVCINT 151 (278)
T ss_pred ---HHHHHHHHHHcCCCeecccCCCC---CcchhhhHHHhCcccCCCCCEEEEEeec
Confidence 25778888899999988876543 3333344444321 124565555533
No 16
>PLN02778 3,5-epimerase/4-reductase
Probab=41.57 E-value=82 Score=28.35 Aligned_cols=24 Identities=8% Similarity=0.117 Sum_probs=17.0
Q ss_pred CCceEEEEEcccCCCCCCCCchHHHHHHHH
Q 025412 40 PPAVTIHVTGFKKFHGVSENPTETIVSNLR 69 (253)
Q Consensus 40 ~~~~~VlVTGFgPF~~~~~NPS~~i~~~L~ 69 (253)
+..++|||||=.-|-| ..+++.|.
T Consensus 7 ~~~~kiLVtG~tGfiG------~~l~~~L~ 30 (298)
T PLN02778 7 SATLKFLIYGKTGWIG------GLLGKLCQ 30 (298)
T ss_pred CCCCeEEEECCCCHHH------HHHHHHHH
Confidence 4567999999888876 33555554
No 17
>PRK10667 Hha toxicity attenuator; Provisional
Probab=38.74 E-value=38 Score=27.10 Aligned_cols=43 Identities=26% Similarity=0.417 Sum_probs=30.5
Q ss_pred cccchHHHHHHHHhhhhcCCceEEEecCCCCCCChHHHHHHHHHHHHHHHh
Q 025412 201 RFVCNYVYYHSLRFAEQNGTKSLFVHVPLFLTIDEETQMQFAASLLEVLAT 251 (253)
Q Consensus 201 ~YlCN~iyY~sL~~~~~~~~~~~FVHVP~~~~~~~e~~~~~v~~lI~~la~ 251 (253)
.|||+.+|=.++.... ....|+|+=|..+ ...+ +.+||+.||.
T Consensus 15 kyLCe~L~~e~i~~L~--~s~hgWvNDptS~-----~nlq-LNeLIEHIa~ 57 (122)
T PRK10667 15 KFLCETLYHECLANLG--ESNHGWVNDPTSA-----VNLQ-LNELIEHIAT 57 (122)
T ss_pred HHHHHHHHHHHHHHhc--cCCCCCcCCCchH-----hhhh-HHHHHHHHHH
Confidence 5999999999998774 3567888766533 2222 6788888775
No 18
>COG1091 RfbD dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]
Probab=34.41 E-value=70 Score=29.37 Aligned_cols=15 Identities=7% Similarity=0.138 Sum_probs=11.8
Q ss_pred CCCccEEEEeeecCC
Q 025412 117 NSRRIIWVHFGVNSG 131 (253)
Q Consensus 117 ~~~pd~VIhlGva~~ 131 (253)
+.+||+|||..-...
T Consensus 48 ~~~PDvVIn~AAyt~ 62 (281)
T COG1091 48 ETRPDVVINAAAYTA 62 (281)
T ss_pred hhCCCEEEECccccc
Confidence 478999999886543
No 19
>PRK09620 hypothetical protein; Provisional
Probab=32.87 E-value=1.6e+02 Score=25.86 Aligned_cols=22 Identities=0% Similarity=0.036 Sum_probs=16.2
Q ss_pred CCccEEEEeeecCCCceeeeeEeEe
Q 025412 118 SRRIIWVHFGVNSGATRFAIEQQAV 142 (253)
Q Consensus 118 ~~pd~VIhlGva~~~~~i~lE~~A~ 142 (253)
.++|+|||+.- -..+++|+.+-
T Consensus 86 ~~~D~VIH~AA---vsD~~~~~~~~ 107 (229)
T PRK09620 86 EKVDAVIMAAA---GSDWVVDKICD 107 (229)
T ss_pred cCCCEEEECcc---ccceecccccc
Confidence 57899999964 36777877553
No 20
>PF10757 YbaJ: Biofilm formation regulator YbaJ; InterPro: IPR019693 YbaJ regulates biofilm formation. It also has an important role in the regulation of motility in the biofilm. YbaJ functions in increasing conjugation, aggregation and decreasing the motility, resulting in an increase of biofilm [].
Probab=31.92 E-value=43 Score=26.84 Aligned_cols=43 Identities=19% Similarity=0.394 Sum_probs=30.6
Q ss_pred cccchHHHHHHHHhhhhcCCceEEEecCCCCCCChHHHHHHHHHHHHHHHh
Q 025412 201 RFVCNYVYYHSLRFAEQNGTKSLFVHVPLFLTIDEETQMQFAASLLEVLAT 251 (253)
Q Consensus 201 ~YlCN~iyY~sL~~~~~~~~~~~FVHVP~~~~~~~e~~~~~v~~lI~~la~ 251 (253)
.|||+.+|=.++.-.. +...|+|+=|... ...+ +.+||+.||.
T Consensus 15 k~LCe~L~~e~~~~L~--~s~~gWvNDptS~-----~nlq-LNeLIEHIA~ 57 (122)
T PF10757_consen 15 KYLCESLYDEAIATLG--DSHHGWVNDPTSA-----VNLQ-LNELIEHIAA 57 (122)
T ss_pred HHHHHHHHHHHHHHhc--cCCCCCcCCCchh-----hhhh-HHHHHHHHHH
Confidence 6999999999998764 4567888876543 2222 5778887774
No 21
>PF00994 MoCF_biosynth: Probable molybdopterin binding domain; InterPro: IPR001453 Eukaryotic and prokaryotic molybdoenzymes require a molybdopterin cofactor (MoCF) for their activity. The biosynthesis of this cofactor involves a complex multistep enzymatic pathway. One of the eukaryotic proteins involved in this pathway is the Drosophila protein cinnamon [] which is highly similar to gephyrin, a rat microtubule-associated protein which was thought to anchor the glycine receptor to subsynaptic microtubules. Cinnamon and gephyrin are evolutionary related, in their N-terminal half, to the Escherichia coli MoCF biosynthesis proteins mog/chlG and moaB/chlA2 and, in their C-terminal half, to E. coli moeA/chlE.; GO: 0006777 Mo-molybdopterin cofactor biosynthetic process; PDB: 3TCR_B 1O8O_B 1O8Q_G 1EAV_D 1O8N_C 1UUX_A 1UUY_A 2G2C_A 2G4R_C 3K6A_F ....
