Query 022148
Match_columns 302
No_of_seqs 80 out of 82
Neff 2.5
Searched_HMMs 46136
Date Fri Mar 29 08:24:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022148.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022148hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05687 DUF822: Plant protein 100.0 2.2E-60 4.9E-65 406.6 13.3 132 10-141 1-144 (150)
2 PLN02905 beta-amylase 100.0 3.9E-38 8.5E-43 315.1 10.9 100 5-105 71-170 (702)
3 PLN02705 beta-amylase 100.0 7.9E-38 1.7E-42 312.2 10.5 90 2-91 66-155 (681)
4 PF05687 DUF822: Plant protein 82.2 1.3 2.9E-05 39.4 3.1 35 88-122 96-130 (150)
5 TIGR00150 HI0065_YjeE ATPase, 77.7 1.2 2.6E-05 37.7 1.4 58 238-296 52-121 (133)
6 PRK10646 ADP-binding protein; 71.7 2 4.4E-05 37.3 1.3 58 238-296 58-127 (153)
7 PF00010 HLH: Helix-loop-helix 56.1 48 0.001 23.1 5.6 45 21-65 2-49 (55)
8 PF02367 UPF0079: Uncharacteri 53.6 6.5 0.00014 33.1 1.0 58 237-295 44-113 (123)
9 PF14111 DUF4283: Domain of un 48.9 9.6 0.00021 30.5 1.3 33 48-80 110-142 (153)
10 PF00424 REV: REV protein (ant 47.7 25 0.00055 29.1 3.5 26 17-42 32-61 (91)
11 TIGR03674 fen_arch flap struct 46.8 40 0.00087 32.3 5.3 56 14-69 82-144 (338)
12 PRK07309 aromatic amino acid a 45.5 49 0.0011 30.8 5.5 29 49-78 326-356 (391)
13 PF14226 DIOX_N: non-haem diox 44.9 26 0.00056 26.9 3.1 39 29-67 11-49 (116)
14 KOG0260 RNA polymerase II, lar 44.5 1.6E+02 0.0035 34.5 9.9 14 235-248 1590-1603(1605)
15 PRK07682 hypothetical protein; 44.5 49 0.0011 30.3 5.3 25 54-79 321-345 (378)
16 PF10075 PCI_Csn8: COP9 signal 42.2 22 0.00048 29.2 2.5 25 54-79 109-133 (143)
17 PRK08361 aspartate aminotransf 41.0 62 0.0013 30.0 5.4 57 22-79 292-359 (391)
18 PLN02409 serine--glyoxylate am 41.0 82 0.0018 29.8 6.3 37 48-84 311-352 (401)
19 PRK05957 aspartate aminotransf 39.2 54 0.0012 30.5 4.7 28 50-78 325-352 (389)
20 PRK05942 aspartate aminotransf 37.9 90 0.002 29.0 6.0 30 49-79 332-361 (394)
21 COG0802 Predicted ATPase or ki 37.5 20 0.00043 31.6 1.6 58 238-296 55-124 (149)
22 PRK07683 aminotransferase A; V 37.1 81 0.0018 29.3 5.6 55 24-79 288-352 (387)
23 KOG0733 Nuclear AAA ATPase (VC 35.5 24 0.00052 38.3 2.0 44 28-71 363-411 (802)
24 PRK09276 LL-diaminopimelate am 33.9 1.2E+02 0.0026 27.9 6.1 28 50-78 329-356 (385)
25 PRK08363 alanine aminotransfer 33.4 75 0.0016 29.5 4.7 24 55-79 340-363 (398)
26 TIGR02864 spore_sspO small, ac 32.7 27 0.00059 26.4 1.4 19 12-30 31-49 (50)
27 PRK07681 aspartate aminotransf 32.4 95 0.0021 29.0 5.2 29 50-79 329-357 (399)
28 cd00083 HLH Helix-loop-helix d 30.8 83 0.0018 21.6 3.5 47 18-64 2-49 (60)
29 smart00550 Zalpha Z-DNA-bindin 30.5 92 0.002 23.1 4.0 49 33-83 6-67 (68)
30 cd08517 PBP2_NikA_DppA_OppA_li 30.4 69 0.0015 30.1 4.0 20 57-76 313-332 (480)
31 KOG0260 RNA polymerase II, lar 29.8 7.3E+02 0.016 29.6 12.0 12 92-103 1436-1447(1605)
32 PF11914 DUF3432: Domain of un 29.5 90 0.002 26.4 4.1 11 151-161 88-98 (99)
33 cd06451 AGAT_like Alanine-glyo 29.2 1.7E+02 0.0037 26.3 6.1 47 27-73 260-321 (356)
34 TIGR01365 serC_2 phosphoserine 29.2 1.6E+02 0.0035 28.7 6.4 60 24-84 261-353 (374)
35 cd08513 PBP2_thermophilic_Hb8_ 28.5 90 0.0019 29.5 4.4 49 31-79 272-331 (482)
36 TIGR03537 DapC succinyldiamino 28.0 1.2E+02 0.0027 27.6 5.1 29 49-79 294-322 (350)
37 COG1487 VapC Predicted nucleic 27.8 1.2E+02 0.0026 24.3 4.5 41 31-75 75-115 (133)
38 PRK02984 sspO acid-soluble spo 27.4 28 0.00062 26.2 0.7 18 12-29 30-47 (49)
39 PRK06108 aspartate aminotransf 27.0 1.6E+02 0.0035 26.8 5.6 55 23-78 286-350 (382)
40 PRK07550 hypothetical protein; 25.2 1.8E+02 0.004 26.8 5.7 28 50-78 326-354 (386)
41 PRK07392 threonine-phosphate d 24.9 1.2E+02 0.0026 27.8 4.4 34 45-79 295-329 (360)
42 cd06453 SufS_like Cysteine des 24.7 1.6E+02 0.0035 26.6 5.2 45 29-74 278-336 (373)
43 cd08497 PBP2_NikA_DppA_OppA_li 24.5 97 0.0021 29.8 3.9 25 56-80 319-343 (491)
44 cd08509 PBP2_TmCBP_oligosaccha 24.3 1.3E+02 0.0028 29.1 4.7 24 57-80 324-347 (509)
45 PTZ00376 aspartate aminotransf 24.1 1.7E+02 0.0037 27.5 5.4 20 56-75 359-378 (404)
46 COG1961 PinR Site-specific rec 24.0 1.5E+02 0.0032 25.9 4.7 46 19-64 122-173 (222)
47 PRK12495 hypothetical protein; 24.0 1E+02 0.0023 29.3 3.9 55 18-83 5-65 (226)
48 PRK07908 hypothetical protein; 23.2 1.4E+02 0.003 27.2 4.5 55 22-78 256-316 (349)
49 TIGR03542 DAPAT_plant LL-diami 23.2 2.4E+02 0.0052 26.5 6.1 29 49-78 344-372 (402)
50 PLN02397 aspartate transaminas 22.9 1.9E+02 0.0041 27.8 5.5 22 53-75 375-396 (423)
51 PRK07590 L,L-diaminopimelate a 22.0 2.4E+02 0.0053 26.5 6.0 30 49-79 351-380 (409)
52 TIGR03538 DapC_gpp succinyldia 21.8 1.3E+02 0.0028 28.0 4.0 24 54-78 334-357 (393)
53 KOG3910 Helix loop helix trans 21.5 62 0.0013 34.4 2.1 12 54-65 539-550 (632)
54 PRK10534 L-threonine aldolase; 21.3 1.8E+02 0.0038 26.1 4.7 42 36-79 257-308 (333)
55 cd01560 Thr-synth_2 Threonine 21.3 1.1E+02 0.0024 30.9 3.8 62 15-77 314-391 (460)
56 COG2162 NhoA Arylamine N-acety 21.2 86 0.0019 30.5 2.9 36 32-73 55-90 (275)
57 PLN02705 beta-amylase 21.1 97 0.0021 33.5 3.4 35 5-40 66-100 (681)
58 PRK08912 hypothetical protein; 20.9 2.2E+02 0.0049 26.3 5.4 25 54-79 329-353 (387)
59 PRK14809 histidinol-phosphate 20.7 1.3E+02 0.0028 27.5 3.8 46 31-78 281-328 (357)
60 COG4702 Uncharacterized conser 20.2 74 0.0016 29.1 2.1 22 49-70 139-160 (168)
No 1
>PF05687 DUF822: Plant protein of unknown function (DUF822); InterPro: IPR008540 This group of proteins contains members of the BZR1/LAT61 family of plant transcriptional repressors involved in controlling the response to Brassinosteroids (BRs). BRs are plant hormones that play essential roles in growth and development. BZR1 binds directly to DNA repressing the synthesis of genes involved in BR synthesis. Phosphorylation of BZR1 by BIN1 targets BZR1 to the 20S proteosome, while dephosphorylation leads to nuclear accumulation of BZR1 [].
Probab=100.00 E-value=2.2e-60 Score=406.58 Aligned_cols=132 Identities=66% Similarity=1.090 Sum_probs=121.7
Q ss_pred CCCccCCChHHHhhhHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCChHHHHHHHHHHhCcEEcCCCccccCCCCCCC-CC
Q 022148 10 SAARRKPTWRERENNRRRERRRRAIAAKIYTGLRAQGNYNLPKHCDNNEVLKALCAEAGWVVEEDGTTYRKGTRPPP-ID 88 (302)
Q Consensus 10 ~~~~R~pt~rErEnnk~RERrRRAIaakIfaGLR~~gny~Lpk~~d~nevlkaL~~eaGw~ve~dGttyr~g~kp~~-~~ 88 (302)
++++|+||||||||||+|||||||||+|||+|||+||||+|||||||||||||||+||||+||+|||||||+|+|++ ++
T Consensus 1 ~~~~r~pt~kErEnnk~RERrRRAIaakIfaGLR~~Gny~Lp~~aD~NeVLkALc~eAGw~Ve~DGTtyr~~~~~~~~~~ 80 (150)
T PF05687_consen 1 GSGGRRPTWKERENNKRRERRRRAIAAKIFAGLRAHGNYKLPKHADNNEVLKALCREAGWTVEPDGTTYRKGCKPPEPME 80 (150)
T ss_pred CCCcccccHhhhHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcCCHHHHHHHHHHhCCEEEccCCCeeccCCCCCcccc
Confidence 35689999999999999999999999999999999999999999999999999999999999999999999999984 99
Q ss_pred cCCCCCccCCCCCCCCCCCCCCCCCCCCCCCC--------CCCCCCCCC---CCcchhhhhccC
Q 022148 89 IASTSARVTPYSSQNPSPLSSSFPSPVPSYPT--------SPTRGDANN---PSSLLPFLRNAI 141 (302)
Q Consensus 89 ~~g~s~~~spcSS~~pSp~sSsfpSp~~S~~~--------s~~~~~~~~---~ssLiPwLknl~ 141 (302)
++|.|+.++|||++++++.+++|+||..||+. +|++.|... .++|||||||+.
