Query psy14933
Match_columns 100
No_of_seqs 69 out of 71
Neff 3.6
Searched_HMMs 46136
Date Fri Aug 16 16:11:01 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14933.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14933hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3617|consensus 100.0 6.7E-40 1.4E-44 292.2 4.8 92 1-92 714-822 (1416)
2 PF04053 Coatomer_WDAD: Coatom 92.5 0.3 6.4E-06 41.3 5.5 65 20-84 323-403 (443)
3 PRK10370 formate-dependent nit 91.1 2 4.3E-05 31.8 8.0 69 24-92 82-166 (198)
4 PF09976 TPR_21: Tetratricopep 89.6 3.3 7.1E-05 28.4 7.6 69 23-91 56-139 (145)
5 PF10602 RPN7: 26S proteasome 86.1 7 0.00015 28.8 7.9 60 11-70 31-103 (177)
6 PF03130 HEAT_PBS: PBS lyase H 84.2 1.2 2.7E-05 23.6 2.4 22 47-68 5-26 (27)
7 PRK10049 pgaA outer membrane p 78.3 22 0.00048 31.3 9.2 75 19-94 363-451 (765)
8 KOG0686|consensus 72.7 7.1 0.00015 34.2 4.7 47 12-58 146-207 (466)
9 smart00567 EZ_HEAT E-Z type HE 71.2 5.9 0.00013 20.8 2.6 24 47-70 7-30 (30)
10 PF14559 TPR_19: Tetratricopep 70.8 13 0.00029 21.6 4.3 18 75-92 30-47 (68)
11 PF13432 TPR_16: Tetratricopep 66.2 23 0.00051 20.5 5.3 18 25-42 7-24 (65)
12 KOG3081|consensus 62.1 28 0.00061 29.0 6.0 83 13-95 106-232 (299)
13 TIGR02552 LcrH_SycD type III s 59.9 45 0.00097 21.6 6.9 70 23-92 25-107 (135)
14 PF04053 Coatomer_WDAD: Coatom 59.6 51 0.0011 28.0 7.3 71 18-95 264-343 (443)
15 PF13429 TPR_15: Tetratricopep 58.6 51 0.0011 24.5 6.5 19 74-92 252-270 (280)
16 KOG3334|consensus 54.4 10 0.00023 28.7 2.1 29 6-34 26-54 (148)
17 PF13646 HEAT_2: HEAT repeats; 52.2 36 0.00079 20.6 4.0 25 47-71 20-44 (88)
18 PLN03088 SGT1, suppressor of 52.0 1.2E+02 0.0026 24.4 8.0 68 25-93 12-93 (356)
19 PF12895 Apc3: Anaphase-promot 50.2 27 0.00059 21.5 3.3 43 50-92 34-80 (84)
20 PF08634 Pet127: Mitochondrial 49.4 4.2 9.1E-05 33.3 -0.7 29 14-42 204-232 (274)
21 PRK11447 cellulose synthase su 47.0 1.2E+02 0.0027 28.1 8.1 18 75-92 676-693 (1157)
22 PF09976 TPR_21: Tetratricopep 45.7 94 0.002 21.1 9.4 73 22-94 18-109 (145)
23 PRK14574 hmsH outer membrane p 45.2 1.5E+02 0.0032 27.4 8.3 75 19-93 420-507 (822)
24 PF13429 TPR_15: Tetratricopep 44.5 1.3E+02 0.0028 22.4 6.8 68 24-92 155-236 (280)
25 PF12862 Apc5: Anaphase-promot 44.4 74 0.0016 20.6 4.8 25 15-39 40-65 (94)
26 PF13371 TPR_9: Tetratricopept 44.4 64 0.0014 18.8 6.7 46 23-69 3-58 (73)
27 TIGR00990 3a0801s09 mitochondr 44.2 1.7E+02 0.0037 24.7 8.1 68 24-92 340-421 (615)
28 PRK15359 type III secretion sy 43.3 1.1E+02 0.0024 21.1 7.8 69 26-94 35-116 (144)
29 PF04733 Coatomer_E: Coatomer 42.5 1.2E+02 0.0025 24.1 6.5 13 74-86 239-251 (290)
30 PRK10747 putative protoheme IX 38.5 2.1E+02 0.0046 23.0 8.3 65 27-91 306-382 (398)
31 TIGR00990 3a0801s09 mitochondr 38.4 2.4E+02 0.0053 23.8 8.1 17 75-91 472-488 (615)
32 PRK15179 Vi polysaccharide bio 38.2 1.8E+02 0.0039 26.3 7.6 67 26-92 97-176 (694)
33 TIGR02521 type_IV_pilW type IV 37.5 1.2E+02 0.0026 20.0 8.2 15 76-90 175-189 (234)
34 PF05138 PaaA_PaaC: Phenylacet 37.3 65 0.0014 25.5 4.3 59 2-60 1-66 (263)
35 TIGR02521 type_IV_pilW type IV 35.6 1.3E+02 0.0029 19.9 8.1 17 76-92 141-157 (234)
36 PRK11788 tetratricopeptide rep 35.6 2E+02 0.0043 21.9 8.5 17 76-92 288-304 (389)
37 PF02847 MA3: MA3 domain; Int 35.0 57 0.0012 21.2 3.2 25 15-42 5-29 (113)
38 PF07208 DUF1414: Protein of u 34.2 24 0.00052 21.8 1.1 11 44-54 5-15 (44)
39 PRK12370 invasion protein regu 33.9 2.8E+02 0.006 23.5 7.8 18 76-93 447-464 (553)
40 TIGR00540 hemY_coli hemY prote 32.8 2.3E+02 0.0051 22.8 6.9 75 20-94 192-287 (409)
41 PF02291 TFIID-31kDa: Transcri 32.7 28 0.00061 25.3 1.5 28 7-34 26-53 (129)
42 PRK15174 Vi polysaccharide exp 32.7 2.8E+02 0.006 24.3 7.7 11 27-37 224-234 (656)
43 cd00737 endolysin_autolysin En 32.0 41 0.00088 23.2 2.2 22 10-31 70-91 (133)
44 cd07979 TAF9 TATA Binding Prot 31.6 47 0.001 23.4 2.4 29 7-35 15-43 (117)
45 cd00735 bacteriophage_T4-like_ 31.3 49 0.0011 24.6 2.6 33 10-42 92-124 (164)
46 TIGR02917 PEP_TPR_lipo putativ 31.1 3E+02 0.0064 22.5 7.8 19 75-93 674-692 (899)
47 PRK10747 putative protoheme IX 30.7 2.9E+02 0.0062 22.3 8.1 75 15-94 88-177 (398)
48 PF13428 TPR_14: Tetratricopep 30.6 65 0.0014 17.9 2.5 18 23-40 9-26 (44)
49 TIGR02917 PEP_TPR_lipo putativ 30.0 3.1E+02 0.0067 22.4 8.2 16 76-91 776-791 (899)
50 smart00544 MA3 Domain in DAP-5 28.4 49 0.0011 21.7 2.0 18 25-42 12-29 (113)
51 PF13181 TPR_8: Tetratricopept 27.5 94 0.002 15.6 3.0 18 24-41 10-27 (34)
52 PF00959 Phage_lysozyme: Phage 27.4 64 0.0014 21.2 2.4 21 9-29 46-66 (110)
53 KOG0292|consensus 27.3 40 0.00086 32.6 1.8 37 21-57 649-701 (1202)
54 PRK09782 bacteriophage N4 rece 27.2 3.4E+02 0.0074 25.7 7.7 17 76-92 615-631 (987)
55 cd00189 TPR Tetratricopeptide 26.9 1.1E+02 0.0024 16.3 7.5 68 25-93 10-91 (100)
56 PF12569 NARP1: NMDA receptor- 26.5 4.4E+02 0.0095 23.0 7.9 70 25-94 204-286 (517)
57 COG3071 HemY Uncharacterized e 25.8 69 0.0015 27.7 2.9 73 20-93 192-286 (400)
58 PF13877 RPAP3_C: Potential Mo 25.4 1E+02 0.0022 19.9 3.1 43 12-54 45-91 (94)
59 PRK09782 bacteriophage N4 rece 25.3 3.8E+02 0.0082 25.4 7.7 70 22-92 189-269 (987)
60 PF04505 Dispanin: Interferon- 25.2 1.4E+02 0.0031 19.6 3.7 27 26-52 48-74 (82)
61 PF09613 HrpB1_HrpK: Bacterial 25.0 3.1E+02 0.0066 20.7 6.6 33 25-57 54-94 (160)
62 PF07721 TPR_4: Tetratricopept 24.8 91 0.002 15.8 2.2 20 75-94 6-25 (26)
63 PRK10049 pgaA outer membrane p 24.8 4.6E+02 0.01 23.2 7.8 68 25-92 247-332 (765)
64 cd05804 StaR_like StaR_like; a 23.6 3.2E+02 0.007 20.5 6.9 69 24-93 123-209 (355)
65 KOG0567|consensus 23.1 56 0.0012 27.2 1.8 25 46-70 55-79 (289)
66 COG4700 Uncharacterized protei 23.0 96 0.0021 25.3 3.0 33 61-93 74-112 (251)
67 PF04685 DUF608: Protein of un 22.9 28 0.00061 28.7 0.0 64 31-94 252-323 (365)
68 PF01997 Translin: Translin fa 22.4 95 0.0021 23.2 2.8 40 25-64 136-198 (200)
69 KOG3785|consensus 22.0 1.1E+02 0.0024 27.2 3.5 47 48-94 64-115 (557)
70 PF12419 DUF3670: SNF2 Helicas 21.7 21 0.00045 25.5 -0.9 17 15-31 66-82 (141)
71 PRK11788 tetratricopeptide rep 21.7 3.7E+02 0.008 20.5 8.0 66 26-92 191-271 (389)
72 KOG0553|consensus 20.9 1.2E+02 0.0025 25.5 3.2 41 25-67 125-176 (304)
73 PF12870 Lumazine_bd: Lumazine 20.7 1.4E+02 0.0031 18.4 3.0 27 13-39 7-33 (111)
74 COG3772 Phage-related lysozyme 20.6 81 0.0018 23.7 2.1 23 11-33 80-102 (152)
75 PRK14562 haloacid dehalogenase 20.4 2.8E+02 0.006 21.1 5.0 32 25-56 132-184 (204)
76 PRK12370 invasion protein regu 20.1 3.8E+02 0.0083 22.7 6.2 16 78-93 414-429 (553)
77 PF13174 TPR_6: Tetratricopept 20.0 97 0.0021 15.2 1.7 18 75-92 5-22 (33)
No 1
>KOG3617|consensus
Probab=100.00 E-value=6.7e-40 Score=292.21 Aligned_cols=92 Identities=51% Similarity=0.829 Sum_probs=90.1
Q ss_pred CCccccCCcccCHHHHHHHHHHHHHhhcCCHHHHHHHhHhHH----------------HHHHHHHHhhcccchHHHHHHH
Q psy14933 1 MMRDFVGIECCDEVTRSAVINFSYYLNTGDLDQAFKSIAFIT----------------RLDVACICLGNMRDIQGIWTLR 64 (100)
Q Consensus 1 ~lrdF~Gle~~D~~tr~All~Fs~~Lt~GnmD~Afkaik~Ik----------------RlDVA~vCLG~m~~ar~A~alR 64 (100)
|||||+|||+||+.|||||||||||+|+||||+|||||++|| |||||+||||||+|+|||||||
T Consensus 714 pLrdFvgle~Cd~~TRkaml~FSfyvtiG~MD~AfksI~~IkS~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR 793 (1416)
T KOG3617|consen 714 PLRDFVGLENCDESTRKAMLDFSFYVTIGSMDAAFKSIQFIKSDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALR 793 (1416)
T ss_pred hHHHhcCccccCHHHHHhhhceeEEEEeccHHHHHHHHHHHhhhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHH
Confidence 689999999999999999999999999999999999999999 9999999999999999999999
Q ss_pred HHhhCc-hHHHHHHHHHHHhcchhhhhhh
Q psy14933 65 YAQAEP-ELEARVAALAIHLQLYVSDYSA 92 (100)
Q Consensus 65 ~A~~e~-e~ea~vA~lAi~LGm~dEA~~~ 92 (100)
+|+++| |+|+|||+|||+|||++||+.+
T Consensus 794 ~a~q~~~e~eakvAvLAieLgMlEeA~~l 822 (1416)
T KOG3617|consen 794 RAQQNGEEDEAKVAVLAIELGMLEEALIL 822 (1416)
T ss_pred HHHhCCcchhhHHHHHHHHHhhHHHHHHH
Confidence 999999 7899999999999999999976
No 2
>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.
