Query 020567
Match_columns 324
No_of_seqs 85 out of 87
Neff 2.6
Searched_HMMs 46136
Date Fri Mar 29 03:26:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020567.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020567hhsearch_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 9.9E-63 2.2E-67 424.8 13.8 140 2-142 1-148 (150)
2 PLN02905 beta-amylase 100.0 7.8E-36 1.7E-40 301.5 10.3 92 4-100 78-172 (702)
3 PLN02705 beta-amylase 100.0 1E-33 2.2E-38 285.5 9.4 74 5-78 77-150 (681)
4 PF05687 DUF822: Plant protein 61.8 14 0.00031 33.4 4.6 33 91-123 82-114 (150)
5 PF11914 DUF3432: Domain of un 61.6 16 0.00034 31.1 4.5 27 97-123 33-59 (99)
6 PF00010 HLH: Helix-loop-helix 60.1 35 0.00076 24.1 5.5 45 13-57 2-49 (55)
7 KOG0260 RNA polymerase II, lar 50.3 2.8E+02 0.0061 33.0 13.0 13 44-56 1371-1383(1605)
8 TIGR03674 fen_arch flap struct 45.9 42 0.00092 32.6 5.3 57 6-62 82-145 (338)
9 PF14226 DIOX_N: non-haem diox 45.5 23 0.0005 27.6 2.9 39 21-59 11-49 (116)
10 PF00424 REV: REV protein (ant 45.0 29 0.00062 29.1 3.5 26 9-34 32-61 (91)
11 PF14111 DUF4283: Domain of un 43.3 12 0.00027 30.3 1.2 33 40-72 110-142 (153)
12 PRK07309 aromatic amino acid a 42.5 57 0.0012 30.8 5.5 30 41-71 326-357 (391)
13 PRK07682 hypothetical protein; 41.2 57 0.0012 30.4 5.2 25 46-71 321-345 (378)
14 PRK08361 aspartate aminotransf 41.2 60 0.0013 30.5 5.4 57 14-71 292-359 (391)
15 PF10075 PCI_Csn8: COP9 signal 40.2 23 0.0005 29.5 2.3 24 49-72 111-134 (143)
16 PLN02409 serine--glyoxylate am 38.7 90 0.0019 29.9 6.3 36 40-75 311-351 (401)
17 PRK05957 aspartate aminotransf 36.5 62 0.0013 30.6 4.8 28 42-70 325-352 (389)
18 KOG0733 Nuclear AAA ATPase (VC 34.8 24 0.00053 38.6 2.0 44 20-63 363-411 (802)
19 PRK05942 aspartate aminotransf 34.1 1E+02 0.0023 29.1 5.9 30 41-71 332-361 (394)
20 PRK09276 LL-diaminopimelate am 32.6 1.2E+02 0.0027 28.2 6.0 28 42-70 329-356 (385)
21 PRK08363 alanine aminotransfer 31.5 83 0.0018 29.7 4.7 24 47-71 340-363 (398)
22 cd08517 PBP2_NikA_DppA_OppA_li 31.4 66 0.0014 30.6 4.1 19 50-68 314-332 (480)
23 cd08513 PBP2_thermophilic_Hb8_ 30.1 82 0.0018 30.2 4.5 22 50-71 310-331 (482)
24 TIGR01365 serC_2 phosphoserine 29.6 1.5E+02 0.0033 29.2 6.4 61 15-76 260-353 (374)
25 PF11914 DUF3432: Domain of un 28.8 50 0.0011 28.2 2.5 32 91-124 21-52 (99)
26 cd06451 AGAT_like Alanine-glyo 28.5 1.7E+02 0.0036 26.8 6.0 45 19-64 260-320 (356)
27 TIGR03538 DapC_gpp succinyldia 27.5 92 0.002 29.3 4.3 24 46-70 334-357 (393)
28 PRK07683 aminotransferase A; V 27.3 1.4E+02 0.0031 28.2 5.5 56 15-71 287-352 (387)
29 COG1487 VapC Predicted nucleic 27.2 1.2E+02 0.0026 24.6 4.4 39 24-66 76-114 (133)
30 PRK12454 carbamate kinase-like 27.1 47 0.001 32.7 2.4 26 49-74 138-164 (313)
31 TIGR03537 DapC succinyldiamino 26.1 1.4E+02 0.003 27.6 5.2 29 41-71 294-322 (350)
32 cd08497 PBP2_NikA_DppA_OppA_li 26.0 86 0.0019 30.6 4.0 25 48-72 319-343 (491)
33 cd08509 PBP2_TmCBP_oligosaccha 26.0 1E+02 0.0022 30.2 4.5 23 50-72 325-347 (509)
34 smart00550 Zalpha Z-DNA-bindin 25.3 1.3E+02 0.0028 22.7 4.0 50 24-75 5-67 (68)
35 PRK07908 hypothetical protein; 25.2 1.7E+02 0.0038 27.0 5.6 55 14-70 256-316 (349)
36 cd06453 SufS_like Cysteine des 25.0 1.5E+02 0.0033 27.2 5.1 45 21-66 278-336 (373)
37 PTZ00376 aspartate aminotransf 25.0 1.6E+02 0.0035 28.0 5.5 20 48-67 359-378 (404)
38 PRK06108 aspartate aminotransf 24.7 1.8E+02 0.0039 26.8 5.6 30 41-71 322-351 (382)
39 KOG0260 RNA polymerase II, lar 24.6 1.3E+03 0.028 27.9 14.3 28 28-55 1379-1406(1605)
40 PRK07681 aspartate aminotransf 24.4 1.6E+02 0.0034 28.0 5.2 29 42-71 329-357 (399)
41 TIGR03542 DAPAT_plant LL-diami 23.2 2.3E+02 0.0049 27.0 6.1 29 41-70 344-372 (402)
42 KOG3960 Myogenic helix-loop-he 22.9 4.5E+02 0.0098 26.2 8.0 64 11-76 117-190 (284)
43 COG1961 PinR Site-specific rec 22.8 1.6E+02 0.0035 26.0 4.7 46 11-56 122-173 (222)
44 cd08500 PBP2_NikA_DppA_OppA_li 22.4 1.3E+02 0.0028 29.6 4.4 22 50-71 316-338 (499)
45 PRK07550 hypothetical protein; 22.3 2.2E+02 0.0047 26.7 5.7 28 42-70 326-354 (386)
46 PRK12495 hypothetical protein; 22.2 1.2E+02 0.0025 29.3 3.9 55 10-75 5-65 (226)
47 PLN02397 aspartate transaminas 21.7 2E+02 0.0043 28.0 5.5 22 45-67 375-396 (423)
48 PRK07392 threonine-phosphate d 21.5 1.1E+02 0.0024 28.4 3.6 33 38-71 296-329 (360)
49 PRK07590 L,L-diaminopimelate a 21.3 2.5E+02 0.0053 26.8 5.9 30 41-71 351-380 (409)
50 COG2162 NhoA Arylamine N-acety 21.3 84 0.0018 30.9 2.8 36 24-65 55-90 (275)
51 cd08490 PBP2_NikA_DppA_OppA_li 21.1 1.5E+02 0.0033 28.2 4.4 48 23-70 258-315 (470)
52 TIGR02294 nickel_nikA nickel A 21.0 1.5E+02 0.0033 28.8 4.6 17 50-66 315-331 (500)
53 cd08873 START_STARD14_15-like 20.7 58 0.0013 30.7 1.6 26 46-71 41-67 (235)
54 PRK10534 L-threonine aldolase; 20.4 1.9E+02 0.004 26.3 4.7 43 28-71 257-308 (333)
55 TIGR02864 spore_sspO small, ac 20.3 44 0.00095 25.5 0.6 15 8-22 35-49 (50)
56 PRK14809 histidinol-phosphate 20.2 1.3E+02 0.0029 27.8 3.8 46 23-70 281-328 (357)
57 COG4702 Uncharacterized conser 20.2 71 0.0015 29.5 2.0 23 41-63 139-161 (168)
58 PRK08912 hypothetical protein; 20.1 2.3E+02 0.0051 26.5 5.4 24 47-71 330-353 (387)
59 cd08518 PBP2_NikA_DppA_OppA_li 20.1 1.6E+02 0.0035 28.3 4.5 20 49-68 299-318 (464)