T Consensus 81 ~~g~s~~~sp~ss~~~~~~ss~~~sp~~s~~~s~~ss~~pSp~~~d~~~~~~~~~~~p~~~~~~ 144 (150)
T PF05687_consen 81 IVGSSASASPCSSYQLSPNSSAFPSPVPSYQPSPSSSSFPSPSSLDSINNSSSSSLIPWLKNLS 144 (150)
T ss_pred ccccCCCCCCcCCCcCCccccCcCCcccccCCCcCCCCCCCCcccccccccccccccchhhccc
Confidence 99999999999999999999999999888877 455666543 378999999983
No 2
>PLN02905 beta-amylase
Probab=100.00 E-value=3.9e-38 Score=315.08 Aligned_cols=100 Identities=42% Similarity=0.618 Sum_probs=89.1
Q ss_pred CCCCCCCCccCCChHHHhhhHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCChHHHHHHHHHHhCcEEcCCCccccCCCCC
Q 022148 5 GATSTSAARRKPTWRERENNRRRERRRRAIAAKIYTGLRAQGNYNLPKHCDNNEVLKALCAEAGWVVEEDGTTYRKGTRP 84 (302)
Q Consensus 5 g~~~g~~~~R~pt~rErEnnk~RERrRRAIaakIfaGLR~~gny~Lpk~~d~nevlkaL~~eaGw~ve~dGttyr~g~kp 84 (302)
|..+||+++|.|+||||||||+|||||||||+|||+|||+||||+||+|||+||||||||+||||+||+||||||++|+.
T Consensus 71 ~~~~~~~~~~~~~~~ere~~~~rer~rrai~~~i~~glr~~g~~~lp~~~d~n~v~~~l~~eag~~v~~dg~~y~~~~~~ 150 (702)
T PLN02905 71 GTPGGGGSRRSRPLEEKERTKLRERHRRAITARILAGLRRHGNYNLRVRADINDVIAALAREAGWVVLPDGTTFPSRSQG 150 (702)
T ss_pred CCCCCCccCCCCchhhhhhhHHHHHHHHHHHHHHHHHHHhhcCCCCCcccchHHHHHHHHHhcCcEEcCCCCcccccCCC
Confidence 44567778999999999999999999999999999999999999999999999999999999999999999999965543
Q ss_pred CCCCcCCCCCccCCCCCCCCC
Q 022148 85 PPIDIASTSARVTPYSSQNPS 105 (302)
Q Consensus 85 ~~~~~~g~s~~~spcSS~~pS 105 (302)
+. -..|+|+.+.+|+|++.-
T Consensus 151 ~~-~~~~~~~~~~~~~~~~~~ 170 (702)
T PLN02905 151 TR-PAGGTSAVAATSSSSHLV 170 (702)
T ss_pred CC-CCCCcccccccccccccc
Confidence 32 146788889999999863
No 3
>PLN02705 beta-amylase
Probab=100.00 E-value=7.9e-38 Score=312.19 Aligned_cols=90 Identities=41% Similarity=0.722 Sum_probs=82.7
Q ss_pred CCCCCCCCCCCccCCChHHHhhhHHHHHHHHHHHHHHHHhhhhcCCCCCCCCCChHHHHHHHHHHhCcEEcCCCccccCC
Q 022148 2 TSDGATSTSAARRKPTWRERENNRRRERRRRAIAAKIYTGLRAQGNYNLPKHCDNNEVLKALCAEAGWVVEEDGTTYRKG 81 (302)
Q Consensus 2 t~~g~~~g~~~~R~pt~rErEnnk~RERrRRAIaakIfaGLR~~gny~Lpk~~d~nevlkaL~~eaGw~ve~dGttyr~g 81 (302)
+.||||||++.+|.|+||||||||+|||||||||+|||+|||+||||+||+|||+||||||||+||||+||+||||||++
T Consensus 66 ~~~~~~~~~~~~~~~~~~e~e~~~~rer~rrai~~ki~aglr~~g~~~lp~~~d~n~vl~al~~eagw~v~~dg~~yr~~ 145 (681)
T PLN02705 66 SSGGGGGGGGKGKREREKEKERTKLRERHRRAITSRMLAGLRQYGNFPLPARADMNDVLAALAREAGWTVEADGTTYRQS 145 (681)
T ss_pred cCCCCCCCCCCCCCcchhhhhhhHHHHHHHHHHHHHHHHHHHhccCCCCCcccchHHHHHHHHHhcCcEEcCCCCcccCC
Confidence 45666666678999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCcCC
Q 022148 82 TRPPPIDIAS 91 (302)
Q Consensus 82 ~kp~~~~~~g 91 (302)
++|..+...+
T Consensus 146 ~~~~~~~~~~ 155 (681)
T PLN02705 146 PQPSHVGSFP 155 (681)
T ss_pred CCCccccccc
Confidence 9998655444
No 4
>PF05687 DUF822: Plant protein of unknown function (DUF822); InterPro: IPR008540 This group of proteins contains members of the BZR1/LAT61 family of plant transcriptional repressors involved in controlling the response to Brassinosteroids (BRs). BRs are plant hormones that play essential roles in growth and development. BZR1 binds directly to DNA repressing the synthesis of genes involved in BR synthesis. Phosphorylation of BZR1 by BIN1 targets BZR1 to the 20S proteosome, while dephosphorylation leads to nuclear accumulation of BZR1 [].
Probab=82.24 E-value=1.3 Score=39.37 Aligned_cols=35 Identities=40% Similarity=0.446 Sum_probs=29.4
Q ss_pred CcCCCCCccCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 022148 88 DIASTSARVTPYSSQNPSPLSSSFPSPVPSYPTSP 122 (302)
Q Consensus 88 ~~~g~s~~~spcSS~~pSp~sSsfpSp~~S~~~s~ 122 (302)
.....++..+||.+|+++|.+|+||||.+..+...
T Consensus 96 ~~~~ss~~~sp~~s~~~s~~ss~~pSp~~~d~~~~ 130 (150)
T PF05687_consen 96 LSPNSSAFPSPVPSYQPSPSSSSFPSPSSLDSINN 130 (150)
T ss_pred CCccccCcCCcccccCCCcCCCCCCCCcccccccc
Confidence 34567888999999999999999999998776543
No 5
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=77.67 E-value=1.2 Score=37.72 Aligned_cols=58 Identities=24% Similarity=0.321 Sum_probs=31.7
Q ss_pred CCCCcccccccCC--ccccch-h--------hhhhhccCCccccccCCccCCCCcccccc-CCCcceeccC
Q 022148 238 PTSPTFNLVRHVA--QPSFAN-E--------ALKEKGRGSEFQFESAPVKPWEGEKIHDV-GMEDLDLSLG 296 (302)
Q Consensus 238 PtSPTfnLv~p~~--~~~~~~-~--------~~~~~g~~~EF~f~~~~VKpWEGERIHe~-g~DdLELTLG 296 (302)
-+||||+||.--. .....| | ....-|..+.|+=+.-.|--| +|||-++ ..++|++++-
T Consensus 52 v~SPTf~lv~~Y~~~~~~l~H~DlYRl~~~~e~~~lg~ee~~~~~~i~~IEW-~e~~~~~lp~~~l~i~i~ 121 (133)
T TIGR00150 52 VTSPTFTLVNEYNEGNLMVYHFDLYRLADPEELELMGLEDYFEGDGICLVEW-PEEGLEILPDYDLQIKID 121 (133)
T ss_pred ccCCCeeeeeecccCCCcEEEechhhcCChhHHHHCChHHhcCCCCEEEEEC-CccccccCCcccEEEEEE
Confidence 3799999998432 111112 1 111223333232223357899 8998774 6677877763
No 6
>PRK10646 ADP-binding protein; Provisional
Probab=71.72 E-value=2 Score=37.35 Aligned_cols=58 Identities=21% Similarity=0.276 Sum_probs=30.4
Q ss_pred CCCCcccccccCCc--cccch-------h--hhhhhccCCccccccCCccCCCCcccccc-CCCcceeccC
Q 022148 238 PTSPTFNLVRHVAQ--PSFAN-------E--ALKEKGRGSEFQFESAPVKPWEGEKIHDV-GMEDLDLSLG 296 (302)
Q Consensus 238 PtSPTfnLv~p~~~--~~~~~-------~--~~~~~g~~~EF~f~~~~VKpWEGERIHe~-g~DdLELTLG 296 (302)
-+||||+||+.-.. ....| + ....-|..+-|+-+.-.|=-| .|||-+. -.++|++++-
T Consensus 58 V~SPTFtlv~~Y~~~~~~l~H~DlYRL~~~~el~~lG~~e~~~~~~i~~IEW-~e~~~~~lp~~~l~i~i~ 127 (153)
T PRK10646 58 VKSPTYTLVEPYTLDNLMVYHFDLYRLADPEELEFMGIRDYFANDAICLVEW-PQQGAGVLPDPDVEIHLD 127 (153)
T ss_pred CCCCCEeeEEEeeCCCCCEEEEeeccCCCHHHHHHcchHHhhcCCCEEEEEC-CcchhhcCCcCcEEEEEE
Confidence 48999999995321 11111 1 111223322232222246689 8898664 5667777654
No 7
>PF00010 HLH: Helix-loop-helix DNA-binding domain only nuclear translocator protein (Arnt).; InterPro: IPR011598 The helix-loop-helix (HLH) DNA-binding domain consists of a closed bundle of four helices in a left-handed twist with two crossover connections. The HLH domain directs dimerisation, and is juxtaposed to basic regions to create a DNA interaction interface surface that recognises specific DNA sequences. Basic region/HLH (bHLH) proteins regulate diverse biological pathways []. bHLH proteins include MyoD [], SREBPs (sterol regulatory element binding proteins) [], and yeast Pho4 (phosphatase system) []. In certain proteins the bHLH domain contains a leucine-zipper motif. The bHLH/leucine zipper (bHLHZip) domain specifies dimerisation within a network of proteins and determines sequence-specific DNA binding []. bHLHZip domains occur in the transcription factors Myc, Mad, Max and Usf [, ]. This entry is bHLHZip, which covers the bHLH domain and the leucine zipper motif, when present.; PDB: 1NLW_A 1NKP_D 1A93_A 2A93_A 1AM9_C 3U5V_A 1A0A_B 2QL2_C 1UKL_C 1AN4_B ....
