Query psy11264
Match_columns 50
No_of_seqs 27 out of 29
Neff 2.4
Searched_HMMs 46136
Date Fri Aug 16 22:25:29 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11264.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/11264hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1877|consensus 99.5 1.2E-14 2.6E-19 114.6 0.7 40 1-40 36-75 (819)
2 PF06925 MGDG_synth: Monogalac 65.8 7.6 0.00016 23.9 2.6 30 16-47 71-100 (169)
3 PF13304 AAA_21: AAA domain; P 64.4 9.6 0.00021 21.5 2.6 28 11-45 271-298 (303)
4 cd00419 Ferrochelatase_C Ferro 63.1 5.9 0.00013 24.7 1.8 29 21-49 2-31 (135)
5 PF15614 WHIM3: WSTF, HB1, Itc 62.7 6.3 0.00014 22.1 1.7 35 7-41 2-43 (46)
6 PF02773 S-AdoMet_synt_C: S-ad 57.2 12 0.00026 25.0 2.6 24 10-33 34-57 (138)
7 TIGR02957 SigX4 RNA polymerase 55.4 3.2 7E-05 27.8 -0.4 15 5-19 267-281 (281)
8 PF11016 DUF2854: Protein of u 50.5 8.7 0.00019 26.0 1.1 16 23-38 61-76 (147)
9 TIGR02017 hutG_amidohyd N-form 49.6 28 0.0006 24.1 3.4 40 9-48 107-151 (263)
10 PF13809 Tubulin_2: Tubulin li 48.9 18 0.00039 25.3 2.5 25 7-33 320-344 (345)
11 cd07365 MhpB_like Subunit B of 47.9 43 0.00093 23.9 4.3 40 7-47 6-55 (310)
12 cd07359 PCA_45_Doxase_B_like S 47.2 49 0.0011 22.1 4.2 31 14-45 25-55 (271)
13 PF15447 NTS: N-terminal segme 46.1 12 0.00026 19.9 1.0 18 13-30 4-21 (37)
14 PF07958 DUF1688: Protein of u 46.1 18 0.00039 27.9 2.2 27 2-29 23-49 (420)
15 smart00183 NAT_PEP Natriuretic 45.7 5 0.00011 20.6 -0.5 8 13-20 11-18 (26)
16 PRK13812 orotate phosphoribosy 44.8 20 0.00042 23.3 2.0 33 9-47 39-71 (176)
17 PF08477 Miro: Miro-like prote 42.9 57 0.0012 17.8 3.9 40 5-45 79-118 (119)
18 PF05292 MCD: Malonyl-CoA deca 40.2 45 0.00097 25.3 3.5 43 4-47 182-228 (354)
19 PRK05250 S-adenosylmethionine 39.3 28 0.00061 26.6 2.4 24 10-33 265-288 (384)
20 PRK12459 S-adenosylmethionine 39.1 28 0.00061 26.6 2.3 24 10-33 269-292 (386)
21 PRK09213 pur operon repressor; 38.9 25 0.00054 24.9 2.0 35 9-47 109-143 (271)
22 TIGR01034 metK S-adenosylmethi 38.7 28 0.0006 26.6 2.3 24 10-33 262-285 (377)
23 PF00212 ANP: Atrial natriuret 38.2 5.7 0.00012 21.1 -1.0 8 13-20 20-27 (33)
24 PLN02243 S-adenosylmethionine 37.3 30 0.00066 26.5 2.3 24 10-33 273-296 (386)
25 PRK13370 mhpB 3-(2,3-dihydroxy 36.5 77 0.0017 22.6 4.1 33 13-46 22-54 (313)
26 PTZ00104 S-adenosylmethionine 36.1 32 0.0007 26.4 2.3 23 10-32 279-301 (398)
27 TIGR00109 hemH ferrochelatase. 34.3 63 0.0014 22.7 3.3 36 10-49 164-201 (322)
28 PF00762 Ferrochelatase: Ferro 34.0 65 0.0014 22.7 3.4 32 18-49 163-196 (316)
29 TIGR01743 purR_Bsub pur operon 33.8 31 0.00066 24.5 1.8 35 9-47 107-141 (268)
30 KOG1184|consensus 33.1 29 0.00062 27.9 1.6 11 18-28 6-16 (561)
31 cd03572 ENTH_epsin_related ENT 32.8 27 0.00059 22.2 1.2 20 9-28 30-49 (122)
32 PF04364 DNA_pol3_chi: DNA pol 31.4 69 0.0015 19.9 2.9 14 1-14 1-14 (137)
33 PF14058 PcfK: PcfK-like prote 31.1 33 0.00072 22.3 1.5 15 15-29 7-21 (140)
34 PF14129 DUF4296: Domain of un 30.8 23 0.0005 20.4 0.6 25 4-29 57-81 (87)
35 PF08688 ASD1: Apx/Shroom doma 30.5 18 0.00039 24.9 0.1 12 8-19 138-149 (182)
36 PRK05728 DNA polymerase III su 30.1 88 0.0019 19.6 3.2 15 1-15 1-15 (142)
37 PF04501 Baculo_VP39: Baculovi 29.3 35 0.00076 25.3 1.5 23 1-23 112-135 (300)
38 PLN02605 monogalactosyldiacylg 28.9 96 0.0021 21.2 3.4 27 19-47 85-111 (382)
39 PRK10122 GalU regulator GalF; 27.4 40 0.00087 23.1 1.4 22 6-27 275-296 (297)
40 PRK08558 adenine phosphoribosy 27.1 49 0.0011 22.5 1.8 35 9-47 90-124 (238)
41 PRK15433 branched-chain amino 26.9 22 0.00047 27.0 0.1 20 5-24 133-153 (439)
42 PF02900 LigB: Catalytic LigB 26.5 77 0.0017 20.9 2.6 25 23-47 30-54 (272)
43 cd03299 ABC_ModC_like Archeal 26.1 99 0.0021 19.8 3.0 33 14-47 159-191 (235)
44 PRK01470 tatA twin arginine tr 25.9 78 0.0017 17.7 2.2 17 11-27 20-36 (51)
45 TIGR00754 bfr bacterioferritin 25.6 48 0.001 20.3 1.4 15 13-27 139-155 (157)
46 COG0276 HemH Protoheme ferro-l 25.5 81 0.0018 23.2 2.8 30 20-49 167-197 (320)
47 PF08388 GIIM: Group II intron 25.4 68 0.0015 17.3 1.9 28 6-33 38-66 (80)
48 COG1131 CcmA ABC-type multidru 25.3 1E+02 0.0022 21.2 3.1 31 15-46 167-197 (293)
49 TIGR01411 tatAE twin arginine- 25.3 83 0.0018 17.0 2.2 16 11-26 19-34 (47)
50 TIGR00150 HI0065_YjeE ATPase, 25.1 49 0.0011 21.0 1.4 19 8-26 1-19 (133)
51 PF05013 FGase: N-formylglutam 24.9 66 0.0014 21.0 2.0 39 10-48 100-143 (222)
52 PF08738 Gon7: Gon7 family; I 24.8 72 0.0015 20.1 2.1 19 16-34 68-86 (103)
53 PRK14839 undecaprenyl pyrophos 24.6 1E+02 0.0022 21.8 3.1 38 2-39 55-98 (239)
54 PF13314 DUF4083: Domain of un 24.6 46 0.001 19.6 1.1 11 12-22 45-55 (58)
55 PF08518 GIT_SHD: Spa2 homolog 24.5 56 0.0012 16.9 1.3 19 13-31 3-21 (31)
56 PF09604 Potass_KdpF: F subuni 24.5 17 0.00038 18.0 -0.6 9 6-14 16-24 (25)
57 PF15296 Codanin-1_C: Codanin- 24.2 1E+02 0.0022 19.7 2.8 24 10-33 78-101 (121)
58 cd03411 Ferrochelatase_N Ferro 24.1 65 0.0014 20.1 1.8 20 8-27 7-26 (159)
59 PRK14838 undecaprenyl pyrophos 24.0 1.7E+02 0.0036 20.5 4.0 40 2-41 56-101 (242)
60 cd01871 Rac1_like Rac1-like su 23.9 1.8E+02 0.0038 17.6 4.1 37 5-44 78-114 (174)
61 cd02431 Ferritin_CCC1_C CCC1-r 23.9 65 0.0014 20.8 1.8 16 18-33 49-64 (149)
62 cd01875 RhoG RhoG subfamily. 23.9 1.8E+02 0.004 17.8 4.0 25 4-28 79-103 (191)
63 PF08544 GHMP_kinases_C: GHMP 23.6 70 0.0015 16.9 1.7 21 5-25 61-82 (85)
64 PF02269 TFIID-18kDa: Transcri 23.6 27 0.00058 20.9 0.0 26 3-28 59-84 (93)
65 cd07368 PhnC_Bs_like PhnC is a 23.5 2.4E+02 0.0051 19.5 4.6 42 1-42 1-54 (277)
66 PRK10646 ADP-binding protein; 23.2 77 0.0017 20.7 2.1 26 1-27 1-26 (153)
67 PRK14831 undecaprenyl pyrophos 23.2 1.3E+02 0.0028 21.1 3.3 29 2-30 66-100 (249)
68 PF00438 S-AdoMet_synt_N: S-ad 23.0 89 0.0019 19.5 2.3 20 10-29 13-34 (100)
69 PF02416 MttA_Hcf106: mttA/Hcf 22.8 1.1E+02 0.0024 16.7 2.4 16 11-26 18-33 (53)
70 KOG3142|consensus 22.8 25 0.00055 24.2 -0.2 33 6-42 46-78 (187)
71 PRK09636 RNA polymerase sigma 22.4 24 0.00052 23.6 -0.4 15 5-19 276-290 (293)
72 PF05798 Phage_FRD3: Bacteriop 22.1 85 0.0018 19.4 2.0 19 29-47 16-34 (75)
73 PRK14833 undecaprenyl pyrophos 21.8 1.4E+02 0.003 20.8 3.2 31 2-32 50-86 (233)
74 PRK14841 undecaprenyl pyrophos 21.6 1.2E+02 0.0027 21.0 3.0 31 2-32 49-85 (233)
75 COG3961 Pyruvate decarboxylase 21.4 63 0.0014 26.0 1.7 12 17-28 5-16 (557)
76 PRK13364 protocatechuate 4,5-d 21.2 79 0.0017 22.2 2.0 44 1-45 1-60 (278)
77 PRK13810 orotate phosphoribosy 21.2 81 0.0018 20.8 1.9 35 9-47 52-86 (187)
78 PF12682 Flavodoxin_4: Flavodo 21.1 37 0.00081 21.5 0.3 28 5-34 5-32 (156)
79 PLN02293 adenine phosphoribosy 20.9 88 0.0019 20.6 2.0 20 9-28 41-60 (187)
80 PF08573 SAE2: DNA repair prot 20.9 1E+02 0.0022 18.3 2.1 16 23-38 63-78 (93)
81 PF05525 Branch_AA_trans: Bran 20.8 34 0.00073 25.8 0.1 20 5-24 129-149 (427)
82 PHA03065 Hypothetical protein; 20.8 73 0.0016 25.0 1.8 44 2-45 132-197 (438)
83 cd07949 PCA_45_Doxase_B_like_1 20.8 66 0.0014 22.4 1.5 23 22-44 36-59 (276)
84 PF13524 Glyco_trans_1_2: Glyc 20.7 75 0.0016 17.1 1.4 20 7-26 58-77 (92)
85 TIGR03180 UraD_2 OHCU decarbox 20.5 70 0.0015 20.8 1.5 18 28-45 100-117 (158)
86 COG0347 GlnK Nitrogen regulato 20.5 67 0.0015 20.7 1.4 17 8-24 6-22 (112)
87 PF06792 UPF0261: Uncharacteri 20.4 1.1E+02 0.0023 23.4 2.6 27 10-41 312-338 (403)
88 PF13454 NAD_binding_9: FAD-NA 20.4 2.2E+02 0.0047 17.3 3.6 18 17-34 95-112 (156)
No 1
>KOG1877|consensus
Probab=99.45 E-value=1.2e-14 Score=114.62 Aligned_cols=40 Identities=48% Similarity=0.754 Sum_probs=39.2
Q ss_pred CcceeeecccCCchHHHHHHHHHHHHhHHhhhhccCceeE
Q psy11264 1 MDKLTFYALSSPEKLDRIGDYLYETASRDISRKRTQCSST 40 (50)
Q Consensus 1 M~KLtfYals~PeKLDRIG~YL~~rl~RDl~R~R~~~v~i 40 (50)
|+||+|||.|+|+||||||+||.+|+.+|++|+|+|+|+|
T Consensus 36 m~kL~~YAasnp~KL~KI~~yL~~R~~kdl~~~r~~~v~I 75 (819)
T KOG1877|consen 36 MEKLTFYAASNPSKLPKIGTYLEERCYKDLRRERFGSVKI 75 (819)
T ss_pred HHHHHHHHhhChhhhhHHHHHHHHHHHHHHHhccCcchhh
Confidence 7899999999999999999999999999999999999987
No 2
>PF06925 MGDG_synth: Monogalactosyldiacylglycerol (MGDG) synthase; InterPro: IPR009695 This entry represents a conserved region of approximately 180 residues found towirds the N terminus of a number of plant and bacterial diacylglycerol glucosyltransferases, such as monogalactosyldiacylglycerol synthase [].; GO: 0016758 transferase activity, transferring hexosyl groups, 0009247 glycolipid biosynthetic process
Probab=65.79 E-value=7.6 Score=23.94 Aligned_cols=30 Identities=23% Similarity=0.232 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHhHHhhhhccCceeEEeeeecc
Q psy11264 16 DRIGDYLYETASRDISRKRTQCSSTISTHQIP 47 (50)
Q Consensus 16 DRIG~YL~~rl~RDl~R~R~~~v~iis~~~i~ 47 (50)
..+...+.++|.+-|.+. ..-.|||||..|
T Consensus 71 ~~~~~~~~~~l~~~l~~~--~PD~IIsThp~~ 100 (169)
T PF06925_consen 71 SALSRLFARRLIRLLREF--QPDLIISTHPFP 100 (169)
T ss_pred HHHHHHHHHHHHHHHhhc--CCCEEEECCcch
Confidence 356677777888777654 445899999875
No 3
>PF13304 AAA_21: AAA domain; PDB: 3QKS_B 1US8_B 1F2U_B 1F2T_B 3QKT_A 1II8_B 3QKR_B 3QKU_A.