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=9.9e-63 Score=424.78 Aligned_cols=140 Identities=80% Similarity=1.256 Sum_probs=130.1
Q ss_pred CCCCCCCChHHHhhhHHHHHHHHHHHHHHHHhhhhcCCCCCCCcCChHHHHHHHHHhcCceECCCCcccccCCCCCCccc
Q 020567 2 TSGARLPTWKERENNKRRERRRRAIAAKIFAGLRMYGNYKLPKHCDNNEVLKALCNEAGWTVEPDGTTYRKGCKPVERMD 81 (324)
Q Consensus 2 ts~~r~ptw~ErEnnk~RERrRRaiaakI~~Glr~~gny~lp~~~d~nevl~al~~eagw~ve~dgttyr~g~kp~~~~~ 81 (324)
|++.|+||||||||||+|||||||||+|||+|||+||||+|||||||||||||||+||||+||+|||||||+|||+++++
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 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCCCCCCCCC--------CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCchhHHhhhcccCCC
Q 020567 82 IVGGSAVASPCSSYH--------PSPCASYNPSPASSSFPSPASSSYAANPNADNSLIPWLKNLSSASS 142 (324)
Q Consensus 82 ~~g~Sa~~SPcSS~~--------pSP~aSY~~SP~SSsfPSPtss~~~~~~~~~~~LiPwLknls~~~~ 142 (324)
++|+++.++||||++ +||++||+++|.+++||||++.+.+..... ++|||||||+++.++
T Consensus 81 ~~g~s~~~sp~ss~~~~~~ss~~~sp~~s~~~s~~ss~~pSp~~~d~~~~~~~-~~~~p~~~~~~~~~s 148 (150)
T PF05687_consen 81 IVGSSASASPCSSYQLSPNSSAFPSPVPSYQPSPSSSSFPSPSSLDSINNSSS-SSLIPWLKNLSSGSS 148 (150)
T ss_pred ccccCCCCCCcCCCcCCccccCcCCcccccCCCcCCCCCCCCccccccccccc-ccccchhhccccCcC
Confidence 999999999999987 889999999999999999999886554322 899999999987544
No 2
>PLN02905 beta-amylase
Probab=100.00 E-value=7.8e-36 Score=301.46 Aligned_cols=92 Identities=50% Similarity=0.742 Sum_probs=83.4
Q ss_pred CCCCCChHHHhhhHHHHHHHHHHHHHHHHhhhhcCCCCCCCcCChHHHHHHHHHhcCceECCCCcccc---cCCCCCCcc
Q 020567 4 GARLPTWKERENNKRRERRRRAIAAKIFAGLRMYGNYKLPKHCDNNEVLKALCNEAGWTVEPDGTTYR---KGCKPVERM 80 (324)
Q Consensus 4 ~~r~ptw~ErEnnk~RERrRRaiaakI~~Glr~~gny~lp~~~d~nevl~al~~eagw~ve~dgttyr---~g~kp~~~~ 80 (324)
..|.|+||||||||+|||||||||+|||+|||+||||+||+|||+||||||||+||||+||+|||||| ++|||..
T Consensus 78 ~~~~~~~~ere~~~~rer~rrai~~~i~~glr~~g~~~lp~~~d~n~v~~~l~~eag~~v~~dg~~y~~~~~~~~~~~-- 155 (702)
T PLN02905 78 SRRSRPLEEKERTKLRERHRRAITARILAGLRRHGNYNLRVRADINDVIAALAREAGWVVLPDGTTFPSRSQGTRPAG-- 155 (702)
T ss_pred cCCCCchhhhhhhHHHHHHHHHHHHHHHHHHHhhcCCCCCcccchHHHHHHHHHhcCcEEcCCCCcccccCCCCCCCC--
Confidence 37999999999999999999999999999999999999999999999999999999999999999999 4554442
Q ss_pred cccCCCCCCCCCCCCCCCCC
Q 020567 81 DIVGGSAVASPCSSYHPSPC 100 (324)
Q Consensus 81 ~~~g~Sa~~SPcSS~~pSP~ 100 (324)
|+|+.+.+|+|+|.-.+
T Consensus 156 ---~~~~~~~~~~~~~~~~~ 172 (702)
T PLN02905 156 ---GTSAVAATSSSSHLVSQ 172 (702)
T ss_pred ---Ccccccccccccccccc
Confidence 67888899998876543
No 3
>PLN02705 beta-amylase
Probab=100.00 E-value=1e-33 Score=285.54 Aligned_cols=74 Identities=54% Similarity=0.886 Sum_probs=72.2
Q ss_pred CCCCChHHHhhhHHHHHHHHHHHHHHHHhhhhcCCCCCCCcCChHHHHHHHHHhcCceECCCCcccccCCCCCC
Q 020567 5 ARLPTWKERENNKRRERRRRAIAAKIFAGLRMYGNYKLPKHCDNNEVLKALCNEAGWTVEPDGTTYRKGCKPVE 78 (324)
Q Consensus 5 ~r~ptw~ErEnnk~RERrRRaiaakI~~Glr~~gny~lp~~~d~nevl~al~~eagw~ve~dgttyr~g~kp~~ 78 (324)
+|.|+||||||||+|||||||||+|||+|||+||||+||+|||+||||||||+||||+||+|||||||+++|.+
T Consensus 77 ~~~~~~~e~e~~~~rer~rrai~~ki~aglr~~g~~~lp~~~d~n~vl~al~~eagw~v~~dg~~yr~~~~~~~ 150 (681)
T PLN02705 77 GKREREKEKERTKLRERHRRAITSRMLAGLRQYGNFPLPARADMNDVLAALAREAGWTVEADGTTYRQSPQPSH 150 (681)
T ss_pred CCCcchhhhhhhHHHHHHHHHHHHHHHHHHHhccCCCCCcccchHHHHHHHHHhcCcEEcCCCCcccCCCCCcc
Confidence 67899999999999999999999999999999999999999999999999999999999999999999999875
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=61.76 E-value=14 Score=33.35 Aligned_cols=33 Identities=48% Similarity=0.690 Sum_probs=24.5
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 020567 91 PCSSYHPSPCASYNPSPASSSFPSPASSSYAAN 123 (324)
Q Consensus 91 PcSS~~pSP~aSY~~SP~SSsfPSPtss~~~~~ 123 (324)
..+|...+|+.+|+.++.+++|+||..+....+
T Consensus 82 ~g~s~~~sp~ss~~~~~~ss~~~sp~~s~~~s~ 114 (150)
T PF05687_consen 82 VGSSASASPCSSYQLSPNSSAFPSPVPSYQPSP 114 (150)
T ss_pred cccCCCCCCcCCCcCCccccCcCCcccccCCCc
Confidence 445677899999998888888888776654433
No 5
>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=61.64 E-value=16 Score=31.13 Aligned_cols=27 Identities=44% Similarity=0.779 Sum_probs=15.3
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 020567 97 PSPCASYNPSPASSSFPSPASSSYAAN 123 (324)
Q Consensus 97 pSP~aSY~~SP~SSsfPSPtss~~~~~ 123 (324)
|||.++...||.+|..|||.-+.|+++
T Consensus 33 PSPV~tsy~sp~~S~ypSPvhs~fPSP 59 (99)
T PF11914_consen 33 PSPVPTSYSSPVSSCYPSPVHSSFPSP 59 (99)
T ss_pred CCccccccCCCCccccccccccCCCCc
Confidence 455555555666666666665555544
No 6
>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=60.06 E-value=35 Score=24.12 Aligned_cols=45 Identities=24% Similarity=0.330 Sum_probs=32.0
Q ss_pred HhhhHHHHHHHHHHHHHHHHhhhhcCCCC---CCCcCChHHHHHHHHH
Q 020567 13 RENNKRRERRRRAIAAKIFAGLRMYGNYK---LPKHCDNNEVLKALCN 57 (324)
Q Consensus 13 rEnnk~RERrRRaiaakI~~Glr~~gny~---lp~~~d~nevl~al~~ 57 (324)
|++...+||+||.=-..-|.-|+.+=-.. -..+-|..+||..-|+
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 67778899988887777788888764443 2345677788876654
No 7
>KOG0260 consensus RNA polymerase II, large subunit [Transcription]
Probab=50.30 E-value=2.8e+02 Score=32.96 Aligned_cols=13 Identities=23% Similarity=0.442 Sum_probs=7.2
Q ss_pred CcCChHHHHHHHH
Q 020567 44 KHCDNNEVLKALC 56 (324)
Q Consensus 44 ~~~d~nevl~al~ 56 (324)
.+|.-.|...-|.