Probab=56.09 E-value=48 Score=23.12 Aligned_cols=45 Identities=22% Similarity=0.306 Sum_probs=31.8
Q ss_pred HhhhHHHHHHHHHHHHHHHHhhhhcCCCC---CCCCCChHHHHHHHHH
Q 022148 21 RENNRRRERRRRAIAAKIYTGLRAQGNYN---LPKHCDNNEVLKALCA 65 (302)
Q Consensus 21 rEnnk~RERrRRAIaakIfaGLR~~gny~---Lpk~~d~nevlkaL~~ 65 (302)
|++...+||+||.=-..-|.-|+.+=-.. -..+-|..+||..-|+
T Consensus 2 R~~h~~~Er~RR~~i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~ 49 (55)
T PF00010_consen 2 RQKHNERERRRRDRINDCFDELRELLPSCSAGSSRKLSKASILQKAID 49 (55)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHH
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHhccchhccccccCCHHHHHHHHHH
Confidence 66778889988887777778888764443 2345777888876554
No 8
>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop. They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.
Probab=53.64 E-value=6.5 Score=33.05 Aligned_cols=58 Identities=21% Similarity=0.365 Sum_probs=26.5
Q ss_pred CCCCCcccccccCC--ccccch-------hhh--hhhccCCccccccCCccCCCCccccc-cCCCcceecc
Q 022148 237 VPTSPTFNLVRHVA--QPSFAN-------EAL--KEKGRGSEFQFESAPVKPWEGEKIHD-VGMEDLDLSL 295 (302)
Q Consensus 237 ~PtSPTfnLv~p~~--~~~~~~-------~~~--~~~g~~~EF~f~~~~VKpWEGERIHe-~g~DdLELTL 295 (302)
.-+||||+||+--. ....-| +.. ...|..+++.-+.-.|=-|- |++-+ .-.+.|+++|
T Consensus 44 ~V~SPTF~l~~~Y~~~~~~l~H~DLYRl~~~~e~~~~g~~e~~~~~~i~~IEW~-e~~~~~l~~~~l~i~i 113 (123)
T PF02367_consen 44 EVTSPTFSLVNEYEGGNIPLYHFDLYRLEDPEELEDLGLEEYLFEDGICVIEWP-ERLKELLPEDRLEIEI 113 (123)
T ss_dssp ----TTTTSEEEEEETTEEEEEEE-TT-SSTHHHHHCTTTTCSSSSEEEEEESG-GGGTTTS---SEEEEE
T ss_pred CcCCCCeEEEEEecCCCceEEEeeccccCCHHHHHHCCchhhhCCCCEEEEECc-ccccccCCCCcEEEEE
Confidence 34899999998321 111111 221 12233333332333577785 88888 4667777765
No 9
>PF14111 DUF4283: Domain of unknown function (DUF4283)
Probab=48.89 E-value=9.6 Score=30.54 Aligned_cols=33 Identities=36% Similarity=0.556 Sum_probs=30.5
Q ss_pred CCCCCCCChHHHHHHHHHHhCcEEcCCCccccC
Q 022148 48 YNLPKHCDNNEVLKALCAEAGWVVEEDGTTYRK 80 (302)
Q Consensus 48 y~Lpk~~d~nevlkaL~~eaGw~ve~dGttyr~ 80 (302)
|.||.++=+.+++++++...|=+++-|.+|...
T Consensus 110 ~glP~~~~~~~~~~~i~~~iG~~i~vD~~t~~~ 142 (153)
T PF14111_consen 110 YGLPLHLWSEEILKAIGSKIGEPIEVDENTLKR 142 (153)
T ss_pred ccCCHHHhhhHHHHHHHHhcCCeEEEEcCCCCc
Confidence 469999999999999999999999999998865
No 10
>PF00424 REV: REV protein (anti-repression trans-activator protein); InterPro: IPR000625 REV is a viral anti-repression trans-activator protein, which appears to act post-transcriptionally [] to relieve negative repression of GAG and ENV production. It is a phosphoprotein [, ] whose state of phosphorylation is mediated by a specific serine kinase activity present in the nucleus []. REV accumulates in the nucleoli [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0042025 host cell nucleus; PDB: 1ETF_B 1ETG_B 1ULL_B 3LPH_B 2X7L_R.
Probab=47.66 E-value=25 Score=29.13 Aligned_cols=26 Identities=42% Similarity=0.601 Sum_probs=16.9
Q ss_pred ChHHHhhhHHHHHHH----HHHHHHHHHhh
Q 022148 17 TWRERENNRRRERRR----RAIAAKIYTGL 42 (302)
Q Consensus 17 t~rErEnnk~RERrR----RAIaakIfaGL 42 (302)
|.+-|.|.+||-|+| ++|+.+||+-.
T Consensus 32 Tr~aRRnRRRRWR~rq~QI~~lseRIl~t~ 61 (91)
T PF00424_consen 32 TRQARRNRRRRWRARQRQIRALSERILSTC 61 (91)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_pred ccccccchhhhHHHHHHHHHHHHHHHHHhc
Confidence 445566666555444 68999999844
No 11
>TIGR03674 fen_arch flap structure-specific endonuclease. Endonuclease that cleaves the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Has 5'-endo-/exonuclease and 5'-pseudo-Y-endonuclease activities. Cleaves the junction between single and double-stranded regions of flap DNA
Probab=46.81 E-value=40 Score=32.28 Aligned_cols=56 Identities=20% Similarity=0.118 Sum_probs=32.2
Q ss_pred cCCChHHHhhhHHHHHHHHHHHHHH-------HHhhhhcCCCCCCCCCChHHHHHHHHHHhCc
Q 022148 14 RKPTWRERENNRRRERRRRAIAAKI-------YTGLRAQGNYNLPKHCDNNEVLKALCAEAGW 69 (302)
Q Consensus 14 R~pt~rErEnnk~RERrRRAIaakI-------faGLR~~gny~Lpk~~d~nevlkaL~~eaGw 69 (302)
..|+.|..+..+|+++|..|...-. ...++++.+-..+-.-++.+.+|.|++..|+
T Consensus 82 ~~p~~K~~~~~~R~~~r~~a~~~~~~~~~~g~~~~a~~~~~r~~~~~~~~~~~~k~lL~~~Gi 144 (338)
T TIGR03674 82 KPPELKAETLEERREIREEAEEKWEEALEKGDLEEARKYAQRSSRLTSEIVESSKKLLDLMGI 144 (338)
T ss_pred CChhhhHhhHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCC
Confidence 4578999999999998877543311 1122333222122223466667777777774
No 12
>PRK07309 aromatic amino acid aminotransferase; Validated
Probab=45.50 E-value=49 Score=30.80 Aligned_cols=29 Identities=14% Similarity=0.326 Sum_probs=21.2
Q ss_pred CCCCCC--ChHHHHHHHHHHhCcEEcCCCccc
Q 022148 49 NLPKHC--DNNEVLKALCAEAGWVVEEDGTTY 78 (302)
Q Consensus 49 ~Lpk~~--d~nevlkaL~~eaGw~ve~dGtty 78 (302)
+||++. |..++.+.||.++|+.|- .|..|
T Consensus 326 ~l~~~~~~~~~~~~~~l~~~~gv~v~-pg~~f 356 (391)
T PRK07309 326 KIPAGYNQDSFKFLQDFARKKAVAFI-PGAAF 356 (391)
T ss_pred ECCCCCCCCHHHHHHHHHHhCCEEEe-Cchhh
Confidence 466654 456788899999999996 45555
No 13
>PF14226 DIOX_N: non-haem dioxygenase in morphine synthesis N-terminal; PDB: 3OOX_A 1BK0_A 1IPS_B 1QIQ_A 1OC1_A 2Y86_A 2Y60_A 1W03_A 2VE1_A 1QJF_A ....
Probab=44.86 E-value=26 Score=26.94 Aligned_cols=39 Identities=21% Similarity=0.284 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHhhhhcCCCCCCCCCChHHHHHHHHHHh
Q 022148 29 RRRRAIAAKIYTGLRAQGNYNLPKHCDNNEVLKALCAEA 67 (302)
Q Consensus 29 RrRRAIaakIfaGLR~~gny~Lpk~~d~nevlkaL~~ea 67 (302)
-.|.+++++|...++.+|-|.|=-|.-..+++..+.+.+
T Consensus 11 ~~~~~~~~~l~~A~~~~GFf~l~nhGi~~~l~~~~~~~~ 49 (116)
T PF14226_consen 11 ADREEVAEQLRDACEEWGFFYLVNHGIPQELIDRVFAAA 49 (116)
T ss_dssp HHHHHHHHHHHHHHHHTSEEEEESSSSSHHHHHHHHHHH
T ss_pred ccHHHHHHHHHHHHHhCCEEEEecccccchhhHHHHHHH
Confidence 457889999999999999999999988887777766544
No 14
>KOG0260 consensus RNA polymerase II, large subunit [Transcription]
Probab=44.50 E-value=1.6e+02 Score=34.50 Aligned_cols=14 Identities=36% Similarity=0.501 Sum_probs=9.6
Q ss_pred CCCCCCCccccccc
Q 022148 235 SGVPTSPTFNLVRH 248 (302)
Q Consensus 235 s~~PtSPTfnLv~p 248 (302)
+-.|+||+|+--+|
T Consensus 1590 ~ysptsp~ysp~sp 1603 (1605)
T KOG0260|consen 1590 SYSPTSPSYSPTSP 1603 (1605)
T ss_pred CCCCCCCCCCCCCC
Confidence 45788888875554
No 15
>PRK07682 hypothetical protein; Validated
Probab=44.50 E-value=49 Score=30.34 Aligned_cols=25 Identities=20% Similarity=0.252 Sum_probs=19.8
Q ss_pred CChHHHHHHHHHHhCcEEcCCCcccc
Q 022148 54 CDNNEVLKALCAEAGWVVEEDGTTYR 79 (302)
Q Consensus 54 ~d~nevlkaL~~eaGw~ve~dGttyr 79 (302)
.|..++.+.|++++|..|-+ |..|.