Probab=92.53 E-value=0.3 Score=41.30 Aligned_cols=65 Identities=22% Similarity=0.331 Sum_probs=46.2
Q ss_pred HHHHHHhhcCCHHHHHHHhHhHH----------------HHHHHHHHhhcccchHHHHHHHHHhhCchHHHHHHHHHHHh
Q psy14933 20 INFSYYLNTGDLDQAFKSIAFIT----------------RLDVACICLGNMRDIQGIWTLRYAQAEPELEARVAALAIHL 83 (100)
Q Consensus 20 l~Fs~~Lt~GnmD~Afkaik~Ik----------------RlDVA~vCLG~m~~ar~A~alR~A~~e~e~ea~vA~lAi~L 83 (100)
..|...|..||+|.|+...+.++ ++++|+.|+-+.++.-+-.-|--...+-+.=.+++-.|.+-
T Consensus 323 ~rFeLAl~lg~L~~A~~~a~~~~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d~~~L~lLy~~~g~~~~L~kl~~~a~~~ 402 (443)
T PF04053_consen 323 HRFELALQLGNLDIALEIAKELDDPEKWKQLGDEALRQGNIELAEECYQKAKDFSGLLLLYSSTGDREKLSKLAKIAEER 402 (443)
T ss_dssp HHHHHHHHCT-HHHHHHHCCCCSTHHHHHHHHHHHHHTTBHHHHHHHHHHCT-HHHHHHHHHHCT-HHHHHHHHHHHHHT
T ss_pred HHhHHHHhcCCHHHHHHHHHhcCcHHHHHHHHHHHHHcCCHHHHHHHHHhhcCccccHHHHHHhCCHHHHHHHHHHHHHc
Confidence 45999999999999999997664 89999999999999987776666655544434444444433
Q ss_pred c
Q psy14933 84 Q 84 (100)
Q Consensus 84 G 84 (100)
|
T Consensus 403 ~ 403 (443)
T PF04053_consen 403 G 403 (443)
T ss_dssp T
T ss_pred c
Confidence 3
No 3
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=91.12 E-value=2 Score=31.78 Aligned_cols=69 Identities=22% Similarity=0.116 Sum_probs=51.1
Q ss_pred HHhhcCCHHHHHHHhHhHH---------HHHHHHHHhhcccc---hHHHHHHHHHhhC-c-hHHH--HHHHHHHHhcchh
Q psy14933 24 YYLNTGDLDQAFKSIAFIT---------RLDVACICLGNMRD---IQGIWTLRYAQAE-P-ELEA--RVAALAIHLQLYV 87 (100)
Q Consensus 24 ~~Lt~GnmD~Afkaik~Ik---------RlDVA~vCLG~m~~---ar~A~alR~A~~e-~-e~ea--~vA~lAi~LGm~d 87 (100)
.|+..|+.++|..+.+..- +...|.+=.-..|+ ..+...+++|.+. | +.++ .+|+.+.++|.++
T Consensus 82 ~~~~~g~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~ 161 (198)
T PRK10370 82 YYLWRNDYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYA 161 (198)
T ss_pred HHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHH
Confidence 6789999999999887444 55555532234443 7888999999865 4 3444 4899999999999
Q ss_pred hhhhh
Q psy14933 88 SDYSA 92 (100)
Q Consensus 88 EA~~~ 92 (100)
+|.+.
T Consensus 162 ~Ai~~ 166 (198)
T PRK10370 162 QAIEL 166 (198)
T ss_pred HHHHH
Confidence 99875
No 4
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=89.64 E-value=3.3 Score=28.41 Aligned_cols=69 Identities=19% Similarity=0.126 Sum_probs=31.5
Q ss_pred HHHhhcCCHHHHHHHhHhHH------------HHHHHHHHhhcccchHHHHHHHHHhhCc---hHHHHHHHHHHHhcchh
Q psy14933 23 SYYLNTGDLDQAFKSIAFIT------------RLDVACICLGNMRDIQGIWTLRYAQAEP---ELEARVAALAIHLQLYV 87 (100)
Q Consensus 23 s~~Lt~GnmD~Afkaik~Ik------------RlDVA~vCLG~m~~ar~A~alR~A~~e~---e~ea~vA~lAi~LGm~d 87 (100)
..+...|+.|+|....+.+- |+-+|.+++..-+-..+-..|+....++ ..-...+-+.+..|-++
T Consensus 56 ~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~ 135 (145)
T PF09976_consen 56 KAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYD 135 (145)
T ss_pred HHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHH
Confidence 34445566666655555443 4445555543333333333343332222 11223455555555555
Q ss_pred hhhh
Q psy14933 88 SDYS 91 (100)
Q Consensus 88 EA~~ 91 (100)
+|.+
T Consensus 136 ~A~~ 139 (145)
T PF09976_consen 136 EARA 139 (145)
T ss_pred HHHH
Confidence 5554
No 5
>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome. This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.
Probab=86.13 E-value=7 Score=28.79 Aligned_cols=60 Identities=20% Similarity=0.121 Sum_probs=43.1
Q ss_pred cCHHHHHHHHHH-HHHhhcCCHHHHHHHhHhHH------------HHHHHHHHhhcccchHHHHHHHHHhhCc
Q psy14933 11 CDEVTRSAVINF-SYYLNTGDLDQAFKSIAFIT------------RLDVACICLGNMRDIQGIWTLRYAQAEP 70 (100)
Q Consensus 11 ~D~~tr~All~F-s~~Lt~GnmD~Afkaik~Ik------------RlDVA~vCLG~m~~ar~A~alR~A~~e~ 70 (100)
.++++|.++++. .||..+|+.++|+++..-+. -+-+.+||+-.........-+.+|+.-+
T Consensus 31 ~kesir~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~ 103 (177)
T PF10602_consen 31 GKESIRMALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLI 103 (177)
T ss_pred chHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHH
Confidence 467889998885 69999999999999998665 3445666665555554455566666543
No 6
>PF03130 HEAT_PBS: PBS lyase HEAT-like repeat; InterPro: IPR004155 These proteins contain a short bi-helical repeat that is related to HEAT. Cyanobacteria and red algae harvest light energy using macromolecular complexes known as phycobilisomes (PBS), peripherally attached to the photosynthetic membrane. The major components of PBS are the phycobiliproteins. These heterodimeric proteins are covalently attached to phycobilins: open-chain tetrapyrrole chromophores, which function as the photosynthetic light-harvesting pigments. Phycobiliproteins differ in sequence and in the nature and number of attached phycobilins to each of their subunits. These proteins include the lyase enzymes that specifically attach particular phycobilins to apophycobiliprotein subunits. The most comprehensively studied of these is the CpcE/Flyase P31967 from SWISSPROT, P31968 from SWISSPROT, which attaches phycocyanobilin (PCB) to the alpha subunit of apophycocyanin []. Similarly, MpeU/V attaches phycoerythrobilin to phycoerythrin II, while CpeY/Z is thought to be involved in phycoerythrobilin (PEB) attachment to phycoerythrin (PE) I (PEs I and II differ in sequence and in the number of attached molecules of PEB: PE I has five, PE II has six) []. All the reactions of the above lyases involve an apoprotein cysteine SH addition to a terminal delta 3,3'-double bond. Such a reaction is not possible in the case of phycoviolobilin (PVB), the phycobilin of alpha-phycoerythrocyanin (alpha-PEC). It is thought that in this case, PCB, not PVB, is first added to apo-alpha-PEC, and is then isomerized to PVB. The addition reaction has been shown to occur in the presence of either of the components of alpha-PEC-PVB lyase PecE or PecF (or both). The isomerisation reaction occurs only when both PecE and PecF components are present, i.e. the PecE/F phycobiliprotein lyase is also a phycobilin isomerase []. Another member of this family is the NblB protein, whose similarity to the phycobiliprotein lyases was previously noted []. This constitutively expressed protein is not known to have any lyase activity. It is thought to be involved in the coordination of PBS degradation with environmental nutrient limitation. It has been suggested that the similarity of NblB to the phycobiliprotein lyases is due to the ability to bind tetrapyrrole phycobilins via the common repeated motif [].; PDB: 1TE4_A.