Probab=31.41 E-value=1.6e+02 Score=23.40 Aligned_cols=66 Identities=17% Similarity=0.183 Sum_probs=36.2
Q ss_pred EEEEcccCCCCCCCCchHHHHHHHHHHHHhcCCCCceeeceeeeeecccCCcchhHHHHHHHHhccccccccCCCccEEE
Q 025412 45 IHVTGFKKFHGVSENPTETIVSNLREYMKKKGMPKGLILGSCNILETAGHGAVAPLYQTLQSAINEKDSESANSRRIIWV 124 (253)
Q Consensus 45 VlVTGFgPF~~~~~NPS~~i~~~L~~~~~~~g~~~~~~i~~~~vlpv~~~~~~~~~y~~v~~~i~~~~~~~~~~~pd~VI 124 (253)
|+.||-+=..+...|.+...+.++-+ .. +.++....++| + -.+.+.+++.+.. .+.|+||
T Consensus 2 Ii~~GdEl~~g~~~d~n~~~l~~~l~---~~----G~~v~~~~~v~----D----d~~~i~~~l~~~~-----~~~D~Vi 61 (144)
T PF00994_consen 2 IISTGDELLSGQIRDSNGPFLAALLE---EL----GIEVIRYGIVP----D----DPDAIKEALRRAL-----DRADLVI 61 (144)
T ss_dssp EEEECHHHHTTSSEBHHHHHHHHHHH---HT----TEEEEEEEEEE----S----SHHHHHHHHHHHH-----HTTSEEE
T ss_pred EEEECccCcCCceEEhHHHHHHHHHH---Hc----CCeeeEEEEEC----C----CHHHHHHHHHhhh-----ccCCEEE
Confidence 67788777777777776655554433 23 34444444454 1 2234444443211 2349999
Q ss_pred EeeecC
Q 025412 125 HFGVNS 130 (253)
Q Consensus 125 hlGva~ 130 (253)
..|=-+
T Consensus 62 ttGG~g 67 (144)
T PF00994_consen 62 TTGGTG 67 (144)
T ss_dssp EESSSS
T ss_pred EcCCcC
Confidence 998543
No 22
>PRK09987 dTDP-4-dehydrorhamnose reductase; Provisional
Probab=30.43 E-value=85 Score=28.11 Aligned_cols=20 Identities=20% Similarity=0.107 Sum_probs=13.6
Q ss_pred EEEEEcccCCCCCCCCchHHHHHHHH
Q 025412 44 TIHVTGFKKFHGVSENPTETIVSNLR 69 (253)
Q Consensus 44 ~VlVTGFgPF~~~~~NPS~~i~~~L~ 69 (253)
+|||||=.-|-| ..+++.|.
T Consensus 2 ~iLVtG~~GfiG------s~l~~~L~ 21 (299)
T PRK09987 2 NILLFGKTGQVG------WELQRALA 21 (299)
T ss_pred eEEEECCCCHHH------HHHHHHhh
Confidence 799999766665 33555554
No 23
>cd07949 PCA_45_Doxase_B_like_1 The B subunit of unknown Class III extradiol dioxygenases with similarity to Protocatechuate 4,5-dioxygenase. This subfamily is composed of proteins of unknown function with similarity to the B subunit of Protocatechuate 4,5-dioxygenase (LigAB). LigAB belongs to the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Dioxygenases play key roles in the degradation of aromatic compounds. LigAB-like enzymes are usually composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. This model represents the catalytic subunit, B.
Probab=29.47 E-value=1.3e+02 Score=27.24 Aligned_cols=21 Identities=10% Similarity=0.265 Sum_probs=16.7
Q ss_pred HHHHHHHHhCCCceEEeCCCC
Q 025412 180 EEITRTLAKKGYEVITSDDAG 200 (253)
Q Consensus 180 ~~l~~~l~~~g~~v~iS~dAG 200 (253)
+++.+.+.+.|+++..+.+-|
T Consensus 102 ~~i~~~~~~~g~d~~~~~~~~ 122 (276)
T cd07949 102 WHLIESLVEDEFDITTCQEML 122 (276)
T ss_pred HHHHHHHHHcCCCeeccCCCC
Confidence 577888889999998886554
No 24
>PF02662 FlpD: Methyl-viologen-reducing hydrogenase, delta subunit; InterPro: IPR003813 Methyl-viologen-reducing hydrogenase (MVH) is one of the enzymes involved in methanogenesis and coded in the mth-flp-mvh-mrt cluster of methane genes in Methanothermobacter thermautotrophicus (Methanobacterium thermoformicicum) []. No specific functions have been assigned to the delta subunit.; GO: 0015948 methanogenesis, 0055114 oxidation-reduction process
Probab=29.21 E-value=74 Score=25.31 Aligned_cols=39 Identities=23% Similarity=0.372 Sum_probs=30.0
Q ss_pred cccchHHHHHHHHhhhh----cCCceEEEecCCCCCCChHHHH
Q 025412 201 RFVCNYVYYHSLRFAEQ----NGTKSLFVHVPLFLTIDEETQM 239 (253)
Q Consensus 201 ~YlCN~iyY~sL~~~~~----~~~~~~FVHVP~~~~~~~e~~~ 239 (253)
-|+||+..|.++..+.. .+..+--|.||....++.+-..