T Consensus 321 ~~~~~~~~~ll~~~gv~v~p-g~~f~ 345 (378)
T PRK07682 321 LSSEEFAEQLLLEEKVAVVP-GSVFG 345 (378)
T ss_pred CCHHHHHHHHHHhCCEEEcC-chhhC
Confidence 46678888888899999876 77773
No 16
>PF10075 PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro: IPR019280 The photomorphogenic 9 (COP9) signalosome or CSN complex is composed of eight subunits: Cops1/GPS1, Cops2, Cops3, Cops4, Cops5, Cop6, Cops7 (Cops7A or Cops7B) and Cops8. In the complex, Cops8, which is the smallest subunit, probably interacts directly with Cops3, Cops4 and Cops7 (Cops7A or Cops7B). This signalosome is homologous to the lid subcomplex of the 26S proteasome and regulates the ubiquitin-proteasome pathway. It functions as a structural scaffold for subunit-subunit interactions within the complex and is a key regulator of photomorphogenic development [].; PDB: 1RZ4_A.
Probab=42.18 E-value=22 Score=29.18 Aligned_cols=25 Identities=28% Similarity=0.625 Sum_probs=13.1
Q ss_pred CChHHHHHHHHHHhCcEEcCCCcccc
Q 022148 54 CDNNEVLKALCAEAGWVVEEDGTTYR 79 (302)
Q Consensus 54 ~d~nevlkaL~~eaGw~ve~dGttyr 79 (302)
.+ .+-|..+|.+.||.++.|+..+.
T Consensus 109 ~~-~~el~~~~~~~gW~~d~~~~~~~ 133 (143)
T PF10075_consen 109 LS-EEELEKFIKSRGWTVDGDGVLFP 133 (143)
T ss_dssp S--HHHHHHHHHHHT-EE-----EE-
T ss_pred CC-HHHHHHHHHHcCCEECCCccEEe
Confidence 45 55667788888999999998877
No 17
>PRK08361 aspartate aminotransferase; Provisional
Probab=41.04 E-value=62 Score=30.00 Aligned_cols=57 Identities=23% Similarity=0.370 Sum_probs=34.1
Q ss_pred hhhHHHHHHHHHHHHHHHH---hhh---hcCCC----CCCC-CCChHHHHHHHHHHhCcEEcCCCcccc
Q 022148 22 ENNRRRERRRRAIAAKIYT---GLR---AQGNY----NLPK-HCDNNEVLKALCAEAGWVVEEDGTTYR 79 (302)
Q Consensus 22 Ennk~RERrRRAIaakIfa---GLR---~~gny----~Lpk-~~d~nevlkaL~~eaGw~ve~dGttyr 79 (302)
++.+++-++||.+..+-+. |+. ..|+| +||. ..|..++.+.|.++.|..|. +|+.|.
T Consensus 292 ~~~~~~~~~~~~~~~~~L~~~~~~~~~~p~g~~~~~~~l~~~~~~~~~l~~~l~~~~gv~v~-pg~~f~ 359 (391)
T PRK08361 292 EEMRKEYNERRKLVLKRLKEMPHIKVFEPKGAFYVFANIDETGMSSEDFAEWLLEKARVVVI-PGTAFG 359 (391)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCCeecCCCEEEEEEEECCCCCCCHHHHHHHHHHhCCEEEc-CchhhC
Confidence 3444444455554444443 332 23443 4553 45788888888888999998 477664
No 18
>PLN02409 serine--glyoxylate aminotransaminase
Probab=41.02 E-value=82 Score=29.78 Aligned_cols=37 Identities=19% Similarity=0.284 Sum_probs=27.1
Q ss_pred CCCCCCCChHHHHHHHHHHhCcEEcC-----CCccccCCCCC
Q 022148 48 YNLPKHCDNNEVLKALCAEAGWVVEE-----DGTTYRKGTRP 84 (302)
Q Consensus 48 y~Lpk~~d~nevlkaL~~eaGw~ve~-----dGttyr~g~kp 84 (302)
+++|+..|..+|.+.|.++.|.++.. .|..+|-|+-.
T Consensus 311 ~~~p~~~~~~~l~~~l~~~~~i~i~~G~~~~~~~~~Rig~~g 352 (401)
T PLN02409 311 VVVPEGIDSAEIVKNAWKKYNLSLGLGLNKVAGKVFRIGHLG 352 (401)
T ss_pred EeCCCCCCHHHHHHHHHHhCCEEEEcCCCcccCCEEEEcCCC
Confidence 34566677788999999998888873 46777766543
No 19
>PRK05957 aspartate aminotransferase; Provisional
Probab=39.24 E-value=54 Score=30.54 Aligned_cols=28 Identities=29% Similarity=0.341 Sum_probs=21.8
Q ss_pred CCCCCChHHHHHHHHHHhCcEEcCCCccc
Q 022148 50 LPKHCDNNEVLKALCAEAGWVVEEDGTTY 78 (302)
Q Consensus 50 Lpk~~d~nevlkaL~~eaGw~ve~dGtty 78 (302)
+|...|..|+.+.|+++.|+.|-+ |+.|
T Consensus 325 ~~~~~~~~~~~~~l~~~~gv~v~p-g~~f 352 (389)
T PRK05957 325 VNTDLNDFELVKQLIREYRVAVIP-GTTF 352 (389)
T ss_pred CCCCCChHHHHHHHHHHCCEEEcc-chhh
Confidence 455567778999999999999886 6656
No 20
>PRK05942 aspartate aminotransferase; Provisional
Probab=37.88 E-value=90 Score=29.04 Aligned_cols=30 Identities=17% Similarity=0.288 Sum_probs=23.6
Q ss_pred CCCCCCChHHHHHHHHHHhCcEEcCCCcccc
Q 022148 49 NLPKHCDNNEVLKALCAEAGWVVEEDGTTYR 79 (302)
Q Consensus 49 ~Lpk~~d~nevlkaL~~eaGw~ve~dGttyr 79 (302)
++|...|..+++..|+.+.|..|-+ |+.|.
T Consensus 332 ~~~~~~~~~~~~~~~l~~~gV~v~~-g~~f~ 361 (394)
T PRK05942 332 PCPVGMGSTDFALNVLQKTGVVVTP-GNAFG 361 (394)
T ss_pred ECCCCCCHHHHHHHHHHHCCEEEeC-ChhhC
Confidence 4676677888898899999998864 77774
No 21
>COG0802 Predicted ATPase or kinase [General function prediction only]
Probab=37.46 E-value=20 Score=31.63 Aligned_cols=58 Identities=19% Similarity=0.331 Sum_probs=33.3
Q ss_pred CCCCcccccccCCccccc--h-------hhh-hhhccCCccccccC-CccCCCCccccc-cCCCcceeccC
Q 022148 238 PTSPTFNLVRHVAQPSFA--N-------EAL-KEKGRGSEFQFESA-PVKPWEGEKIHD-VGMEDLDLSLG 296 (302)
Q Consensus 238 PtSPTfnLv~p~~~~~~~--~-------~~~-~~~g~~~EF~f~~~-~VKpWEGERIHe-~g~DdLELTLG 296 (302)
=+||||+||..-...-.+ | |.. +..---+||=++.| .|--| ||++.+ ....+||+++-
T Consensus 55 V~SPTFtlv~~Y~~~~~~lyH~DlYRl~d~ee~~~lg~~e~~~~~gv~lIEW-~e~~~~~lp~~~l~I~i~ 124 (149)
T COG0802 55 VKSPTFTLVEEYEEGRLPLYHFDLYRLSDPEELDELGLDEYFDGDGICLIEW-PERLAELLPDADLEITIT 124 (149)
T ss_pred ccCCCeeeehhhcCCCCcEEEEeeeccCChHHhHhcCHHHHhCCCcEEEEEC-cchhccCCCCceEEEEEE
Confidence 379999999954322111 1 221 11111245555443 46678 677777 47888888874
No 22
>PRK07683 aminotransferase A; Validated
Probab=37.06 E-value=81 Score=29.35 Aligned_cols=55 Identities=20% Similarity=0.330 Sum_probs=33.5
Q ss_pred hHHHHHHHHHHHHHHHHhh--hh---cCC-CC---CCC-CCChHHHHHHHHHHhCcEEcCCCcccc
Q 022148 24 NRRRERRRRAIAAKIYTGL--RA---QGN-YN---LPK-HCDNNEVLKALCAEAGWVVEEDGTTYR 79 (302)
Q Consensus 24 nk~RERrRRAIaakIfaGL--R~---~gn-y~---Lpk-~~d~nevlkaL~~eaGw~ve~dGttyr 79 (302)
.+++-++||+++.+++..+ .. .|+ |- +|+ ..+..++.+.|++++|..|-+ |..|.
T Consensus 288 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~gI~v~p-g~~f~ 352 (387)
T PRK07683 288 MRHQYKKRRDYVYNRLISMGLDVEKPTGAFYLFPSIGHFTMSSFDFALDLVEEAGLAVVP-GSAFS 352 (387)
T ss_pred HHHHHHHHHHHHHHHHHHcCCcccCCCeeEEEEEecccCCCCHHHHHHHHHHhCCEEEcC-chhhC
Confidence 3444456667777777642 21 122 22 233 345667888899999999875 66664
No 23
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=35.53 E-value=24 Score=38.34 Aligned_cols=44 Identities=34% Similarity=0.499 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHHhhhhcCCCCCCC-----CCChHHHHHHHHHHhCcEE
Q 022148 28 ERRRRAIAAKIYTGLRAQGNYNLPK-----HCDNNEVLKALCAEAGWVV 71 (302)
Q Consensus 28 ERrRRAIaakIfaGLR~~gny~Lpk-----~~d~nevlkaL~~eaGw~v 71 (302)
|-.|+.|-.+|..|||--|+|.+-+ +.=.+.=|+|||.|||.+-
T Consensus 363 e~aR~~IL~~~~~~lrl~g~~d~~qlA~lTPGfVGADL~AL~~~Aa~vA 411 (802)
T KOG0733|consen 363 ETAREEILRIICRGLRLSGDFDFKQLAKLTPGFVGADLMALCREAAFVA 411 (802)
T ss_pred hHHHHHHHHHHHhhCCCCCCcCHHHHHhcCCCccchhHHHHHHHHHHHH
Confidence 3456679999999999999998653 3445666999999999763
No 24
>PRK09276 LL-diaminopimelate aminotransferase; Provisional
Probab=33.93 E-value=1.2e+02 Score=27.92 Aligned_cols=28 Identities=32% Similarity=0.475 Sum_probs=21.7
Q ss_pred CCCCCChHHHHHHHHHHhCcEEcCCCccc
Q 022148 50 LPKHCDNNEVLKALCAEAGWVVEEDGTTY 78 (302)
Q Consensus 50 Lpk~~d~nevlkaL~~eaGw~ve~dGtty 78 (302)
||...|..++.++|+++.|..|-+ |+-|
T Consensus 329 ~~~~~~~~~l~~~ll~~~gi~v~~-g~~f 356 (385)
T PRK09276 329 VPKGYTSAEFATLLLDKAGVVVTP-GNGF 356 (385)
T ss_pred CCCCCCHHHHHHHHHHhCCEEECC-chhh
Confidence 556667889999999999998864 5555
No 25
>PRK08363 alanine aminotransferase; Validated
Probab=33.38 E-value=75 Score=29.54 Aligned_cols=24 Identities=21% Similarity=0.332 Sum_probs=18.2
Q ss_pred ChHHHHHHHHHHhCcEEcCCCcccc
Q 022148 55 DNNEVLKALCAEAGWVVEEDGTTYR 79 (302)
Q Consensus 55 d~nevlkaL~~eaGw~ve~dGttyr 79 (302)
|..++++.++.++|..|- +|+.|.