Probab=84.24 E-value=1.2 Score=23.64 Aligned_cols=22 Identities=32% Similarity=0.262 Sum_probs=18.0
Q ss_pred HHHHhhcccchHHHHHHHHHhh
Q psy14933 47 ACICLGNMRDIQGIWTLRYAQA 68 (100)
Q Consensus 47 A~vCLG~m~~ar~A~alR~A~~ 68 (100)
|-.+||++|+.++.-.|.++.+
T Consensus 5 Aa~aLg~igd~~ai~~L~~~L~ 26 (27)
T PF03130_consen 5 AARALGQIGDPRAIPALIEALE 26 (27)
T ss_dssp HHHHHGGG-SHHHHHHHHHHHH
T ss_pred HHHHHHHcCCHHHHHHHHHHhc
Confidence 5679999999999999988765
No 7
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=78.26 E-value=22 Score=31.35 Aligned_cols=75 Identities=23% Similarity=0.098 Sum_probs=56.0
Q ss_pred HHHHHHHhhcCCHHHHHHHhHhHH---------HHHHHHHHhhcccc-hHHHHHHHHHhhC-c---hHHHHHHHHHHHhc
Q psy14933 19 VINFSYYLNTGDLDQAFKSIAFIT---------RLDVACICLGNMRD-IQGIWTLRYAQAE-P---ELEARVAALAIHLQ 84 (100)
Q Consensus 19 ll~Fs~~Lt~GnmD~Afkaik~Ik---------RlDVA~vCLG~m~~-ar~A~alR~A~~e-~---e~ea~vA~lAi~LG 84 (100)
.+--..+...|+.++|.+.++.+. ++..|.+=. .+|+ ..+-..+++|... | +.....|.+++.+|
T Consensus 363 ~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~-~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~ 441 (765)
T PRK10049 363 SLLSQVAKYSNDLPQAEMRARELAYNAPGNQGLRIDYASVLQ-ARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQ 441 (765)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH-hcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhC
Confidence 456668889999999999988655 777787544 3444 4555667888753 5 34566899999999
Q ss_pred chhhhhhhcC
Q psy14933 85 LYVSDYSAAD 94 (100)
Q Consensus 85 m~dEA~~~a~ 94 (100)
-+++|+++.+
T Consensus 442 ~~~~A~~~~~ 451 (765)
T PRK10049 442 EWRQMDVLTD 451 (765)
T ss_pred CHHHHHHHHH
Confidence 9999998753
No 8
>KOG0686|consensus
Probab=72.73 E-value=7.1 Score=34.20 Aligned_cols=47 Identities=28% Similarity=0.454 Sum_probs=36.6
Q ss_pred CHHHHHHHHHH-HHHhhcCCHHHHHHHhHhHH--------------HHHHHHHHhhcccchH
Q psy14933 12 DEVTRSAVINF-SYYLNTGDLDQAFKSIAFIT--------------RLDVACICLGNMRDIQ 58 (100)
Q Consensus 12 D~~tr~All~F-s~~Lt~GnmD~Afkaik~Ik--------------RlDVA~vCLG~m~~ar 58 (100)
-+++|.++.++ ++|+..|++|.|+|+-.-+. -+--..+|+||-+|.-
T Consensus 146 KEsiRra~~Dl~dhy~~cG~l~~Alr~YsR~RdYCTs~khvInm~ln~i~VSI~~~nw~hv~ 207 (466)
T KOG0686|consen 146 KESIRRALEDLGDHYLDCGQLDNALRCYSRARDYCTSAKHVINMCLNLILVSIYMGNWGHVL 207 (466)
T ss_pred hHHHHHHHHHHHHHHHHhccHHHHHhhhhhhhhhhcchHHHHHHHHHHHHHHHhhcchhhhh
Confidence 36788999885 78999999999999866543 3334568999999874
No 9
>smart00567 EZ_HEAT E-Z type HEAT repeats. Present in subunits of cyanobacterial phycocyanin lyase, and other proteins. Probable scaffolding role.
Probab=71.24 E-value=5.9 Score=20.78 Aligned_cols=24 Identities=25% Similarity=0.320 Sum_probs=19.1
Q ss_pred HHHHhhcccchHHHHHHHHHhhCc
Q psy14933 47 ACICLGNMRDIQGIWTLRYAQAEP 70 (100)
Q Consensus 47 A~vCLG~m~~ar~A~alR~A~~e~ 70 (100)
|...||++|+.++...|.++.+++
T Consensus 7 aa~aLg~~~~~~a~~~L~~~l~d~ 30 (30)
T smart00567 7 AAFALGQLGDEEAVPALIKALEDE 30 (30)
T ss_pred HHHHHHHcCCHhHHHHHHHHhcCC
Confidence 446789999999999988887653
No 10
>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A ....
Probab=70.81 E-value=13 Score=21.57 Aligned_cols=18 Identities=11% Similarity=-0.027 Sum_probs=10.3
Q ss_pred HHHHHHHHhcchhhhhhh
Q psy14933 75 RVAALAIHLQLYVSDYSA 92 (100)
Q Consensus 75 ~vA~lAi~LGm~dEA~~~ 92 (100)
.+|.+-+..|.+++|+++
T Consensus 30 ~la~~~~~~g~~~~A~~~ 47 (68)
T PF14559_consen 30 LLAQCYLKQGQYDEAEEL 47 (68)
T ss_dssp HHHHHHHHTT-HHHHHHH
T ss_pred HHHHHHHHcCCHHHHHHH
Confidence 356666666666666654
No 11
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=66.22 E-value=23 Score=20.50 Aligned_cols=18 Identities=22% Similarity=0.350 Sum_probs=11.3
Q ss_pred HhhcCCHHHHHHHhHhHH
Q psy14933 25 YLNTGDLDQAFKSIAFIT 42 (100)
Q Consensus 25 ~Lt~GnmD~Afkaik~Ik 42 (100)
++..|+.++|.+..+.+-
T Consensus 7 ~~~~g~~~~A~~~~~~~l 24 (65)
T PF13432_consen 7 LYQQGDYDEAIAAFEQAL 24 (65)
T ss_dssp HHHCTHHHHHHHHHHHHH
T ss_pred HHHcCCHHHHHHHHHHHH
Confidence 456677777766666544
No 12
>KOG3081|consensus
Probab=62.13 E-value=28 Score=29.03 Aligned_cols=83 Identities=23% Similarity=0.245 Sum_probs=56.9
Q ss_pred HHHHHHHHHHHHHhhcCCHHHHHHHhHhHH----------------HHHHHHHHhhcccchH-------HHHH-------
Q psy14933 13 EVTRSAVINFSYYLNTGDLDQAFKSIAFIT----------------RLDVACICLGNMRDIQ-------GIWT------- 62 (100)
Q Consensus 13 ~~tr~All~Fs~~Lt~GnmD~Afkaik~Ik----------------RlDVA~vCLG~m~~ar-------~A~a------- 62 (100)
..+...++--.+++--|+.|+|++..+... |.|.|+--+-+|.+.- -|.+
T Consensus 106 sn~i~~l~aa~i~~~~~~~deAl~~~~~~~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~ided~tLtQLA~awv~la~g 185 (299)
T KOG3081|consen 106 SNLIDLLLAAIIYMHDGDFDEALKALHLGENLEAAALNVQILLKMHRFDLAEKELKKMQQIDEDATLTQLAQAWVKLATG 185 (299)
T ss_pred hhHHHHHHhhHHhhcCCChHHHHHHHhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhcc
Confidence 445677888899999999999999998433 8898988888887651 1111
Q ss_pred ---HHHH------h---hCc--hHHHHHHHHHHHhcchhhhhhhcCC
Q psy14933 63 ---LRYA------Q---AEP--ELEARVAALAIHLQLYVSDYSAADF 95 (100)
Q Consensus 63 ---lR~A------~---~e~--e~ea~vA~lAi~LGm~dEA~~~a~~ 95 (100)
+..| . ..| -..--.|++.+++|.++||+++-.-
T Consensus 186 gek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~e 232 (299)
T KOG3081|consen 186 GEKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAESLLEE 232 (299)
T ss_pred chhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHHHHHH
Confidence 1111 0 112 1233478889999999999987543
No 13
>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD. ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.
Probab=59.93 E-value=45 Score=21.58 Aligned_cols=70 Identities=17% Similarity=0.133 Sum_probs=46.9
Q ss_pred HHHhhcCCHHHHHHHhHhHH--------HHHHHHHHhhcccchHHHH-HHHHHhhC-c---hHHHHHHHHHHHhcchhhh
Q psy14933 23 SYYLNTGDLDQAFKSIAFIT--------RLDVACICLGNMRDIQGIW-TLRYAQAE-P---ELEARVAALAIHLQLYVSD 89 (100)
Q Consensus 23 s~~Lt~GnmD~Afkaik~Ik--------RlDVA~vCLG~m~~ar~A~-alR~A~~e-~---e~ea~vA~lAi~LGm~dEA 89 (100)
..++..|+.++|....+.+- -......|+-++|+...|. .++++.+- | +.-...|.+-.++|.+++|
T Consensus 25 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~g~~~~A 104 (135)
T TIGR02552 25 YNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLALGEPESA 104 (135)
T ss_pred HHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCHHHH
Confidence 34667899999988877554 2223455666777664444 56777533 3 2344578899999999999
Q ss_pred hhh
Q psy14933 90 YSA 92 (100)
Q Consensus 90 ~~~ 92 (100)
.+.
T Consensus 105 ~~~ 107 (135)
T TIGR02552 105 LKA 107 (135)
T ss_pred HHH
Confidence 764
No 14
>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.