T Consensus 1371 mrcSfEetv~il~ 1383 (1605)
T KOG0260|consen 1371 MRCSFEETVDILM 1383 (1605)
T ss_pred ccccHHHHHHHHH
Confidence 4676665544443
No 8
>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=45.86 E-value=42 Score=32.56 Aligned_cols=57 Identities=23% Similarity=0.186 Sum_probs=34.0
Q ss_pred CCCChHHHhhhHHHHHHHHHHHHHH-------HHhhhhcCCCCCCCcCChHHHHHHHHHhcCce
Q 020567 6 RLPTWKERENNKRRERRRRAIAAKI-------FAGLRMYGNYKLPKHCDNNEVLKALCNEAGWT 62 (324)
Q Consensus 6 r~ptw~ErEnnk~RERrRRaiaakI-------~~Glr~~gny~lp~~~d~nevl~al~~eagw~ 62 (324)
.-|+.|..+..+|+++|..|...-. ....+++.+-..+-.-++.+.++.|++..|+-
T Consensus 82 ~~p~~K~~~~~~R~~~r~~a~~~~~~~~~~g~~~~a~~~~~r~~~~~~~~~~~~k~lL~~~Gip 145 (338)
T TIGR03674 82 KPPELKAETLEERREIREEAEEKWEEALEKGDLEEARKYAQRSSRLTSEIVESSKKLLDLMGIP 145 (338)
T ss_pred CChhhhHhhHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCCe
Confidence 4588999999999999877544321 11223333222222234667777788877753
No 9
>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=45.50 E-value=23 Score=27.60 Aligned_cols=39 Identities=18% Similarity=0.281 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHhhhhcCCCCCCCcCChHHHHHHHHHhc
Q 020567 21 RRRRAIAAKIFAGLRMYGNYKLPKHCDNNEVLKALCNEA 59 (324)
Q Consensus 21 RrRRaiaakI~~Glr~~gny~lp~~~d~nevl~al~~ea 59 (324)
-.|.+++++|...++.+|-|.|=-|.-..++++.+.+.+
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 467889999999999999999999988777777666543
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=44.99 E-value=29 Score=29.10 Aligned_cols=26 Identities=38% Similarity=0.596 Sum_probs=17.7
Q ss_pred ChHHHhhhHHHHHHH----HHHHHHHHHhh
Q 020567 9 TWKERENNKRRERRR----RAIAAKIFAGL 34 (324)
Q Consensus 9 tw~ErEnnk~RERrR----RaiaakI~~Gl 34 (324)
|-+-|-|.+||-|+| ++|+.+||+-.
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 455666766665554 68999999854
No 11
>PF14111 DUF4283: Domain of unknown function (DUF4283)
Probab=43.35 E-value=12 Score=30.33 Aligned_cols=33 Identities=36% Similarity=0.559 Sum_probs=30.6
Q ss_pred CCCCCcCChHHHHHHHHHhcCceECCCCccccc
Q 020567 40 YKLPKHCDNNEVLKALCNEAGWTVEPDGTTYRK 72 (324)
Q Consensus 40 y~lp~~~d~nevl~al~~eagw~ve~dgttyr~ 72 (324)
|.||.++=+.+++++++...|=+++-|.+|...
T Consensus 110 ~glP~~~~~~~~~~~i~~~iG~~i~vD~~t~~~ 142 (153)
T PF14111_consen 110 YGLPLHLWSEEILKAIGSKIGEPIEVDENTLKR 142 (153)
T ss_pred ccCCHHHhhhHHHHHHHHhcCCeEEEEcCCCCc
Confidence 479999999999999999999999999998875
No 12
>PRK07309 aromatic amino acid aminotransferase; Validated
Probab=42.52 E-value=57 Score=30.83 Aligned_cols=30 Identities=17% Similarity=0.346 Sum_probs=21.4
Q ss_pred CCCCcC--ChHHHHHHHHHhcCceECCCCcccc
Q 020567 41 KLPKHC--DNNEVLKALCNEAGWTVEPDGTTYR 71 (324)
Q Consensus 41 ~lp~~~--d~nevl~al~~eagw~ve~dgttyr 71 (324)
+||++. |..++.+.||+++|+.|- +|..|.
T Consensus 326 ~l~~~~~~~~~~~~~~l~~~~gv~v~-pg~~f~ 357 (391)
T PRK07309 326 KIPAGYNQDSFKFLQDFARKKAVAFI-PGAAFG 357 (391)
T ss_pred ECCCCCCCCHHHHHHHHHHhCCEEEe-CchhhC
Confidence 466554 455788899999999996 555553
No 13
>PRK07682 hypothetical protein; Validated
Probab=41.24 E-value=57 Score=30.35 Aligned_cols=25 Identities=24% Similarity=0.343 Sum_probs=19.7
Q ss_pred CChHHHHHHHHHhcCceECCCCcccc
Q 020567 46 CDNNEVLKALCNEAGWTVEPDGTTYR 71 (324)
Q Consensus 46 ~d~nevl~al~~eagw~ve~dgttyr 71 (324)
.|..++.+.|++++|..|.+ |..|.
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 77774
No 14
>PRK08361 aspartate aminotransferase; Provisional
Probab=41.19 E-value=60 Score=30.54 Aligned_cols=57 Identities=18% Similarity=0.298 Sum_probs=34.0
Q ss_pred hhhHHHHHHHHHHHHHHHH---hhh---hcCCC----CCCC-cCChHHHHHHHHHhcCceECCCCcccc
Q 020567 14 ENNKRRERRRRAIAAKIFA---GLR---MYGNY----KLPK-HCDNNEVLKALCNEAGWTVEPDGTTYR 71 (324)
Q Consensus 14 Ennk~RERrRRaiaakI~~---Glr---~~gny----~lp~-~~d~nevl~al~~eagw~ve~dgttyr 71 (324)
++.+++-++||.+..+-+. |+. ..|+| +||. ..|..|+.+.|.++.|..|. +|+.|.
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 45777888888888999998 577664
No 15
>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=40.24 E-value=23 Score=29.48 Aligned_cols=24 Identities=33% Similarity=0.696 Sum_probs=12.8
Q ss_pred HHHHHHHHHhcCceECCCCccccc
Q 020567 49 NEVLKALCNEAGWTVEPDGTTYRK 72 (324)
Q Consensus 49 nevl~al~~eagw~ve~dgttyr~ 72 (324)
.+-|..+|.+.||.+|.|+..+..