T Consensus 340 ~~~~~~~~~l~~~gV~v~-~g~~f~ 363 (398)
T PRK08363 340 DDKEFVLDVLHEAHVLFV-HGSGFG 363 (398)
T ss_pred CHHHHHHHHHHhCCEEEe-CchhhC
Confidence 456777888899998876 477774
No 26
>TIGR02864 spore_sspO small, acid-soluble spore protein O. This model represents a minor (low-abundance) spore protein, designated SspO. It is found in a very limited subset of the already small group of endospore-forming bacteria, but these species include Oceanobacillus iheyensis, Geobacillus kaustophilus, Bacillus subtilis, B. halodurans, and B. cereus. This protein was previously called CotK.
Probab=32.69 E-value=27 Score=26.40 Aligned_cols=19 Identities=37% Similarity=0.534 Sum_probs=15.0
Q ss_pred CccCCChHHHhhhHHHHHH
Q 022148 12 ARRKPTWRERENNRRRERR 30 (302)
Q Consensus 12 ~~R~pt~rErEnnk~RERr 30 (302)
+.-.-|..||.|||+|..+
T Consensus 31 ~nepLt~aerqnNKKrKKn 49 (50)
T TIGR02864 31 ANEPLTAAERQNNKKRKKN 49 (50)
T ss_pred ccccCCHHHHHhchhhhcc
Confidence 4556799999999998643
No 27
>PRK07681 aspartate aminotransferase; Provisional
Probab=32.41 E-value=95 Score=28.96 Aligned_cols=29 Identities=28% Similarity=0.336 Sum_probs=21.9
Q ss_pred CCCCCChHHHHHHHHHHhCcEEcCCCcccc
Q 022148 50 LPKHCDNNEVLKALCAEAGWVVEEDGTTYR 79 (302)
Q Consensus 50 Lpk~~d~nevlkaL~~eaGw~ve~dGttyr 79 (302)
||+..|..++.+.|++++|..|-+ |+.|.
T Consensus 329 l~~~~~~~~~~~~l~~~~gv~v~p-g~~f~ 357 (399)
T PRK07681 329 IPKGWTSLSFAYALMDRANVVVTP-GHAFG 357 (399)
T ss_pred CCCCCCHHHHHHHHHHhCCEEEeC-ChhhC
Confidence 445567788999999989988875 66663
No 28
>cd00083 HLH Helix-loop-helix domain, found in specific DNA- binding proteins that act as transcription factors; 60-100 amino acids long. A DNA-binding basic region is followed by two alpha-helices separated by a variable loop region; HLH forms homo- and heterodimers, dimerization creates a parallel, left-handed, four helix bundle; the basic region N-terminal to the first amphipathic helix mediates high-affinity DNA-binding; there are several groups of HLH proteins: those (E12/E47) which bind specific hexanucleotide sequences such as E-box (5-CANNTG-3) or StRE 5-ATCACCCCAC-3), those lacking the basic domain (Emc, Id) function as negative regulators since they fail to bind DNA, those (hairy, E(spl), deadpan) which repress transcription although they can bind specific hexanucleotide sequences such as N-box (5-CACGc/aG-3), those which have a COE domain (Collier/Olf-1/EBF) which is involved in both in dimerization and in DNA binding, and those which bind pentanucleotides ACGTG or GCGTG and
Probab=30.76 E-value=83 Score=21.62 Aligned_cols=47 Identities=28% Similarity=0.305 Sum_probs=30.1
Q ss_pred hHHHhhhHHHHHHHHHHHHHHHHhhhhcCCCC-CCCCCChHHHHHHHH
Q 022148 18 WRERENNRRRERRRRAIAAKIYTGLRAQGNYN-LPKHCDNNEVLKALC 64 (302)
Q Consensus 18 ~rErEnnk~RERrRRAIaakIfaGLR~~gny~-Lpk~~d~nevlkaL~ 64 (302)
+..|.+...+||+||.=-...|..|+..=-.. .-++.|--+||..-+
T Consensus 2 ~~~r~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k~~k~~iL~~a~ 49 (60)
T cd00083 2 KSRREAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAV 49 (60)
T ss_pred cHHHHHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHH
Confidence 34577788899999987788888887652111 124456666665433
No 29
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=30.52 E-value=92 Score=23.15 Aligned_cols=49 Identities=27% Similarity=0.424 Sum_probs=31.8
Q ss_pred HHHHHHHHhhhhcCC--C---------CCCCCCChHHHHHHHHHHhCcEEcCC-C-ccccCCCC
Q 022148 33 AIAAKIYTGLRAQGN--Y---------NLPKHCDNNEVLKALCAEAGWVVEED-G-TTYRKGTR 83 (302)
Q Consensus 33 AIaakIfaGLR~~gn--y---------~Lpk~~d~nevlkaL~~eaGw~ve~d-G-ttyr~g~k 83 (302)
....+|+.-|+..|. + .|++. ..|-+|..| .+.|+|+-.. . .+|+-+++
T Consensus 6 ~~~~~IL~~L~~~g~~~~ta~eLa~~lgl~~~-~v~r~L~~L-~~~G~V~~~~~~~~~W~i~~~ 67 (68)
T smart00550 6 SLEEKILEFLENSGDETSTALQLAKNLGLPKK-EVNRVLYSL-EKKGKVCKQGGTPPLWKLTDK 67 (68)
T ss_pred HHHHHHHHHHHHCCCCCcCHHHHHHHHCCCHH-HHHHHHHHH-HHCCCEEecCCCCCceEeecC
Confidence 455688888888887 4 34444 456666655 5669987644 2 46776654
No 30
>cd08517 PBP2_NikA_DppA_OppA_like_13 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most s
Probab=30.37 E-value=69 Score=30.06 Aligned_cols=20 Identities=35% Similarity=0.393 Sum_probs=15.4
Q ss_pred HHHHHHHHHHhCcEEcCCCc
Q 022148 57 NEVLKALCAEAGWVVEEDGT 76 (302)
Q Consensus 57 nevlkaL~~eaGw~ve~dGt 76 (302)
-|--|+|.+||||..+.||+
T Consensus 313 ~~~A~~lL~~aG~~~~~~G~ 332 (480)
T cd08517 313 VAKAEALLDEAGYPRGADGI 332 (480)
T ss_pred HHHHHHHHHHcCCCcCCCCc
Confidence 35677899999998776664
No 31
>KOG0260 consensus RNA polymerase II, large subunit [Transcription]
Probab=29.83 E-value=7.3e+02 Score=29.59 Aligned_cols=12 Identities=33% Similarity=0.296 Sum_probs=7.0
Q ss_pred CCCccCCCCCCC
Q 022148 92 TSARVTPYSSQN 103 (302)
Q Consensus 92 ~s~~~spcSS~~ 103 (302)
.+...+|-+||.
T Consensus 1436 ~~~~~sp~~s~~ 1447 (1605)
T KOG0260|consen 1436 MSSPASPGSSYS 1447 (1605)
T ss_pred cCCCCCCCCCCC
Confidence 445556666664
No 32
>PF11914 DUF3432: Domain of unknown function (DUF3432); InterPro: IPR021839 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 100 amino acids in length. This domain is found associated with PF00096 from PFAM. This domain has two conserved sequence motifs: YPSPV and PSP.
Probab=29.50 E-value=90 Score=26.43 Aligned_cols=11 Identities=55% Similarity=0.594 Sum_probs=8.9
Q ss_pred cccccCCCCCC
Q 022148 151 SNSAPVTPPLS 161 (302)
Q Consensus 151 S~SAPVTPPlS 161 (302)
+.|+||+-+|+
T Consensus 88 ~fsspvst~Ls 98 (99)
T PF11914_consen 88 SFSSPVSTGLS 98 (99)
T ss_pred cccccccccCC
Confidence 66899988875
No 33
>cd06451 AGAT_like Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT), serine-glyoxylate aminotransferase (SGAT), and 3-hydroxykynurenine transaminase (HKT). AGAT is a homodimeric protein, which catalyses the transamination of glyoxylate to glycine, and SGAT converts serine and glyoxylate to hydroxypyruvate and glycine. HKT catalyzes the PLP-dependent transamination of 3-hydroxykynurenine, a potentially toxic metabolite of the kynurenine pathway.
Probab=29.21 E-value=1.7e+02 Score=26.30 Aligned_cols=47 Identities=28% Similarity=0.378 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHhhhhcCC---------------CCCCCCCChHHHHHHHHHHhCcEEcC
Q 022148 27 RERRRRAIAAKIYTGLRAQGN---------------YNLPKHCDNNEVLKALCAEAGWVVEE 73 (302)
Q Consensus 27 RERrRRAIaakIfaGLR~~gn---------------y~Lpk~~d~nevlkaL~~eaGw~ve~ 73 (302)
..++.+..+.++..+|+..|- +.+|...+-.++.++|.++.|+.|-+
T Consensus 260 ~~~~~~~~~~~l~~~L~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~gI~~~~ 321 (356)
T cd06451 260 RWARHRRLAKALREGLEALGLKLLAKPELRSPTVTAVLVPEGVDGDEVVRRLMKRYNIEIAG 321 (356)
T ss_pred HHHHHHHHHHHHHHHHHHcCCeeccCcccCCCceEEEECCCCCCHHHHHHHHHHhCCEEEec
Confidence 334445556666666665431 12233345567888887766988743
No 34
>TIGR01365 serC_2 phosphoserine aminotransferase, Methanosarcina type. This model represents a variant form of the serine biosynthesis enzyme phosphoserine aminotransferase, as found in a small number of distantly related species, including Caulobacter crescentus, Mesorhizobium loti, and the archaeon Methanosarcina barkeri.