Probab=64.45 E-value=9.6 Score=21.52 Aligned_cols=28 Identities=21% Similarity=0.412 Sum_probs=17.0
Q ss_pred CCchHHHHHHHHHHHHhHHhhhhccCceeEEeeee
Q psy11264 11 SPEKLDRIGDYLYETASRDISRKRTQCSSTISTHQ 45 (50)
Q Consensus 11 ~PeKLDRIG~YL~~rl~RDl~R~R~~~v~iis~~~ 45 (50)
||+-..++.++| +++.. ...|| ||+||.
T Consensus 271 Hp~~q~~l~~~l-----~~~~~-~~~Qv-iitTHS 298 (303)
T PF13304_consen 271 HPSWQRKLIELL-----KELSK-KNIQV-IITTHS 298 (303)
T ss_dssp SHHHHHHHHHHH-----HHTGG-GSSEE-EEEES-
T ss_pred CHHHHHHHHHHH-----HhhCc-cCCEE-EEeCcc
Confidence 666677777666 33333 44444 899996
No 4
>cd00419 Ferrochelatase_C Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is ubiquitous in nature and widely distributed in bacteria and eukaryotes. Recently, some archaeal members have been identified. The oligomeric state of these enzymes varies depending on the presence of a dimerization motif at the C-terminus.
Probab=63.13 E-value=5.9 Score=24.70 Aligned_cols=29 Identities=17% Similarity=0.260 Sum_probs=21.4
Q ss_pred HHHHHHhHHhhhh-ccCceeEEeeeecccC
Q psy11264 21 YLYETASRDISRK-RTQCSSTISTHQIPRK 49 (50)
Q Consensus 21 YL~~rl~RDl~R~-R~~~v~iis~~~i~~~ 49 (50)
.+++++...+.+. +.....++|.|-||.+
T Consensus 2 a~~~~I~~~~~~~~~~~~~llfsaHgiP~~ 31 (135)
T cd00419 2 ALADHIREALAELPREKDRLLFSAHGLPVR 31 (135)
T ss_pred hHHHHHHHHHHhcCCCCCEEEEEcCCCHHH
Confidence 4566666666654 5667899999999964
No 5
>PF15614 WHIM3: WSTF, HB1, Itc1p, MBD9 motif 3
Probab=62.73 E-value=6.3 Score=22.06 Aligned_cols=35 Identities=17% Similarity=0.210 Sum_probs=28.0
Q ss_pred ecccCCchHHHHHHHH-------HHHHhHHhhhhccCceeEE
Q psy11264 7 YALSSPEKLDRIGDYL-------YETASRDISRKRTQCSSTI 41 (50)
Q Consensus 7 Yals~PeKLDRIG~YL-------~~rl~RDl~R~R~~~v~ii 41 (50)
..++.||-+|.+.+.| -..|++++..++.+--++-
T Consensus 2 ~~~~~~e~ld~L~~aL~~prG~RE~~L~~~L~~~~k~~~~~s 43 (46)
T PF15614_consen 2 GYYDDPEELDELLKALENPRGKRESKLKKELDKHRKGPLEIS 43 (46)
T ss_pred ccccCHHHHHHHHHHHcCcccHhHHHHHHHHHHHhcchhhhh
Confidence 4578999999999999 5678999999887755543
No 6
>PF02773 S-AdoMet_synt_C: S-adenosylmethionine synthetase, C-terminal domain; InterPro: IPR022630 The three domains of S-adenosylmethionine synthetase have the same alpha+beta fold. This entry represents the C-terminal domain of S=adenosylmethionine synthetase and is found in association with PF00438 from PFAM and PF02772 from PFAM. S-adenosylmethionine synthetase (MAT, 2.5.1.6 from EC) is the enzyme that catalyzes the formation of S-adenosylmethionine (AdoMet) from methionine and ATP []. AdoMet is an important methyl donor for transmethylation and is also the propylamino donor in polyamine biosynthesis. In bacteria there is a single isoform of AdoMet synthetase (gene metK), there are two in budding yeast (genes SAM1 and SAM2) and in mammals while in plants there is generally a multigene family. The sequence of AdoMet synthetase is highly conserved throughout isozymes and species. The active sites of both the Escherichia coli and rat liver MAT reside between two subunits, with contributions from side chains of residues from both subunits, resulting in a dimer as the minimal catalytic entity. The side chains that contribute to the ligand binding sites are conserved between the two proteins. In the structures of complexes with the E. coli enzyme, the phosphate groups have the same positions in the (PPi plus Pi) complex and the (ADP plus Pi) complex, and are located at the bottom of a deep cavity with the adenosyl group nearer the entrance []; GO: 0004478 methionine adenosyltransferase activity; PDB: 3IML_B 1QM4_B 1O9T_B 1O93_A 1O92_B 1O90_A 1FUG_A 1RG9_D 1XRA_A 1P7L_C ....
Probab=57.20 E-value=12 Score=25.02 Aligned_cols=24 Identities=25% Similarity=0.487 Sum_probs=20.3
Q ss_pred cCCchHHHHHHHHHHHHhHHhhhh
Q psy11264 10 SSPEKLDRIGDYLYETASRDISRK 33 (50)
Q Consensus 10 s~PeKLDRIG~YL~~rl~RDl~R~ 33 (50)
.+|-|.||-|.|++.-+...|...
T Consensus 34 KD~tKvDRsaaY~aR~iAKniVaa 57 (138)
T PF02773_consen 34 KDPTKVDRSAAYMARYIAKNIVAA 57 (138)
T ss_dssp B-TTSHHHHHHHHHHHHHHHHHHT
T ss_pred CChhhhhccHHHHHHHHHHHHHHc
Confidence 479999999999999999888754
No 7
>TIGR02957 SigX4 RNA polymerase sigma-70 factor, TIGR02957 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building and bidirectional best hits, to represent a conserved family. This family is found in a limited number of bacterial lineages. This family includes apparent paralogous expansion in Streptomyces coelicolor A3(2), and multiple copies in Mycobacterium smegmatis MC2, Streptomyces avermitilis MA-4680 and Nocardia farcinica IFM10152.
Probab=55.43 E-value=3.2 Score=27.84 Aligned_cols=15 Identities=47% Similarity=0.895 Sum_probs=13.1
Q ss_pred eeecccCCchHHHHH
Q psy11264 5 TFYALSSPEKLDRIG 19 (50)
Q Consensus 5 tfYals~PeKLDRIG 19 (50)
.+|.+..||||.++|
T Consensus 267 ~i~~~~nP~kl~~~~ 281 (281)
T TIGR02957 267 NIYIVRNPEKLAHIG 281 (281)
T ss_pred EEEEEcCHHHhccCC
Confidence 479999999998876
No 8
>PF11016 DUF2854: Protein of unknown function (DUF2854); InterPro: IPR021275 This family of proteins has no known function.
Probab=50.50 E-value=8.7 Score=25.98 Aligned_cols=16 Identities=19% Similarity=0.252 Sum_probs=13.2
Q ss_pred HHHHhHHhhhhccCce
Q psy11264 23 YETASRDISRKRTQCS 38 (50)
Q Consensus 23 ~~rl~RDl~R~R~~~v 38 (50)
-..+..|+.|.|||+-
T Consensus 61 ~~qlr~DVTR~RYGqe 76 (147)
T PF11016_consen 61 QNQLRKDVTRYRYGQE 76 (147)
T ss_pred HHHHHhhhhhhhccHH
Confidence 3568899999999973
No 9
>TIGR02017 hutG_amidohyd N-formylglutamate amidohydrolase. In some species, histidine is converted to via urocanate and then formimino-L-glutamate to glutamate in four steps, where the fourth step is conversion of N-formimino-L-glutamate to L-glutamate and formamide. In others, that pathway from formimino-L-glutamate may differ, with the next enzyme being formiminoglutamate hydrolase (HutF) yielding N-formyl-L-glutamate. This model represents the enzyme N-formylglutamate deformylase, also called N-formylglutamate amidohydrolase, which then produces glutamate.
Probab=49.56 E-value=28 Score=24.08 Aligned_cols=40 Identities=20% Similarity=0.187 Sum_probs=29.0
Q ss_pred ccCCchHHHHHHHH---HHHHhHHhhh--hccCceeEEeeeeccc
Q psy11264 9 LSSPEKLDRIGDYL---YETASRDISR--KRTQCSSTISTHQIPR 48 (50)
Q Consensus 9 ls~PeKLDRIG~YL---~~rl~RDl~R--~R~~~v~iis~~~i~~ 48 (50)
++.-|...||..|= .+.|.+-|.+ .|+|.+.+|+.|.+|.
T Consensus 107 l~~~e~~~Ri~~yy~PYH~al~~~L~~~~~~~g~~~liD~HSm~s 151 (263)
T TIGR02017 107 PSPAEIDDRRTQIFRPYHAALQAEIERLRAQHGYAVLYDAHSIRS 151 (263)
T ss_pred cCHHHHHHHHHHHhHHHHHHHHHHHHHHHHhCCCEEEEEeccCCc
Confidence 55567777887762 4566666643 6899999999998874
No 10
>PF13809 Tubulin_2: Tubulin like
Probab=48.85 E-value=18 Score=25.34 Aligned_cols=25 Identities=32% Similarity=0.464 Sum_probs=19.7
Q ss_pred ecccCCchHHHHHHHHHHHHhHHhhhh
Q psy11264 7 YALSSPEKLDRIGDYLYETASRDISRK 33 (50)
Q Consensus 7 Yals~PeKLDRIG~YL~~rl~RDl~R~ 33 (50)
.+++-| .|+|.+|+++|+.+.+..+
T Consensus 320 a~i~~P--~~~i~~~~a~rl~~~~v~~ 344 (345)
T PF13809_consen 320 ASISFP--RDRIAEYLAYRLARQAVDQ 344 (345)
T ss_pred eeeecc--HHHHHHHHHHHHHHHHHHh
Confidence 345556 4899999999999988753
No 11
>cd07365 MhpB_like Subunit B of the Class III Extradiol ring-cleavage dioxygenase, 2,3-dihydroxyphenylpropionate 1,2-dioxygenase (MhpB), which catalyzes the oxidization and subsequent ring-opening of 2,3-dihydroxyphenylpropionate. 2,3-dihydroxyphenylpropionate 1,2-dioxygenase (MhpB) catalyzes the oxidization and subsequent ring-opening of 2,3-dihydroxyphenylpropionate, yielding the product 2-hydroxy-6-oxo-nona-2,4-diene 1,9-dicarboxylate. It is an essential enzyme in the beta-phenylpropionic degradation pathway, in which beta-phenylpropionic is first hydrolyzed to produce 2,3-dihydroxyphenylpropionate. The enzyme is a member of the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. LigAB-like class III enzymes are usually composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. This model represents the ca
Probab=47.87 E-value=43 Score=23.87 Aligned_cols=40 Identities=10% Similarity=0.132 Sum_probs=31.5
Q ss_pred ecccC-C---------chHHHHHHHHHHHHhHHhhhhccCceeEEeeeecc
Q psy11264 7 YALSS-P---------EKLDRIGDYLYETASRDISRKRTQCSSTISTHQIP 47 (50)
Q Consensus 7 Yals~-P---------eKLDRIG~YL~~rl~RDl~R~R~~~v~iis~~~i~ 47 (50)
++.|| | +..+++.+-+ +++.+.|...+..-+.|||.|..+
T Consensus 6 ~~~sH~p~~~~~~~~~~~~~~~~~a~-~~l~~~l~~~~PD~iVIigphH~~ 55 (310)
T cd07365 6 ICMSHSPLLGFNDPAPEVVAEVDAAF-AAARAFVAAFDPELVVLFAPDHYN 55 (310)
T ss_pred eeeCCCcccCCCCCchHHHHHHHHHH-HHHHHHHHHcCCCEEEEEcCCccc
Confidence 66777 6 5677777776 788999988889999999988543
No 12
>cd07359 PCA_45_Doxase_B_like Subunit B of the Class III Extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, and simlar enzymes. This subfamily of class III extradiol dioxygenases consists of a number of proteins with known enzymatic activities: Protocatechuate (PCA) 4,5-dioxygenase (LigAB), 2,3-dihydroxyphenylpropionate 1,2-dioxygenase (MhpB), 3-O-Methylgallate Dioxygenase, 2-aminophenol 1,6-dioxygenase, as well as proteins without any known enzymatic activity. These proteins play essential roles in the degradation of aromatic compounds by catalyzing the incorporation of both atoms of molecular oxygen into their preferred substrates. As members of the Class III extradiol dioxygenase family, the enzymes use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. LigAB-like class III enzymes are usually composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. This model repres
Probab=47.22 E-value=49 Score=22.08 Aligned_cols=31 Identities=3% Similarity=0.025 Sum_probs=21.4
Q ss_pred hHHHHHHHHHHHHhHHhhhhccCceeEEeeee
Q psy11264 14 KLDRIGDYLYETASRDISRKRTQCSSTISTHQ 45 (50)
Q Consensus 14 KLDRIG~YL~~rl~RDl~R~R~~~v~iis~~~ 45 (50)
+.++..+-| +++.+.|...+..-|.|||.|.
T Consensus 25 ~~~~~~~~l-~~~~~~l~~~~Pd~ivvis~~h 55 (271)
T cd07359 25 VRAAVFAAF-ARIRDRLEAARPDVVVVVGNDH 55 (271)
T ss_pred HHHHHHHHH-HHHHHHHHHhCCCEEEEEeCcH
Confidence 344444444 4477888777888899999954
No 13
>PF15447 NTS: N-terminal segments of PfEMP1; PDB: 2XU0_A 2YK0_A.
Probab=46.12 E-value=12 Score=19.88 Aligned_cols=18 Identities=33% Similarity=0.698 Sum_probs=13.1
Q ss_pred chHHHHHHHHHHHHhHHh
Q psy11264 13 EKLDRIGDYLYETASRDI 30 (50)
Q Consensus 13 eKLDRIG~YL~~rl~RDl 30 (50)
+=||+||+-+.+....+-
T Consensus 4 ~vLd~IG~~I~~~v~~~A 21 (37)
T PF15447_consen 4 NVLDRIGKEIYKKVKKEA 21 (37)
T ss_dssp HHHHHHHHHHHHHCC-S-
T ss_pred HHHHHHHHHHHHHHhHhH
Confidence 348999999998876653
No 14
>PF07958 DUF1688: Protein of unknown function (DUF1688); InterPro: IPR012469 A family of uncharacterised fungal proteins.