T Consensus 4 ~F~C~~~ay~aad~ag~~~~~~p~~vriIrvpC~Grv~~~~il 46 (124)
T PF02662_consen 4 AFCCNWCAYAAADLAGVSRLQYPPNVRIIRVPCSGRVDPEFIL 46 (124)
T ss_pred EEEeCCCcHHHHHHHhhccCCCCCCeEEEEccCCCccCHHHHH
Confidence 38999999999987652 2455789999999988875443
No 25
>PRK13366 protocatechuate 4,5-dioxygenase subunit beta; Provisional
Probab=28.88 E-value=1.3e+02 Score=27.46 Aligned_cols=101 Identities=14% Similarity=0.210 Sum_probs=49.9
Q ss_pred CCCccEEEEeeecCCCceeee---eEeEecCCCCCCCCCCCCCCCCccccCCCCCccccccCCCcHHHHHHHHHhCCCce
Q 025412 117 NSRRIIWVHFGVNSGATRFAI---EQQAVNEATFRCPDEMGWKPQKVPIFPADGEISRVRETSIPVEEITRTLAKKGYEV 193 (253)
Q Consensus 117 ~~~pd~VIhlGva~~~~~i~l---E~~A~N~~~~~~pD~~G~~p~~~~i~~~~g~~~~~~~T~lpv~~l~~~l~~~g~~v 193 (253)
..+||.||-+|-... ..+.+ -+.++...+--.+|..++-+.+.+-.+ |..+ . -+++.+.+.+.|+++
T Consensus 46 ~~~PDvvVii~~dH~-~~f~~d~~P~f~Ig~~~~~~~~~~~~g~~~v~~~~--g~~e-L------A~~i~~~l~~~g~~~ 115 (284)
T PRK13366 46 EEKPDVIFLVYNDHA-TAFSLDIIPTFAIGTAAEYQPADEGWGPRPVPKVI--GHPD-L------AAHIAQSVIQDDFDL 115 (284)
T ss_pred HhCCCEEEEEcCCcH-HhhcccCCCceEEeeCceecCcccccCCCCCCCCC--CCHH-H------HHHHHHHHHHCCCCE
Confidence 478999998865432 22222 133333332222444443332222111 1111 0 257888889999999
Q ss_pred EEeCCCCcccchHHHHHHHHhhhh----cCCceEEEecCCC
Q 025412 194 ITSDDAGRFVCNYVYYHSLRFAEQ----NGTKSLFVHVPLF 230 (253)
Q Consensus 194 ~iS~dAG~YlCN~iyY~sL~~~~~----~~~~~~FVHVP~~ 230 (253)
..+.+-|. .+=.+--|++... .+.|++=|-|...
T Consensus 116 ~~~~~~~l---DHG~~vPL~~l~p~~~~~~ipvVpisvn~~ 153 (284)
T PRK13366 116 TIVNKMDV---DHGLTVPLSLMCGQPDAWPCPVIPFAVNVV 153 (284)
T ss_pred eecCCCCC---CccHHHHHHHhCccccCCCCceEEEeeccC
Confidence 98876542 2333333444321 1256666644443
No 26
>cd03522 MoeA_like MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is unknown.
Probab=27.18 E-value=2.7e+02 Score=25.81 Aligned_cols=78 Identities=18% Similarity=0.114 Sum_probs=41.5
Q ss_pred CceEEEEEcccCCCCCCCCchHHHHHHHHHHHHhcCCCCceeeceeeeeecccCCcchhHHHHHHHHhccccccccCCCc
Q 025412 41 PAVTIHVTGFKKFHGVSENPTETIVSNLREYMKKKGMPKGLILGSCNILETAGHGAVAPLYQTLQSAINEKDSESANSRR 120 (253)
Q Consensus 41 ~~~~VlVTGFgPF~~~~~NPS~~i~~~L~~~~~~~g~~~~~~i~~~~vlpv~~~~~~~~~y~~v~~~i~~~~~~~~~~~p 120 (253)
..+.|+.||-+.+.+...|.+..++++.- ...| .++....++| ...+.+.+++.++. ....
T Consensus 160 ~rv~II~TG~Ev~~G~i~D~~~~~l~~~L---~~~G----~~v~~~~iv~--------Dd~~~I~~ai~~~~----~~g~ 220 (312)
T cd03522 160 LRVGLIVTGSEVYGGRIEDKFGPVLRARL---AALG----VELVEQVIVP--------HDEAAIAAAIAEAL----EAGA 220 (312)
T ss_pred CEEEEEEcCCcCCCCcEEEhHHHHHHHHH---HHCC----CEEEEEEEcC--------CCHHHHHHHHHHHh----cCCC
Confidence 45678999999988876676665555432 2233 2333333333 11234444443321 1236
Q ss_pred cEEEEeeecC-CCceeee
Q 025412 121 IIWVHFGVNS-GATRFAI 137 (253)
Q Consensus 121 d~VIhlGva~-~~~~i~l 137 (253)
|+||..|-.+ +...++.