Probab=29.19 E-value=1.6e+02 Score=28.68 Aligned_cols=60 Identities=13% Similarity=0.061 Sum_probs=40.4
Q ss_pred hHHHHHHHHHHHHHHHHhhhhcC-CCCCCCC-----------------C-----C-----hHHHHHHHHHHhCcEEc---
Q 022148 24 NRRRERRRRAIAAKIYTGLRAQG-NYNLPKH-----------------C-----D-----NNEVLKALCAEAGWVVE--- 72 (302)
Q Consensus 24 nk~RERrRRAIaakIfaGLR~~g-ny~Lpk~-----------------~-----d-----~nevlkaL~~eaGw~ve--- 72 (302)
-..|.+|-++.|..++++|.++| -+-++++ - | .+++.+.| ++.|.++.
T Consensus 261 le~~~~Rh~~~a~~l~~~l~~lg~l~~~~~~~~~rS~tvt~v~~~~~~~~~~~~~~~~~~~~~~~~~l-~~~gi~i~~G~ 339 (374)
T TIGR01365 261 LKPLIARADDNLAVLEAFVAKNNWIHFLAETPEIRSNTSVCLKVVDPAIDALDEDAQADFAKELISTL-EKEGVAYDIGS 339 (374)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCcccCCCChhhcCCCeEEEEeCCccccccccchhhHHHHHHHHHH-HHCCEEEeccc
Confidence 56777888899999999999999 4444310 1 1 24444444 56698776
Q ss_pred --CCCccccCCCCC
Q 022148 73 --EDGTTYRKGTRP 84 (302)
Q Consensus 73 --~dGttyr~g~kp 84 (302)
.-|++||-||-+
T Consensus 340 ~~~~~~~fRIg~~G 353 (374)
T TIGR01365 340 YRDAPSGLRIWCGA 353 (374)
T ss_pred cccCCCceEEecCC
Confidence 235788887754
No 35
>cd08513 PBP2_thermophilic_Hb8_like The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold. This family includes the substrate-binding domain of an ABC-type oligopeptide-binding protein Hb8 from Thermus thermophilius and its closest homologs from other bacteria. The structural topology of this substrate-binding domain is similar to those of DppA from Escherichia coli and OppA from Salmonella typhimurium, and thus belongs to the type 2 periplasmic binding fold protein (PBP2) superfamily. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. The type 2 periplasmic binding proteins are soluble ligand-binding components of ABC or tripartite ATP-independent transporter
Probab=28.46 E-value=90 Score=29.51 Aligned_cols=49 Identities=31% Similarity=0.456 Sum_probs=27.8
Q ss_pred HHHHHHHHHHhhhhcCCCCCCCCC-----------ChHHHHHHHHHHhCcEEcCCCcccc
Q 022148 31 RRAIAAKIYTGLRAQGNYNLPKHC-----------DNNEVLKALCAEAGWVVEEDGTTYR 79 (302)
Q Consensus 31 RRAIaakIfaGLR~~gny~Lpk~~-----------d~nevlkaL~~eaGw~ve~dGttyr 79 (302)
|.+|+..+|.|.-.-.+.-+|+-. -+=|--|+|.+||||..+.||..+.
T Consensus 272 r~~i~~~~~~g~~~~~~~~~p~~~~~~~~~~~~~~~d~~kAk~lL~eaG~~~~~~g~~~~ 331 (482)
T cd08513 272 RDAIVKTLYGGKATPAPTPVPPGSWADDPLVPAYEYDPEKAKQLLDEAGWKLGPDGGIRE 331 (482)
T ss_pred HHHHHHHHhcCccceeccCCCCCccccCCCcccCCCCHHHHHHHHHHcCCccCCCCcEEc
Confidence 344555667664433333333221 1234567899999998777774333
No 36
>TIGR03537 DapC succinyldiaminopimelate transaminase. Note: the detailed information included in the EC:2.6.1.17 record includes the assertions that the enzyme uses the pyridoxal pyrophosphate cofactor, which is consistent with the pfam00155 family, and the assertion that the amino group donor is L-glutamate, which is undetermined for the sequences in this clade.
Probab=28.01 E-value=1.2e+02 Score=27.58 Aligned_cols=29 Identities=24% Similarity=0.405 Sum_probs=20.5
Q ss_pred CCCCCCChHHHHHHHHHHhCcEEcCCCcccc
Q 022148 49 NLPKHCDNNEVLKALCAEAGWVVEEDGTTYR 79 (302)
Q Consensus 49 ~Lpk~~d~nevlkaL~~eaGw~ve~dGttyr 79 (302)
++|...+..++.++|++ +|..|-+ |+.|.
T Consensus 294 ~~~~~~~~~~l~~~L~~-~gv~v~~-g~~f~ 322 (350)
T TIGR03537 294 KVPSGIDAKDYALRLLE-NGIVVAP-GENFG 322 (350)
T ss_pred ECCCCCCHHHHHHHHHH-CCEEEcC-chhhC
Confidence 45665567788888865 7988775 77774
No 37
>COG1487 VapC Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]
Probab=27.80 E-value=1.2e+02 Score=24.29 Aligned_cols=41 Identities=24% Similarity=0.249 Sum_probs=29.0
Q ss_pred HHHHHHHHHHhhhhcCCCCCCCCCChHHHHHHHHHHhCcEEcCCC
Q 022148 31 RRAIAAKIYTGLRAQGNYNLPKHCDNNEVLKALCAEAGWVVEEDG 75 (302)
Q Consensus 31 RRAIaakIfaGLR~~gny~Lpk~~d~nevlkaL~~eaGw~ve~dG 75 (302)
-..++++|++.|++.|. ...++.-++.|-|...|..+--..
T Consensus 75 ~a~~~~~i~~~l~~~G~----~~~~~D~lIAa~A~~~~~~LvT~d 115 (133)
T COG1487 75 AAEIAAEIQARLRKEGI----PIGLNDLLIAATAIAHGLLLVTRD 115 (133)
T ss_pred HHHHHHHHHHHHHhcCC----CCChHHHHHHHHHHHcCCEEEEcC
Confidence 34568999999999999 234444556888888887654433
No 38
>PRK02984 sspO acid-soluble spore protein O; Provisional
Probab=27.40 E-value=28 Score=26.18 Aligned_cols=18 Identities=39% Similarity=0.545 Sum_probs=14.5
Q ss_pred CccCCChHHHhhhHHHHH
Q 022148 12 ARRKPTWRERENNRRRER 29 (302)
Q Consensus 12 ~~R~pt~rErEnnk~RER 29 (302)
+.-.-|..||+|||+|..
T Consensus 30 ~nepLt~aqrQnNKKrKk 47 (49)
T PRK02984 30 ANEPLTEAERQNNKKRKK 47 (49)
T ss_pred ccccCCHHHHHhhhhhhc
Confidence 355679999999999864
No 39
>PRK06108 aspartate aminotransferase; Provisional
Probab=26.99 E-value=1.6e+02 Score=26.76 Aligned_cols=55 Identities=27% Similarity=0.378 Sum_probs=33.4
Q ss_pred hhHHHHHHHHHHHHHHHH---hhhh----cCCC---CCCCCCChHHHHHHHHHHhCcEEcCCCccc
Q 022148 23 NNRRRERRRRAIAAKIYT---GLRA----QGNY---NLPKHCDNNEVLKALCAEAGWVVEEDGTTY 78 (302)
Q Consensus 23 nnk~RERrRRAIaakIfa---GLR~----~gny---~Lpk~~d~nevlkaL~~eaGw~ve~dGtty 78 (302)
+.+++-+.+|....+.+. |++- .|.| +||...|..++.+.|.++.|..|- .|+.|
T Consensus 286 ~~~~~~~~~~~~l~~~L~~~~~~~~~~p~~g~~~~~~l~~~~~~~~~~~~ll~~~gV~v~-pg~~f 350 (382)
T PRK06108 286 ELVARLRRSRDHLVDALRALPGVEVAKPDGAMYAFFRIPGVTDSLALAKRLVDEAGLGLA-PGTAF 350 (382)
T ss_pred HHHHHHHHHHHHHHHHHHhCCCCcccCCCeeEEEEEeCCCCCCHHHHHHHHHHhCCEEEe-Cchhh
Confidence 344444445555555443 3332 2334 566656778899999999999885 46666
No 40
>PRK07550 hypothetical protein; Provisional
Probab=25.23 E-value=1.8e+02 Score=26.80 Aligned_cols=28 Identities=32% Similarity=0.430 Sum_probs=20.3
Q ss_pred CCC-CCChHHHHHHHHHHhCcEEcCCCccc
Q 022148 50 LPK-HCDNNEVLKALCAEAGWVVEEDGTTY 78 (302)
Q Consensus 50 Lpk-~~d~nevlkaL~~eaGw~ve~dGtty 78 (302)
+|. .-|..++.+.|+++.|..|-+ |..|
T Consensus 326 ~~~~~~~~~~l~~~l~~~~gv~v~p-g~~f 354 (386)
T PRK07550 326 HPFPDRPSREVARRLAKEAGILCLP-GTMF 354 (386)
T ss_pred CCCCCCCHHHHHHHHHHhcCEEEeC-chhh
Confidence 444 345678888888999998875 6666
No 41
>PRK07392 threonine-phosphate decarboxylase; Validated
Probab=24.86 E-value=1.2e+02 Score=27.79 Aligned_cols=34 Identities=12% Similarity=0.202 Sum_probs=23.0
Q ss_pred cCCCCCCCC-CChHHHHHHHHHHhCcEEcCCCcccc
Q 022148 45 QGNYNLPKH-CDNNEVLKALCAEAGWVVEEDGTTYR 79 (302)
Q Consensus 45 ~gny~Lpk~-~d~nevlkaL~~eaGw~ve~dGttyr 79 (302)
.|+|-+.+- .|..++.+.|.+++|+.|- +|+.|.
T Consensus 295 ~~~fl~~~~~~~~~~l~~~ll~~~gv~v~-pg~~f~ 329 (360)
T PRK07392 295 AANFLLVQSQGSALQLQEKLLQQHRILIR-DCLSFP 329 (360)
T ss_pred CCCEEEEEcCCCHHHHHHHHHhhCCEEEE-eCCCCC
Confidence 355544321 1567788888889999987 777773
No 42
>cd06453 SufS_like Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS catalyzes the removal of elemental sulfur and selenium atoms from L-cysteine, L-cystine, L-selenocysteine, and L-selenocystine to produce L-alanine; and selenocysteine lyase catalyzes the decomposition of L-selenocysteine.
Probab=24.75 E-value=1.6e+02 Score=26.62 Aligned_cols=45 Identities=13% Similarity=0.107 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHhhhhcCCCCCC--------------CCCChHHHHHHHHHHhCcEEcCC
Q 022148 29 RRRRAIAAKIYTGLRAQGNYNLP--------------KHCDNNEVLKALCAEAGWVVEED 74 (302)
Q Consensus 29 RrRRAIaakIfaGLR~~gny~Lp--------------k~~d~nevlkaL~~eaGw~ve~d 74 (302)
.+.++++..+.++|+.++++.+. +..+.+++.+.|. +.|+++...