Probab=46.10 E-value=18 Score=27.91 Aligned_cols=27 Identities=41% Similarity=0.764 Sum_probs=22.2
Q ss_pred cceeeecccCCchHHHHHHHHHHHHhHH
Q psy11264 2 DKLTFYALSSPEKLDRIGDYLYETASRD 29 (50)
Q Consensus 2 ~KLtfYals~PeKLDRIG~YL~~rl~RD 29 (50)
.||.++.+. ++|||.+++|.+.-..||
T Consensus 23 g~l~hF~~d-~~kl~~va~~V~~vi~rd 49 (420)
T PF07958_consen 23 GKLNHFDVD-PSKLDDVADYVAEVIRRD 49 (420)
T ss_pred CCCCCEEec-hhhhHHHHHHHHHHHHHh
Confidence 477888874 999999999998876665
No 15
>smart00183 NAT_PEP Natriuretic peptide. Atrial natriuretic peptides are vertebrate hormones important in the overall control of cardiovascular homeostasis and sodium and water balance in general.
Probab=45.65 E-value=5 Score=20.63 Aligned_cols=8 Identities=75% Similarity=1.037 Sum_probs=6.7
Q ss_pred chHHHHHH
Q psy11264 13 EKLDRIGD 20 (50)
Q Consensus 13 eKLDRIG~ 20 (50)
.||||||.
T Consensus 11 ~~~DRIgs 18 (26)
T smart00183 11 LKLDRIGS 18 (26)
T ss_pred cccccccc
Confidence 58999986
No 16
>PRK13812 orotate phosphoribosyltransferase; Provisional
Probab=44.80 E-value=20 Score=23.29 Aligned_cols=33 Identities=15% Similarity=0.278 Sum_probs=23.7
Q ss_pred ccCCchHHHHHHHHHHHHhHHhhhhccCceeEEeeeecc
Q psy11264 9 LSSPEKLDRIGDYLYETASRDISRKRTQCSSTISTHQIP 47 (50)
Q Consensus 9 ls~PeKLDRIG~YL~~rl~RDl~R~R~~~v~iis~~~i~ 47 (50)
.+.|+-+..||++|++++... ..+.-+....||
T Consensus 39 ~~~p~~~~~i~~~l~~~i~~~------d~ivg~~~ggi~ 71 (176)
T PRK13812 39 ETDPDCLRLIAEAFADRIDED------TKLAGVALGAVP 71 (176)
T ss_pred cCCHHHHHHHHHHHHHHhccC------CEEEEeecchHH
Confidence 578999999999999997531 345555555554
No 17
>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.
Probab=42.86 E-value=57 Score=17.80 Aligned_cols=40 Identities=18% Similarity=0.230 Sum_probs=24.7
Q ss_pred eeecccCCchHHHHHHHHHHHHhHHhhhhccCceeEEeeee
Q psy11264 5 TFYALSSPEKLDRIGDYLYETASRDISRKRTQCSSTISTHQ 45 (50)
Q Consensus 5 tfYals~PeKLDRIG~YL~~rl~RDl~R~R~~~v~iis~~~ 45 (50)
.-|.++.|+.++.+-++ .+.+..--.+.+.-.+.++.+|+
T Consensus 79 lv~D~s~~~s~~~~~~~-~~~l~~~~~~~~~~piilv~nK~ 118 (119)
T PF08477_consen 79 LVYDLSDPESLEYLSQL-LKWLKNIRKRDKNIPIILVGNKS 118 (119)
T ss_dssp EEEECCGHHHHHHHHHH-HHHHHHHHHHSSCSEEEEEEE-T
T ss_pred EEEcCCChHHHHHHHHH-HHHHHHHHccCCCCCEEEEEecc
Confidence 45788999999987554 44444433344555667777663
No 18
>PF05292 MCD: Malonyl-CoA decarboxylase (MCD); InterPro: IPR007956 This family consists of several eukaryotic malonyl-CoA decarboxylase (MLYCD) proteins. Malonyl-CoA, in addition to being an intermediate in the de novo synthesis of fatty acids, is an inhibitor of carnitine palmitoyltransferase I, the enzyme that regulates the transfer of long-chain fatty acyl-CoA into mitochondria, where they are oxidised. After exercise, malonyl-CoA decarboxylase participates with acetyl-CoA carboxylase in regulating the concentration of malonyl-CoA in liver and adipose tissue, as well as in muscle. Malonyl-CoA decarboxylase is regulated by AMP-activated protein kinase (AMPK) [].; GO: 0050080 malonyl-CoA decarboxylase activity, 0006633 fatty acid biosynthetic process; PDB: 2YGW_B.
Probab=40.16 E-value=45 Score=25.25 Aligned_cols=43 Identities=28% Similarity=0.502 Sum_probs=27.1
Q ss_pred eeeecccCCchH-H--HHHHHHHHHHhHHhhhhccCceeEEee-eecc
Q psy11264 4 LTFYALSSPEKL-D--RIGDYLYETASRDISRKRTQCSSTIST-HQIP 47 (50)
Q Consensus 4 LtfYals~PeKL-D--RIG~YL~~rl~RDl~R~R~~~v~iis~-~~i~ 47 (50)
=+||++|+=++= - .+|.+|-+|...+|.+ ....++..+| ..||
T Consensus 182 AiFYSISn~q~GL~Gi~lGn~LIK~Vv~~L~~-e~p~l~~F~TLSPiP 228 (354)
T PF05292_consen 182 AIFYSISNTQKGLRGISLGNFLIKRVVEELQR-EFPNLKTFSTLSPIP 228 (354)
T ss_dssp EEEEEEEES-GGGTTS-HHHHHHHHHHHHHHH-H-TT--EEEE-B---
T ss_pred EEEEecccchhhhccCchHHHHHHHHHHHHHH-hCccccccccCCCCc
Confidence 479999988873 2 4799999999999987 4555665554 3444
No 19
>PRK05250 S-adenosylmethionine synthetase; Validated
Probab=39.25 E-value=28 Score=26.61 Aligned_cols=24 Identities=25% Similarity=0.444 Sum_probs=21.0
Q ss_pred cCCchHHHHHHHHHHHHhHHhhhh
Q psy11264 10 SSPEKLDRIGDYLYETASRDISRK 33 (50)
Q Consensus 10 s~PeKLDRIG~YL~~rl~RDl~R~ 33 (50)
..|-|.||-|.|+++-+...|...
T Consensus 265 KDptKVDRSaAY~AR~iAKniVaa 288 (384)
T PRK05250 265 KDPTKVDRSAAYAARYVAKNIVAA 288 (384)
T ss_pred CCcchhhhHHHHHHHHHHHHHHhh
Confidence 479999999999999999888653
No 20
>PRK12459 S-adenosylmethionine synthetase; Provisional
Probab=39.07 E-value=28 Score=26.63 Aligned_cols=24 Identities=25% Similarity=0.436 Sum_probs=21.1
Q ss_pred cCCchHHHHHHHHHHHHhHHhhhh
Q psy11264 10 SSPEKLDRIGDYLYETASRDISRK 33 (50)
Q Consensus 10 s~PeKLDRIG~YL~~rl~RDl~R~ 33 (50)
..|-|.||-|.|+++-+...|...
T Consensus 269 KDptKVDRSaAY~AR~iAKniVaA 292 (386)
T PRK12459 269 KDPSKVDRSAAYAARYIAKNIVAA 292 (386)
T ss_pred CCcchhhhHHHHHHHHHHHHHHhh
Confidence 479999999999999999888654
No 21
>PRK09213 pur operon repressor; Provisional
Probab=38.88 E-value=25 Score=24.93 Aligned_cols=35 Identities=29% Similarity=0.484 Sum_probs=27.1
Q ss_pred ccCCchHHHHHHHHHHHHhHHhhhhccCceeEEeeeecc
Q psy11264 9 LSSPEKLDRIGDYLYETASRDISRKRTQCSSTISTHQIP 47 (50)
Q Consensus 9 ls~PeKLDRIG~YL~~rl~RDl~R~R~~~v~iis~~~i~ 47 (50)
+++|+-++.+|+.+++++.. .....|..+.++.||
T Consensus 109 l~~P~~l~~i~~~la~~~~~----~~iD~Vvtvet~GIp 143 (271)
T PRK09213 109 LGNPSILRKIGRIIASAFAD----KKIDAVMTVETKGIP 143 (271)
T ss_pred cCCHHHHHHHHHHHHHHhcc----cCCCEEEEEccccHH
Confidence 67999999999999998853 234567777777776
No 22
>TIGR01034 metK S-adenosylmethionine synthetase. Tandem isozymes of this S-adenosylmethionine synthetase in E. coli are designated MetK and MetX.
Probab=38.73 E-value=28 Score=26.61 Aligned_cols=24 Identities=25% Similarity=0.436 Sum_probs=21.3
Q ss_pred cCCchHHHHHHHHHHHHhHHhhhh
Q psy11264 10 SSPEKLDRIGDYLYETASRDISRK 33 (50)
Q Consensus 10 s~PeKLDRIG~YL~~rl~RDl~R~ 33 (50)
..|-|.||-|.|+++-+...|..-
T Consensus 262 KDptKVDRSaAY~AR~iAKniVaA 285 (377)
T TIGR01034 262 KDPSKVDRSAAYAARYIAKNIVAA 285 (377)
T ss_pred CCcchhhhHHHHHHHHHHHHHHhh
Confidence 479999999999999999988764
No 23
>PF00212 ANP: Atrial natriuretic peptide; InterPro: IPR000663 Atrial natriuretic peptides (ANPs) are vertebrate hormones that play an important role in the control of cardiovascular homeostatis, and sodium and water balance in general [, , ]. There are different NPs that vary in length but share a common core. All are processed from a single precursor. A disulphide bond resident in the C-terminal section is required for full activity of atriopeptins. The family of NPs includes structurally-related peptides that elicit similar pharmacological spectra. Amongst these are brain natriuretic peptide (BNP); C-type natriuretic peptide (CNP); ventricular natriuretic peptide (VNP) []; and green mamba natriuretic peptide (DNP) [].; GO: 0005179 hormone activity, 0005576 extracellular region; PDB: 3N57_C 1YK0_E 1T34_H 1JDP_H 1YK1_E 1Q01_A.
Probab=38.23 E-value=5.7 Score=21.12 Aligned_cols=8 Identities=63% Similarity=1.120 Sum_probs=6.4
Q ss_pred chHHHHHH
Q psy11264 13 EKLDRIGD 20 (50)
Q Consensus 13 eKLDRIG~ 20 (50)
.||||||.
T Consensus 20 ~kiDRIGs 27 (33)
T PF00212_consen 20 RKIDRIGS 27 (33)
T ss_dssp STTSTTSS
T ss_pred cccccccc
Confidence 48999984
No 24
>PLN02243 S-adenosylmethionine synthase
Probab=37.26 E-value=30 Score=26.48 Aligned_cols=24 Identities=29% Similarity=0.621 Sum_probs=21.2
Q ss_pred cCCchHHHHHHHHHHHHhHHhhhh
Q psy11264 10 SSPEKLDRIGDYLYETASRDISRK 33 (50)
Q Consensus 10 s~PeKLDRIG~YL~~rl~RDl~R~ 33 (50)
..|-|.||-|.|+++-+...|..-
T Consensus 273 KDptKVDRSaAY~AR~iAKniVaa 296 (386)
T PLN02243 273 KDPTKVDRSGAYIVRQAAKSVVAA 296 (386)
T ss_pred CCcchhhhHHHHHHHHHHHHHHhh
Confidence 479999999999999999888764
No 25
>PRK13370 mhpB 3-(2,3-dihydroxyphenyl)propionate dioxygenase; Provisional
Probab=36.52 E-value=77 Score=22.63 Aligned_cols=33 Identities=9% Similarity=0.100 Sum_probs=25.8
Q ss_pred chHHHHHHHHHHHHhHHhhhhccCceeEEeeeec
Q psy11264 13 EKLDRIGDYLYETASRDISRKRTQCSSTISTHQI 46 (50)
Q Consensus 13 eKLDRIG~YL~~rl~RDl~R~R~~~v~iis~~~i 46 (50)
+..+++-.-+ +++.+.|...+..-|.|||.|..
T Consensus 22 ~~~~~v~~a~-~~l~~~l~~~~PD~iVIigpdH~ 54 (313)
T PRK13370 22 EVLAEVNAVI-AAAREFVAAFDPELVVLFAPDHY 54 (313)
T ss_pred HHHHHHHHHH-HHHHHHHHHhCCCEEEEEcCCcc
Confidence 5677777665 78888998888898999998543
No 26
>PTZ00104 S-adenosylmethionine synthase; Provisional
Probab=36.10 E-value=32 Score=26.44 Aligned_cols=23 Identities=22% Similarity=0.396 Sum_probs=20.5
Q ss_pred cCCchHHHHHHHHHHHHhHHhhh
Q psy11264 10 SSPEKLDRIGDYLYETASRDISR 32 (50)
Q Consensus 10 s~PeKLDRIG~YL~~rl~RDl~R 32 (50)
..|-|.||-|.|+++-+...|..
T Consensus 279 KDptKVDRSaAY~ARyiAKniVA 301 (398)
T PTZ00104 279 KDPSKVDRSAAYAARWIAKSLVA 301 (398)
T ss_pred CCcchhhhHHHHHHHHHHHHHHh
Confidence 47999999999999999988865
No 27
>TIGR00109 hemH ferrochelatase. Human ferrochelatase, found at the mitochondrial inner membrane inner surface, was shown in an active recombinant form to be a homodimer. This contrasts to an earlier finding by gel filtration that overexpressed E. coli ferrochelatase runs as a monomer.