T Consensus 221 DlIItTGGtsvg~~D~tp 238 (312)
T cd03522 221 ELLILTGGASVDPDDVTP 238 (312)
T ss_pred CEEEEeCCcccCCcchHH
Confidence 8888887654 3444433
No 27
>PF09419 PGP_phosphatase: Mitochondrial PGP phosphatase; InterPro: IPR010021 This group of hypothetical proteins is a part of the IIIA subfamily of the haloacid dehalogenase (HAD) superfamily of hydrolases. All characterised members of this subfamily and most characterised members of the HAD superfamily are phosphatases. HAD superfamily phosphatases contain active site residues in several conserved catalytic motifs [], all of which are found conserved here. This family consists of sequences from fungi, plants, cyanobacteria, Gram-positive bacteria and Deinococcus. There is presently no characterisation of any sequence in this family.
Probab=26.59 E-value=1.4e+02 Score=25.23 Aligned_cols=48 Identities=19% Similarity=0.087 Sum_probs=31.3
Q ss_pred cHHHHHHHHHhCCCc---eEEeCCCCcccchHHHHHHHHhhhhcCCceEEEec
Q 025412 178 PVEEITRTLAKKGYE---VITSDDAGRFVCNYVYYHSLRFAEQNGTKSLFVHV 227 (253)
Q Consensus 178 pv~~l~~~l~~~g~~---v~iS~dAG~YlCN~iyY~sL~~~~~~~~~~~FVHV 227 (253)
++.++++++++.+.. +-+||+||+.- ..-+-++-...+..+++ +|.|-
T Consensus 63 ~~~~~~~~l~~~~~~~~v~IvSNsaGs~~-d~~~~~a~~~~~~lgIp-vl~h~ 113 (168)
T PF09419_consen 63 EYAEWLNELKKQFGKDRVLIVSNSAGSSD-DPDGERAEALEKALGIP-VLRHR 113 (168)
T ss_pred HHHHHHHHHHHHCCCCeEEEEECCCCccc-CccHHHHHHHHHhhCCc-EEEeC
Confidence 367889999988776 67999999887 44444444444333444 45553
No 28
>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways. Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process
Probab=23.95 E-value=72 Score=26.29 Aligned_cols=21 Identities=29% Similarity=0.578 Sum_probs=17.7
Q ss_pred eCCCCcccchHHHHHHHHhhh
Q 025412 196 SDDAGRFVCNYVYYHSLRFAE 216 (253)
Q Consensus 196 S~dAG~YlCN~iyY~sL~~~~ 216 (253)
=+.||.|+.|=.||++|-...
T Consensus 41 IDTPGEyiE~~~~y~aLi~ta 61 (143)
T PF10662_consen 41 IDTPGEYIENPRFYHALIVTA 61 (143)
T ss_pred EECChhheeCHHHHHHHHHHH
Confidence 366999999999999997643
No 29
>PF10542 Vitelline_membr: Vitelline membrane cysteine-rich region; InterPro: IPR013135 In Drosophila melanogaster (Fruit fly) the vitelline membrane (VM) is the first layer of the eggshell produced by the follicular epithelium. It is composed of at least four different proteins. VM proteins are similarly organised with a central highly conserved 38-amino acid domain which is flanked by unrelated regions. Since the surrounding regions have diverged significantly, it is possible that the VM domain is of key importance in VM protein structure [, ]. The VM domain contains three highly conserved cysteines.
Probab=23.60 E-value=38 Score=21.49 Aligned_cols=7 Identities=71% Similarity=1.483 Sum_probs=5.1
Q ss_pred eeEEeee
Q 025412 4 VYVFSCR 10 (253)
Q Consensus 4 ~~~~~~~ 10 (253)
-|+|||.
T Consensus 10 nY~FSCq 16 (38)
T PF10542_consen 10 NYVFSCQ 16 (38)
T ss_pred ceeEecc
Confidence 3788885
No 30
>cd04864 LigD_Pol_like_1 LigD_Pol_like_1: Polymerase (Pol) domain of mostly bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 1. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-homologous end joining (NHEJ)-mediated repair of DNA double-strand breaks (DSB). NHEJ-mediated DNA DSB repair is error-prone. It has been suggested that LigD Pol contributes to NHEJ-mediated DNA DSB repair in vivo, by filling in short 5'-overhangs with ribonucleotides; the filled in termini would then be sealed by the associated LigD ligase domain, resulting in short stretches of RNA incorporated into the genomic DNA. The Pol domains of PaeLigD and Mycobacterium tuberculosis (Mt)LigD are stimulated by manganese, are error-prone, and prefer adding rNTPs to dNTPs in vitro; however PaeLigD and MtLigD belong to other subgroups, proteins in this subgroup await functional characterization.
Probab=23.03 E-value=1.6e+02 Score=26.33 Aligned_cols=35 Identities=31% Similarity=0.318 Sum_probs=28.9
Q ss_pred cCCceEEEecCCCCCCChHHHHHHHHHHHHHHHhh
Q 025412 218 NGTKSLFVHVPLFLTIDEETQMQFAASLLEVLATL 252 (253)
Q Consensus 218 ~~~~~~FVHVP~~~~~~~e~~~~~v~~lI~~la~~ 252 (253)
.+.+.++|.||--+...-+..++|+..|-+.|++.