Probab=59.63 E-value=51 Score=28.04 Aligned_cols=71 Identities=15% Similarity=0.164 Sum_probs=34.3
Q ss_pred HHHHHHHHhhcCCHHHHHHHhHhHH---------HHHHHHHHhhcccchHHHHHHHHHhhCchHHHHHHHHHHHhcchhh
Q psy14933 18 AVINFSYYLNTGDLDQAFKSIAFIT---------RLDVACICLGNMRDIQGIWTLRYAQAEPELEARVAALAIHLQLYVS 88 (100)
Q Consensus 18 All~Fs~~Lt~GnmD~Afkaik~Ik---------RlDVA~vCLG~m~~ar~A~alR~A~~e~e~ea~vA~lAi~LGm~dE 88 (100)
..+.|=..+..||++++.+.|+.=+ +--+ .-.|-+.|...-|..+ + +|| + .=.-||+++|.+++
T Consensus 264 ~~~~fk~av~~~d~~~v~~~i~~~~ll~~i~~~~~~~i-~~fL~~~G~~e~AL~~--~-~D~--~-~rFeLAl~lg~L~~ 336 (443)
T PF04053_consen 264 SELEFKTAVLRGDFEEVLRMIAASNLLPNIPKDQGQSI-ARFLEKKGYPELALQF--V-TDP--D-HRFELALQLGNLDI 336 (443)
T ss_dssp HHHHHHHHHHTT-HHH-----HHHHTGGG--HHHHHHH-HHHHHHTT-HHHHHHH--S-S-H--H-HHHHHHHHCT-HHH
T ss_pred HHHHHHHHHHcCChhhhhhhhhhhhhcccCChhHHHHH-HHHHHHCCCHHHHHhh--c-CCh--H-HHhHHHHhcCCHHH
Confidence 4577778888899999777765211 2222 2234444444332221 1 111 2 23467888888888
Q ss_pred hhhhcCC
Q psy14933 89 DYSAADF 95 (100)
Q Consensus 89 A~~~a~~ 95 (100)
|.++|.-
T Consensus 337 A~~~a~~ 343 (443)
T PF04053_consen 337 ALEIAKE 343 (443)
T ss_dssp HHHHCCC
T ss_pred HHHHHHh
Confidence 8887753
No 15
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=58.61 E-value=51 Score=24.54 Aligned_cols=19 Identities=5% Similarity=-0.270 Sum_probs=4.1
Q ss_pred HHHHHHHHHhcchhhhhhh
Q psy14933 74 ARVAALAIHLQLYVSDYSA 92 (100)
Q Consensus 74 a~vA~lAi~LGm~dEA~~~ 92 (100)
...|-+-.+.|..++|.++
T Consensus 252 ~~~a~~l~~~g~~~~A~~~ 270 (280)
T PF13429_consen 252 LAYADALEQAGRKDEALRL 270 (280)
T ss_dssp HHHHHHHT-----------
T ss_pred ccccccccccccccccccc
Confidence 3455555556666666554
No 16
>KOG3334|consensus
Probab=54.42 E-value=10 Score=28.69 Aligned_cols=29 Identities=28% Similarity=0.457 Sum_probs=24.5
Q ss_pred cCCcccCHHHHHHHHHHHHHhhcCCHHHH
Q psy14933 6 VGIECCDEVTRSAVINFSYYLNTGDLDQA 34 (100)
Q Consensus 6 ~Gle~~D~~tr~All~Fs~~Lt~GnmD~A 34 (100)
.|++++++....+||+|-|.-|++=+|.|
T Consensus 26 ~GI~eyEprVi~qlLefa~rYtt~vL~DA 54 (148)
T KOG3334|consen 26 LGIQEYEPRVINQLLEFAYRYTTTVLDDA 54 (148)
T ss_pred cCccccChHHHHHHHHHHHHHHHHHHHHH
Confidence 59999999999999999999887744443
No 17
>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A.
Probab=52.22 E-value=36 Score=20.60 Aligned_cols=25 Identities=24% Similarity=0.252 Sum_probs=13.1
Q ss_pred HHHHhhcccchHHHHHHHHHhhCch
Q psy14933 47 ACICLGNMRDIQGIWTLRYAQAEPE 71 (100)
Q Consensus 47 A~vCLG~m~~ar~A~alR~A~~e~e 71 (100)
|-.|||++++..+...|.+.-++++
T Consensus 20 a~~~L~~~~~~~~~~~L~~~l~d~~ 44 (88)
T PF13646_consen 20 AARALGELGDPEAIPALIELLKDED 44 (88)
T ss_dssp HHHHHHCCTHHHHHHHHHHHHTSSS
T ss_pred HHHHHHHcCCHhHHHHHHHHHcCCC
Confidence 4445555555555555555554443
No 18
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=51.98 E-value=1.2e+02 Score=24.41 Aligned_cols=68 Identities=15% Similarity=0.067 Sum_probs=33.8
Q ss_pred HhhcCCHHHHHHHhHhHH---------HHHHHHHHhhcccchH-HHHHHHHHhhC-c---hHHHHHHHHHHHhcchhhhh
Q psy14933 25 YLNTGDLDQAFKSIAFIT---------RLDVACICLGNMRDIQ-GIWTLRYAQAE-P---ELEARVAALAIHLQLYVSDY 90 (100)
Q Consensus 25 ~Lt~GnmD~Afkaik~Ik---------RlDVA~vCLG~m~~ar-~A~alR~A~~e-~---e~ea~vA~lAi~LGm~dEA~ 90 (100)
.+..|+.++|....+..- +...|.++ -++|+.. +...+++|.+- | +.--+.+.+..++|.+++|+
T Consensus 12 a~~~~~~~~Ai~~~~~Al~~~P~~~~a~~~~a~~~-~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~~eA~ 90 (356)
T PLN03088 12 AFVDDDFALAVDLYTQAIDLDPNNAELYADRAQAN-IKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEYQTAK 90 (356)
T ss_pred HHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH-HHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCHHHHH
Confidence 345566666665554222 33334333 3444432 23334444322 2 22344666777777777776
Q ss_pred hhc
Q psy14933 91 SAA 93 (100)
Q Consensus 91 ~~a 93 (100)
+..
T Consensus 91 ~~~ 93 (356)
T PLN03088 91 AAL 93 (356)
T ss_pred HHH
Confidence 643
No 19
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=50.22 E-value=27 Score=21.49 Aligned_cols=43 Identities=19% Similarity=0.245 Sum_probs=24.6
Q ss_pred Hhhcccch-HHHHHHHHHhhCch-HHHH--HHHHHHHhcchhhhhhh
Q psy14933 50 CLGNMRDI-QGIWTLRYAQAEPE-LEAR--VAALAIHLQLYVSDYSA 92 (100)
Q Consensus 50 CLG~m~~a-r~A~alR~A~~e~e-~ea~--vA~lAi~LGm~dEA~~~ 92 (100)
|+=++|+- ++...+++.+.+|. .+.+ .|...++||.++||.++
T Consensus 34 ~~~~~~~y~~A~~~~~~~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~ 80 (84)
T PF12895_consen 34 CYFQQGKYEEAIELLQKLKLDPSNPDIHYLLARCLLKLGKYEEAIKA 80 (84)
T ss_dssp HHHHTTHHHHHHHHHHCHTHHHCHHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred HHHHCCCHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence 44444443 44455555333332 2333 68888999999999875
No 20
>PF08634 Pet127: Mitochondrial protein Pet127; InterPro: IPR013943 Pet127 has been implicated in mitochondrial RNA stability and/or processing and is localised to the mitochondrial membrane [].
Probab=49.38 E-value=4.2 Score=33.34 Aligned_cols=29 Identities=24% Similarity=0.380 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHhhcCCHHHHHHHhHhHH
Q psy14933 14 VTRSAVINFSYYLNTGDLDQAFKSIAFIT 42 (100)
Q Consensus 14 ~tr~All~Fs~~Lt~GnmD~Afkaik~Ik 42 (100)
=.|.|+|..||+.-+|+||-.|-|--.|+
T Consensus 204 liRsa~LKYslQaRIG~MDGIFVAYHNt~ 232 (274)
T PF08634_consen 204 LIRSAFLKYSLQARIGRMDGIFVAYHNTS 232 (274)
T ss_pred HHHHHHHHHHHHHHHccCceEEEeeechh
Confidence 36889999999999999999988877777
No 21
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=47.01 E-value=1.2e+02 Score=28.08 Aligned_cols=18 Identities=22% Similarity=-0.005 Sum_probs=9.4
Q ss_pred HHHHHHHHhcchhhhhhh
Q psy14933 75 RVAALAIHLQLYVSDYSA 92 (100)
Q Consensus 75 ~vA~lAi~LGm~dEA~~~ 92 (100)
++|.+-.++|.+++|.++
T Consensus 676 ~la~~~~~~g~~~eA~~~ 693 (1157)
T PRK11447 676 RVALAWAALGDTAAAQRT 693 (1157)
T ss_pred HHHHHHHhCCCHHHHHHH
Confidence 345555555555555543
No 22
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=45.67 E-value=94 Score=21.10 Aligned_cols=73 Identities=19% Similarity=0.129 Sum_probs=51.8
Q ss_pred HHHHhhcCCHHHHHHHhHhHH------------HHHHHHHHhhcccchHHHHHHHHHhhCc---hH----HHHHHHHHHH
Q psy14933 22 FSYYLNTGDLDQAFKSIAFIT------------RLDVACICLGNMRDIQGIWTLRYAQAEP---EL----EARVAALAIH 82 (100)
Q Consensus 22 Fs~~Lt~GnmD~Afkaik~Ik------------RlDVA~vCLG~m~~ar~A~alR~A~~e~---e~----ea~vA~lAi~ 82 (100)
..-.+..|+.+.+-..+..|. +|-+|..+...=.-..+...++++.... +. --++|.+-++
T Consensus 18 ~~~~~~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~ 97 (145)
T PF09976_consen 18 ALQALQAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQ 97 (145)
T ss_pred HHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHH
Confidence 333446888888876555444 8888888886655556677788888653 21 2447889999
Q ss_pred hcchhhhhhhcC
Q psy14933 83 LQLYVSDYSAAD 94 (100)
Q Consensus 83 LGm~dEA~~~a~ 94 (100)
.|.+|+|.++-+
T Consensus 98 ~~~~d~Al~~L~ 109 (145)
T PF09976_consen 98 QGQYDEALATLQ 109 (145)
T ss_pred cCCHHHHHHHHH
Confidence 999999988753
No 23
>PRK14574 hmsH outer membrane protein; Provisional
Probab=45.21 E-value=1.5e+02 Score=27.40 Aligned_cols=75 Identities=21% Similarity=0.170 Sum_probs=58.0
Q ss_pred HHHHHHHhhcCCHHHHHHHhHhHH---------HHHHHHHHhhcccchHHHHHHHHHhhC-c---hHHHHHHHHHHHhcc
Q psy14933 19 VINFSYYLNTGDLDQAFKSIAFIT---------RLDVACICLGNMRDIQGIWTLRYAQAE-P---ELEARVAALAIHLQL 85 (100)
Q Consensus 19 ll~Fs~~Lt~GnmD~Afkaik~Ik---------RlDVA~vCLG~m~~ar~A~alR~A~~e-~---e~ea~vA~lAi~LGm 85 (100)
.+--.+++-.||.++|-+.+.-.- |++-|.+=..+=.-.++-..++.+... | ..+...+..+..||-
T Consensus 420 ~l~a~~~~~~gdl~~Ae~~le~l~~~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e 499 (822)
T PRK14574 420 TLLVQSLVALNDLPTAQKKLEDLSSTAPANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILERAQAETAMALQE 499 (822)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHHHHHHHhhhh
Confidence 345667889999999999888665 999999887765555566667776644 4 346678999999999
Q ss_pred hhhhhhhc
Q psy14933 86 YVSDYSAA 93 (100)
Q Consensus 86 ~dEA~~~a 93 (100)
+++|+.+.