Probab=34.25 E-value=63 Score=22.68 Aligned_cols=36 Identities=14% Similarity=0.314 Sum_probs=20.8
Q ss_pred cCCchHHHHHHHHHHHHhHHhhhhcc-C-ceeEEeeeecccC
Q psy11264 10 SSPEKLDRIGDYLYETASRDISRKRT-Q-CSSTISTHQIPRK 49 (50)
Q Consensus 10 s~PeKLDRIG~YL~~rl~RDl~R~R~-~-~v~iis~~~i~~~ 49 (50)
.+|+=++- +++++...+.+... + ...++|.|.||.+
T Consensus 164 ~~p~yi~a----~~~~I~~~l~~~~~~~~~~llfSaHglP~~ 201 (322)
T TIGR00109 164 DNPKYIKA----LADSIKETLASFPEPDNAVLLFSAHGLPQS 201 (322)
T ss_pred cCcHHHHH----HHHHHHHHHHhcCCcCCcEEEEeCCCCchh
Confidence 34544444 44444444444322 3 3799999999964
No 28
>PF00762 Ferrochelatase: Ferrochelatase; InterPro: IPR001015 Synonym(s): Protohaem ferro-lyase, Iron chelatase, etc. Ferrochelatase catalyses the last step in haem biosynthesis: the chelation of a ferrous ion to proto-porphyrin IX, to form protohaem [, ]. In eukaryotic cells, it binds to the mitochondrial inner membrane with its active site on the matrix side of the membrane. The X-ray structure of Bacillus subtilis and human ferrochelatase have been solved [, ]. The human enzyme exists as a homodimer. Each subunit contains one [2Fe-2S] cluster. The monomer is folded into two similar domains, each with a four-stranded parallel beta-sheet flanked by an alpha-helix in a beta-alpha-beta motif that is reminiscent of the fold found in the periplasmic binding proteins. The topological similarity between the domains suggests that they have arisen from a gene duplication event. However, significant differences exist between the two domains, including an N-terminal section (residues 80-130) that forms part of the active site pocket, and a C-terminal extension (residues 390-423) that is involved in coordination of the [2Fe-2S] cluster and in stabilisation of the homodimer. Ferrochelatase seems to have a structurally conserved core region that is common to the enzyme from bacteria, plants and mammals. Porphyrin binds in the identified cleft; this cleft also includes the metal-binding site of the enzyme. It is likely that the structure of the cleft region will have different conformations upon substrate binding and release [].; GO: 0004325 ferrochelatase activity, 0006783 heme biosynthetic process; PDB: 2QD3_B 2HRE_C 3HCN_B 2PNJ_A 2QD1_C 1HRK_A 2QD4_B 3AQI_B 2HRC_B 3HCO_B ....
Probab=33.99 E-value=65 Score=22.74 Aligned_cols=32 Identities=19% Similarity=0.203 Sum_probs=22.4
Q ss_pred HHHHHHHHHhHHhhhh--ccCceeEEeeeecccC
Q psy11264 18 IGDYLYETASRDISRK--RTQCSSTISTHQIPRK 49 (50)
Q Consensus 18 IG~YL~~rl~RDl~R~--R~~~v~iis~~~i~~~ 49 (50)
.-+++++++...+.+. ..+...+.|.|.||.+
T Consensus 163 yi~a~~~~i~~~l~~~~~~~~~~llfSaHglP~~ 196 (316)
T PF00762_consen 163 YIEALAERIREALERFPRGEPDHLLFSAHGLPQR 196 (316)
T ss_dssp HHHHHHHHHHHHHTTS-HCCCEEEEEEEE--BHH
T ss_pred HHHHHHHHHHHHHHhcCCCCCCEEEEccCCCCcc
Confidence 4467778888888776 2367899999999963
No 29
>TIGR01743 purR_Bsub pur operon repressor, Bacillus subtilis type. This model represents the puring operon repressor PurR of low-GC Gram-positive bacteria. This homodimeric repressor contains a large region homologous to phosphoribosyltransferases and is inhibited by 5-phosphoribosyl 1-pyrophosphate.
Probab=33.83 E-value=31 Score=24.51 Aligned_cols=35 Identities=29% Similarity=0.486 Sum_probs=26.8
Q ss_pred ccCCchHHHHHHHHHHHHhHHhhhhccCceeEEeeeecc
Q psy11264 9 LSSPEKLDRIGDYLYETASRDISRKRTQCSSTISTHQIP 47 (50)
Q Consensus 9 ls~PeKLDRIG~YL~~rl~RDl~R~R~~~v~iis~~~i~ 47 (50)
+++|+-|..+|+.|+.++.. .....|..+.++.||
T Consensus 107 l~~P~~l~~ig~~la~~~~~----~~iD~VvgvetkGIp 141 (268)
T TIGR01743 107 LGKPSILSKIGKILASVFAE----REIDAVMTVATKGIP 141 (268)
T ss_pred hcCHHHHHHHHHHHHHHhcC----CCCCEEEEEccchHH
Confidence 67999999999999998852 134567777777766
No 30
>KOG1184|consensus
Probab=33.12 E-value=29 Score=27.94 Aligned_cols=11 Identities=27% Similarity=0.863 Sum_probs=10.0
Q ss_pred HHHHHHHHHhH
Q psy11264 18 IGDYLYETASR 28 (50)
Q Consensus 18 IG~YL~~rl~R 28 (50)
+|+||++||.+
T Consensus 6 ~G~YLf~RL~q 16 (561)
T KOG1184|consen 6 LGEYLFRRLVQ 16 (561)
T ss_pred HHHHHHHHHHH
Confidence 89999999975
No 31
>cd03572 ENTH_epsin_related ENTH domain, Epsin Related family; composed of hypothetical proteins containing an ENTH-like domain. The epsin N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. ENTH and ANTH (E/ANTH) domains are structurally similar to the VHS domain and are composed of a superhelix of eight alpha helices. E/ANTH domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membranes. ENTH domains also function in the development of membrane curvature through lipid remodeling during the formation of clathrin-coated vesicles. E/ANTH-bearing proteins have recently been shown to function with adaptor protein-1 and GGA adaptors at the t
Probab=32.84 E-value=27 Score=22.23 Aligned_cols=20 Identities=20% Similarity=0.250 Sum_probs=17.5
Q ss_pred ccCCchHHHHHHHHHHHHhH
Q psy11264 9 LSSPEKLDRIGDYLYETASR 28 (50)
Q Consensus 9 ls~PeKLDRIG~YL~~rl~R 28 (50)
.++|+....|.+||..||..
T Consensus 30 ~~s~~~~~ei~d~L~kRL~~ 49 (122)
T cd03572 30 RKSVGSCQELLEYLLKRLKR 49 (122)
T ss_pred HcCHHHHHHHHHHHHHHhcC
Confidence 35789999999999999985
No 32
>PF04364 DNA_pol3_chi: DNA polymerase III chi subunit, HolC; InterPro: IPR007459 The DNA polymerase III holoenzyme (2.7.7.7 from EC) is the polymerase responsible for the replication of the Escherichia coli chromosome. The holoenzyme is composed of the DNA polymerase III core, the sliding clamp, and the DnaX clamp loading complex. The DnaX complex contains either the tau or gamma product of gene dnax, complexed to delta.delta and to chi psi. Chi forms a 1:1 heterodimer with psi. The chi psi complex functions by increasing the affinity of tau and gamma for delta.delta allowing a functional clamp-loading complex to form at physiological subunit concentrations. Psi is responsible for the interaction with DnaX (gamma/tau), but psi is insoluble unless it is in a complex with chi [].; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication; PDB: 3SXU_A 1EM8_C.
Probab=31.38 E-value=69 Score=19.88 Aligned_cols=14 Identities=43% Similarity=0.740 Sum_probs=7.6
Q ss_pred CcceeeecccCCch
Q psy11264 1 MDKLTFYALSSPEK 14 (50)
Q Consensus 1 M~KLtfYals~PeK 14 (50)
|.+..||-++....
T Consensus 1 Mt~v~Fy~l~~~~~ 14 (137)
T PF04364_consen 1 MTRVDFYHLSSDDL 14 (137)
T ss_dssp -EEEEEEE-S----
T ss_pred CCeEEEEEcCCCcH
Confidence 88999999988766
No 33
>PF14058 PcfK: PcfK-like protein
Probab=31.05 E-value=33 Score=22.35 Aligned_cols=15 Identities=40% Similarity=0.616 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHhHH
Q psy11264 15 LDRIGDYLYETASRD 29 (50)
Q Consensus 15 LDRIG~YL~~rl~RD 29 (50)
.|.|+.||.+|...|
T Consensus 7 k~~I~~yL~~ra~~D 21 (140)
T PF14058_consen 7 KDTIHNYLCQRAQED 21 (140)
T ss_pred HHHHHHHHHHHhccC
Confidence 589999999988765
No 34
>PF14129 DUF4296: Domain of unknown function (DUF4296)
Probab=30.79 E-value=23 Score=20.41 Aligned_cols=25 Identities=24% Similarity=0.598 Sum_probs=19.3
Q ss_pred eeeecccCCchHHHHHHHHHHHHhHH
Q psy11264 4 LTFYALSSPEKLDRIGDYLYETASRD 29 (50)
Q Consensus 4 LtfYals~PeKLDRIG~YL~~rl~RD 29 (50)
+.||+- +|+.+..|=+-+.+||...
T Consensus 57 ~~YY~~-~p~~~~~Iy~~V~~rL~~~ 81 (87)
T PF14129_consen 57 MVYYSR-NPEEYEKIYDKVIERLEKE 81 (87)
T ss_pred HHHHHh-CHHHHHHHHHHHHHHHHHH
Confidence 346664 5999999988888888754
No 35
>PF08688 ASD1: Apx/Shroom domain ASD1; InterPro: IPR014800 Cell shape changes require the coordination of actin and microtubule cytoskeletons. The Shroom family is a small group of related proteins that are defined by sequence similarity and in most cases by some link to the actin cytoskeleton. The Shroom (Shrm) protein family is found only in animals. Proteins of this family are predicted to be utilised in multiple morphogenic and developmental processes across animal phyla to regulate cells shape or intracellular architecture in an actin and myosin-dependent manner []. While the founding member of the Shrm family is Shrm1 (formerly Apx), it appears that this protein is found only in Xenopus []. In mice and humans, the Shrm family of proteins consists of: Shrm2 (formerly Apxl), a protein involved in the morphogenesis, maintenance, and/or function of vascular endothelial cells. Shrm3 (formerly Shroom), a protein necessary for neural tube closure in vertebrate development as deficiency in Shrm results in spina bifida. Shrm3 is also conserved in some invertebrates, as orthologues can be found in sea urchins. Shrm4, a regulator of cyto-skeletal architecture that may play an important role in vertebrate development. It is implicated in X-linked mental retardation in humans. This protein family is based on the conservation of a specific arrangement of an N-terminal PDZ domain, a centrally positioned sequence motif termed ASD1 (Apx/Shrm Domain 1) and a C-terminal motif termed ASD2 [, , ]. Shrm2 and Shrm3 contain all three domains, while Shrm4 contains the PDZ and ASD2 domains, but lacks a discernible ASD1 element. To date, the ASD1 and ASD2 elements have only been found in Shrm-related proteins and do not appear in combination with other conserved domains. ASD1 is required for targeting actin, while ASD2 is capable of eliciting an actomyosin based constriction event [, ]. ASD2 is the most highly conserved sequence element shared by Shrm1, Shrm2, Shrm3, and Shrm4. It possesses a well conserved series of leucine residues that exhibit spacing consistent with that of a leucine zipper motif []. This region is found in the actin binding protein Shroom. ASD1 has been implicated directly in F-actin binding.
Probab=30.55 E-value=18 Score=24.89 Aligned_cols=12 Identities=42% Similarity=0.916 Sum_probs=10.5
Q ss_pred cccCCchHHHHH
Q psy11264 8 ALSSPEKLDRIG 19 (50)
Q Consensus 8 als~PeKLDRIG 19 (50)
+-|-|||++.||
T Consensus 138 SYSEPEKmneVG 149 (182)
T PF08688_consen 138 SYSEPEKMNEVG 149 (182)
T ss_pred ccCCchhhhhcc
Confidence 458999999999
No 36
>PRK05728 DNA polymerase III subunit chi; Validated
Probab=30.11 E-value=88 Score=19.57 Aligned_cols=15 Identities=27% Similarity=0.417 Sum_probs=11.3
Q ss_pred CcceeeecccCCchH
Q psy11264 1 MDKLTFYALSSPEKL 15 (50)
Q Consensus 1 M~KLtfYals~PeKL 15 (50)
|.+..||-++.++++
T Consensus 1 Mt~v~FY~l~~~~~~ 15 (142)
T PRK05728 1 MTRADFYHLTLSALE 15 (142)
T ss_pred CCeEEEEecCchhHH
Confidence 889999999555543
No 37
>PF04501 Baculo_VP39: Baculovirus major capsid protein VP39; InterPro: IPR007589 This family constitutes the 39 kDa major capsid protein of the Baculoviridae [].; GO: 0005198 structural molecule activity, 0019028 viral capsid
Probab=29.27 E-value=35 Score=25.35 Aligned_cols=23 Identities=35% Similarity=0.530 Sum_probs=19.3
Q ss_pred Ccceeeecc-cCCchHHHHHHHHH
Q psy11264 1 MDKLTFYAL-SSPEKLDRIGDYLY 23 (50)
Q Consensus 1 M~KLtfYal-s~PeKLDRIG~YL~ 23 (50)
||||.||-+ ..+++.|+|-+.|.