T Consensus 111 ~~el~~~~~~~gW~~d~~~~~~~~ 134 (143)
T PF10075_consen 111 EEELEKFIKSRGWTVDGDGVLFPP 134 (143)
T ss_dssp HHHHHHHHHHHT-EE-----EE--
T ss_pred HHHHHHHHHHcCCEECCCccEEec
Confidence 556677888889999999988873
No 16
>PLN02409 serine--glyoxylate aminotransaminase
Probab=38.70 E-value=90 Score=29.95 Aligned_cols=36 Identities=19% Similarity=0.342 Sum_probs=25.9
Q ss_pred CCCCCcCChHHHHHHHHHhcCceECC-----CCcccccCCC
Q 020567 40 YKLPKHCDNNEVLKALCNEAGWTVEP-----DGTTYRKGCK 75 (324)
Q Consensus 40 y~lp~~~d~nevl~al~~eagw~ve~-----dgttyr~g~k 75 (324)
+++|+..|..+|.+.|+++.|.+|.. .|..+|-|+-
T Consensus 311 ~~~p~~~~~~~l~~~l~~~~~i~i~~G~~~~~~~~~Rig~~ 351 (401)
T PLN02409 311 VVVPEGIDSAEIVKNAWKKYNLSLGLGLNKVAGKVFRIGHL 351 (401)
T ss_pred EeCCCCCCHHHHHHHHHHhCCEEEEcCCCcccCCEEEEcCC
Confidence 34566667778999999998888873 4667776543
No 17
>PRK05957 aspartate aminotransferase; Provisional
Probab=36.52 E-value=62 Score=30.57 Aligned_cols=28 Identities=32% Similarity=0.453 Sum_probs=21.5
Q ss_pred CCCcCChHHHHHHHHHhcCceECCCCccc
Q 020567 42 LPKHCDNNEVLKALCNEAGWTVEPDGTTY 70 (324)
Q Consensus 42 lp~~~d~nevl~al~~eagw~ve~dgtty 70 (324)
+|...|..|+.+.|+++.|+.|.+ |+.|
T Consensus 325 ~~~~~~~~~~~~~l~~~~gv~v~p-g~~f 352 (389)
T PRK05957 325 VNTDLNDFELVKQLIREYRVAVIP-GTTF 352 (389)
T ss_pred CCCCCChHHHHHHHHHHCCEEEcc-chhh
Confidence 445566678999999999999886 6655
No 18
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=34.81 E-value=24 Score=38.63 Aligned_cols=44 Identities=32% Similarity=0.477 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHHHhhhhcCCCCCCC-----cCChHHHHHHHHHhcCceE
Q 020567 20 ERRRRAIAAKIFAGLRMYGNYKLPK-----HCDNNEVLKALCNEAGWTV 63 (324)
Q Consensus 20 ERrRRaiaakI~~Glr~~gny~lp~-----~~d~nevl~al~~eagw~v 63 (324)
|-.|+.|-.+|..|||--|++.+-+ +.=.+.=|+|||.|||.+-
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 4456789999999999999988653 3345566999999999763
No 19
>PRK05942 aspartate aminotransferase; Provisional
Probab=34.12 E-value=1e+02 Score=29.05 Aligned_cols=30 Identities=17% Similarity=0.354 Sum_probs=23.5
Q ss_pred CCCCcCChHHHHHHHHHhcCceECCCCcccc
Q 020567 41 KLPKHCDNNEVLKALCNEAGWTVEPDGTTYR 71 (324)
Q Consensus 41 ~lp~~~d~nevl~al~~eagw~ve~dgttyr 71 (324)
++|...|..+++..++++.|..|-+ |+.|.
T Consensus 332 ~~~~~~~~~~~~~~~l~~~gV~v~~-g~~f~ 361 (394)
T PRK05942 332 PCPVGMGSTDFALNVLQKTGVVVTP-GNAFG 361 (394)
T ss_pred ECCCCCCHHHHHHHHHHHCCEEEeC-ChhhC
Confidence 4676677788888899999998864 77774
No 20
>PRK09276 LL-diaminopimelate aminotransferase; Provisional
Probab=32.64 E-value=1.2e+02 Score=28.22 Aligned_cols=28 Identities=32% Similarity=0.560 Sum_probs=21.5
Q ss_pred CCCcCChHHHHHHHHHhcCceECCCCccc
Q 020567 42 LPKHCDNNEVLKALCNEAGWTVEPDGTTY 70 (324)
Q Consensus 42 lp~~~d~nevl~al~~eagw~ve~dgtty 70 (324)
||...|..++.++|+++.|..|-+ |+.|
T Consensus 329 ~~~~~~~~~l~~~ll~~~gi~v~~-g~~f 356 (385)
T PRK09276 329 VPKGYTSAEFATLLLDKAGVVVTP-GNGF 356 (385)
T ss_pred CCCCCCHHHHHHHHHHhCCEEECC-chhh
Confidence 555667789999999999998864 5555
No 21
>PRK08363 alanine aminotransferase; Validated
Probab=31.47 E-value=83 Score=29.66 Aligned_cols=24 Identities=21% Similarity=0.317 Sum_probs=18.2
Q ss_pred ChHHHHHHHHHhcCceECCCCcccc
Q 020567 47 DNNEVLKALCNEAGWTVEPDGTTYR 71 (324)
Q Consensus 47 d~nevl~al~~eagw~ve~dgttyr 71 (324)
|..++++.++.++|..|- +|+.|.
T Consensus 340 ~~~~~~~~~l~~~gV~v~-~g~~f~ 363 (398)
T PRK08363 340 DDKEFVLDVLHEAHVLFV-HGSGFG 363 (398)
T ss_pred CHHHHHHHHHHhCCEEEe-CchhhC
Confidence 456777888999998876 477774
No 22
>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=31.38 E-value=66 Score=30.62 Aligned_cols=19 Identities=37% Similarity=0.534 Sum_probs=15.6
Q ss_pred HHHHHHHHhcCceECCCCc
Q 020567 50 EVLKALCNEAGWTVEPDGT 68 (324)
Q Consensus 50 evl~al~~eagw~ve~dgt 68 (324)
|--|+|.+||||..+.||+
T Consensus 314 ~~A~~lL~~aG~~~~~~G~ 332 (480)
T cd08517 314 AKAEALLDEAGYPRGADGI 332 (480)
T ss_pred HHHHHHHHHcCCCcCCCCc
Confidence 6678899999998776775
No 23
>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=30.13 E-value=82 Score=30.20 Aligned_cols=22 Identities=45% Similarity=0.789 Sum_probs=16.7
Q ss_pred HHHHHHHHhcCceECCCCcccc
Q 020567 50 EVLKALCNEAGWTVEPDGTTYR 71 (324)
Q Consensus 50 evl~al~~eagw~ve~dgttyr 71 (324)
|--|+|.+||||..+.||..+.
T Consensus 310 ~kAk~lL~eaG~~~~~~g~~~~ 331 (482)
T cd08513 310 EKAKQLLDEAGWKLGPDGGIRE 331 (482)
T ss_pred HHHHHHHHHcCCccCCCCcEEc
Confidence 5678899999998777774433
No 24
>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=29.58 E-value=1.5e+02 Score=29.20 Aligned_cols=61 Identities=18% Similarity=0.059 Sum_probs=40.7
Q ss_pred hhHHHHHHHHHHHHHHHHhhhhcC-CCCCCC------------c-----C-----C-----hHHHHHHHHHhcCceEC--
Q 020567 15 NNKRRERRRRAIAAKIFAGLRMYG-NYKLPK------------H-----C-----D-----NNEVLKALCNEAGWTVE-- 64 (324)
Q Consensus 15 nnk~RERrRRaiaakI~~Glr~~g-ny~lp~------------~-----~-----d-----~nevl~al~~eagw~ve-- 64 (324)
--..|.+|-++.|..++++|.++| -+-+++ . . | .++ ++.++++.|.++.
T Consensus 260 Gle~~~~Rh~~~a~~l~~~l~~lg~l~~~~~~~~~rS~tvt~v~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~gi~i~~G 338 (374)
T TIGR01365 260 GLKPLIARADDNLAVLEAFVAKNNWIHFLAETPEIRSNTSVCLKVVDPAIDALDEDAQADFAKE-LISTLEKEGVAYDIG 338 (374)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHCCCcccCCCChhhcCCCeEEEEeCCccccccccchhhHHHHH-HHHHHHHCCEEEecc
Confidence 356778888999999999999999 444431 0 1 1 234 4445556698776
Q ss_pred ---CCCcccccCCCC
Q 020567 65 ---PDGTTYRKGCKP 76 (324)
Q Consensus 65 ---~dgttyr~g~kp 76 (324)
.-|++||-||-+
T Consensus 339 ~~~~~~~~fRIg~~G 353 (374)
T TIGR01365 339 SYRDAPSGLRIWCGA 353 (374)
T ss_pred ccccCCCceEEecCC
Confidence 235788877754
No 25
>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=28.84 E-value=50 Score=28.16 Aligned_cols=32 Identities=47% Similarity=0.790 Sum_probs=20.2
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 020567 91 PCSSYHPSPCASYNPSPASSSFPSPASSSYAANP 124 (324)
Q Consensus 91 PcSS~~pSP~aSY~~SP~SSsfPSPtss~~~~~~ 124 (324)
+-+|| ||+..| .+||..++++||..+.|+++.