T Consensus 500 ~~~A~~~~ 507 (822)
T PRK14574 500 WHQMELLT 507 (822)
T ss_pred HHHHHHHH
Confidence 99998875
No 24
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=44.51 E-value=1.3e+02 Score=22.37 Aligned_cols=68 Identities=25% Similarity=0.260 Sum_probs=38.5
Q ss_pred HHhhcCCHHHHHHHhHhHH---------HHHHHHHHhhcccchHH-HHHHHHH----hhCchHHHHHHHHHHHhcchhhh
Q psy14933 24 YYLNTGDLDQAFKSIAFIT---------RLDVACICLGNMRDIQG-IWTLRYA----QAEPELEARVAALAIHLQLYVSD 89 (100)
Q Consensus 24 ~~Lt~GnmD~Afkaik~Ik---------RlDVA~vCLG~m~~ar~-A~alR~A----~~e~e~ea~vA~lAi~LGm~dEA 89 (100)
++...|+.++|.+..+-.= +...+- .+-.+|+..- -.+++.. ..+|..-..+|.+-.+||.+++|
T Consensus 155 ~~~~~G~~~~A~~~~~~al~~~P~~~~~~~~l~~-~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~A 233 (280)
T PF13429_consen 155 IYEQLGDPDKALRDYRKALELDPDDPDARNALAW-LLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEA 233 (280)
T ss_dssp HHHHCCHHHHHHHHHHHHHHH-TT-HHHHHHHHH-HHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHH
T ss_pred HHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHH-HHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhccccccccc
Confidence 4566788888887776433 222222 3445555432 2233333 34445556778888888888888
Q ss_pred hhh
Q psy14933 90 YSA 92 (100)
Q Consensus 90 ~~~ 92 (100)
...
T Consensus 234 l~~ 236 (280)
T PF13429_consen 234 LEY 236 (280)
T ss_dssp HHH
T ss_pred ccc
Confidence 654
No 25
>PF12862 Apc5: Anaphase-promoting complex subunit 5
Probab=44.40 E-value=74 Score=20.64 Aligned_cols=25 Identities=16% Similarity=0.323 Sum_probs=16.6
Q ss_pred HHHHHHHH-HHHhhcCCHHHHHHHhH
Q psy14933 15 TRSAVINF-SYYLNTGDLDQAFKSIA 39 (100)
Q Consensus 15 tr~All~F-s~~Lt~GnmD~Afkaik 39 (100)
..-|+++- ..|...|+.++|.++++
T Consensus 40 ~~~all~lA~~~~~~G~~~~A~~~l~ 65 (94)
T PF12862_consen 40 LAYALLNLAELHRRFGHYEEALQALE 65 (94)
T ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence 44555543 44777888888877766
No 26
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=44.40 E-value=64 Score=18.81 Aligned_cols=46 Identities=22% Similarity=0.270 Sum_probs=29.8
Q ss_pred HHHhhcCCHHHHHHHhHhHH---------HHHHHHHHhhcccch-HHHHHHHHHhhC
Q psy14933 23 SYYLNTGDLDQAFKSIAFIT---------RLDVACICLGNMRDI-QGIWTLRYAQAE 69 (100)
Q Consensus 23 s~~Lt~GnmD~Afkaik~Ik---------RlDVA~vCLG~m~~a-r~A~alR~A~~e 69 (100)
+-|+..++.++|.+.+..+- +...|. |+-++|+- .|...+.++-+.
T Consensus 3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~-~~~~~g~~~~A~~~l~~~l~~ 58 (73)
T PF13371_consen 3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRAR-CLFQLGRYEEALEDLERALEL 58 (73)
T ss_pred HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHH-HHHHhccHHHHHHHHHHHHHH
Confidence 56888999999998887544 555554 45555554 444556666544
No 27
>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70).
Probab=44.21 E-value=1.7e+02 Score=24.73 Aligned_cols=68 Identities=12% Similarity=0.035 Sum_probs=34.3
Q ss_pred HHhhcCCHHHHHHHhHhHH---------HHHHHHHHhhcccch-HHHHHHHHHhhC-c---hHHHHHHHHHHHhcchhhh
Q psy14933 24 YYLNTGDLDQAFKSIAFIT---------RLDVACICLGNMRDI-QGIWTLRYAQAE-P---ELEARVAALAIHLQLYVSD 89 (100)
Q Consensus 24 ~~Lt~GnmD~Afkaik~Ik---------RlDVA~vCLG~m~~a-r~A~alR~A~~e-~---e~ea~vA~lAi~LGm~dEA 89 (100)
+|...|+.++|...++-.- .+-.|.+.+ ..|+. .+...++++.+. | +.-...+.+..++|.+++|
T Consensus 340 ~~~~~g~~~eA~~~~~kal~l~P~~~~~~~~la~~~~-~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A 418 (615)
T TIGR00990 340 FKCLKGKHLEALADLSKSIELDPRVTQSYIKRASMNL-ELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQA 418 (615)
T ss_pred HHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHH-HCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHH
Confidence 4556788888887776432 233333332 22222 233334444322 2 2233456666666666666
Q ss_pred hhh
Q psy14933 90 YSA 92 (100)
Q Consensus 90 ~~~ 92 (100)
.+.
T Consensus 419 ~~~ 421 (615)
T TIGR00990 419 GKD 421 (615)
T ss_pred HHH
Confidence 553
No 28
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=43.33 E-value=1.1e+02 Score=21.14 Aligned_cols=69 Identities=12% Similarity=-0.026 Sum_probs=47.1
Q ss_pred hhcCCHHHHHHHhHhHH---------HHHHHHHHhhcccchHHHHHHHHHhhC-c---hHHHHHHHHHHHhcchhhhhhh
Q psy14933 26 LNTGDLDQAFKSIAFIT---------RLDVACICLGNMRDIQGIWTLRYAQAE-P---ELEARVAALAIHLQLYVSDYSA 92 (100)
Q Consensus 26 Lt~GnmD~Afkaik~Ik---------RlDVA~vCLG~m~~ar~A~alR~A~~e-~---e~ea~vA~lAi~LGm~dEA~~~ 92 (100)
.-.|+.++|....+..- ....|.+|...=....+....++|.+- | +.=-.++..-.++|.++||.+.
T Consensus 35 ~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~g~~~eAi~~ 114 (144)
T PRK15359 35 WQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMMGEPGLAREA 114 (144)
T ss_pred HHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHH
Confidence 45799999987766433 566676666544445556667777643 3 3345588888999999999876
Q ss_pred cC
Q psy14933 93 AD 94 (100)
Q Consensus 93 a~ 94 (100)
.+
T Consensus 115 ~~ 116 (144)
T PRK15359 115 FQ 116 (144)
T ss_pred HH
Confidence 43
No 29
>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.
Probab=42.52 E-value=1.2e+02 Score=24.08 Aligned_cols=13 Identities=23% Similarity=0.258 Sum_probs=5.6
Q ss_pred HHHHHHHHHhcch
Q psy14933 74 ARVAALAIHLQLY 86 (100)
Q Consensus 74 a~vA~lAi~LGm~ 86 (100)
+.+++++.++|.-
T Consensus 239 aNliv~~~~~gk~ 251 (290)
T PF04733_consen 239 ANLIVCSLHLGKP 251 (290)
T ss_dssp HHHHHHHHHTT-T
T ss_pred HHHHHHHHHhCCC
Confidence 3344444555544
No 30
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=38.47 E-value=2.1e+02 Score=23.05 Aligned_cols=65 Identities=14% Similarity=0.020 Sum_probs=39.2
Q ss_pred hcCCHHHHHHHhHhH-H--------HHHHHHHHhhcccchHHHHHHHHHhhC-chHH--HHHHHHHHHhcchhhhhh
Q psy14933 27 NTGDLDQAFKSIAFI-T--------RLDVACICLGNMRDIQGIWTLRYAQAE-PELE--ARVAALAIHLQLYVSDYS 91 (100)
Q Consensus 27 t~GnmD~Afkaik~I-k--------RlDVA~vCLG~m~~ar~A~alR~A~~e-~e~e--a~vA~lAi~LGm~dEA~~ 91 (100)
..|+.++|.+.++.. + ++=.|.+|+..=.-..+-..++++.+. |+.+ ..++.+--++|..++|..
T Consensus 306 ~~~~~~~al~~~e~~lk~~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~~A~~ 382 (398)
T PRK10747 306 KTNNPEQLEKVLRQQIKQHGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEEAAA 382 (398)
T ss_pred cCCChHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence 345556655555422 2 666777777766666666667776644 4332 356666667777776654
No 31
>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70).