T Consensus 112 ~EqlIfh~IY~n~~~~~~iC~~L~ 135 (300)
T PF04501_consen 112 AEQLIFHMIYENQEKIDRICKSLR 135 (300)
T ss_pred hhhheeeeecCCHHHHHHHHHHHH
Confidence 689999988 56889999988875
No 38
>PLN02605 monogalactosyldiacylglycerol synthase
Probab=28.90 E-value=96 Score=21.16 Aligned_cols=27 Identities=7% Similarity=0.252 Sum_probs=17.4
Q ss_pred HHHHHHHHhHHhhhhccCceeEEeeeecc
Q psy11264 19 GDYLYETASRDISRKRTQCSSTISTHQIP 47 (50)
Q Consensus 19 G~YL~~rl~RDl~R~R~~~v~iis~~~i~ 47 (50)
+..+..+|.+-|.+.+ .=.|||||.++
T Consensus 85 ~~~~~~~l~~~i~~~~--pDvIi~thp~~ 111 (382)
T PLN02605 85 SAFVAREVAKGLMKYK--PDIIVSVHPLM 111 (382)
T ss_pred HHHHHHHHHHHHHhcC--cCEEEEeCcCc
Confidence 4455567777666554 45777888763
No 39
>PRK10122 GalU regulator GalF; Provisional
Probab=27.41 E-value=40 Score=23.12 Aligned_cols=22 Identities=14% Similarity=0.083 Sum_probs=19.2
Q ss_pred eecccCCchHHHHHHHHHHHHh
Q psy11264 6 FYALSSPEKLDRIGDYLYETAS 27 (50)
Q Consensus 6 fYals~PeKLDRIG~YL~~rl~ 27 (50)
-||++.|++.++|=+++.+.|+
T Consensus 275 ~~~~~~~~~~~~~~~~~~~~~~ 296 (297)
T PRK10122 275 KYGLRNLKEGAKFRKGIEKLLS 296 (297)
T ss_pred HHHhcChhHHHHHHHHHHHHhc
Confidence 4789999999999999998876
No 40
>PRK08558 adenine phosphoribosyltransferase; Provisional
Probab=27.06 E-value=49 Score=22.53 Aligned_cols=35 Identities=26% Similarity=0.223 Sum_probs=25.8
Q ss_pred ccCCchHHHHHHHHHHHHhHHhhhhccCceeEEeeeecc
Q psy11264 9 LSSPEKLDRIGDYLYETASRDISRKRTQCSSTISTHQIP 47 (50)
Q Consensus 9 ls~PeKLDRIG~YL~~rl~RDl~R~R~~~v~iis~~~i~ 47 (50)
+++|+=++.+|+.+++++.. .....|..+-++.||
T Consensus 90 l~~p~~~~~v~~~la~~~~~----~~~D~Vvtv~~~GI~ 124 (238)
T PRK08558 90 VFDPSFLRLIAPVVAERFMG----LRVDVVLTAATDGIP 124 (238)
T ss_pred hcCHHHHHHHHHHHHHHccC----CCCCEEEEECcccHH
Confidence 57899999999999999852 234556666666665
No 41
>PRK15433 branched-chain amino acid transport system 2 carrier protein BrnQ; Provisional
Probab=26.94 E-value=22 Score=27.02 Aligned_cols=20 Identities=30% Similarity=0.531 Sum_probs=14.5
Q ss_pred eeecccCCchH-HHHHHHHHH
Q psy11264 5 TFYALSSPEKL-DRIGDYLYE 24 (50)
Q Consensus 5 tfYals~PeKL-DRIG~YL~~ 24 (50)
+||---+|.|+ |+||++|.=
T Consensus 133 ~~~l~l~p~klvd~iGK~LTP 153 (439)
T PRK15433 133 VILVSLYPGKLLDTVGNFLAP 153 (439)
T ss_pred HHHHHcChhhHHHHhHHHHHH
Confidence 44555578885 999999864
No 42
>PF02900 LigB: Catalytic LigB subunit of aromatic ring-opening dioxygenase; InterPro: IPR004183 Dioxygenases catalyse the incorporation of both atoms of molecular oxygen into substrates using a variety of reaction mechanisms. Cleavage of aromatic rings is one of the most important functions of dioxygenases, which play key roles in the degradation of aromatic compounds. The substrates of ring-cleavage dioxygenases can be classified into two groups according to the mode of scission of the aromatic ring. Intradiol enzymes (IPR000627 from INTERPRO) use a non-haem Fe(III) to cleave the aromatic ring between two hydroxyl groups (ortho-cleavage), whereas extradiol enzymes use a non-haem Fe(II) to cleave the aromatic ring between a hydroxylated carbon and an adjacent non-hydroxylated carbon (meta-cleavage) [, ]. These two subfamilies differ in sequence, structural fold, iron ligands, and the orientation of second sphere active site amino acid residues. Extradiol dioxygenases are usually homo-multimeric, bind one atom of ferrous ion per subunit and have a subunit size of about 33 kDa. Extradiol dioxygenases can be divided into three classes. Class I and II enzymes (IPR000486 from INTERPRO) show sequence similarity, with the two-domain class II enzymes having evolved from a class I enzyme through gene duplication. Class III enzymes are different in sequence and structure, but they do share several common active-site characteristics with the class II enzymes, in particular the coordination sphere and the disposition of the putative catalytic base are very similar. Class III enzymes usually have two subunits, designated A and B. Enzymes that belong to the extradiol class III family include Protocatechuate 4,5-dioxygenase (4,5-PCD; LigAB) (1.13.11.8 from EC) []; and 2'-aminobiphenyl-2,3-diol 1,2-dioxygenase (CarBaBb) []. The crystal structure of dioxygenase LigAB revealed that the molecule is an alpha2beta2 tetramer. The active site contains a non-heme iron coordinated by His12, His61, Glu242, and a water molecule located in a deep cleft of the beta subunit, which is covered by the alpha subunit []. This entry represents the structural domain of subunit B.; GO: 0008198 ferrous iron binding, 0016491 oxidoreductase activity, 0006725 cellular aromatic compound metabolic process; PDB: 2PW6_A 1B4U_D 1BOU_B.
Probab=26.50 E-value=77 Score=20.95 Aligned_cols=25 Identities=16% Similarity=0.260 Sum_probs=20.2
Q ss_pred HHHHhHHhhhhccCceeEEeeeecc
Q psy11264 23 YETASRDISRKRTQCSSTISTHQIP 47 (50)
Q Consensus 23 ~~rl~RDl~R~R~~~v~iis~~~i~ 47 (50)
.+++.+.|...+-.-+.|||.|...
T Consensus 30 ~~~~~~~l~~~~pd~ivvis~h~~~ 54 (272)
T PF02900_consen 30 LQELGRRLREAKPDVIVVISPHWFT 54 (272)
T ss_dssp HHHHHHHCHSTS-SEEEEEEEEECC
T ss_pred HHHHHHHHHHcCCCEEEEEeCCcch
Confidence 5778888888899999999999764
No 43
>cd03299 ABC_ModC_like Archeal protein closely related to ModC. ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=26.14 E-value=99 Score=19.78 Aligned_cols=33 Identities=15% Similarity=0.098 Sum_probs=22.8
Q ss_pred hHHHHHHHHHHHHhHHhhhhccCceeEEeeeecc
Q psy11264 14 KLDRIGDYLYETASRDISRKRTQCSSTISTHQIP 47 (50)
Q Consensus 14 KLDRIG~YL~~rl~RDl~R~R~~~v~iis~~~i~ 47 (50)
-||..+......+-+++.. ..|...+|++|.++
T Consensus 159 gLD~~~~~~l~~~l~~~~~-~~~~tili~tH~~~ 191 (235)
T cd03299 159 ALDVRTKEKLREELKKIRK-EFGVTVLHVTHDFE 191 (235)
T ss_pred cCCHHHHHHHHHHHHHHHH-hcCCEEEEEecCHH
Confidence 4667776666666667654 44778899999764
No 44
>PRK01470 tatA twin arginine translocase protein A; Provisional
Probab=25.94 E-value=78 Score=17.69 Aligned_cols=17 Identities=18% Similarity=0.120 Sum_probs=13.9
Q ss_pred CCchHHHHHHHHHHHHh
Q psy11264 11 SPEKLDRIGDYLYETAS 27 (50)
Q Consensus 11 ~PeKLDRIG~YL~~rl~ 27 (50)
=|+||..+|.-+-+-+.
T Consensus 20 Gp~KLP~l~r~lG~~i~ 36 (51)
T PRK01470 20 GAGKLPQVMSDLAKGLK 36 (51)
T ss_pred CchHhHHHHHHHHHHHH
Confidence 38999999999887554
No 45
>TIGR00754 bfr bacterioferritin. Bacterioferritin is a homomultimer most species. In Neisseria gonorrhoeae, Synechocystis PCC6803, Magnetospirillum magnetotacticum, and Pseudomonas aeruginosa, two types of subunit are found in a heteromultimeric complex, with each species having one member of each type. At present, both types of subunit are including in this single model.
Probab=25.62 E-value=48 Score=20.35 Aligned_cols=15 Identities=40% Similarity=0.793 Sum_probs=12.0
Q ss_pred chHHHHH--HHHHHHHh
Q psy11264 13 EKLDRIG--DYLYETAS 27 (50)
Q Consensus 13 eKLDRIG--~YL~~rl~ 27 (50)
+.++|+| .||++.++
T Consensus 139 ~~~~~~g~~~y~~~~~~ 155 (157)
T TIGR00754 139 ELIDKLGLENYLQAQVS 155 (157)
T ss_pred HHHHHhHHHHHHHHhcC
Confidence 4678899 79998876
No 46
>COG0276 HemH Protoheme ferro-lyase (ferrochelatase) [Coenzyme metabolism]
Probab=25.50 E-value=81 Score=23.19 Aligned_cols=30 Identities=17% Similarity=0.403 Sum_probs=21.4
Q ss_pred HHHHHHHhHHhhhh-ccCceeEEeeeecccC
Q psy11264 20 DYLYETASRDISRK-RTQCSSTISTHQIPRK 49 (50)
Q Consensus 20 ~YL~~rl~RDl~R~-R~~~v~iis~~~i~~~ 49 (50)
+++++..+..+... |.+.+.+.|.|-||.+
T Consensus 167 ~a~a~~I~~~~~~~~~~~~~llfSaHglP~~ 197 (320)
T COG0276 167 EALADSIREKLAKHPRDDDVLLFSAHGLPKR 197 (320)
T ss_pred HHHHHHHHHHHHhcCCCCeEEEEecCCCchh
Confidence 34555555555554 6788999999999964
No 47
>PF08388 GIIM: Group II intron, maturase-specific domain; InterPro: IPR013597 This region is found mainly in various bacterial and archaeal species, but a few members of this family are expressed by fungal and chlamydomonal species. It has been implicated in the binding of intron RNA during reverse transcription and splicing [].
Probab=25.38 E-value=68 Score=17.27 Aligned_cols=28 Identities=18% Similarity=0.604 Sum_probs=22.1
Q ss_pred eecccCCch-HHHHHHHHHHHHhHHhhhh
Q psy11264 6 FYALSSPEK-LDRIGDYLYETASRDISRK 33 (50)
Q Consensus 6 fYals~PeK-LDRIG~YL~~rl~RDl~R~ 33 (50)
||..+.+.+ +..|..++.++|.+=+.|+
T Consensus 38 Yy~~~~~~~~f~~ld~~v~~~l~~w~~rr 66 (80)
T PF08388_consen 38 YYRIGNSSKTFSKLDHYVWRRLRRWLRRR 66 (80)
T ss_pred hhcchhHHHHHHHHHHHHHHHHHHHHHHh
Confidence 677776666 7888899999998887764
No 48
>COG1131 CcmA ABC-type multidrug transport system, ATPase component [Defense mechanisms]
Probab=25.35 E-value=1e+02 Score=21.19 Aligned_cols=31 Identities=19% Similarity=0.188 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHhHHhhhhccCceeEEeeeec
Q psy11264 15 LDRIGDYLYETASRDISRKRTQCSSTISTHQI 46 (50)
Q Consensus 15 LDRIG~YL~~rl~RDl~R~R~~~v~iis~~~i 46 (50)
||-.+......+-+++.+ +.|-..+||+|.+
T Consensus 167 LDp~~~~~~~~~l~~l~~-~g~~tvlissH~l 197 (293)
T COG1131 167 LDPESRREIWELLRELAK-EGGVTILLSTHIL 197 (293)
T ss_pred CCHHHHHHHHHHHHHHHh-CCCcEEEEeCCcH
Confidence 677777777777788776 3336889999975
No 49
>TIGR01411 tatAE twin arginine-targeting protein translocase, TatA/E family. This model distinguishes TatA/E from the related TatB, but does not distinguish TatA from TatE. The Tat (twin-arginine translocation) system is a Sec-independent exporter for folded proteins, often with a redox cofactor already bound, across the bacterial inner membrane. Functionally equivalent systems are found in the chloroplast and some in archaeal species. The signal peptide recognized by the Tat system is modeled by TIGR01409.
Probab=25.33 E-value=83 Score=16.97 Aligned_cols=16 Identities=25% Similarity=0.337 Sum_probs=12.8
Q ss_pred CCchHHHHHHHHHHHH
Q psy11264 11 SPEKLDRIGDYLYETA 26 (50)
Q Consensus 11 ~PeKLDRIG~YL~~rl 26 (50)
=|+||..+|+-|-+=+
T Consensus 19 Gp~kLP~~~r~lG~~i 34 (47)
T TIGR01411 19 GAKKLPELGRDLGKAI 34 (47)
T ss_pred CchHhHHHHHHHHHHH
Confidence 4899999998887644
No 50
>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=25.07 E-value=49 Score=20.96 Aligned_cols=19 Identities=16% Similarity=0.293 Sum_probs=16.5
Q ss_pred cccCCchHHHHHHHHHHHH
Q psy11264 8 ALSSPEKLDRIGDYLYETA 26 (50)
Q Consensus 8 als~PeKLDRIG~YL~~rl 26 (50)
++.+++..+++|+.|++.|
T Consensus 1 ~~~s~~~t~~l~~~l~~~l 19 (133)
T TIGR00150 1 ANPDEKAMDKFGKAFAKPL 19 (133)
T ss_pred CCCCHHHHHHHHHHHHHhC
Confidence 5788999999999998876
No 51
>PF05013 FGase: N-formylglutamate amidohydrolase; InterPro: IPR007709 Formylglutamate amidohydrolase (FGase) catalyzes the terminal reaction in the five-step pathway for histidine utilization in Pseudomonas putida. By this action, N-formyl-L-glutamate (FG) is hydrolyzed to produce L-glutamate plus formate [].; PDB: 2ODF_G 2Q7S_A.
Probab=24.85 E-value=66 Score=21.03 Aligned_cols=39 Identities=23% Similarity=0.313 Sum_probs=23.0
Q ss_pred cCCchHHHHHHH---HHHHHhHHhh--hhccCceeEEeeeeccc
Q psy11264 10 SSPEKLDRIGDY---LYETASRDIS--RKRTQCSSTISTHQIPR 48 (50)
Q Consensus 10 s~PeKLDRIG~Y---L~~rl~RDl~--R~R~~~v~iis~~~i~~ 48 (50)
+..|.-.||..| -.+.|..-|. +.++|.|.+|+.|..|.