T Consensus 21 ~~tSY-pS~~ts-yPSPV~tsy~sp~~S~ypSPv 52 (99)
T PF11914_consen 21 VATSY-PSPITS-YPSPVPTSYSSPVSSCYPSPV 52 (99)
T ss_pred ccccC-CCcccc-CCCccccccCCCCcccccccc
Confidence 33444 666643 367777777777777776553
No 26
>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=28.47 E-value=1.7e+02 Score=26.76 Aligned_cols=45 Identities=27% Similarity=0.439 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHHhhhhcCCC----------------CCCCcCChHHHHHHHHHhcCceEC
Q 020567 19 RERRRRAIAAKIFAGLRMYGNY----------------KLPKHCDNNEVLKALCNEAGWTVE 64 (324)
Q Consensus 19 RERrRRaiaakI~~Glr~~gny----------------~lp~~~d~nevl~al~~eagw~ve 64 (324)
..++.+..+.++..+|+..| + .+|...|-.++.++|.++.|+.|-
T Consensus 260 ~~~~~~~~~~~l~~~L~~~g-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~gI~~~ 320 (356)
T cd06451 260 RWARHRRLAKALREGLEALG-LKLLAKPELRSPTVTAVLVPEGVDGDEVVRRLMKRYNIEIA 320 (356)
T ss_pred HHHHHHHHHHHHHHHHHHcC-CeeccCcccCCCceEEEECCCCCCHHHHHHHHHHhCCEEEe
Confidence 34444556666666666543 2 223333456788888776698774
No 27
>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=27.53 E-value=92 Score=29.34 Aligned_cols=24 Identities=33% Similarity=0.425 Sum_probs=18.6
Q ss_pred CChHHHHHHHHHhcCceECCCCccc
Q 020567 46 CDNNEVLKALCNEAGWTVEPDGTTY 70 (324)
Q Consensus 46 ~d~nevl~al~~eagw~ve~dgtty 70 (324)
.|..++.++|++++|..|-+ |+.|
T Consensus 334 ~~~~~~~~~l~~~~gV~v~p-g~~f 357 (393)
T TIGR03538 334 GDDEAFARALYEEENVTVLP-GRFL 357 (393)
T ss_pred CCHHHHHHHHHHHCCEEEeC-Cccc
Confidence 36778999999999998874 4455
No 28
>PRK07683 aminotransferase A; Validated
Probab=27.34 E-value=1.4e+02 Score=28.18 Aligned_cols=56 Identities=20% Similarity=0.369 Sum_probs=33.5
Q ss_pred hhHHHHHHHHHHHHHHHHhh--hh---cCC-CC---CCC-cCChHHHHHHHHHhcCceECCCCcccc
Q 020567 15 NNKRRERRRRAIAAKIFAGL--RM---YGN-YK---LPK-HCDNNEVLKALCNEAGWTVEPDGTTYR 71 (324)
Q Consensus 15 nnk~RERrRRaiaakI~~Gl--r~---~gn-y~---lp~-~~d~nevl~al~~eagw~ve~dgttyr 71 (324)
+.+++-++||+++.+++..+ .. .|+ |- +|+ ..+..++.+.|++++|..|-+ |..|.
T Consensus 287 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~gI~v~p-g~~f~ 352 (387)
T PRK07683 287 MMRHQYKKRRDYVYNRLISMGLDVEKPTGAFYLFPSIGHFTMSSFDFALDLVEEAGLAVVP-GSAFS 352 (387)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCcccCCCeeEEEEEecccCCCCHHHHHHHHHHhCCEEEcC-chhhC
Confidence 33444456667777777642 21 122 22 232 345567888899999999875 66664
No 29
>COG1487 VapC Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]
Probab=27.15 E-value=1.2e+02 Score=24.65 Aligned_cols=39 Identities=28% Similarity=0.186 Sum_probs=27.9
Q ss_pred HHHHHHHHHhhhhcCCCCCCCcCChHHHHHHHHHhcCceECCC
Q 020567 24 RAIAAKIFAGLRMYGNYKLPKHCDNNEVLKALCNEAGWTVEPD 66 (324)
Q Consensus 24 RaiaakI~~Glr~~gny~lp~~~d~nevl~al~~eagw~ve~d 66 (324)
..++++|++.|++.|. ...++.-++.|.|...|..+--.
T Consensus 76 a~~~~~i~~~l~~~G~----~~~~~D~lIAa~A~~~~~~LvT~ 114 (133)
T COG1487 76 AEIAAEIQARLRKEGI----PIGLNDLLIAATAIAHGLLLVTR 114 (133)
T ss_pred HHHHHHHHHHHHhcCC----CCChHHHHHHHHHHHcCCEEEEc
Confidence 4568999999999998 23344456678888888765433
No 30
>PRK12454 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed
Probab=27.13 E-value=47 Score=32.68 Aligned_cols=26 Identities=38% Similarity=0.708 Sum_probs=21.8
Q ss_pred HHHHHHHHHhcCceECCC-CcccccCC
Q 020567 49 NEVLKALCNEAGWTVEPD-GTTYRKGC 74 (324)
Q Consensus 49 nevl~al~~eagw~ve~d-gttyr~g~ 74 (324)
.|-.++|.+|.||++-+| |.-||+-.
T Consensus 138 ~~~a~~~~~~~g~~~~~d~g~g~RrvV 164 (313)
T PRK12454 138 EEEAKKLAKEKGWIVKEDAGRGWRRVV 164 (313)
T ss_pred HHHHHHHHHHcCCEEEEcCCCceEEEe
Confidence 466788999999988888 99999643
No 31
>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=26.11 E-value=1.4e+02 Score=27.64 Aligned_cols=29 Identities=28% Similarity=0.496 Sum_probs=20.3
Q ss_pred CCCCcCChHHHHHHHHHhcCceECCCCcccc
Q 020567 41 KLPKHCDNNEVLKALCNEAGWTVEPDGTTYR 71 (324)
Q Consensus 41 ~lp~~~d~nevl~al~~eagw~ve~dgttyr 71 (324)
++|...+..++.++|++ +|..|-+ |+.|.