T Consensus 140 SG~kGlHv~vPl~~~~~~~~~r~fa~~lA~~l~~~ 174 (228)
T cd04864 140 TGSRGFHVVVPLDGRGDFDDVRAFAAEAADALAKR 174 (228)
T ss_pred cCCCeEEEEEEcCCCCCHHHHHHHHHHHHHHHHHH
Confidence 35688999999998888788888888888877754
No 31
>cd04861 LigD_Pol_like LigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-homologous end joining (NHEJ)-mediated repair of DNA double-strand breaks (DSB). NHEJ-mediated DNA DSB repair is error-prone. PaeLigD is monomeric, containing an N-terminal phosphoesterase module, a central polymerase (Pol) domain, and a C-terminal ATP-dependent ligase domain. Mycobacterium tuberculosis (Mt)LigD, also found in this group, is monomeric and contains the same modules but these are arranged differently: an N-terminal Pol domain, a central phosphoesterase module, and a C-terminal ligase domain. It has been suggested that LigD Pol contributes to NHEJ-mediated DNA DSB repair in vivo, by filling in short 5'-overhangs with ribonucleotides; the filled in termini would then be sealed by the associated LigD ligase do
Probab=23.01 E-value=1.5e+02 Score=26.47 Aligned_cols=36 Identities=33% Similarity=0.325 Sum_probs=29.7
Q ss_pred hcCCceEEEecCCCCCCChHHHHHHHHHHHHHHHhh
Q 025412 217 QNGTKSLFVHVPLFLTIDEETQMQFAASLLEVLATL 252 (253)
Q Consensus 217 ~~~~~~~FVHVP~~~~~~~e~~~~~v~~lI~~la~~ 252 (253)
..+.+.++|.||--+...-+..++|+..+-+.|++.
T Consensus 138 TSG~kGlHV~vPl~~~~~~~~~r~fa~~iA~~l~~~ 173 (227)
T cd04861 138 TSGGKGLHVYVPLAPRYTWDEVRAFAKALARELARR 173 (227)
T ss_pred ccCCCeEEEEEEcCCCCCHHHHHHHHHHHHHHHHHH
Confidence 335688999999998888888888888888888764
No 32
>cd07950 Gallate_Doxase_N The N-terminal domain of the Class III extradiol dioxygenase, Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate. Gallate Dioxygenase catalyzes the oxidization and subsequent ring-opening of gallate, an intermediate in the degradation of the aromatic compound, syringate. The reaction product of gallate dioxygenase is 4-oxalomesaconate. The amino acid sequence of the N-terminal and C-terminal regions of gallate dioxygenase exhibits homology with the sequence of PCA 4,5-dioxygenase B (catalytic) and A subunits, respectively. The enzyme is estimated to be a homodimer according to the Escherichia coli enzyme. LigAB-like enzymes are usually composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. In this subfamily, the subunits A and B are fused to make a single polypeptide chain. The dimer interface for this subfamily may resemble the tetramer interface of classical LigAB en
Probab=22.67 E-value=1.9e+02 Score=26.29 Aligned_cols=20 Identities=15% Similarity=0.355 Sum_probs=15.1
Q ss_pred HHHHHHHHhCCCceEEeCCC
Q 025412 180 EEITRTLAKKGYEVITSDDA 199 (253)
Q Consensus 180 ~~l~~~l~~~g~~v~iS~dA 199 (253)
++|.+.+.+.|+++..+.+-
T Consensus 102 ~~i~~~~~~~g~~~~~~~~~ 121 (277)
T cd07950 102 QHIAESLVADEFDLTFFQDK 121 (277)
T ss_pred HHHHHHHHhcCCCeeeccCC
Confidence 57778888889998776444
No 33
>cd04863 MtLigD_Pol_like MtLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Mycobacterium tuberculosis (Mt)LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-homologous end joining (NHEJ)-mediated repair of DNA double-strand breaks (DSB). NHEJ-mediated DNA DSB repair is error-prone. MtLigD is monomeric and contains an N-terminal Pol domain, a central phosphoesterase module, and a C-terminal ligase domain. It has been suggested that LigD Pol contributes to NHEJ-mediated DNA DSB repair in vivo, by filling in short 5'-overhangs with ribonucleotides; the filled in termini would then be sealed by the associated LigD ligase domain, resulting in short stretches of RNA incorporated into the genomic DNA. The MtLigD Pol domain is stimulated by manganese, is error-prone, and prefers adding rNTPs to dNTPs in vitro. The MtLigD Pol domain has been shown to prefer DNA gapped substrates
Probab=22.62 E-value=1.5e+02 Score=26.47 Aligned_cols=36 Identities=28% Similarity=0.385 Sum_probs=29.4
Q ss_pred hcCCceEEEecCCCCCCChHHHHHHHHHHHHHHHhh
Q 025412 217 QNGTKSLFVHVPLFLTIDEETQMQFAASLLEVLATL 252 (253)
Q Consensus 217 ~~~~~~~FVHVP~~~~~~~e~~~~~v~~lI~~la~~ 252 (253)
..+.+.++|.||--+...-+..++|+..+-+.|++.