T Consensus 100 ~~~e~~~ri~~~y~Pyh~~l~~~l~~~~~~~g~~illd~HS~~~ 143 (222)
T PF05013_consen 100 SAAERERRIERYYRPYHRALAALLERLRARFGKVILLDCHSMPP 143 (222)
T ss_dssp EHHHHHHHHHHTHHHHHHHHHHHHHHHHHCCS-EEEEEEEEE-T
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCceEEEEeccCCC
Confidence 444555566655 2344444443 34699999999999875
No 52
>PF08738 Gon7: Gon7 family; InterPro: IPR014849 In Saccharomyces cerevisiae Gon7 is a member of the KEOPS protein complex. A protein complex proposed to be involved in transcription and promoting telomere uncapping and telomere elongation [].
Probab=24.78 E-value=72 Score=20.09 Aligned_cols=19 Identities=32% Similarity=0.532 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHhHHhhhhc
Q psy11264 16 DRIGDYLYETASRDISRKR 34 (50)
Q Consensus 16 DRIG~YL~~rl~RDl~R~R 34 (50)
|+|-++|.+||.-|=.|..
T Consensus 68 ddIN~fLTeRMe~dK~~~~ 86 (103)
T PF08738_consen 68 DDINEFLTERMEEDKARDA 86 (103)
T ss_pred HHHHHHHHHHHHHHHhhhh
Confidence 7899999999998866543
No 53
>PRK14839 undecaprenyl pyrophosphate synthase; Provisional
Probab=24.58 E-value=1e+02 Score=21.79 Aligned_cols=38 Identities=21% Similarity=0.243 Sum_probs=25.0
Q ss_pred cceeeecccC------CchHHHHHHHHHHHHhHHhhhhccCcee
Q psy11264 2 DKLTFYALSS------PEKLDRIGDYLYETASRDISRKRTQCSS 39 (50)
Q Consensus 2 ~KLtfYals~------PeKLDRIG~YL~~rl~RDl~R~R~~~v~ 39 (50)
+-||+||.|. ||-++-+=+-+...+.+.+..-....|+
T Consensus 55 ~~lTvYaFS~EN~~R~~~EV~~Lm~L~~~~l~~~~~~~~~~~ir 98 (239)
T PRK14839 55 GTLTLYAFSSDNWRRPAAEVGGLMRLLRAYLRNETERLARNGVR 98 (239)
T ss_pred CEEEEEEechhhcCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCE
Confidence 3489999984 7788877777777776655443223344
No 54
>PF13314 DUF4083: Domain of unknown function (DUF4083)
Probab=24.55 E-value=46 Score=19.59 Aligned_cols=11 Identities=55% Similarity=0.727 Sum_probs=8.9
Q ss_pred CchHHHHHHHH
Q psy11264 12 PEKLDRIGDYL 22 (50)
Q Consensus 12 PeKLDRIG~YL 22 (50)
.+|||||=+-|
T Consensus 45 eqKLDrIIeLL 55 (58)
T PF13314_consen 45 EQKLDRIIELL 55 (58)
T ss_pred HHHHHHHHHHH
Confidence 47999998765
No 55
>PF08518 GIT_SHD: Spa2 homology domain (SHD) of GIT; InterPro: IPR013724 GIT proteins are signalling integrators with GTPase-activating function which may be involved in the organisation of the cytoskeletal matrix assembled at active zones (CAZ). The function of the CAZ might be to define sites of neurotransmitter release. Mutations in the Spa2 homology domain (SHD) domain of GIT1 described here interfere with the association of GIT1 with Piccolo, beta-PIX, and focal adhesion kinase [].
Probab=24.49 E-value=56 Score=16.86 Aligned_cols=19 Identities=26% Similarity=0.510 Sum_probs=16.6
Q ss_pred chHHHHHHHHHHHHhHHhh
Q psy11264 13 EKLDRIGDYLYETASRDIS 31 (50)
Q Consensus 13 eKLDRIG~YL~~rl~RDl~ 31 (50)
+||-++......-|+-||+
T Consensus 3 qKL~~Ls~~~F~eL~~DV~ 21 (31)
T PF08518_consen 3 QKLARLSNQRFEELATDVY 21 (31)
T ss_pred HHHHhCCHHHHHHHHHHHH
Confidence 6888888888999999986
No 56
>PF09604 Potass_KdpF: F subunit of K+-transporting ATPase (Potass_KdpF); InterPro: IPR011726 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. P-ATPases (sometime known as E1-E2 ATPases) (3.6.3.- from EC) are found in bacteria and in a number of eukaryotic plasma membranes and organelles []. P-ATPases function to transport a variety of different compounds, including ions and phospholipids, across a membrane using ATP hydrolysis for energy. There are many different classes of P-ATPases, each of which transports a specific type of ion: H+, Na+, K+, Mg2+, Ca2+, Ag+ and Ag2+, Zn2+, Co2+, Pb2+, Ni2+, Cd2+, Cu+ and Cu2+. P-ATPases can be composed of one or two polypeptides, and can usually assume two main conformations called E1 and E2. This entry represents the F subunit (KdpF) of a P-type K+-translocating ATPase (Kdp). KdpF is a very small integral membrane peptide. The kdpABC operon of Escherichia coli codes for the high affinity K+-translocating Kdp complex []. KdpF is found upstream of the KdpA subunit (IPR004623 from INTERPRO). Because of its very small size and highly hydrophobic character, it is sometimes missed in genome annotation. More information about this protein can be found at Protein of the Month: ATP Synthases [].
Probab=24.49 E-value=17 Score=17.98 Aligned_cols=9 Identities=67% Similarity=1.213 Sum_probs=8.0
Q ss_pred eecccCCch
Q psy11264 6 FYALSSPEK 14 (50)
Q Consensus 6 fYals~PeK 14 (50)
+||+=.|||
T Consensus 16 ~~aLl~PEr 24 (25)
T PF09604_consen 16 FYALLRPER 24 (25)
T ss_pred HHHHhCccc
Confidence 689999998
No 57
>PF15296 Codanin-1_C: Codanin-1 C-terminus
Probab=24.16 E-value=1e+02 Score=19.71 Aligned_cols=24 Identities=21% Similarity=0.419 Sum_probs=21.1
Q ss_pred cCCchHHHHHHHHHHHHhHHhhhh
Q psy11264 10 SSPEKLDRIGDYLYETASRDISRK 33 (50)
Q Consensus 10 s~PeKLDRIG~YL~~rl~RDl~R~ 33 (50)
++|.+|-|.-|+.++|......++
T Consensus 78 ~Qp~SlRRtVeFV~ERv~sn~VK~ 101 (121)
T PF15296_consen 78 SQPASLRRTVEFVSERVASNCVKH 101 (121)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHH
Confidence 789999999999999998877654
No 58
>cd03411 Ferrochelatase_N Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is ubiquitous in nature and widely distributed in bacteria and eukaryotes. Recently, some archaeal members have been identified. The oligomeric state of these enzymes varies depending on the presence of a dimerization motif at the C-terminus.
Probab=24.13 E-value=65 Score=20.10 Aligned_cols=20 Identities=30% Similarity=0.506 Sum_probs=16.6
Q ss_pred cccCCchHHHHHHHHHHHHh
Q psy11264 8 ALSSPEKLDRIGDYLYETAS 27 (50)
Q Consensus 8 als~PeKLDRIG~YL~~rl~ 27 (50)
++=.||+++.+..||.+.++
T Consensus 7 n~G~P~~~~~v~~yL~~~~~ 26 (159)
T cd03411 7 NLGGPESLEDVRPFLKNFLS 26 (159)
T ss_pred eCCCCCCHHHHHHHHHHHcC
Confidence 45689999999999988654
No 59
>PRK14838 undecaprenyl pyrophosphate synthase; Provisional
Probab=23.96 E-value=1.7e+02 Score=20.54 Aligned_cols=40 Identities=18% Similarity=0.248 Sum_probs=27.4
Q ss_pred cceeeeccc------CCchHHHHHHHHHHHHhHHhhhhccCceeEE
Q psy11264 2 DKLTFYALS------SPEKLDRIGDYLYETASRDISRKRTQCSSTI 41 (50)
Q Consensus 2 ~KLtfYals------~PeKLDRIG~YL~~rl~RDl~R~R~~~v~ii 41 (50)
+-||+||.| .|+-++-+=+.+.+.+.+....++.-.|.+|
T Consensus 56 ~~lT~YaFS~EN~kR~~~Ev~~Lm~l~~~~l~~~~~~~~~irir~i 101 (242)
T PRK14838 56 KFLTLYTFSTENWNRPSDEVAALMSLLLDSIEEETFMKNNIRFRII 101 (242)
T ss_pred CEEEEEeechhhcCCCHHHHHHHHHHHHHHHHHHHHHHcCcEEEEE
Confidence 348999987 3677888888888888776554444445544
No 60
>cd01871 Rac1_like Rac1-like subfamily. The Rac1-like subfamily consists of Rac1, Rac2, and Rac3 proteins, plus the splice variant Rac1b that contains a 19-residue insertion near switch II relative to Rac1. While Rac1 is ubiquitously expressed, Rac2 and Rac3 are largely restricted to hematopoietic and neural tissues respectively. Rac1 stimulates the formation of actin lamellipodia and membrane ruffles. It also plays a role in cell-matrix adhesion and cell anoikis. In intestinal epithelial cells, Rac1 is an important regulator of migration and mediates apoptosis. Rac1 is also essential for RhoA-regulated actin stress fiber and focal adhesion complex formation. In leukocytes, Rac1 and Rac2 have distinct roles in regulating cell morphology, migration, and invasion, but are not essential for macrophage migration or chemotaxis. Rac3 has biochemical properties that are closely related to Rac1, such as effector interaction, nucleotide binding, and hydrolysis; Rac2 has a slower nucleoti
Probab=23.90 E-value=1.8e+02 Score=17.60 Aligned_cols=37 Identities=14% Similarity=0.244 Sum_probs=24.4
Q ss_pred eeecccCCchHHHHHHHHHHHHhHHhhhhccCceeEEeee
Q psy11264 5 TFYALSSPEKLDRIGDYLYETASRDISRKRTQCSSTISTH 44 (50)
Q Consensus 5 tfYals~PeKLDRIG~YL~~rl~RDl~R~R~~~v~iis~~ 44 (50)
.-|.+++|+.++.+.++..+.+.... ..-.+.++..|
T Consensus 78 lv~d~~~~~sf~~~~~~~~~~~~~~~---~~~piilvgnK 114 (174)
T cd01871 78 ICFSLVSPASFENVRAKWYPEVRHHC---PNTPIILVGTK 114 (174)
T ss_pred EEEECCCHHHHHHHHHHHHHHHHHhC---CCCCEEEEeeC
Confidence 45899999999999876666554421 23345555554
No 61
>cd02431 Ferritin_CCC1_C CCC1-related domain of ferritin. Ferritin_CCC1_like_C: The proteins of this family contain two domains. This is the C-terminal domain that is closely related to the CCC1, a vacuole transmembrane protein functioning as an iron and manganese transporter. The N-terminal domain is similar to ferritin-like diiron-carboxylate proteins, which are involved in a variety of iron ion related functions, such as iron storage and regulation, mono-oxygenation, and reactive radical production. This family may be unique to certain bacteria and archaea.
Probab=23.89 E-value=65 Score=20.79 Aligned_cols=16 Identities=25% Similarity=0.524 Sum_probs=14.1
Q ss_pred HHHHHHHHHhHHhhhh
Q psy11264 18 IGDYLYETASRDISRK 33 (50)
Q Consensus 18 IG~YL~~rl~RDl~R~ 33 (50)
+|+|+..|-.||..+.
T Consensus 49 ~G~YlS~kse~d~~~~ 64 (149)
T cd02431 49 IGAYLSTKSESGVKES 64 (149)
T ss_pred HHHHHHHhhHHhHHhc
Confidence 6899999999998764
No 62
>cd01875 RhoG RhoG subfamily. RhoG is a GTPase with high sequence similarity to members of the Rac subfamily, including the regions involved in effector recognition and binding. However, RhoG does not bind to known Rac1 and Cdc42 effectors, including proteins containing a Cdc42/Rac interacting binding (CRIB) motif. Instead, RhoG interacts directly with Elmo, an upstream regulator of Rac1, in a GTP-dependent manner and forms a ternary complex with Dock180 to induce activation of Rac1. The RhoG-Elmo-Dock180 pathway is required for activation of Rac1 and cell spreading mediated by integrin, as well as for neurite outgrowth induced by nerve growth factor. Thus RhoG activates Rac1 through Elmo and Dock180 to control cell morphology. RhoG has also been shown to play a role in caveolar trafficking and has a novel role in signaling the neutrophil respiratory burst stimulated by G protein-coupled receptor (GPCR) agonists. Most Rho proteins contain a lipid modification site at the C-termin
Probab=23.88 E-value=1.8e+02 Score=17.80 Aligned_cols=25 Identities=8% Similarity=0.299 Sum_probs=18.3
Q ss_pred eeeecccCCchHHHHHHHHHHHHhH
Q psy11264 4 LTFYALSSPEKLDRIGDYLYETASR 28 (50)
Q Consensus 4 LtfYals~PeKLDRIG~YL~~rl~R 28 (50)
+..|.+++|+.++.+-.+..+.+.+
T Consensus 79 ilvydit~~~Sf~~~~~~w~~~i~~ 103 (191)
T cd01875 79 IICFSIASPSSYENVRHKWHPEVCH 103 (191)
T ss_pred EEEEECCCHHHHHHHHHHHHHHHHh
Confidence 3568999999999997655554443
No 63
>PF08544 GHMP_kinases_C: GHMP kinases C terminal ; InterPro: IPR013750 This domain is found in homoserine kinases (2.7.1.39 from EC), galactokinases (2.7.1.6 from EC) and mevalonate kinases (2.7.1.36 from EC). These kinases make up the GHMP kinase superfamily of ATP-dependent enzymes []. These enzymes are involved in the biosynthesis of isoprenes and amino acids as well as in carbohydrate metabolism. The C-terminal domain of homoserine kinase has a central alpha-beta plait fold and an insertion of four helices, which, together with the N-terminal fold, create a novel nucleotide binding fold [].; PDB: 2R3V_C 4EMD_A 4DXL_A 4ED4_A 2GS8_A 1K47_E 3GON_A 3K17_B 1PIE_A 2AJ4_A ....