Probab=38.38 E-value=2.4e+02 Score=23.84 Aligned_cols=17 Identities=6% Similarity=0.045 Sum_probs=11.0
Q ss_pred HHHHHHHHhcchhhhhh
Q psy14933 75 RVAALAIHLQLYVSDYS 91 (100)
Q Consensus 75 ~vA~lAi~LGm~dEA~~ 91 (100)
..+.+-..+|.+++|++
T Consensus 472 ~lg~~~~~~g~~~~A~~ 488 (615)
T TIGR00990 472 YYGELLLDQNKFDEAIE 488 (615)
T ss_pred HHHHHHHHccCHHHHHH
Confidence 35666666777777654
No 32
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=38.18 E-value=1.8e+02 Score=26.33 Aligned_cols=67 Identities=6% Similarity=-0.236 Sum_probs=46.6
Q ss_pred hhcCCHHHHHHHhHhHH---------HHHHHHHHhhcccchHHHHHHHHHh-hCch---HHHHHHHHHHHhcchhhhhhh
Q psy14933 26 LNTGDLDQAFKSIAFIT---------RLDVACICLGNMRDIQGIWTLRYAQ-AEPE---LEARVAALAIHLQLYVSDYSA 92 (100)
Q Consensus 26 Lt~GnmD~Afkaik~Ik---------RlDVA~vCLG~m~~ar~A~alR~A~-~e~e---~ea~vA~lAi~LGm~dEA~~~ 92 (100)
...|..|+|-...+.+= |++-|.+|.-.-+...+-...+++. .+|+ ---..|++-.++|-++||+.+
T Consensus 97 ~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~~~~~~~~~a~~l~~~g~~~~A~~~ 176 (694)
T PRK15179 97 EAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSSSAREILLEAKSWDEIGQSEQADAC 176 (694)
T ss_pred HHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHhcchHHHHHH
Confidence 46788899888877544 8888888876655555555555554 3442 334478888999999998754
No 33
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=37.49 E-value=1.2e+02 Score=20.04 Aligned_cols=15 Identities=20% Similarity=0.071 Sum_probs=6.2
Q ss_pred HHHHHHHhcchhhhh
Q psy14933 76 VAALAIHLQLYVSDY 90 (100)
Q Consensus 76 vA~lAi~LGm~dEA~ 90 (100)
.+.+..+.|.+++|.
T Consensus 175 la~~~~~~~~~~~A~ 189 (234)
T TIGR02521 175 LAELYYLRGQYKDAR 189 (234)
T ss_pred HHHHHHHcCCHHHHH
Confidence 333444444444443
No 34
>PF05138 PaaA_PaaC: Phenylacetic acid catabolic protein; InterPro: IPR007814 This family includes proteins such as PaaA and PaaC that are part of a catabolic pathway of phenylacetic acid []. These proteins may form part of a dioxygenase complex.; PDB: 3PWQ_K 3PVT_B 1OTK_B 3PW1_B 3PW8_B 3PVR_B 3PVY_B 3Q1G_A 3PF7_B 3PM5_C ....
Probab=37.26 E-value=65 Score=25.52 Aligned_cols=59 Identities=15% Similarity=0.158 Sum_probs=45.8
Q ss_pred CccccCCcccCHHHHHHHHHHHHHhhcCCHHHHHHHhHhHH-------HHHHHHHHhhcccchHHH
Q psy14933 2 MRDFVGIECCDEVTRSAVINFSYYLNTGDLDQAFKSIAFIT-------RLDVACICLGNMRDIQGI 60 (100)
Q Consensus 2 lrdF~Gle~~D~~tr~All~Fs~~Lt~GnmD~Afkaik~Ik-------RlDVA~vCLG~m~~ar~A 60 (100)
|.-|+..+..++..+++++++-+.++-..+=-+.+-..++- ++-++.+=+-.|||++--
T Consensus 1 ~~~~e~~~~~~~~~~~~L~~~l~~laD~elil~~r~~ew~~~AP~LeediAl~~ia~DelGHAr~l 66 (263)
T PF05138_consen 1 MQAIEDPDEMPEEYREALIRYLLRLADDELILGQRLSEWCGHAPSLEEDIALANIAQDELGHARLL 66 (263)
T ss_dssp ---B-TTSS--HHHHHHHHHHHHHHHHHHHHHHHHHHTGGGGSSSHHHHHHHHHHHHHHHHHHHHH
T ss_pred CcccccchhhhhhhHHHHHHHHHHHhChHHHhhhHHhHHHhhCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 34478889999999999999999999777777777777776 888889999999998754
No 35
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=35.56 E-value=1.3e+02 Score=19.87 Aligned_cols=17 Identities=6% Similarity=-0.101 Sum_probs=9.7
Q ss_pred HHHHHHHhcchhhhhhh
Q psy14933 76 VAALAIHLQLYVSDYSA 92 (100)
Q Consensus 76 vA~lAi~LGm~dEA~~~ 92 (100)
++.+...+|.+++|.+.
T Consensus 141 l~~~~~~~g~~~~A~~~ 157 (234)
T TIGR02521 141 AGLCALKAGDFDKAEKY 157 (234)
T ss_pred HHHHHHHcCCHHHHHHH
Confidence 45555566666666543
No 36
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=35.55 E-value=2e+02 Score=21.91 Aligned_cols=17 Identities=12% Similarity=-0.111 Sum_probs=9.5
Q ss_pred HHHHHHHhcchhhhhhh
Q psy14933 76 VAALAIHLQLYVSDYSA 92 (100)
Q Consensus 76 vA~lAi~LGm~dEA~~~ 92 (100)
++.+....|.+++|.++
T Consensus 288 la~~~~~~g~~~~A~~~ 304 (389)
T PRK11788 288 LAQLLEEQEGPEAAQAL 304 (389)
T ss_pred HHHHHHHhCCHHHHHHH
Confidence 44555555666666553
No 37
>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]. It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....
Probab=34.98 E-value=57 Score=21.23 Aligned_cols=25 Identities=24% Similarity=0.530 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHhhcCCHHHHHHHhHhHH
Q psy14933 15 TRSAVINFSYYLNTGDLDQAFKSIAFIT 42 (100)
Q Consensus 15 tr~All~Fs~~Lt~GnmD~Afkaik~Ik 42 (100)
.+..|++ |+..||.+||+.+|+-++
T Consensus 5 i~~~l~e---y~~~~d~~ea~~~l~el~ 29 (113)
T PF02847_consen 5 IFSILME---YFSSGDVDEAVECLKELK 29 (113)
T ss_dssp HHHHHHH---HHHHT-HHHHHHHHHHTT
T ss_pred HHHHHHH---HhcCCCHHHHHHHHHHhC
Confidence 3444443 456699999999999765
No 38
>PF07208 DUF1414: Protein of unknown function (DUF1414); InterPro: IPR009857 This family consists of several hypothetical bacterial proteins of around 70 residues in length. Members of this family are often referred to as YejL. The function of this family is unknown.; PDB: 2JPQ_A 2JUZ_B 2JUW_B 2QTI_A 2OTA_A 2JR2_A 2JRX_A.
Probab=34.20 E-value=24 Score=21.82 Aligned_cols=11 Identities=45% Similarity=0.788 Sum_probs=9.8
Q ss_pred HHHHHHHhhcc
Q psy14933 44 LDVACICLGNM 54 (100)
Q Consensus 44 lDVA~vCLG~m 54 (100)
.|...+|||||
T Consensus 5 ~DLsLMvLGN~ 15 (44)
T PF07208_consen 5 TDLSLMVLGNM 15 (44)
T ss_dssp HHHHHHHHHHH
T ss_pred chhHHHHHHHH
Confidence 58899999998
No 39
>PRK12370 invasion protein regulator; Provisional
Probab=33.90 E-value=2.8e+02 Score=23.50 Aligned_cols=18 Identities=0% Similarity=-0.348 Sum_probs=10.5
Q ss_pred HHHHHHHhcchhhhhhhc
Q psy14933 76 VAALAIHLQLYVSDYSAA 93 (100)
Q Consensus 76 vA~lAi~LGm~dEA~~~a 93 (100)
++.+-.++|.++||+...
T Consensus 447 la~~l~~~G~~~eA~~~~ 464 (553)
T PRK12370 447 QVMFLSLKGKHELARKLT 464 (553)
T ss_pred HHHHHHhCCCHHHHHHHH
Confidence 444445667777776643
No 40
>TIGR00540 hemY_coli hemY protein. This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.
Probab=32.81 E-value=2.3e+02 Score=22.76 Aligned_cols=75 Identities=16% Similarity=0.056 Sum_probs=45.3
Q ss_pred HHHHHHhhcCCHHHHHHHhHhHHHH------HHH----HHHhhcccchH---HHHHHHHHhh--------CchHHHHHHH
Q psy14933 20 INFSYYLNTGDLDQAFKSIAFITRL------DVA----CICLGNMRDIQ---GIWTLRYAQA--------EPELEARVAA 78 (100)
Q Consensus 20 l~Fs~~Lt~GnmD~Afkaik~IkRl------DVA----~vCLG~m~~ar---~A~alR~A~~--------e~e~ea~vA~ 78 (100)
+-...|+..|+.++|.+.+..+.+. +.. ..-.|.+..+. +...+.++.+ +++.....+.
T Consensus 192 ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~ 271 (409)
T TIGR00540 192 LAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAE 271 (409)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHH
Confidence 4556778888888888777765511 111 33344453322 2334544443 2344556788
Q ss_pred HHHHhcchhhhhhhcC
Q psy14933 79 LAIHLQLYVSDYSAAD 94 (100)
Q Consensus 79 lAi~LGm~dEA~~~a~ 94 (100)
+-+..|.+++|+++..
T Consensus 272 ~l~~~g~~~~A~~~l~ 287 (409)
T TIGR00540 272 HLIDCDDHDSAQEIIF 287 (409)
T ss_pred HHHHCCChHHHHHHHH
Confidence 8999999999988653
No 41
>PF02291 TFIID-31kDa: Transcription initiation factor IID, 31kD subunit; InterPro: IPR003162 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription []. TAFII-31 protein is a transcriptional coactivator of the p53 protein [].; GO: 0006352 transcription initiation, DNA-dependent; PDB: 1TAF_A.