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 45665566788888865 7988775 77774
No 32
>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=26.03 E-value=86 Score=30.61 Aligned_cols=25 Identities=32% Similarity=0.361 Sum_probs=17.8
Q ss_pred hHHHHHHHHHhcCceECCCCccccc
Q 020567 48 NNEVLKALCNEAGWTVEPDGTTYRK 72 (324)
Q Consensus 48 ~nevl~al~~eagw~ve~dgttyr~ 72 (324)
+-|--|+|++||||..+.||-.+.+
T Consensus 319 d~~kAk~lL~~aG~~~~~g~~~~~~ 343 (491)
T cd08497 319 NLRKALELLAEAGWTVRGGDILVNA 343 (491)
T ss_pred CHHHHHHHHHHcCCccCCCCEEECC
Confidence 4477889999999988765434444
No 33
>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=25.98 E-value=1e+02 Score=30.16 Aligned_cols=23 Identities=30% Similarity=0.497 Sum_probs=18.2
Q ss_pred HHHHHHHHhcCceECCCCccccc
Q 020567 50 EVLKALCNEAGWTVEPDGTTYRK 72 (324)
Q Consensus 50 evl~al~~eagw~ve~dgttyr~ 72 (324)
|--|+|.+||||.++.||.-|.+
T Consensus 325 ~~A~~lL~~aG~~~~~~G~~~~~ 347 (509)
T cd08509 325 DKAKKLLESAGFKKDKDGKWYTP 347 (509)
T ss_pred HHHHHHHHHcCCeECCCCeEECC
Confidence 56678899999999888865543
No 34
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=25.31 E-value=1.3e+02 Score=22.67 Aligned_cols=50 Identities=28% Similarity=0.403 Sum_probs=31.6
Q ss_pred HHHHHHHHHhhhhcCC--CC---------CCCcCChHHHHHHHHHhcCceECCCC--cccccCCC
Q 020567 24 RAIAAKIFAGLRMYGN--YK---------LPKHCDNNEVLKALCNEAGWTVEPDG--TTYRKGCK 75 (324)
Q Consensus 24 RaiaakI~~Glr~~gn--y~---------lp~~~d~nevl~al~~eagw~ve~dg--ttyr~g~k 75 (324)
.....+|+.-|+..|. +. |++. ..|-+|..| .+.|+|+-..+ .+|+-+++
T Consensus 5 ~~~~~~IL~~L~~~g~~~~ta~eLa~~lgl~~~-~v~r~L~~L-~~~G~V~~~~~~~~~W~i~~~ 67 (68)
T smart00550 5 DSLEEKILEFLENSGDETSTALQLAKNLGLPKK-EVNRVLYSL-EKKGKVCKQGGTPPLWKLTDK 67 (68)
T ss_pred hHHHHHHHHHHHHCCCCCcCHHHHHHHHCCCHH-HHHHHHHHH-HHCCCEEecCCCCCceEeecC
Confidence 3456788899999887 43 3443 455555555 56799876542 46776654
No 35
>PRK07908 hypothetical protein; Provisional
Probab=25.21 E-value=1.7e+02 Score=26.96 Aligned_cols=55 Identities=22% Similarity=0.300 Sum_probs=28.6
Q ss_pred hhhHHHHHHHHHHHHHHHHhh--h----hcCCCCCCCcCChHHHHHHHHHhcCceECCCCccc
Q 020567 14 ENNKRRERRRRAIAAKIFAGL--R----MYGNYKLPKHCDNNEVLKALCNEAGWTVEPDGTTY 70 (324)
Q Consensus 14 Ennk~RERrRRaiaakI~~Gl--r----~~gny~lp~~~d~nevl~al~~eagw~ve~dgtty 70 (324)
++.+++.++||....+.+..+ + ..|+|-+-+ .+..+.+..++++.|..|. +|+.|
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 344455555555555555432 2 123332111 1224566677789998886 56555
No 36
>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=24.96 E-value=1.5e+02 Score=27.23 Aligned_cols=45 Identities=13% Similarity=0.140 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHhhhhcCCCCCC--------------CcCChHHHHHHHHHhcCceECCC
Q 020567 21 RRRRAIAAKIFAGLRMYGNYKLP--------------KHCDNNEVLKALCNEAGWTVEPD 66 (324)
Q Consensus 21 RrRRaiaakI~~Glr~~gny~lp--------------~~~d~nevl~al~~eagw~ve~d 66 (324)
.+.++++..+.++|+.++++.+. +..+.+++.+.|. +.|++|...
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 33456777888888777654442 1124567777775 479988643
No 37
>PTZ00376 aspartate aminotransferase; Provisional
Probab=24.95 E-value=1.6e+02 Score=28.03 Aligned_cols=20 Identities=15% Similarity=0.179 Sum_probs=16.4
Q ss_pred hHHHHHHHHHhcCceECCCC
Q 020567 48 NNEVLKALCNEAGWTVEPDG 67 (324)
Q Consensus 48 ~nevl~al~~eagw~ve~dg 67 (324)
.+|+.+.|.+|+|-.|-+.|
T Consensus 359 ~~~~~~~L~~~~~v~v~p~~ 378 (404)
T PTZ00376 359 TKEQVERLIEKYHIYLLDNG 378 (404)
T ss_pred CHHHHHHHHHhCCEeecCCC
Confidence 36888999999998887764
No 38
>PRK06108 aspartate aminotransferase; Provisional
Probab=24.70 E-value=1.8e+02 Score=26.82 Aligned_cols=30 Identities=30% Similarity=0.525 Sum_probs=22.5
Q ss_pred CCCCcCChHHHHHHHHHhcCceECCCCcccc
Q 020567 41 KLPKHCDNNEVLKALCNEAGWTVEPDGTTYR 71 (324)
Q Consensus 41 ~lp~~~d~nevl~al~~eagw~ve~dgttyr 71 (324)
+||...|..++.+.|+++.|..|- .|+.|.
T Consensus 322 ~l~~~~~~~~~~~~ll~~~gV~v~-pg~~f~ 351 (382)
T PRK06108 322 RIPGVTDSLALAKRLVDEAGLGLA-PGTAFG 351 (382)
T ss_pred eCCCCCCHHHHHHHHHHhCCEEEe-CchhhC
Confidence 556556777899999999999885 466663
No 39
>KOG0260 consensus RNA polymerase II, large subunit [Transcription]
Probab=24.58 E-value=1.3e+03 Score=27.92 Aligned_cols=28 Identities=14% Similarity=0.095 Sum_probs=13.3
Q ss_pred HHHHHhhhhcCCCCCCCcCChHHHHHHH
Q 020567 28 AKIFAGLRMYGNYKLPKHCDNNEVLKAL 55 (324)
Q Consensus 28 akI~~Glr~~gny~lp~~~d~nevl~al 55 (324)
--|+.+.++|+.-..=+-|--|=.|-.|
T Consensus 1379 v~il~~aa~~~ekd~~rgvsEnImlgql 1406 (1605)
T KOG0260|consen 1379 VDILMDAAAHAEKDPCRGVSENIMLGQL 1406 (1605)
T ss_pred HHHHHHHHhhhccCCCccceeeeeeccc
Confidence 3456666666654433333334333333
No 40
>PRK07681 aspartate aminotransferase; Provisional
Probab=24.39 E-value=1.6e+02 Score=27.96 Aligned_cols=29 Identities=28% Similarity=0.418 Sum_probs=21.7
Q ss_pred CCCcCChHHHHHHHHHhcCceECCCCcccc
Q 020567 42 LPKHCDNNEVLKALCNEAGWTVEPDGTTYR 71 (324)
Q Consensus 42 lp~~~d~nevl~al~~eagw~ve~dgttyr 71 (324)
||+..|..++.+.|++++|..|.+ |+.|.
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 445556778999999989988864 66663
No 41
>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=23.25 E-value=2.3e+02 Score=27.00 Aligned_cols=29 Identities=14% Similarity=0.158 Sum_probs=22.2
Q ss_pred CCCCcCChHHHHHHHHHhcCceECCCCccc
Q 020567 41 KLPKHCDNNEVLKALCNEAGWTVEPDGTTY 70 (324)
Q Consensus 41 ~lp~~~d~nevl~al~~eagw~ve~dgtty 70 (324)
+||...|..++.+.|+++.|.+|- +|+.|
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 355555667899999999999886 57777
No 42
>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription]
Probab=22.92 E-value=4.5e+02 Score=26.19 Aligned_cols=64 Identities=33% Similarity=0.401 Sum_probs=41.3
Q ss_pred HHHhhhHHHHHHHHHHHHHHHHhhhhc----CCCCCCCc----CCh--HHHHHHHHHhcCceECCCCcccccCCCC
Q 020567 11 KERENNKRRERRRRAIAAKIFAGLRMY----GNYKLPKH----CDN--NEVLKALCNEAGWTVEPDGTTYRKGCKP 76 (324)
Q Consensus 11 ~ErEnnk~RERrRRaiaakI~~Glr~~----gny~lp~~----~d~--nevl~al~~eagw~ve~dgttyr~g~kp 76 (324)
--|.-.-+|||||=.=.-.-|.-|.+- =|-.|||- -.+ =|=|.+|+.|++= .+++-.|+.|..|
T Consensus 117 DRRKAATMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~~~--~~~~~~~~~g~~p 190 (284)
T KOG3960|consen 117 DRRKAATMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQEQDQ--AEKGLAYAPGPLP 190 (284)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHHhhc--cchhhhhcCCCCC
Confidence 345556689999977777778888764 35667752 222 2556788888763 3455557777544
No 43
>COG1961 PinR Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]
Probab=22.75 E-value=1.6e+02 Score=26.02 Aligned_cols=46 Identities=24% Similarity=0.104 Sum_probs=31.7
Q ss_pred HHHhhhHHHHHHHHHHHHHHHHhhhhcCC------CCCCCcCChHHHHHHHH
Q 020567 11 KERENNKRRERRRRAIAAKIFAGLRMYGN------YKLPKHCDNNEVLKALC 56 (324)
Q Consensus 11 ~ErEnnk~RERrRRaiaakI~~Glr~~gn------y~lp~~~d~nevl~al~ 56 (324)
-|-|.+..+||.|+.|+++--.|....+. +.+++-.+..+.++.|.