Probab=23.64 E-value=70 Score=16.86 Aligned_cols=21 Identities=29% Similarity=0.528 Sum_probs=16.4
Q ss_pred eeeccc-CCchHHHHHHHHHHH
Q psy11264 5 TFYALS-SPEKLDRIGDYLYET 25 (50)
Q Consensus 5 tfYals-~PeKLDRIG~YL~~r 25 (50)
+.|++. .++..++|-+.|.+.
T Consensus 61 ~v~~l~~~~~~~~~v~~~l~~~ 82 (85)
T PF08544_consen 61 TVFALCKDEDDAERVAEALREH 82 (85)
T ss_dssp EEEEEESSHHHHHHHHHHHHHH
T ss_pred eEEEEECCHHHHHHHHHHHHHh
Confidence 567888 888889988887654
No 64
>PF02269 TFIID-18kDa: Transcription initiation factor IID, 18kD subunit; InterPro: IPR003195 This family includes the Spt3 yeast transcription factors and the 18 kDa subunit from human transcription initiation factor IID (TFIID-18). Determination of the crystal structure reveals an atypical histone fold [].; GO: 0006366 transcription from RNA polymerase II promoter; PDB: 1BH9_A 1BH8_A.
Probab=23.57 E-value=27 Score=20.88 Aligned_cols=26 Identities=27% Similarity=0.386 Sum_probs=0.0
Q ss_pred ceeeecccCCchHHHHHHHHHHHHhH
Q psy11264 3 KLTFYALSSPEKLDRIGDYLYETASR 28 (50)
Q Consensus 3 KLtfYals~PeKLDRIG~YL~~rl~R 28 (50)
-|.|--=.+|-||.|+-+||..+-.+
T Consensus 59 Dl~F~lR~D~~Kl~Rl~~~L~~k~~~ 84 (93)
T PF02269_consen 59 DLLFLLRKDPKKLARLRELLSMKDEI 84 (93)
T ss_dssp --------------------------
T ss_pred HHHHHHhcCHHHHHHHHHHHHHHHHH
Confidence 35566667899999999999876433
No 65
>cd07368 PhnC_Bs_like PhnC is a Class III Extradiol ring-cleavage dioxygenase involved in the polycyclic aromatic hydrocarbon (PAH) catabolic pathway. This subfamily is composed of Burkholderia sp. PhnC and similar poteins. PhnC is one of nine protein products encoded by the phn locus. These proteins are involved in the polycyclic aromatic hydrocarbon (PAH) catabolic pathway. PhnC is a member of the class III extradiol dioxygenase family, a group os enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. LigAB-like enzymes are usually composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. This model represents the catalytic subunit, B.
Probab=23.53 E-value=2.4e+02 Score=19.47 Aligned_cols=42 Identities=12% Similarity=0.203 Sum_probs=27.6
Q ss_pred Ccceee-ecccC-C------c--hHHHHHHHH--HHHHhHHhhhhccCceeEEe
Q psy11264 1 MDKLTF-YALSS-P------E--KLDRIGDYL--YETASRDISRKRTQCSSTIS 42 (50)
Q Consensus 1 M~KLtf-Yals~-P------e--KLDRIG~YL--~~rl~RDl~R~R~~~v~iis 42 (50)
|-|+.. |++|| | | +-+...... .+++.+.+...+..-+.|||
T Consensus 1 M~~iv~a~~~sH~P~i~~~~~~~~~~~~~~~~~a~~~~~~~v~~~~pD~ivvi~ 54 (277)
T cd07368 1 MGKIVGGFMMPHDPVMFVTPTAPPAAQREICWHAYAICAERLAALQVTSVVVIG 54 (277)
T ss_pred CcceeEEeecCCCccccCCCCCChHHHHHHHHHHHHHHHHHHHHcCCCEEEEEc
Confidence 667777 78888 2 2 113333333 46788889888888788887
No 66
>PRK10646 ADP-binding protein; Provisional
Probab=23.23 E-value=77 Score=20.68 Aligned_cols=26 Identities=12% Similarity=0.143 Sum_probs=21.0
Q ss_pred CcceeeecccCCchHHHHHHHHHHHHh
Q psy11264 1 MDKLTFYALSSPEKLDRIGDYLYETAS 27 (50)
Q Consensus 1 M~KLtfYals~PeKLDRIG~YL~~rl~ 27 (50)
|+..+| .++++|...++|+.|++.|.
T Consensus 1 m~~~~~-~~~s~~~t~~l~~~la~~l~ 26 (153)
T PRK10646 1 MMNRVI-PLPDEQATLDLGARVAKACD 26 (153)
T ss_pred CCceEE-ECCCHHHHHHHHHHHHHhCC
Confidence 666665 47899999999999988763
No 67
>PRK14831 undecaprenyl pyrophosphate synthase; Provisional
Probab=23.18 E-value=1.3e+02 Score=21.07 Aligned_cols=29 Identities=24% Similarity=0.344 Sum_probs=18.1
Q ss_pred cceeeeccc------CCchHHHHHHHHHHHHhHHh
Q psy11264 2 DKLTFYALS------SPEKLDRIGDYLYETASRDI 30 (50)
Q Consensus 2 ~KLtfYals------~PeKLDRIG~YL~~rl~RDl 30 (50)
+=||+||.| .++-++-+=+-+.+.+.+.+
T Consensus 66 ~~vT~yaFS~eN~kR~~~Ev~~Lm~L~~~~l~~~~ 100 (249)
T PRK14831 66 GALTAYAFSTENWSRPLEEVNFLMTLFERVLRREL 100 (249)
T ss_pred CEEEEeecchhhhCcCHHHHHHHHHHHHHHHHHHH
Confidence 348999999 45566665555555554433
No 68
>PF00438 S-AdoMet_synt_N: S-adenosylmethionine synthetase, N-terminal domain; InterPro: IPR022628 The three domains of S-adenosylmethionine synthetase have the same alpha+beta fold. This entry represents the N-terminal domain of S-adenosylmethionine synthetase and is found in association with PF02772 from PFAM and PF02773 from PFAM. S-adenosylmethionine synthetase (MAT, 2.5.1.6 from EC) is the enzyme that catalyzes the formation of S-adenosylmethionine (AdoMet) from methionine and ATP []. AdoMet is an important methyl donor for transmethylation and is also the propylamino donor in polyamine biosynthesis. In bacteria there is a single isoform of AdoMet synthetase (gene metK), there are two in budding yeast (genes SAM1 and SAM2) and in mammals while in plants there is generally a multigene family. The sequence of AdoMet synthetase is highly conserved throughout isozymes and species. The active sites of both the Escherichia coli and rat liver MAT reside between two subunits, with contributions from side chains of residues from both subunits, resulting in a dimer as the minimal catalytic entity. The side chains that contribute to the ligand binding sites are conserved between the two proteins. In the structures of complexes with the E. coli enzyme, the phosphate groups have the same positions in the (PPi plus Pi) complex and the (ADP plus Pi) complex, and are located at the bottom of a deep cavity with the adenosyl group nearer the entrance []; GO: 0004478 methionine adenosyltransferase activity; PDB: 3RV2_A 3TDE_B 3S82_B 3IML_B 2P02_A 2OBV_A 1QM4_B 1O9T_B 1O93_A 1O92_B ....
Probab=22.96 E-value=89 Score=19.48 Aligned_cols=20 Identities=30% Similarity=0.662 Sum_probs=12.5
Q ss_pred cCCchH-HHHHHHHHH-HHhHH
Q psy11264 10 SSPEKL-DRIGDYLYE-TASRD 29 (50)
Q Consensus 10 s~PeKL-DRIG~YL~~-rl~RD 29 (50)
=||+|+ |+|..-+.. =|..|
T Consensus 13 GHPDKicDqISDailD~~l~~d 34 (100)
T PF00438_consen 13 GHPDKICDQISDAILDACLKQD 34 (100)
T ss_dssp TSHHHHHHHHHHHHHHHHHHH-
T ss_pred CCchhhhceeeeccchHHHhcC
Confidence 489997 788877544 33444
No 69
>PF02416 MttA_Hcf106: mttA/Hcf106 family; InterPro: IPR003369 Members of this protein family are involved in a sec-independent translocation mechanism. This pathway has been called the DeltapH pathway in chloroplasts []. Members of this family in Escherichia coli are involved in export of redox proteins with a "twin arginine" leader motif (S/T-R-R-X-F-L-K) []. This sec-independent pathway is termed TAT for twin-arginine translocation system. This system mainly transports proteins with bound cofactors that require folding prior to export.; GO: 0008565 protein transporter activity, 0015031 protein transport; PDB: 2L16_A.
Probab=22.81 E-value=1.1e+02 Score=16.70 Aligned_cols=16 Identities=25% Similarity=0.380 Sum_probs=12.0
Q ss_pred CCchHHHHHHHHHHHH
Q psy11264 11 SPEKLDRIGDYLYETA 26 (50)
Q Consensus 11 ~PeKLDRIG~YL~~rl 26 (50)
=|+||..+|.-|.+=+
T Consensus 18 Gp~kLP~~~r~lG~~i 33 (53)
T PF02416_consen 18 GPKKLPELARSLGKAI 33 (53)
T ss_dssp -TTTHHHHHHHHHHHH
T ss_pred CchHHHHHHHHHHHHH
Confidence 4899999998886543
No 70
>KOG3142|consensus
Probab=22.76 E-value=25 Score=24.20 Aligned_cols=33 Identities=21% Similarity=0.231 Sum_probs=26.2
Q ss_pred eecccCCchHHHHHHHHHHHHhHHhhhhccCceeEEe
Q psy11264 6 FYALSSPEKLDRIGDYLYETASRDISRKRTQCSSTIS 42 (50)
Q Consensus 6 fYals~PeKLDRIG~YL~~rl~RDl~R~R~~~v~iis 42 (50)
+=++|.|+.+.+. ..|+.+.+++=|-+|+.|++
T Consensus 46 ~~~fs~P~s~s~a----~sRi~~Nl~yF~~NY~~iv~ 78 (187)
T KOG3142|consen 46 RSAFSRPRSLSDA----TSRIKRNLSYFRVNYVIIVA 78 (187)
T ss_pred ccccCCCccHHHH----HHHHHHHHHHHHHhHHHHHH
Confidence 3468899999874 57888889988998887765
No 71
>PRK09636 RNA polymerase sigma factor SigJ; Provisional
Probab=22.38 E-value=24 Score=23.59 Aligned_cols=15 Identities=27% Similarity=0.687 Sum_probs=12.4
Q ss_pred eeecccCCchHHHHH
Q psy11264 5 TFYALSSPEKLDRIG 19 (50)
Q Consensus 5 tfYals~PeKLDRIG 19 (50)
.+|.+-.|+||.+++
T Consensus 276 ~i~~~~~p~kl~~~~ 290 (293)
T PRK09636 276 AIYDVRNPDKLTHLP 290 (293)
T ss_pred EEEEEcCHHHhcCCC
Confidence 478899999998764
No 72
>PF05798 Phage_FRD3: Bacteriophage FRD3 protein; InterPro: IPR008765 This is a group of proteins of unknown function from bacteriophage T2 and related phage.
Probab=22.13 E-value=85 Score=19.42 Aligned_cols=19 Identities=21% Similarity=0.165 Sum_probs=15.8
Q ss_pred HhhhhccCceeEEeeeecc
Q psy11264 29 DISRKRTQCSSTISTHQIP 47 (50)
Q Consensus 29 Dl~R~R~~~v~iis~~~i~ 47 (50)
.+-|+||+-+.|+|++.-|
T Consensus 16 EvIRNRyPelsi~si~d~~ 34 (75)
T PF05798_consen 16 EVIRNRYPELSITSIQDSK 34 (75)
T ss_pred HHHHccCCceEEEEeecCC
Confidence 4678999999999998644
No 73
>PRK14833 undecaprenyl pyrophosphate synthase; Provisional
Probab=21.79 E-value=1.4e+02 Score=20.80 Aligned_cols=31 Identities=26% Similarity=0.327 Sum_probs=21.4
Q ss_pred cceeeecccC------CchHHHHHHHHHHHHhHHhhh
Q psy11264 2 DKLTFYALSS------PEKLDRIGDYLYETASRDISR 32 (50)
Q Consensus 2 ~KLtfYals~------PeKLDRIG~YL~~rl~RDl~R 32 (50)
+-||+||.|. |+-++-+=+-+.+.+.+.+..
T Consensus 50 ~~lTvyaFS~eN~~R~~~Ev~~Lm~L~~~~l~~~~~~ 86 (233)
T PRK14833 50 ECLTLYAFSTENWKRPKSEVDFLMKLLKKYLKDERST 86 (233)
T ss_pred CEEEEeecchhhcCcCHHHHHHHHHHHHHHHHHHHHH
Confidence 3489999984 777787777677766654333
No 74
>PRK14841 undecaprenyl pyrophosphate synthase; Provisional
Probab=21.55 E-value=1.2e+02 Score=20.99 Aligned_cols=31 Identities=19% Similarity=0.363 Sum_probs=21.8
Q ss_pred cceeeecccC------CchHHHHHHHHHHHHhHHhhh
Q psy11264 2 DKLTFYALSS------PEKLDRIGDYLYETASRDISR 32 (50)
Q Consensus 2 ~KLtfYals~------PeKLDRIG~YL~~rl~RDl~R 32 (50)
+-||+||.|. |+-++-+=+-+.+.+.+.+..
T Consensus 49 k~lTvYaFS~eN~~R~~~Ev~~Lm~L~~~~l~~~~~~ 85 (233)
T PRK14841 49 KYLTAFSFSTENWKRPKEEVEFLMDLFVQMIDREMEL 85 (233)
T ss_pred CEEEEEeeeHhhcCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 3589999984 677777777777777665443
No 75
>COG3961 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]
Probab=21.42 E-value=63 Score=26.02 Aligned_cols=12 Identities=33% Similarity=0.971 Sum_probs=10.5
Q ss_pred HHHHHHHHHHhH
Q psy11264 17 RIGDYLYETASR 28 (50)
Q Consensus 17 RIG~YL~~rl~R 28 (50)
.||+||.+||.+
T Consensus 5 tvG~YL~~RL~q 16 (557)
T COG3961 5 TVGDYLFDRLAQ 16 (557)
T ss_pred eHHHHHHHHHHh
Confidence 589999999975
No 76
>PRK13364 protocatechuate 4,5-dioxygenase subunit beta; Provisional
Probab=21.23 E-value=79 Score=22.21 Aligned_cols=44 Identities=11% Similarity=0.046 Sum_probs=29.3
Q ss_pred Ccceee-ecccC-CchH-------------HHHHHHHHHHHhHHhhhhccCceeEEe-eee
Q psy11264 1 MDKLTF-YALSS-PEKL-------------DRIGDYLYETASRDISRKRTQCSSTIS-THQ 45 (50)
Q Consensus 1 M~KLtf-Yals~-PeKL-------------DRIG~YL~~rl~RDl~R~R~~~v~iis-~~~ 45 (50)
|-++.. |++|| |+-- +++- --.+++.+.+...+-.-+.||| -|.