T Consensus 278 ~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~-~~gi~i~~g 336 (373)
T cd06453 278 AHEHELTAYALERLSEIPGVRVYGDAEDRAGVVSFNLEGIHPHDVATILD-QYGIAVRAG 336 (373)
T ss_pred HHHHHHHHHHHHHHhcCCCeEEeCCccccCCeEEEEECCcCHHHHHHHHH-HCCEEeccC
Confidence 33446777778888777654442 1125577888775 479988643
No 43
>cd08497 PBP2_NikA_DppA_OppA_like_14 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most s
Probab=24.45 E-value=97 Score=29.84 Aligned_cols=25 Identities=32% Similarity=0.375 Sum_probs=18.0
Q ss_pred hHHHHHHHHHHhCcEEcCCCccccC
Q 022148 56 NNEVLKALCAEAGWVVEEDGTTYRK 80 (302)
Q Consensus 56 ~nevlkaL~~eaGw~ve~dGttyr~ 80 (302)
+-|--|+|.+||||..+.||-.+.+
T Consensus 319 d~~kAk~lL~~aG~~~~~g~~~~~~ 343 (491)
T cd08497 319 NLRKALELLAEAGWTVRGGDILVNA 343 (491)
T ss_pred CHHHHHHHHHHcCCccCCCCEEECC
Confidence 5567788999999988765434444
No 44
>cd08509 PBP2_TmCBP_oligosaccharides_like The substrate binding domain of a cellulose-binding protein from Thermotoga maritima contains the type 2 periplasmic binding fold. This family represents the substrate-binding domain of a cellulose-binding protein from the hyperthermophilic bacterium Thermotoga maritima (TmCBP) and its closest related proteins. TmCBP binds a variety of lengths of beta-1,4-linked glucose oligomers, ranging from two sugar rings (cellobiose) to five (cellopentose). TmCBP is structurally homologous to domains I and III of the ATP-binding cassette (ABC)-type oligopeptide-binding proteins and thus belongs to the type 2 periplasmic binding fold protein (PBP2) superfamily. The type 2 periplasmic binding proteins are soluble ligand-binding components of ABC or tripartite ATP-independent transporters and chemotaxis systems. Members of the PBP2 superfamily function in uptake of a variety of metabolites in bacteria such as amino acids, carbohydrate, ions, and polyamines. L
Probab=24.34 E-value=1.3e+02 Score=29.11 Aligned_cols=24 Identities=29% Similarity=0.451 Sum_probs=18.2
Q ss_pred HHHHHHHHHHhCcEEcCCCccccC
Q 022148 57 NEVLKALCAEAGWVVEEDGTTYRK 80 (302)
Q Consensus 57 nevlkaL~~eaGw~ve~dGttyr~ 80 (302)
-|--|+|.+||||.++.||.-|.+
T Consensus 324 ~~~A~~lL~~aG~~~~~~G~~~~~ 347 (509)
T cd08509 324 PDKAKKLLESAGFKKDKDGKWYTP 347 (509)
T ss_pred HHHHHHHHHHcCCeECCCCeEECC
Confidence 345568889999999889966543
No 45
>PTZ00376 aspartate aminotransferase; Provisional
Probab=24.07 E-value=1.7e+02 Score=27.47 Aligned_cols=20 Identities=15% Similarity=0.234 Sum_probs=16.5
Q ss_pred hHHHHHHHHHHhCcEEcCCC
Q 022148 56 NNEVLKALCAEAGWVVEEDG 75 (302)
Q Consensus 56 ~nevlkaL~~eaGw~ve~dG 75 (302)
.+|+.+.|.+|+|-.|-+.|
T Consensus 359 ~~~~~~~L~~~~~v~v~p~~ 378 (404)
T PTZ00376 359 TKEQVERLIEKYHIYLLDNG 378 (404)
T ss_pred CHHHHHHHHHhCCEeecCCC
Confidence 46888999999998887764
No 46
>COG1961 PinR Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]
Probab=24.04 E-value=1.5e+02 Score=25.86 Aligned_cols=46 Identities=22% Similarity=0.159 Sum_probs=31.4
Q ss_pred HHHhhhHHHHHHHHHHHHHHHHhhhhcCC------CCCCCCCChHHHHHHHH
Q 022148 19 RERENNRRRERRRRAIAAKIYTGLRAQGN------YNLPKHCDNNEVLKALC 64 (302)
Q Consensus 19 rErEnnk~RERrRRAIaakIfaGLR~~gn------y~Lpk~~d~nevlkaL~ 64 (302)
-|-|.+..+||.|+.|+++--.|....+. +.+++-.+..+.++.|.
T Consensus 122 Ae~Er~~i~er~~~g~~~a~~~G~~~g~~~~~~~~~~~~~~~~~~~~v~~l~ 173 (222)
T COG1961 122 AEFERELISERTRAGIEAARKAGKEGGRPPGYKIKKGRKKAEEQAAAVRRLL 173 (222)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCcCCCCCccccccccccccchhHHHHHHHH
Confidence 47788899999999999988888776643 23455555544444443
No 47
>PRK12495 hypothetical protein; Provisional
Probab=23.99 E-value=1e+02 Score=29.29 Aligned_cols=55 Identities=25% Similarity=0.403 Sum_probs=34.9
Q ss_pred hHHHhhhHHHHH-----HHHHHHHHHHHhhhhcCCCCCCCCCC-hHHHHHHHHHHhCcEEcCCCccccCCCC
Q 022148 18 WRERENNRRRER-----RRRAIAAKIYTGLRAQGNYNLPKHCD-NNEVLKALCAEAGWVVEEDGTTYRKGTR 83 (302)
Q Consensus 18 ~rErEnnk~RER-----rRRAIaakIfaGLR~~gny~Lpk~~d-~nevlkaL~~eaGw~ve~dGttyr~g~k 83 (302)
.||.|+.|+||. .+|. +.|+.+-|-..|.--|.+||. =+.-|= ..+|.+|=..|.
T Consensus 5 DkEaEREkLREKye~d~~~R~-~~~~ma~lL~~gatmsa~hC~~CG~PIp----------a~pG~~~Cp~CQ 65 (226)
T PRK12495 5 DKEAEREKLREKYEQDEQKRE-ATERMSELLLQGATMTNAHCDECGDPIF----------RHDGQEFCPTCQ 65 (226)
T ss_pred hHHHHHHHHHHHHhhhHHHHH-HHHHHHHHHHhhcccchhhcccccCccc----------CCCCeeECCCCC
Confidence 478888888885 3333 456667777777788888883 232222 336666655555
No 48
>PRK07908 hypothetical protein; Provisional
Probab=23.18 E-value=1.4e+02 Score=27.18 Aligned_cols=55 Identities=24% Similarity=0.308 Sum_probs=28.7
Q ss_pred hhhHHHHHHHHHHHHHHHHhh--h----hcCCCCCCCCCChHHHHHHHHHHhCcEEcCCCccc
Q 022148 22 ENNRRRERRRRAIAAKIYTGL--R----AQGNYNLPKHCDNNEVLKALCAEAGWVVEEDGTTY 78 (302)
Q Consensus 22 Ennk~RERrRRAIaakIfaGL--R----~~gny~Lpk~~d~nevlkaL~~eaGw~ve~dGtty 78 (302)
++.+++-++||....+.+..+ + ..|+|-+-+ .+..+.+..++++.|..|. +|+.|
T Consensus 256 ~~~~~~~~~~r~~l~~~L~~~~~~~~~p~~g~~~~~~-~~~~~~~~~~l~~~gI~v~-~g~~f 316 (349)
T PRK07908 256 AADAARLAADRAEMVAGLRAVGARVVDPAAAPFVLVR-VPDAELLRKRLRERGIAVR-RGDTF 316 (349)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCcEeccCCCceEEEEE-CCcHHHHHHHHHhCCEEEE-ECCCC
Confidence 334555555555555555432 2 223342111 1224566667789998886 55555
No 49
>TIGR03542 DAPAT_plant LL-diaminopimelate aminotransferase. This clade of the pfam00155 superfamily of aminotransferases includes several which are adjacent to elements of the lysine biosynthesis via diaminopimelate pathway (GenProp0125). This clade includes characterized species in plants and Chlamydia. Every member of this clade is from a genome which possesses most of the lysine biosynthesis pathway but lacks any of the known succinylases, desuccinylases, acetylases or deacetylases typical of the acylated versions of this pathway nor do they have the direct, NADPH-dependent enzyme (ddh).
Probab=23.18 E-value=2.4e+02 Score=26.47 Aligned_cols=29 Identities=14% Similarity=0.161 Sum_probs=22.4
Q ss_pred CCCCCCChHHHHHHHHHHhCcEEcCCCccc
Q 022148 49 NLPKHCDNNEVLKALCAEAGWVVEEDGTTY 78 (302)
Q Consensus 49 ~Lpk~~d~nevlkaL~~eaGw~ve~dGtty 78 (302)
+||...|..++.+.|+++.|.+|- +|+.|
T Consensus 344 ~l~~~~~~~~l~~~l~~~~gv~v~-pg~~f 372 (402)
T TIGR03542 344 KTPEGISSWDFFDFLLYQYHVVGT-PGSGF 372 (402)
T ss_pred ECCCCCCHHHHHHHHHHhCCEEEe-Cchhh
Confidence 355555677899999999999886 57777
No 50
>PLN02397 aspartate transaminase
Probab=22.93 E-value=1.9e+02 Score=27.76 Aligned_cols=22 Identities=18% Similarity=0.246 Sum_probs=17.8
Q ss_pred CCChHHHHHHHHHHhCcEEcCCC
Q 022148 53 HCDNNEVLKALCAEAGWVVEEDG 75 (302)
Q Consensus 53 ~~d~nevlkaL~~eaGw~ve~dG 75 (302)
.++ .++.+.|.+|+|..|-.+|
T Consensus 375 ~l~-~~~~~~Ll~~~~V~v~~~~ 396 (423)
T PLN02397 375 GLN-KEQVDRMTKEYHIYMTRDG 396 (423)
T ss_pred CCC-HHHHHHHHHhCCEEECCCC
Confidence 345 5688899999999998777
No 51
>PRK07590 L,L-diaminopimelate aminotransferase; Validated
Probab=21.99 E-value=2.4e+02 Score=26.46 Aligned_cols=30 Identities=20% Similarity=0.276 Sum_probs=21.5
Q ss_pred CCCCCCChHHHHHHHHHHhCcEEcCCCcccc
Q 022148 49 NLPKHCDNNEVLKALCAEAGWVVEEDGTTYR 79 (302)
Q Consensus 49 ~Lpk~~d~nevlkaL~~eaGw~ve~dGttyr 79 (302)
++|+..+..++.+.|++++|.+|-+ |+.|.