Probab=32.74 E-value=28 Score=25.29 Aligned_cols=28 Identities=18% Similarity=0.404 Sum_probs=20.4
Q ss_pred CCcccCHHHHHHHHHHHHHhhcCCHHHH
Q psy14933 7 GIECCDEVTRSAVINFSYYLNTGDLDQA 34 (100)
Q Consensus 7 Gle~~D~~tr~All~Fs~~Lt~GnmD~A 34 (100)
|+++.++.+...||+|.|.-+..=+++|
T Consensus 26 Gv~~yeprVv~qLLEfayRYt~~vL~DA 53 (129)
T PF02291_consen 26 GVTEYEPRVVNQLLEFAYRYTSDVLEDA 53 (129)
T ss_dssp T---B-THHHHHHHHHHHHHHHHHHHHH
T ss_pred CCcccCHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999998886655555
No 42
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=32.66 E-value=2.8e+02 Score=24.26 Aligned_cols=11 Identities=18% Similarity=0.480 Sum_probs=4.5
Q ss_pred hcCCHHHHHHH
Q psy14933 27 NTGDLDQAFKS 37 (100)
Q Consensus 27 t~GnmD~Afka 37 (100)
..|+.++|...
T Consensus 224 ~~g~~~eA~~~ 234 (656)
T PRK15174 224 AVGKYQEAIQT 234 (656)
T ss_pred HCCCHHHHHHH
Confidence 34444444333
No 43
>cd00737 endolysin_autolysin Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell walls. Similarly, bacteria produce autolysins to facilitate the biosynthesis of its cell wall hetropolymer peptidoglycan and cell division. Both endolysin and autolysin enzymes cleave the glycosidic beta 1,4-bonds between the N-acetylmuramic acid and the N-acetylglucosamine of the peptidoglycan.
Probab=32.03 E-value=41 Score=23.25 Aligned_cols=22 Identities=14% Similarity=0.354 Sum_probs=18.7
Q ss_pred ccCHHHHHHHHHHHHHhhcCCH
Q psy14933 10 CCDEVTRSAVINFSYYLNTGDL 31 (100)
Q Consensus 10 ~~D~~tr~All~Fs~~Lt~Gnm 31 (100)
..++....||.+|+|++-.|.+
T Consensus 70 ~l~~~~~dALvs~ayN~G~~~~ 91 (133)
T cd00737 70 PLTQNQFDALVSFAFNVGAGAF 91 (133)
T ss_pred CCCHHHHHHHHHhhhhcCcccc
Confidence 4678889999999999987764
No 44
>cd07979 TAF9 TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. The TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAFs orthologs and paralogs. Human TAF9 has a paralogue gene (TAF9L) whi
Probab=31.63 E-value=47 Score=23.39 Aligned_cols=29 Identities=28% Similarity=0.392 Sum_probs=24.4
Q ss_pred CCcccCHHHHHHHHHHHHHhhcCCHHHHH
Q psy14933 7 GIECCDEVTRSAVINFSYYLNTGDLDQAF 35 (100)
Q Consensus 7 Gle~~D~~tr~All~Fs~~Lt~GnmD~Af 35 (100)
|.+..++....+|++|.|..+..=..+|.
T Consensus 15 Gv~~~~~~v~~~Lle~~~ry~~~il~dA~ 43 (117)
T cd07979 15 GITEYEPRVINQLLEFAYRYTTDVLDDAK 43 (117)
T ss_pred CCCccCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 89999999999999999998875555444
No 45
>cd00735 bacteriophage_T4-like_lysozyme Bacteriophage T4-like lysozymes hydrolyse the beta-1,4-glycosidic bond between N-acetylmuramic acid (MurNAc) and N-acetylglucosamine (GlcNAc) in peptidoglycan heteropolymers of prokaryotic cell walls. Members include a variety of bacteriophages (T4, RB49, RB69, Aeh1) as well as Dictyostelium.
Probab=31.25 E-value=49 Score=24.57 Aligned_cols=33 Identities=12% Similarity=0.198 Sum_probs=22.8
Q ss_pred ccCHHHHHHHHHHHHHhhcCCHHHHHHHhHhHH
Q psy14933 10 CCDEVTRSAVINFSYYLNTGDLDQAFKSIAFIT 42 (100)
Q Consensus 10 ~~D~~tr~All~Fs~~Lt~GnmD~Afkaik~Ik 42 (100)
..++....||.+|.|++-.|++-.-=..+|.|.
T Consensus 92 ~l~~~~~dALvs~~yNvG~~~~~~fstllk~ln 124 (164)
T cd00735 92 KLNASRQMALENMVFQMGVGGVAKFKNSLRAMA 124 (164)
T ss_pred CCCHHHHHHHHHHHHHcCcccccccchHHHHHH
Confidence 467888999999999998885543222344444
No 46
>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.
Probab=31.09 E-value=3e+02 Score=22.55 Aligned_cols=19 Identities=21% Similarity=0.065 Sum_probs=10.8
Q ss_pred HHHHHHHHhcchhhhhhhc
Q psy14933 75 RVAALAIHLQLYVSDYSAA 93 (100)
Q Consensus 75 ~vA~lAi~LGm~dEA~~~a 93 (100)
..+.+....|.+++|+++.
T Consensus 674 ~l~~~~~~~~~~~~A~~~~ 692 (899)
T TIGR02917 674 GLAQLLLAAKRTESAKKIA 692 (899)
T ss_pred HHHHHHHHcCCHHHHHHHH
Confidence 3555555666666665543
No 47
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=30.71 E-value=2.9e+02 Score=22.28 Aligned_cols=75 Identities=17% Similarity=0.064 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHhhcCCHHHHHHHhHhHH---------HHHHHHHHhhcccch-HHHHHHHHHhhC-chHH-H---HHHHH
Q psy14933 15 TRSAVINFSYYLNTGDLDQAFKSIAFIT---------RLDVACICLGNMRDI-QGIWTLRYAQAE-PELE-A---RVAAL 79 (100)
Q Consensus 15 tr~All~Fs~~Lt~GnmD~Afkaik~Ik---------RlDVA~vCLG~m~~a-r~A~alR~A~~e-~e~e-a---~vA~l 79 (100)
+.++++. +..||.++|.|....-. .+=.|.. -...|+. ++-..+.+|.+. |+.. + ..+.+
T Consensus 88 ~~~gl~a----~~eGd~~~A~k~l~~~~~~~~~p~l~~llaA~a-A~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l 162 (398)
T PRK10747 88 TEQALLK----LAEGDYQQVEKLMTRNADHAEQPVVNYLLAAEA-AQQRGDEARANQHLERAAELADNDQLPVEITRVRI 162 (398)
T ss_pred HHHHHHH----HhCCCHHHHHHHHHHHHhcccchHHHHHHHHHH-HHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHH
Confidence 4444444 45899999998777433 2222222 2444544 344557777664 3322 1 33778
Q ss_pred HHHhcchhhhhhhcC
Q psy14933 80 AIHLQLYVSDYSAAD 94 (100)
Q Consensus 80 Ai~LGm~dEA~~~a~ 94 (100)
+++.|.+++|...++
T Consensus 163 ~l~~g~~~~Al~~l~ 177 (398)
T PRK10747 163 QLARNENHAARHGVD 177 (398)
T ss_pred HHHCCCHHHHHHHHH
Confidence 899999999987653
No 48
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=30.65 E-value=65 Score=17.88 Aligned_cols=18 Identities=22% Similarity=0.222 Sum_probs=13.4
Q ss_pred HHHhhcCCHHHHHHHhHh
Q psy14933 23 SYYLNTGDLDQAFKSIAF 40 (100)
Q Consensus 23 s~~Lt~GnmD~Afkaik~ 40 (100)
..|...|+.|+|.+..+-
T Consensus 9 ~~~~~~G~~~~A~~~~~~ 26 (44)
T PF13428_consen 9 RAYRRLGQPDEAERLLRR 26 (44)
T ss_pred HHHHHcCCHHHHHHHHHH
Confidence 467788888888777653
No 49
>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.
Probab=29.96 E-value=3.1e+02 Score=22.43 Aligned_cols=16 Identities=19% Similarity=0.169 Sum_probs=8.4
Q ss_pred HHHHHHHhcchhhhhh
Q psy14933 76 VAALAIHLQLYVSDYS 91 (100)
Q Consensus 76 vA~lAi~LGm~dEA~~ 91 (100)
++.+...+|.+++|++
T Consensus 776 la~~~~~~g~~~~A~~ 791 (899)
T TIGR02917 776 LAELYLAQKDYDKAIK 791 (899)
T ss_pred HHHHHHHCcCHHHHHH
Confidence 4444555555555544
No 50
>smart00544 MA3 Domain in DAP-5, eIF4G, MA-3 and other proteins. Highly alpha-helical. May contain repeats and/or regions similar to MIF4G domains Ponting (TIBS) "Novel eIF4G domain homologues" in press
Probab=28.36 E-value=49 Score=21.69 Aligned_cols=18 Identities=33% Similarity=0.637 Sum_probs=15.4
Q ss_pred HhhcCCHHHHHHHhHhHH
Q psy14933 25 YLNTGDLDQAFKSIAFIT 42 (100)
Q Consensus 25 ~Lt~GnmD~Afkaik~Ik 42 (100)
|++.||.+||+++++-++
T Consensus 12 y~~~~D~~ea~~~l~~L~ 29 (113)
T smart00544 12 YLSSGDTDEAVHCLLELK 29 (113)
T ss_pred HHHcCCHHHHHHHHHHhC
Confidence 467899999999998766
No 51
>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A ....
Probab=27.48 E-value=94 Score=15.65 Aligned_cols=18 Identities=22% Similarity=0.372 Sum_probs=14.1
Q ss_pred HHhhcCCHHHHHHHhHhH
Q psy14933 24 YYLNTGDLDQAFKSIAFI 41 (100)
Q Consensus 24 ~~Lt~GnmD~Afkaik~I 41 (100)
.|...|+.++|.++.+..