T Consensus 1 M~~iv~~~~~sH~P~vg~~~~~~~~~~~~~~~v~-~a~~~~~~~v~~~~PDvvVvis~dH~ 60 (278)
T PRK13364 1 MAKIIGGITTSHVPAIGGAIAKGLQQDPYWKPFF-DGFPPVREWLEKVKPDVAVVFYNDHG 60 (278)
T ss_pred ChhhhceeecCCCCccccccccccccChhHHHHH-HHHHHHHHHHHHhCCCEEEEECCchH
Confidence 555554 77888 6432 2222 2357889999999988888888 553
No 77
>PRK13810 orotate phosphoribosyltransferase; Provisional
Probab=21.22 E-value=81 Score=20.78 Aligned_cols=35 Identities=11% Similarity=0.144 Sum_probs=27.1
Q ss_pred ccCCchHHHHHHHHHHHHhHHhhhhccCceeEEeeeecc
Q psy11264 9 LSSPEKLDRIGDYLYETASRDISRKRTQCSSTISTHQIP 47 (50)
Q Consensus 9 ls~PeKLDRIG~YL~~rl~RDl~R~R~~~v~iis~~~i~ 47 (50)
+++|+=+..||+-|++++.. .....|.-+....||
T Consensus 52 ~~~p~~~~~i~~~la~~~~~----~~~d~I~g~~~~Gip 86 (187)
T PRK13810 52 STDPKTLKLIARQAALRIKE----MDVDTVAGVELGGVP 86 (187)
T ss_pred cCCHHHHHHHHHHHHHHhcc----CCCCEEEEEccchHH
Confidence 68999999999999998863 245667777777666
No 78
>PF12682 Flavodoxin_4: Flavodoxin; PDB: 3EDO_B 3KLB_A.
Probab=21.06 E-value=37 Score=21.46 Aligned_cols=28 Identities=14% Similarity=0.343 Sum_probs=19.6
Q ss_pred eeecccCCchHHHHHHHHHHHHhHHhhhhc
Q psy11264 5 TFYALSSPEKLDRIGDYLYETASRDISRKR 34 (50)
Q Consensus 5 tfYals~PeKLDRIG~YL~~rl~RDl~R~R 34 (50)
.||+.+ ..-.+|++.|++.+.-|+.+-+
T Consensus 5 vYyS~t--GnT~~vA~~Ia~~~gadi~eI~ 32 (156)
T PF12682_consen 5 VYYSRT--GNTKKVAEKIAEKTGADIFEIE 32 (156)
T ss_dssp EE--SS--SHHHHHHHHHHHCCT-EEEE-B
T ss_pred EEECCC--chHHHHHHHHHHHHCCCEEEEE
Confidence 577666 8889999999999888877643
No 79
>PLN02293 adenine phosphoribosyltransferase
Probab=20.88 E-value=88 Score=20.56 Aligned_cols=20 Identities=20% Similarity=0.238 Sum_probs=17.7
Q ss_pred ccCCchHHHHHHHHHHHHhH
Q psy11264 9 LSSPEKLDRIGDYLYETASR 28 (50)
Q Consensus 9 ls~PeKLDRIG~YL~~rl~R 28 (50)
+++||-++.+++.|++++..
T Consensus 41 ~~~p~~~~~~~~~l~~~~~~ 60 (187)
T PLN02293 41 LLDPKAFKDTIDLFVERYRD 60 (187)
T ss_pred hhCHHHHHHHHHHHHHHHhh
Confidence 57899999999999999954
No 80
>PF08573 SAE2: DNA repair protein endonuclease SAE2/CtIP C-terminus; InterPro: IPR013882 SAE2 is a protein involved in repairing meiotic and mitotic double-strand breaks in DNA. It has been shown to negatively regulate DNA damage checkpoint signalling [, ]. SAE2 is homologous to the CtIP proteins in mammals and an homologous protein in plants. Crucial sequence motifs that are highly conserved are the CxxC and the RHR motifs in this C-terminal part of the protein []. It is now known to be an endonuclease. In budding yeast, genetic evidence suggests that the SAE2 protein is essential for the processing of hairpin DNA intermediates and meiotic double-strand breaks by Mre11/Rad50 complexes. SAE2 binds DNA and exhibits endonuclease activity on single-stranded DNA independently of Mre11/Rad50 complexes, but hairpin DNA structures are cleaved cooperatively in the presence of Mre11/Rad50 or Mre11/Rad50/Xrs2. Hairpin structures are not processed at the tip by SAE2 but rather at single-stranded DNA regions adjacent to the hairpin. The catalytic activities of SAE2 are important for its biological functions [].
Probab=20.86 E-value=1e+02 Score=18.31 Aligned_cols=16 Identities=19% Similarity=0.275 Sum_probs=13.7
Q ss_pred HHHHhHHhhhhccCce
Q psy11264 23 YETASRDISRKRTQCS 38 (50)
Q Consensus 23 ~~rl~RDl~R~R~~~v 38 (50)
.+++...++|||+-+.
T Consensus 63 ~~~~~~~~sRHR~~~~ 78 (93)
T PF08573_consen 63 KKELANKFSRHRYRYA 78 (93)
T ss_pred HHHHHHHhccCCCCCC
Confidence 7788999999999773
No 81
>PF05525 Branch_AA_trans: Branched-chain amino acid transport protein; InterPro: IPR004685 Characterised members of the branched chain Amino Acid:Cation Symporter (LIVCS) family transport all three of the branched chain aliphatic amino acids (leucine (L), isoleucine (I) and valine (V)). They function by a Na+ or H+ symport mechanism and display 12 putative transmembrane helical spanners.; GO: 0015658 branched-chain aliphatic amino acid transmembrane transporter activity, 0015803 branched-chain aliphatic amino acid transport, 0016021 integral to membrane
Probab=20.84 E-value=34 Score=25.77 Aligned_cols=20 Identities=40% Similarity=0.718 Sum_probs=13.9
Q ss_pred eeecccCCch-HHHHHHHHHH
Q psy11264 5 TFYALSSPEK-LDRIGDYLYE 24 (50)
Q Consensus 5 tfYals~PeK-LDRIG~YL~~ 24 (50)
+||---+|.| +|+||++|.=
T Consensus 129 ~~~l~~~p~kivd~iGk~LTP 149 (427)
T PF05525_consen 129 TYLLSLNPSKIVDRIGKFLTP 149 (427)
T ss_pred HHHHHhchhhHHHHHHHHHHH
Confidence 3444456777 4999999863
No 82
>PHA03065 Hypothetical protein; Provisional
Probab=20.80 E-value=73 Score=24.98 Aligned_cols=44 Identities=25% Similarity=0.368 Sum_probs=32.7
Q ss_pred cceeee-cccCCchHHHHHHHHHHHH---------------------hHHhhhhccCceeEEeeee
Q psy11264 2 DKLTFY-ALSSPEKLDRIGDYLYETA---------------------SRDISRKRTQCSSTISTHQ 45 (50)
Q Consensus 2 ~KLtfY-als~PeKLDRIG~YL~~rl---------------------~RDl~R~R~~~v~iis~~~ 45 (50)
+||.|| -|+.+..|.++-+-.-.++ .|.++.+--.|-.+||+.|
T Consensus 132 ~Kl~F~~fLa~~~nlk~~l~~~L~~~~~~v~I~yCdgvDAEfvMC~~ak~~a~~~g~WPl~iStDQ 197 (438)
T PHA03065 132 DKLSFQLFLANSNNLKRLLESALARLGENVEIVYCDGVDAEFVMCARAKELAATTGEWPLLISTDQ 197 (438)
T ss_pred HHHHHHHHHcchhhHHHHHHHHHHhccCCceEEEECCcchhHHHHHHHHHHHhhcCCCceEEeccC
Confidence 688888 8888888888877655555 4566666667778888766
No 83
>cd07949 PCA_45_Doxase_B_like_1 The B subunit of unknown Class III extradiol dioxygenases with similarity to Protocatechuate 4,5-dioxygenase. This subfamily is composed of proteins of unknown function with similarity to the B subunit of Protocatechuate 4,5-dioxygenase (LigAB). LigAB belongs to the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Dioxygenases play key roles in the degradation of aromatic compounds. LigAB-like enzymes are usually composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. This model represents the catalytic subunit, B.
Probab=20.78 E-value=66 Score=22.39 Aligned_cols=23 Identities=4% Similarity=0.138 Sum_probs=18.9
Q ss_pred HHHHHhHHhhhhccCceeEEee-e
Q psy11264 22 LYETASRDISRKRTQCSSTIST-H 44 (50)
Q Consensus 22 L~~rl~RDl~R~R~~~v~iis~-~ 44 (50)
=.+++.+.+...+-.-|.|||. |
T Consensus 36 a~~~~~~~v~~~~PD~iVvis~dH 59 (276)
T cd07949 36 GFPPVHDWLEKAKPDVAVVFYNDH 59 (276)
T ss_pred HHHHHHHHHHHcCCCEEEEECCcH
Confidence 3578888998888898999995 7
No 84
>PF13524 Glyco_trans_1_2: Glycosyl transferases group 1
Probab=20.75 E-value=75 Score=17.08 Aligned_cols=20 Identities=35% Similarity=0.507 Sum_probs=13.3
Q ss_pred ecccCCchHHHHHHHHHHHH
Q psy11264 7 YALSSPEKLDRIGDYLYETA 26 (50)
Q Consensus 7 Yals~PeKLDRIG~YL~~rl 26 (50)
|.+++|+...+|++.-.++.
T Consensus 58 ~ll~~~~~~~~ia~~a~~~v 77 (92)
T PF13524_consen 58 YLLENPEERRRIAKNARERV 77 (92)
T ss_pred HHHCCHHHHHHHHHHHHHHH
Confidence 34568888888777665554
No 85
>TIGR03180 UraD_2 OHCU decarboxylase. Previously thought to only proceed spontaneously, the decarboxylation of 2-oxo-4-hydroxy-4-carboxy--5-ureidoimidazoline (OHCU) has been recently been shown to be catalyzed by this enzyme in Mus musculus. Homologs of this enzyme are found adjacent to and fused with uricase in a number of prokaryotes and are represented by this model. This model is a separate (but related) clade from that represented by TIGR3164. This model places a second homolog in streptomyces species which (are not in the vicinity of other urate catabolism associated genes) below the trusted cutoff.
Probab=20.52 E-value=70 Score=20.77 Aligned_cols=18 Identities=6% Similarity=-0.129 Sum_probs=15.2
Q ss_pred HHhhhhccCceeEEeeee
Q psy11264 28 RDISRKRTQCSSTISTHQ 45 (50)
Q Consensus 28 RDl~R~R~~~v~iis~~~ 45 (50)
..-|+.|+|++.||-++.
T Consensus 100 N~~Y~~kFGfpFii~v~g 117 (158)
T TIGR03180 100 NAAYEEKFGRIFLIRAAG 117 (158)
T ss_pred HHHHHHHCCCeEEEeeCC
Confidence 467999999999998863
No 86
>COG0347 GlnK Nitrogen regulatory protein PII [Amino acid transport and metabolism]
Probab=20.49 E-value=67 Score=20.66 Aligned_cols=17 Identities=35% Similarity=0.462 Sum_probs=14.0
Q ss_pred cccCCchHHHHHHHHHH
Q psy11264 8 ALSSPEKLDRIGDYLYE 24 (50)
Q Consensus 8 als~PeKLDRIG~YL~~ 24 (50)
|+-.|+|||.+=+-|.+
T Consensus 6 aIiRP~kl~~vkeaL~~ 22 (112)
T COG0347 6 AIIRPFKLDDVKEALEK 22 (112)
T ss_pred EEeCHHHhHHHHHHHHH
Confidence 67789999999887754
No 87
>PF06792 UPF0261: Uncharacterised protein family (UPF0261); InterPro: IPR008322 The proteins in this entry are functionally uncharacterised.
Probab=20.41 E-value=1.1e+02 Score=23.42 Aligned_cols=27 Identities=19% Similarity=0.452 Sum_probs=21.2
Q ss_pred cCCchHHHHHHHHHHHHhHHhhhhccCceeEE
Q psy11264 10 SSPEKLDRIGDYLYETASRDISRKRTQCSSTI 41 (50)
Q Consensus 10 s~PeKLDRIG~YL~~rl~RDl~R~R~~~v~ii 41 (50)
.+||-.-+||+.|++||.+ -.|.|.++
T Consensus 312 tt~eE~~~~g~~ia~kLn~-----~~gpv~v~ 338 (403)
T PF06792_consen 312 TTPEENRQLGEFIAEKLNR-----AKGPVRVL 338 (403)
T ss_pred CCHHHHHHHHHHHHHHHhc-----CCCCEEEE
Confidence 3688899999999999987 44556654
No 88
>PF13454 NAD_binding_9: FAD-NAD(P)-binding
Probab=20.37 E-value=2.2e+02 Score=17.27 Aligned_cols=18 Identities=28% Similarity=0.466 Sum_probs=15.1
Q ss_pred HHHHHHHHHHhHHhhhhc
Q psy11264 17 RIGDYLYETASRDISRKR 34 (50)
Q Consensus 17 RIG~YL~~rl~RDl~R~R 34 (50)
-.|+||.+++++-+.+-.
T Consensus 95 ~~G~YL~~~~~~~~~~~~ 112 (156)
T PF13454_consen 95 LFGEYLRDRFDRLLARLP 112 (156)
T ss_pred HHHHHHHHHHHHHHHhhc
Confidence 479999999999887763
Done!