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 57888999999999999998888776543 22445555544444443
No 44
>cd08500 PBP2_NikA_DppA_OppA_like_4 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 si
Probab=22.43 E-value=1.3e+02 Score=29.56 Aligned_cols=22 Identities=27% Similarity=0.407 Sum_probs=17.7
Q ss_pred HHHHHHHHhcCce-ECCCCcccc
Q 020567 50 EVLKALCNEAGWT-VEPDGTTYR 71 (324)
Q Consensus 50 evl~al~~eagw~-ve~dgttyr 71 (324)
|--|+|.+||||. +..||..|.
T Consensus 316 e~Ak~lL~~aG~~~~~~dG~~~~ 338 (499)
T cd08500 316 DKANKLLDEAGLKKKDADGFRLD 338 (499)
T ss_pred HHHHHHHHHcCCcccCCCCcEEC
Confidence 5678999999997 778887654
No 45
>PRK07550 hypothetical protein; Provisional
Probab=22.32 E-value=2.2e+02 Score=26.73 Aligned_cols=28 Identities=36% Similarity=0.503 Sum_probs=20.0
Q ss_pred CCC-cCChHHHHHHHHHhcCceECCCCccc
Q 020567 42 LPK-HCDNNEVLKALCNEAGWTVEPDGTTY 70 (324)
Q Consensus 42 lp~-~~d~nevl~al~~eagw~ve~dgtty 70 (324)
+|. .-|..|+.+.|+++.|..|-+ |..|
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 343 345668888888999998875 6556
No 46
>PRK12495 hypothetical protein; Provisional
Probab=22.19 E-value=1.2e+02 Score=29.28 Aligned_cols=55 Identities=29% Similarity=0.500 Sum_probs=34.9
Q ss_pred hHHHhhhHHHHH-----HHHHHHHHHHHhhhhcCCCCCCCcCCh-HHHHHHHHHhcCceECCCCcccccCCC
Q 020567 10 WKERENNKRRER-----RRRAIAAKIFAGLRMYGNYKLPKHCDN-NEVLKALCNEAGWTVEPDGTTYRKGCK 75 (324)
Q Consensus 10 w~ErEnnk~RER-----rRRaiaakI~~Glr~~gny~lp~~~d~-nevl~al~~eagw~ve~dgttyr~g~k 75 (324)
.||.|+.|+||. .+|. +.|+.+-|-..|.--|.+||.. +.-|= ..+|.+|=..|.
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 478888899885 3333 4566677777777888889942 33322 336666655554
No 47
>PLN02397 aspartate transaminase
Probab=21.74 E-value=2e+02 Score=27.97 Aligned_cols=22 Identities=18% Similarity=0.232 Sum_probs=17.7
Q ss_pred cCChHHHHHHHHHhcCceECCCC
Q 020567 45 HCDNNEVLKALCNEAGWTVEPDG 67 (324)
Q Consensus 45 ~~d~nevl~al~~eagw~ve~dg 67 (324)
.++ .++.+.|.+|+|..|-.+|
T Consensus 375 ~l~-~~~~~~Ll~~~~V~v~~~~ 396 (423)
T PLN02397 375 GLN-KEQVDRMTKEYHIYMTRDG 396 (423)
T ss_pred CCC-HHHHHHHHHhCCEEECCCC
Confidence 344 4688999999999998776
No 48
>PRK07392 threonine-phosphate decarboxylase; Validated
Probab=21.51 E-value=1.1e+02 Score=28.42 Aligned_cols=33 Identities=12% Similarity=0.197 Sum_probs=22.5
Q ss_pred CCCCCCCc-CChHHHHHHHHHhcCceECCCCcccc
Q 020567 38 GNYKLPKH-CDNNEVLKALCNEAGWTVEPDGTTYR 71 (324)
Q Consensus 38 gny~lp~~-~d~nevl~al~~eagw~ve~dgttyr 71 (324)
|+|-+.+- .|..++.+.|++++|+.|- +|+.|.
T Consensus 296 ~~fl~~~~~~~~~~l~~~ll~~~gv~v~-pg~~f~ 329 (360)
T PRK07392 296 ANFLLVQSQGSALQLQEKLLQQHRILIR-DCLSFP 329 (360)
T ss_pred CCEEEEEcCCCHHHHHHHHHhhCCEEEE-eCCCCC
Confidence 55544321 1567888888889999987 777774
No 49
>PRK07590 L,L-diaminopimelate aminotransferase; Validated
Probab=21.31 E-value=2.5e+02 Score=26.81 Aligned_cols=30 Identities=20% Similarity=0.273 Sum_probs=21.3
Q ss_pred CCCCcCChHHHHHHHHHhcCceECCCCcccc
Q 020567 41 KLPKHCDNNEVLKALCNEAGWTVEPDGTTYR 71 (324)
Q Consensus 41 ~lp~~~d~nevl~al~~eagw~ve~dgttyr 71 (324)
++|...+..++.+.|++++|.+|- +|+.|.
T Consensus 351 ~~~~~~~~~~~~~~l~~~~gv~v~-pg~~f~ 380 (409)
T PRK07590 351 KTPDGMSSWDFFDKLLQEANVVGT-PGSGFG 380 (409)
T ss_pred ECCCCCCHHHHHHHHHHHCCEEEe-ChhHhC
Confidence 355545566788888899999886 466663
No 50
>COG2162 NhoA Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=21.31 E-value=84 Score=30.91 Aligned_cols=36 Identities=22% Similarity=0.357 Sum_probs=30.2
Q ss_pred HHHHHHHHHhhhhcCCCCCCCcCChHHHHHHHHHhcCceECC
Q 020567 24 RAIAAKIFAGLRMYGNYKLPKHCDNNEVLKALCNEAGWTVEP 65 (324)
Q Consensus 24 RaiaakI~~Glr~~gny~lp~~~d~nevl~al~~eagw~ve~ 65 (324)
.|+.+||.. +++|+|. -+.|-+++.+.+|.|+.|+.
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 477888874 5689996 58999999999999998875
No 51
>cd08490 PBP2_NikA_DppA_OppA_like_3 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=21.10 E-value=1.5e+02 Score=28.17 Aligned_cols=48 Identities=27% Similarity=0.313 Sum_probs=26.8
Q ss_pred HHHHHHHHHHhhhhcCCCCCCCc----------CChHHHHHHHHHhcCceECCCCccc
Q 020567 23 RRAIAAKIFAGLRMYGNYKLPKH----------CDNNEVLKALCNEAGWTVEPDGTTY 70 (324)
Q Consensus 23 RRaiaakI~~Glr~~gny~lp~~----------~d~nevl~al~~eagw~ve~dgtty 70 (324)
|.+|+..+|.|+.....--+|+- .-+-|--|+|.+||||....||..+
T Consensus 258 r~~i~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~d~~~A~~lL~~aG~~~~~~~~~~ 315 (470)
T cd08490 258 REGIADSVLEGSAAPAKGPFPPSLPANPKLEPYEYDPEKAKELLAEAGWTDGDGDGIE 315 (470)
T ss_pred HHHHHHHHhcCcceeccCCCCCCCCCCcccCCCCCCHHHHHHHHHHcCCCCCCCcccc
Confidence 44555666666443332223321 1123557889999999876665443
No 52
>TIGR02294 nickel_nikA nickel ABC transporter, periplasmic nickel-binding protein. Members of this family are periplasmic nickel-binding proteins of nickel ABC transporters. Nickel is bound specifically, albeit weakly, through water molecules positioned in the binding site. The amino acids whose side chains line the binding site include Tyr-44, Met-49, Trp-122, Arg-159, Trp-420, and Tyr-424 (numbering based on the precursor sequence of E. coli NikA) with the Arg contributing a hydrogen bond indirectly through a water molecule. Sequences that exactly (or mostly) have the same binding site residues score above the trusted (or noise) cutoffs to this model. Most appear to be lipoproteins.