T Consensus 142 TSG~kGlHV~vPl~~~~~~~~vr~fa~~~A~~l~~~ 177 (231)
T cd04863 142 TSGSKGLHLYVPLDGPVSSDQTKEFAKALARELERE 177 (231)
T ss_pred CCCCCeEEEEEEcCCCCCHHHHHHHHHHHHHHHHHH
Confidence 345688999999999888888888888888887764
No 34
>PF13983 YsaB: YsaB-like lipoprotein
Probab=21.83 E-value=42 Score=24.44 Aligned_cols=14 Identities=57% Similarity=1.009 Sum_probs=12.0
Q ss_pred ceEEEEEcccCCCC
Q 025412 42 AVTIHVTGFKKFHG 55 (253)
Q Consensus 42 ~~~VlVTGFgPF~~ 55 (253)
.-+|-||||+.|.|
T Consensus 34 ~q~idv~~FeqfQg 47 (77)
T PF13983_consen 34 AQKIDVTGFEQFQG 47 (77)
T ss_pred ceeEeecchhhhcc
Confidence 34799999999987
No 35
>cd04862 PaeLigD_Pol_like PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-homologous end joining (NHEJ)-mediated repair of DNA double-strand breaks (DSB). NHEJ-mediated DNA DSB repair is error-prone. PaeLigD is monomeric, containing an N-terminal phosphoesterase module, a central polymerase (Pol) domain, and a C-terminal ATP-dependent ligase domain. It has been suggested that LigD Pol contributes to NHEJ-mediated DNA DSB repair in vivo, by filling in short 5'-overhangs with ribonucleotides; the filled in termini would then be sealed by the associated LigD ligase domain, resulting in short stretches of RNA incorporated into the genomic DNA. The PaeLigD Pol domain in vitro, in a manganese-dependent fashion, catalyzes templated extensions of 5'-overhang duplex DNA, and nontemplated single-nu
Probab=21.61 E-value=1.7e+02 Score=26.02 Aligned_cols=35 Identities=34% Similarity=0.358 Sum_probs=29.1
Q ss_pred cCCceEEEecCCCCCCChHHHHHHHHHHHHHHHhh
Q 025412 218 NGTKSLFVHVPLFLTIDEETQMQFAASLLEVLATL 252 (253)
Q Consensus 218 ~~~~~~FVHVP~~~~~~~e~~~~~v~~lI~~la~~ 252 (253)
.+.+.++|.||--+..+-+..++|+..|-+.|++.
T Consensus 139 SG~kGlHV~vPl~~~~~~~~~r~fa~~lA~~l~~~ 173 (227)
T cd04862 139 SGGKGLHVVVPLAPRAGWDEVKAFAKALAQHLART 173 (227)
T ss_pred cCCCeEEEEEEcCCCCCHHHHHHHHHHHHHHHHHH
Confidence 35688999999998888888888888888887764
No 36
>PF04127 DFP: DNA / pantothenate metabolism flavoprotein; InterPro: IPR007085 This entry represents the C-terminal domain found in DNA/pantothenate metabolism flavoproteins, which affects synthesis of DNA and pantothenate metabolism. These proteins contain ATP, phosphopantothenate, and cysteine binding sites. The structure of this domain has been determined in human phosphopantothenoylcysteine (PPC) synthetase [] and as the PPC synthase domain (CoaB) from the Escherichia coli coenzyme A bifunctional protein CoaBC []. This domain adopts a 3-layer alpha/beta/alpha fold with mixed beta-sheets, which topologically resembles a combination of Rossmann-like and ribokinase-like folds. The structure of these proteins predicts a ping pong mechanism with initial formation of an acyladenylate intermediate, followed by release of pyrophosphate and attack by cysteine to form the final products PPC and AMP. ; PDB: 1U7W_A 1U7U_A 1U80_C 1U7Z_A 1P9O_B 2GK4_A.
Probab=20.79 E-value=1.7e+02 Score=24.87 Aligned_cols=80 Identities=11% Similarity=0.183 Sum_probs=37.6
Q ss_pred eEEEEEcc---cCCCCC---CCCchHHHHHHHHHHHHhcCCCCceeeceee----------eeecccCCcchhHHHHHHH
Q 025412 43 VTIHVTGF---KKFHGV---SENPTETIVSNLREYMKKKGMPKGLILGSCN----------ILETAGHGAVAPLYQTLQS 106 (253)
Q Consensus 43 ~~VlVTGF---gPF~~~---~~NPS~~i~~~L~~~~~~~g~~~~~~i~~~~----------vlpv~~~~~~~~~y~~v~~ 106 (253)
.+||||+= +|...+ .-.+|.....+|.+.....| ..++++... +++| +....+++.+.+
T Consensus 4 k~vlITaG~T~E~iD~VR~ItN~SSG~~G~~lA~~~~~~G--a~V~li~g~~~~~~p~~~~~i~v---~sa~em~~~~~~ 78 (185)
T PF04127_consen 4 KKVLITAGPTREPIDPVRFITNRSSGKMGAALAEEAARRG--AEVTLIHGPSSLPPPPGVKVIRV---ESAEEMLEAVKE 78 (185)
T ss_dssp -EEEEEESB-EEESSSSEEEEES--SHHHHHHHHHHHHTT---EEEEEE-TTS----TTEEEEE----SSHHHHHHHHHH
T ss_pred CEEEEECCCccccCCCceEecCCCcCHHHHHHHHHHHHCC--CEEEEEecCccccccccceEEEe---cchhhhhhhhcc
Confidence 48999983 444433 33455666666666554444 233332211 1221 223455666665
Q ss_pred HhccccccccCCCccEEEEeeecCCCceeeeeE
Q 025412 107 AINEKDSESANSRRIIWVHFGVNSGATRFAIEQ 139 (253)
Q Consensus 107 ~i~~~~~~~~~~~pd~VIhlGva~~~~~i~lE~ 139 (253)
.++ ..|++||..- -..++++.
T Consensus 79 ~~~---------~~Di~I~aAA---VsDf~p~~ 99 (185)
T PF04127_consen 79 LLP---------SADIIIMAAA---VSDFRPEE 99 (185)
T ss_dssp HGG---------GGSEEEE-SB-----SEEESC
T ss_pred ccC---------cceeEEEecc---hhheeehh
Confidence 544 2388888654 34455544
No 37
>TIGR02778 ligD_pol DNA polymerase LigD, polymerase domain. DNA repair of double-stranded breaks by non-homologous end joining (NHEJ) is accomplished by a two-protein system that is present in a minority of prokaryotes. One component is the Ku protein (see TIGR02772), which binds DNA ends. The other is a DNA ligase, a protein that is a multidomain polypeptide in most of those bacteria that have NHEJ, a permuted polypeptide in Mycobacterium tuberculosis and a few other species, and the product of tandem genes in some other bacteria. This model represents the polymerase domain.