T Consensus 351 ~~~~~~~~~~~~~~l~~~~gv~v~p-g~~f~ 380 (409)
T PRK07590 351 KTPDGMSSWDFFDKLLQEANVVGTP-GSGFG 380 (409)
T ss_pred ECCCCCCHHHHHHHHHHHCCEEEeC-hhHhC
Confidence 3555556677888888899998864 66663
No 52
>TIGR03538 DapC_gpp succinyldiaminopimelate transaminase. This family of succinyldiaminopimelate transaminases (DapC) includes the experimentally characterized enzyme from Bordatella pertussis. The majority of genes in this family are proximal to genes encoding components of the lysine biosynthesis via diaminopimelate pathway (GenProp0125).
Probab=21.76 E-value=1.3e+02 Score=27.97 Aligned_cols=24 Identities=25% Similarity=0.266 Sum_probs=18.7
Q ss_pred CChHHHHHHHHHHhCcEEcCCCccc
Q 022148 54 CDNNEVLKALCAEAGWVVEEDGTTY 78 (302)
Q Consensus 54 ~d~nevlkaL~~eaGw~ve~dGtty 78 (302)
.|..++.++|++++|..|-+ |+.|
T Consensus 334 ~~~~~~~~~l~~~~gV~v~p-g~~f 357 (393)
T TIGR03538 334 GDDEAFARALYEEENVTVLP-GRFL 357 (393)
T ss_pred CCHHHHHHHHHHHCCEEEeC-Cccc
Confidence 36788999999999998874 4455
No 53
>KOG3910 consensus Helix loop helix transcription factor [Transcription]
Probab=21.53 E-value=62 Score=34.36 Aligned_cols=12 Identities=42% Similarity=0.385 Sum_probs=8.8
Q ss_pred CChHHHHHHHHH
Q 022148 54 CDNNEVLKALCA 65 (302)
Q Consensus 54 ~d~nevlkaL~~ 65 (302)
-||||-+|.|-+
T Consensus 539 RDINeAfKELGR 550 (632)
T KOG3910|consen 539 RDINEAFKELGR 550 (632)
T ss_pred hhHHHHHHHHHH
Confidence 488888887743
No 54
>PRK10534 L-threonine aldolase; Provisional
Probab=21.34 E-value=1.8e+02 Score=26.08 Aligned_cols=42 Identities=14% Similarity=0.120 Sum_probs=23.3
Q ss_pred HHHHHhhhhc--------CCCCCCCCC--ChHHHHHHHHHHhCcEEcCCCcccc
Q 022148 36 AKIYTGLRAQ--------GNYNLPKHC--DNNEVLKALCAEAGWVVEEDGTTYR 79 (302)
Q Consensus 36 akIfaGLR~~--------gny~Lpk~~--d~nevlkaL~~eaGw~ve~dGttyr 79 (302)
.++...|+++ +||-+-+.- +..++ ..+..+.|+.|-+ |..+|
T Consensus 257 ~~l~~~L~~~g~~~~~~~~nfv~~~~~~~~~~~~-~~~l~~~gi~v~~-~~~~r 308 (333)
T PRK10534 257 AWLAEQLREAGADVMRQDTNMLFVRVGEEQAAAL-GEYMRERNVLINA-SPIVR 308 (333)
T ss_pred HHHHHHHHhCCCccCCCCceEEEEECCchhHHHH-HHHHHHcCeeecC-CceEE
Confidence 4555566553 455443332 23344 5677888999954 44333
No 55
>cd01560 Thr-synth_2 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria, archaebacteria and eubacterial groups. This CD, Thr-synth_2, includes enzymes from fungi and eubacterial groups, as well as, metazoan threonine synthase-like proteins.
Probab=21.30 E-value=1.1e+02 Score=30.87 Aligned_cols=62 Identities=23% Similarity=0.327 Sum_probs=41.5
Q ss_pred CCChHHHhhhHHHHHHHHHHHHHHHHhhhhcCCCCCCC-------------CCChHHHHHHH---HHHhCcEEcCCCcc
Q 022148 15 KPTWRERENNRRRERRRRAIAAKIYTGLRAQGNYNLPK-------------HCDNNEVLKAL---CAEAGWVVEEDGTT 77 (302)
Q Consensus 15 ~pt~rErEnnk~RERrRRAIaakIfaGLR~~gny~Lpk-------------~~d~nevlkaL---~~eaGw~ve~dGtt 77 (302)
.|+--||=-.-.+++-. ...+..+..|...|.|.|++ .++..|+++++ .++.|++|||-+-+
T Consensus 314 ~psn~eR~L~~l~~~~g-~~~~~~m~~~~~~g~~~~~~~~l~~~~~~f~a~~vsD~ei~~~i~~~~~~~G~~vdPhtAv 391 (460)
T cd01560 314 KSSNFERLLFLLAGRDR-TKVKMLMEEFEATGFLSLPKEELKKLREDFSSGSVSDEETLETIREVYEETGYLIDPHTAV 391 (460)
T ss_pred CCCCHHHHHHHHhCCCH-HHHHHHHHHHHhcCCEecCHHHHHhhhccceEEEECHHHHHHHHHHHHHhcCEEECchHHH
Confidence 34444554333332222 33467888999999999986 67888877655 56789999998743
No 56
>COG2162 NhoA Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=21.21 E-value=86 Score=30.51 Aligned_cols=36 Identities=22% Similarity=0.357 Sum_probs=30.8
Q ss_pred HHHHHHHHHhhhhcCCCCCCCCCChHHHHHHHHHHhCcEEcC
Q 022148 32 RAIAAKIYTGLRAQGNYNLPKHCDNNEVLKALCAEAGWVVEE 73 (302)
Q Consensus 32 RAIaakIfaGLR~~gny~Lpk~~d~nevlkaL~~eaGw~ve~ 73 (302)
.|+.+||.. +++|+|. -+.|-+++.+.+|.|+.|+.
T Consensus 55 ~al~~KLv~--~rRGGyC----fElNglf~~vL~~lGF~v~~ 90 (275)
T COG2162 55 QALEDKLVL--ARRGGYC----FELNGLFGRVLRELGFNVRL 90 (275)
T ss_pred HHHHHHHHh--cccccee----hhhhhHHHHHHHHcCCccee
Confidence 367888864 5699998 79999999999999998876
No 57
>PLN02705 beta-amylase
Probab=21.06 E-value=97 Score=33.54 Aligned_cols=35 Identities=20% Similarity=0.237 Sum_probs=23.9
Q ss_pred CCCCCCCCccCCChHHHhhhHHHHHHHHHHHHHHHH
Q 022148 5 GATSTSAARRKPTWRERENNRRRERRRRAIAAKIYT 40 (302)
Q Consensus 5 g~~~g~~~~R~pt~rErEnnk~RERrRRAIaakIfa 40 (302)
++|||||+.+ ---||||+.|.|-|||..=-..|-+
T Consensus 66 ~~~~~~~~~~-~~~~~~~~e~e~~~~rer~rrai~~ 100 (681)
T PLN02705 66 SSGGGGGGGG-KGKREREKEKERTKLRERHRRAITS 100 (681)
T ss_pred cCCCCCCCCC-CCCCcchhhhhhhHHHHHHHHHHHH
Confidence 4444444444 4567899888888888876666655
No 58
>PRK08912 hypothetical protein; Provisional
Probab=20.91 E-value=2.2e+02 Score=26.27 Aligned_cols=25 Identities=20% Similarity=0.206 Sum_probs=18.4
Q ss_pred CChHHHHHHHHHHhCcEEcCCCcccc
Q 022148 54 CDNNEVLKALCAEAGWVVEEDGTTYR 79 (302)
Q Consensus 54 ~d~nevlkaL~~eaGw~ve~dGttyr 79 (302)
-|..++.+.|+++.|+.|. +|..|.
T Consensus 329 ~~~~~~~~~l~~~~gV~v~-pg~~f~ 353 (387)
T PRK08912 329 EDDVAFCRRLVEEAGVAAI-PVSAFY 353 (387)
T ss_pred CCHHHHHHHHHhcCCEEEe-cchhhC
Confidence 3556688888889999887 566664
No 59
>PRK14809 histidinol-phosphate aminotransferase; Provisional
Probab=20.69 E-value=1.3e+02 Score=27.45 Aligned_cols=46 Identities=24% Similarity=0.363 Sum_probs=27.4
Q ss_pred HHHHHHHHHH--hhhhcCCCCCCCCCChHHHHHHHHHHhCcEEcCCCccc
Q 022148 31 RRAIAAKIYT--GLRAQGNYNLPKHCDNNEVLKALCAEAGWVVEEDGTTY 78 (302)
Q Consensus 31 RRAIaakIfa--GLR~~gny~Lpk~~d~nevlkaL~~eaGw~ve~dGtty 78 (302)
||.+..+.+. ++...|+|-+-+--|..++.++ |.++|..|-+ |+.|
T Consensus 281 ~r~~l~~~L~~~~~~~~g~f~~~~~~~~~~~~~~-l~~~gv~v~~-g~~f 328 (357)
T PRK14809 281 AREYIREELDAPTWESAGNFVLAEVGDASAVAEA-AQERGVIVRD-CTSF 328 (357)
T ss_pred HHHHHHHHhcCccCCCCCCEEEEECCCHHHHHHH-HHHCCEEEEE-CccC
Confidence 4444444443 3455677766544466666665 5788987774 6656
No 60
>COG4702 Uncharacterized conserved protein [Function unknown]
Probab=20.17 E-value=74 Score=29.13 Aligned_cols=22 Identities=36% Similarity=0.510 Sum_probs=19.4
Q ss_pred CCCCCCChHHHHHHHHHHhCcE
Q 022148 49 NLPKHCDNNEVLKALCAEAGWV 70 (302)
Q Consensus 49 ~Lpk~~d~nevlkaL~~eaGw~ 70 (302)
-||++-|.|-|+++||+-+|--
T Consensus 139 GlpqreDHnlvv~aL~~~lg~~ 160 (168)
T COG4702 139 GLPQREDHNLVVRALADHLGID 160 (168)
T ss_pred CCCcccchhHHHHHHHHHhCCC
Confidence 4789999999999999998853
Done!