Probab=21.03 E-value=1.5e+02 Score=28.85 Aligned_cols=17 Identities=35% Similarity=0.659 Sum_probs=13.3
Q ss_pred HHHHHHHHhcCceECCC
Q 020567 50 EVLKALCNEAGWTVEPD 66 (324)
Q Consensus 50 evl~al~~eagw~ve~d 66 (324)
|--|+|.+||||....|
T Consensus 315 ~kAk~lL~~aG~~~~~g 331 (500)
T TIGR02294 315 KKANALLDEAGWKLGKG 331 (500)
T ss_pred HHHHHHHHHcCCcccCC
Confidence 55788999999987544
No 53
>cd08873 START_STARD14_15-like Lipid-binding START domain of mammalian STARDT14, -15, and related proteins. This subfamily includes the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian brown fat-inducible STARD14 (also known as Acyl-Coenzyme A Thioesterase 11 or ACOT11, BFIT, THEA, THEM1, KIAA0707, and MGC25974), STARD15/ACOT12 (also known as cytoplasmic acetyl-CoA hydrolase/CACH, THEAL, and MGC105114), and related domains. The START domain family belongs to the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. STARD14/ACOT11 and STARD15/ACOT12 are type II acetyl-CoA thioesterases; they catalyze the hydrolysis of acyl-CoAs to free fatty acid and CoASH. Human STARD14 displays acetyl-CoA thioesterase activity towards medium(C12)- and long(C16)-chain fatty acyl-CoA substrates. Rat CACH hydrolyzes acetyl-CoA to acetate an
Probab=20.75 E-value=58 Score=30.67 Aligned_cols=26 Identities=31% Similarity=0.479 Sum_probs=20.5
Q ss_pred CChH-HHHHHHHHhcCceECCCCcccc
Q 020567 46 CDNN-EVLKALCNEAGWTVEPDGTTYR 71 (324)
Q Consensus 46 ~d~n-evl~al~~eagw~ve~dgttyr 71 (324)
+++| +-||.|+.+.||.+.-|-+-.+
T Consensus 41 ~~~~~~~l~~l~~~~~W~l~~~k~gIk 67 (235)
T cd08873 41 SYGNVTALKRLAAKSDWTVASSTTSVT 67 (235)
T ss_pred eeCCHHHHhhccccCCCEEEEcCCCEE
Confidence 4566 9999999999999876655444
No 54
>PRK10534 L-threonine aldolase; Provisional
Probab=20.44 E-value=1.9e+02 Score=26.33 Aligned_cols=43 Identities=16% Similarity=0.114 Sum_probs=23.3
Q ss_pred HHHHHhhhhc--------CCCCCCCcCC-hHHHHHHHHHhcCceECCCCcccc
Q 020567 28 AKIFAGLRMY--------GNYKLPKHCD-NNEVLKALCNEAGWTVEPDGTTYR 71 (324)
Q Consensus 28 akI~~Glr~~--------gny~lp~~~d-~nevl~al~~eagw~ve~dgttyr 71 (324)
.++...|+++ +||-+-+.-+ ..+-+..+..+.|+.|- +|..+|
T Consensus 257 ~~l~~~L~~~g~~~~~~~~nfv~~~~~~~~~~~~~~~l~~~gi~v~-~~~~~r 308 (333)
T PRK10534 257 AWLAEQLREAGADVMRQDTNMLFVRVGEEQAAALGEYMRERNVLIN-ASPIVR 308 (333)
T ss_pred HHHHHHHHhCCCccCCCCceEEEEECCchhHHHHHHHHHHcCeeec-CCceEE
Confidence 4555556544 4554433321 23334567788899995 454333
No 55
>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=20.34 E-value=44 Score=25.54 Aligned_cols=15 Identities=47% Similarity=0.636 Sum_probs=12.2
Q ss_pred CChHHHhhhHHHHHH
Q 020567 8 PTWKERENNKRRERR 22 (324)
Q Consensus 8 ptw~ErEnnk~RERr 22 (324)
-|..||.|||+|..+
T Consensus 35 Lt~aerqnNKKrKKn 49 (50)
T TIGR02864 35 LTAAERQNNKKRKKN 49 (50)
T ss_pred CCHHHHHhchhhhcc
Confidence 478999999998643
No 56
>PRK14809 histidinol-phosphate aminotransferase; Provisional
Probab=20.23 E-value=1.3e+02 Score=27.79 Aligned_cols=46 Identities=26% Similarity=0.341 Sum_probs=27.0
Q ss_pred HHHHHHHHHH--hhhhcCCCCCCCcCChHHHHHHHHHhcCceECCCCccc
Q 020567 23 RRAIAAKIFA--GLRMYGNYKLPKHCDNNEVLKALCNEAGWTVEPDGTTY 70 (324)
Q Consensus 23 RRaiaakI~~--Glr~~gny~lp~~~d~nevl~al~~eagw~ve~dgtty 70 (324)
||.+..+.+. ++...|+|-+-+--|..++.++ |.++|..|- +|+.|
T Consensus 281 ~r~~l~~~L~~~~~~~~g~f~~~~~~~~~~~~~~-l~~~gv~v~-~g~~f 328 (357)
T PRK14809 281 AREYIREELDAPTWESAGNFVLAEVGDASAVAEA-AQERGVIVR-DCTSF 328 (357)
T ss_pred HHHHHHHHhcCccCCCCCCEEEEECCCHHHHHHH-HHHCCEEEE-ECccC
Confidence 3444444442 3455677765544355666665 578898777 46656
No 57
>COG4702 Uncharacterized conserved protein [Function unknown]
Probab=20.21 E-value=71 Score=29.52 Aligned_cols=23 Identities=35% Similarity=0.570 Sum_probs=19.8
Q ss_pred CCCCcCChHHHHHHHHHhcCceE
Q 020567 41 KLPKHCDNNEVLKALCNEAGWTV 63 (324)
Q Consensus 41 ~lp~~~d~nevl~al~~eagw~v 63 (324)
-||++-|.|-|+++||+-+|--.
T Consensus 139 GlpqreDHnlvv~aL~~~lg~~~ 161 (168)
T COG4702 139 GLPQREDHNLVVRALADHLGIDL 161 (168)
T ss_pred CCCcccchhHHHHHHHHHhCCCh
Confidence 37899999999999999988543
No 58
>PRK08912 hypothetical protein; Provisional
Probab=20.13 E-value=2.3e+02 Score=26.52 Aligned_cols=24 Identities=21% Similarity=0.275 Sum_probs=18.0
Q ss_pred ChHHHHHHHHHhcCceECCCCcccc
Q 020567 47 DNNEVLKALCNEAGWTVEPDGTTYR 71 (324)
Q Consensus 47 d~nevl~al~~eagw~ve~dgttyr 71 (324)
|..++.+.|+++.|+.|. +|..|.
T Consensus 330 ~~~~~~~~l~~~~gV~v~-pg~~f~ 353 (387)
T PRK08912 330 DDVAFCRRLVEEAGVAAI-PVSAFY 353 (387)
T ss_pred CHHHHHHHHHhcCCEEEe-cchhhC
Confidence 455688888889999886 566664
No 59
>cd08518 PBP2_NikA_DppA_OppA_like_19 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=20.11 E-value=1.6e+02 Score=28.32 Aligned_cols=20 Identities=40% Similarity=0.626 Sum_probs=16.3
Q ss_pred HHHHHHHHHhcCceECCCCc
Q 020567 49 NEVLKALCNEAGWTVEPDGT 68 (324)
Q Consensus 49 nevl~al~~eagw~ve~dgt 68 (324)
-|--|+|.+||||....||.
T Consensus 299 ~~~Ak~lL~eaG~~~~~~g~ 318 (464)
T cd08518 299 PEKAKKILEEAGWKDGDDGG 318 (464)
T ss_pred HHHHHHHHHHcCCCcCCCCe
Confidence 36678899999998877775
Done!