Probab=20.74 E-value=1.8e+02 Score=26.29 Aligned_cols=35 Identities=37% Similarity=0.441 Sum_probs=28.9
Q ss_pred cCCceEEEecCCCCCCChHHHHHHHHHHHHHHHhh
Q 025412 218 NGTKSLFVHVPLFLTIDEETQMQFAASLLEVLATL 252 (253)
Q Consensus 218 ~~~~~~FVHVP~~~~~~~e~~~~~v~~lI~~la~~ 252 (253)
.+.+.++|.||--+...-+..++|+..+-+.|++.
T Consensus 155 SG~kGlHV~vPl~~~~~~~~~r~fa~~iA~~l~~~ 189 (245)
T TIGR02778 155 SGGKGLHVYVPLRPTLSWDEVKDFAKALAQALAQQ 189 (245)
T ss_pred cCCCeEEEEEECCCCCCHHHHHHHHHHHHHHHHHH
Confidence 35688999999999888788888888888887764
No 38
>PF13866 zf-SAP30: SAP30 zinc-finger; PDB: 2KDP_A 2LD7_A.
Probab=20.57 E-value=90 Score=23.19 Aligned_cols=32 Identities=19% Similarity=0.419 Sum_probs=18.5
Q ss_pred HHHHHHHHhCCCceEEeCCCCc-ccchHHHHHH
Q 025412 180 EEITRTLAKKGYEVITSDDAGR-FVCNYVYYHS 211 (253)
Q Consensus 180 ~~l~~~l~~~g~~v~iS~dAG~-YlCN~iyY~s 211 (253)
+.+.+.+...+++..+-.+|++ |+|+|-.=..
T Consensus 32 KRiqktv~Qk~lKL~~d~sa~H~YiCd~Hk~~I 64 (78)
T PF13866_consen 32 KRIQKTVAQKKLKLNIDKSARHIYICDFHKNMI 64 (78)
T ss_dssp HHHHHHHHHH--SEEE-TT-S-----HHHHHHH
T ss_pred HHHHHHHHHhccceeeccccchhhHHHHHHHHH
Confidence 5788888888999998888887 9999865433
No 39
>PRK09989 hypothetical protein; Provisional
Probab=20.33 E-value=5.7e+02 Score=22.14 Aligned_cols=75 Identities=15% Similarity=0.095 Sum_probs=38.7
Q ss_pred CcHHHHHHHHHhCCCceEEeCCC------Ccc---cch-------HHHHHHHHhhhhcCCceEEEecCCCCC-CChHHHH
Q 025412 177 IPVEEITRTLAKKGYEVITSDDA------GRF---VCN-------YVYYHSLRFAEQNGTKSLFVHVPLFLT-IDEETQM 239 (253)
Q Consensus 177 lpv~~l~~~l~~~g~~v~iS~dA------G~Y---lCN-------~iyY~sL~~~~~~~~~~~FVHVP~~~~-~~~e~~~ 239 (253)
++.+++.+.+.+.|+.+.....+ |.+ .+. ..+-+++..++.-+.+.+.+|.+..+. ...+...
T Consensus 40 ~~~~~~~~~l~~~Gl~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~A~~lg~~~v~v~~g~~~~~~~~~~~~ 119 (258)
T PRK09989 40 YSTLQIQKQLEQNHLTLALFNTAPGDINAGEWGLSALPGREHEARADIDLALEYALALNCEQVHVMAGVVPAGEDAERYR 119 (258)
T ss_pred CCHHHHHHHHHHcCCcEEEeccCCCccCCCCCcccCCCccHHHHHHHHHHHHHHHHHhCcCEEEECccCCCCCCCHHHHH
Confidence 44678888899999887643321 211 011 112334444444467777777665433 2334434
Q ss_pred HHHHHHHHHHHh
Q 025412 240 QFAASLLEVLAT 251 (253)
Q Consensus 240 ~~v~~lI~~la~ 251 (253)
+.+.+-++.+++
T Consensus 120 ~~~~~~l~~l~~ 131 (258)
T PRK09989 120 AVFIDNLRYAAD 131 (258)
T ss_pred HHHHHHHHHHHH
Confidence 444444455544
No 40
>PF02900 LigB: Catalytic LigB subunit of aromatic ring-opening dioxygenase; InterPro: IPR004183 Dioxygenases catalyse the incorporation of both atoms of molecular oxygen into substrates using a variety of reaction mechanisms. Cleavage of aromatic rings is one of the most important functions of dioxygenases, which play key roles in the degradation of aromatic compounds. The substrates of ring-cleavage dioxygenases can be classified into two groups according to the mode of scission of the aromatic ring. Intradiol enzymes (IPR000627 from INTERPRO) use a non-haem Fe(III) to cleave the aromatic ring between two hydroxyl groups (ortho-cleavage), whereas extradiol enzymes use a non-haem Fe(II) to cleave the aromatic ring between a hydroxylated carbon and an adjacent non-hydroxylated carbon (meta-cleavage) [, ]. These two subfamilies differ in sequence, structural fold, iron ligands, and the orientation of second sphere active site amino acid residues. Extradiol dioxygenases are usually homo-multimeric, bind one atom of ferrous ion per subunit and have a subunit size of about 33 kDa. Extradiol dioxygenases can be divided into three classes. Class I and II enzymes (IPR000486 from INTERPRO) show sequence similarity, with the two-domain class II enzymes having evolved from a class I enzyme through gene duplication. Class III enzymes are different in sequence and structure, but they do share several common active-site characteristics with the class II enzymes, in particular the coordination sphere and the disposition of the putative catalytic base are very similar. Class III enzymes usually have two subunits, designated A and B. Enzymes that belong to the extradiol class III family include Protocatechuate 4,5-dioxygenase (4,5-PCD; LigAB) (1.13.11.8 from EC) []; and 2'-aminobiphenyl-2,3-diol 1,2-dioxygenase (CarBaBb) []. The crystal structure of dioxygenase LigAB revealed that the molecule is an alpha2beta2 tetramer. The active site contains a non-heme iron coordinated by His12, His61, Glu242, and a water molecule located in a deep cleft of the beta subunit, which is covered by the alpha subunit []. This entry represents the structural domain of subunit B.; GO: 0008198 ferrous iron binding, 0016491 oxidoreductase activity, 0006725 cellular aromatic compound metabolic process; PDB: 2PW6_A 1B4U_D 1BOU_B.
Probab=20.10 E-value=2.4e+02 Score=24.98 Aligned_cols=100 Identities=18% Similarity=0.173 Sum_probs=47.2
Q ss_pred CCCccEEEEeeecCCCc-------eeeeeEeEecCCCCCCCCCCCCCCCCccccCCCCCccccccCCCc-HHHHHHHHHh
Q 025412 117 NSRRIIWVHFGVNSGAT-------RFAIEQQAVNEATFRCPDEMGWKPQKVPIFPADGEISRVRETSIP-VEEITRTLAK 188 (253)
Q Consensus 117 ~~~pd~VIhlGva~~~~-------~i~lE~~A~N~~~~~~pD~~G~~p~~~~i~~~~g~~~~~~~T~lp-v~~l~~~l~~ 188 (253)
..+||+||.+|-+..+. .+.+.....+. .+-|..|..+....+. +....... -+++++.+++
T Consensus 39 ~~~pd~ivvis~h~~~~f~~~~~p~~~v~~~~~~~---~~~d~~gfp~~~~~~~-------~~~~g~~~la~~i~~~l~~ 108 (272)
T PF02900_consen 39 EAKPDVIVVISPHWFTNFFEDNMPAFAVGSGEEPE---GIYDFYGFPPELYEIK-------YPAPGDPELAERIAEHLRK 108 (272)
T ss_dssp STS-SEEEEEEEEECCS--TTCEECBEEE-SSEE----B-BS-----SSSBSSS---------EEB-HHHHHHHHHHHHH
T ss_pred HcCCCEEEEEeCCcchhhcccCCccEEEecCCCcc---cccccccccccccccC-------CCCCCCHHHHHHHHHHHHh
Confidence 46999999999987651 22333333222 2334333322221111 11112222 2578888999
Q ss_pred CCCceEEeCCCCcccchHHHHHHHHhhhh-cCCceEEEecCC
Q 025412 189 KGYEVITSDDAGRFVCNYVYYHSLRFAEQ-NGTKSLFVHVPL 229 (253)
Q Consensus 189 ~g~~v~iS~dAG~YlCN~iyY~sL~~~~~-~~~~~~FVHVP~ 229 (253)
+|+++..+.+-|- .+=-+.-|++... .+.|++=|-++.
T Consensus 109 ~g~~~~~~~~~~l---DHG~~vPL~~l~p~~~~Pvv~is~~~ 147 (272)
T PF02900_consen 109 AGFDVAASPERGL---DHGVWVPLYFLFPDADIPVVPISINS 147 (272)
T ss_dssp TTS-EEECSS--B----HHHHHHHHHHCTT-SSEEEEEEEET
T ss_pred cCCCEEeccCcCC---ccccceeeeecccccCcceeeeEeec
Confidence 9999877655553 2333455555432 356776666665
No 41
>cd00758 MoCF_BD MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin.
Probab=20.10 E-value=4.3e+02 Score=20.66 Aligned_cols=76 Identities=16% Similarity=0.133 Sum_probs=37.5
Q ss_pred eEEEEEcccCCCCCCCCchHHHHHHHHHHHHhcCCCCceeeceeeeeecccCCcchhHHHHHHHHhccccccccCCCccE
Q 025412 43 VTIHVTGFKKFHGVSENPTETIVSNLREYMKKKGMPKGLILGSCNILETAGHGAVAPLYQTLQSAINEKDSESANSRRII 122 (253)
Q Consensus 43 ~~VlVTGFgPF~~~~~NPS~~i~~~L~~~~~~~g~~~~~~i~~~~vlpv~~~~~~~~~y~~v~~~i~~~~~~~~~~~pd~ 122 (253)
+-|+.||-+=..+...|.+...+..+-+ ..| .++....+++ .-.+.+.+++.+.. .+.|+
T Consensus 2 v~ii~~G~El~~g~i~d~n~~~l~~~l~---~~G----~~v~~~~~v~--------Dd~~~i~~~i~~~~-----~~~Dl 61 (133)
T cd00758 2 VAIVTVSDELSQGQIEDTNGPALEALLE---DLG----CEVIYAGVVP--------DDADSIRAALIEAS-----READL 61 (133)
T ss_pred EEEEEeCccccCCceEEchHHHHHHHHH---HCC----CEEEEeeecC--------CCHHHHHHHHHHHH-----hcCCE
Confidence 4588898776666555665544444322 223 2332222222 12234444444321 23799
Q ss_pred EEEeeecC-CCceeeee
Q 025412 123 WVHFGVNS-GATRFAIE 138 (253)
Q Consensus 123 VIhlGva~-~~~~i~lE 138 (253)
||..|=.+ +...++.|
T Consensus 62 vittGG~g~g~~D~t~~ 78 (133)
T cd00758 62 VLTTGGTGVGRRDVTPE 78 (133)
T ss_pred EEECCCCCCCCCcchHH
Confidence 99997644 34444444
Done!