T Consensus 10 ~y~~~~~~~~A~~~~~~a 27 (34)
T PF13181_consen 10 IYEQLGDYEEALEYFEKA 27 (34)
T ss_dssp HHHHTTSHHHHHHHHHHH
T ss_pred HHHHcCCHHHHHHHHHHH
Confidence 466789999999887753
No 52
>PF00959 Phage_lysozyme: Phage lysozyme; InterPro: IPR002196 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycoside hydrolase family 24 GH24 from CAZY comprises enzymes with only one known activity; lysozyme (3.2.1.17 from EC). This entry includes Bacteriophage lambda lysozyme and Escherichia coli endolysin []. Lysozyme helps to release mature phage particles from the cell wall by breaking down the peptidoglycan. The enzyme hydrolyses the 1,4-beta linkages between N-acetyl-D-glucosamine and N-acetylmuramic acid in peptidoglycan heteropolymers of prokaryotic cell walls. E. coli endolysin also functions in bacterial cell lysis and acts as a transglycosylase. The Bacteriophage T4 lysozyme structure contains 2 domains, the interface between which forms the active-site cleft. The N terminus of the 2 domains undergoes a 'hinge-bending' motion about an axis passing through the molecular waist [, ]. This mobility is thought to be important in allowing access of substrates to the enzyme active site.; GO: 0003796 lysozyme activity, 0009253 peptidoglycan catabolic process, 0016998 cell wall macromolecule catabolic process; PDB: 1XJT_A 1XJU_A 1K28_A 1WTH_A 2Z6B_A 1AM7_C 3D3D_B 1D9U_B 2ANX_A 2ANV_B ....
Probab=27.37 E-value=64 Score=21.16 Aligned_cols=21 Identities=19% Similarity=0.453 Sum_probs=18.0
Q ss_pred cccCHHHHHHHHHHHHHhhcC
Q psy14933 9 ECCDEVTRSAVINFSYYLNTG 29 (100)
Q Consensus 9 e~~D~~tr~All~Fs~~Lt~G 29 (100)
.+.++....|+++|.|++-.+
T Consensus 46 ~~l~~~~~dal~s~~yN~G~~ 66 (110)
T PF00959_consen 46 DDLNQNQFDALVSFAYNVGVG 66 (110)
T ss_dssp HHSSHHHHHHHHHHHHHHHHH
T ss_pred CCcCHHHHHHHHhcccccCcc
Confidence 567899999999999999754
No 53
>KOG0292|consensus
Probab=27.34 E-value=40 Score=32.64 Aligned_cols=37 Identities=19% Similarity=0.443 Sum_probs=32.3
Q ss_pred HHHHHhhcCCHHHHHHHhHhHH----------------HHHHHHHHhhcccch
Q psy14933 21 NFSYYLNTGDLDQAFKSIAFIT----------------RLDVACICLGNMRDI 57 (100)
Q Consensus 21 ~Fs~~Lt~GnmD~Afkaik~Ik----------------RlDVA~vCLG~m~~a 57 (100)
-|+.-|..||+|.|..+-|.+. +-++|++|.-+.++-
T Consensus 649 RF~LaLe~gnle~ale~akkldd~d~w~rLge~Al~qgn~~IaEm~yQ~~knf 701 (1202)
T KOG0292|consen 649 RFELALECGNLEVALEAAKKLDDKDVWERLGEEALRQGNHQIAEMCYQRTKNF 701 (1202)
T ss_pred heeeehhcCCHHHHHHHHHhcCcHHHHHHHHHHHHHhcchHHHHHHHHHhhhh
Confidence 3889999999999999999776 778999999887765
No 54
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=27.20 E-value=3.4e+02 Score=25.65 Aligned_cols=17 Identities=12% Similarity=-0.093 Sum_probs=9.3
Q ss_pred HHHHHHHhcchhhhhhh
Q psy14933 76 VAALAIHLQLYVSDYSA 92 (100)
Q Consensus 76 vA~lAi~LGm~dEA~~~ 92 (100)
+|.+..++|.++||+..
T Consensus 615 LA~~l~~lG~~deA~~~ 631 (987)
T PRK09782 615 RATIYRQRHNVPAAVSD 631 (987)
T ss_pred HHHHHHHCCCHHHHHHH
Confidence 45555555666655543
No 55
>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C
Probab=26.91 E-value=1.1e+02 Score=16.31 Aligned_cols=68 Identities=16% Similarity=0.149 Sum_probs=38.8
Q ss_pred HhhcCCHHHHHHHhHhHH---------HHHHHHHHhhcccch-HHHHHHHHHhhC-c---hHHHHHHHHHHHhcchhhhh
Q psy14933 25 YLNTGDLDQAFKSIAFIT---------RLDVACICLGNMRDI-QGIWTLRYAQAE-P---ELEARVAALAIHLQLYVSDY 90 (100)
Q Consensus 25 ~Lt~GnmD~Afkaik~Ik---------RlDVA~vCLG~m~~a-r~A~alR~A~~e-~---e~ea~vA~lAi~LGm~dEA~ 90 (100)
+...|+.++|.+..+.+- ....+.+ +-+.++. .+...+.++.+. | +.-..++.+....|-+++|.
T Consensus 10 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~ 88 (100)
T cd00189 10 YYKLGDYDEALEYYEKALELDPDNADAYYNLAAA-YYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLGKYEEAL 88 (100)
T ss_pred HHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHhHHHHH
Confidence 455789999888776543 2223332 3233333 333345555432 2 23345777778888888887
Q ss_pred hhc
Q psy14933 91 SAA 93 (100)
Q Consensus 91 ~~a 93 (100)
+..
T Consensus 89 ~~~ 91 (100)
T cd00189 89 EAY 91 (100)
T ss_pred HHH
Confidence 654
No 56
>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala. N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].
Probab=26.52 E-value=4.4e+02 Score=23.04 Aligned_cols=70 Identities=16% Similarity=0.168 Sum_probs=50.7
Q ss_pred HhhcCCHHHHHHHhH-hHH----HHH---HHHHHhhcccchH-HHHHHHHHhhCch----HHHHHHHHHHHhcchhhhhh
Q psy14933 25 YLNTGDLDQAFKSIA-FIT----RLD---VACICLGNMRDIQ-GIWTLRYAQAEPE----LEARVAALAIHLQLYVSDYS 91 (100)
Q Consensus 25 ~Lt~GnmD~Afkaik-~Ik----RlD---VA~vCLG~m~~ar-~A~alR~A~~e~e----~ea~vA~lAi~LGm~dEA~~ 91 (100)
|--.|+.++|..-|. .|. -+| +=.-++-|+|+.. ++..+.+|++=.. ...+.+---+.-|++++|++
T Consensus 204 yd~~g~~~~Al~~Id~aI~htPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~ 283 (517)
T PF12569_consen 204 YDYLGDYEKALEYIDKAIEHTPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLADRYINSKCAKYLLRAGRIEEAEK 283 (517)
T ss_pred HHHhCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHH
Confidence 346899999988887 455 122 2334688888875 4566888886431 46788889999999999999
Q ss_pred hcC
Q psy14933 92 AAD 94 (100)
Q Consensus 92 ~a~ 94 (100)
++.
T Consensus 284 ~~~ 286 (517)
T PF12569_consen 284 TAS 286 (517)
T ss_pred HHH
Confidence 864
No 57
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=25.80 E-value=69 Score=27.75 Aligned_cols=73 Identities=18% Similarity=0.184 Sum_probs=52.9
Q ss_pred HHHHHHhhcCCHHHHHHHhHhHH-----------HHHHHHHHhhcccchH---HHHH--------HHHHhhCchHHHHHH
Q psy14933 20 INFSYYLNTGDLDQAFKSIAFIT-----------RLDVACICLGNMRDIQ---GIWT--------LRYAQAEPELEARVA 77 (100)
Q Consensus 20 l~Fs~~Lt~GnmD~Afkaik~Ik-----------RlDVA~vCLG~m~~ar---~A~a--------lR~A~~e~e~ea~vA 77 (100)
|---+|+..|+.++.++-+..+. ||.- ..|-|=|..++ ++.. =|+-+++|+.-..+|
T Consensus 192 La~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~-~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a 270 (400)
T COG3071 192 LALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQ-QAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYA 270 (400)
T ss_pred HHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHH-HHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHH
Confidence 44568999999999988887666 4432 34665555443 3333 356677888889999
Q ss_pred HHHHHhcchhhhhhhc
Q psy14933 78 ALAIHLQLYVSDYSAA 93 (100)
Q Consensus 78 ~lAi~LGm~dEA~~~a 93 (100)
.=.+++|..|||+++-
T Consensus 271 ~~li~l~~~~~A~~~i 286 (400)
T COG3071 271 ERLIRLGDHDEAQEII 286 (400)
T ss_pred HHHHHcCChHHHHHHH
Confidence 9999999999999874
No 58
>PF13877 RPAP3_C: Potential Monad-binding region of RPAP3
Probab=25.40 E-value=1e+02 Score=19.92 Aligned_cols=43 Identities=16% Similarity=0.277 Sum_probs=29.6
Q ss_pred CHHHHHHHHH-HHHHhhcCCHHHHHHHhHhHH---HHHHHHHHhhcc
Q psy14933 12 DEVTRSAVIN-FSYYLNTGDLDQAFKSIAFIT---RLDVACICLGNM 54 (100)
Q Consensus 12 D~~tr~All~-Fs~~Lt~GnmD~Afkaik~Ik---RlDVA~vCLG~m 54 (100)
+.+.-..++. +.+++...+.+.+++.++.+. |.|++..+|++-
T Consensus 45 ~~~~L~~il~~l~~~~~~~~~~~i~~~L~~L~~~~RF~l~~~fl~~~ 91 (94)
T PF13877_consen 45 EPEFLSEILEALNEHFIPEDPEFIFEILEALSKVKRFDLAVMFLSSS 91 (94)
T ss_pred CHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcCCCCHHHHHHhcCHh
Confidence 3334333333 456677778888888777666 999999998763
No 59
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=25.27 E-value=3.8e+02 Score=25.35 Aligned_cols=70 Identities=11% Similarity=-0.051 Sum_probs=49.3
Q ss_pred HHHHhhcCCHHHHHHHhHhHH---------HHHHHHHHhhcccchHHHHHHHH-Hh-hCchHHHHHHHHHHHhcchhhhh
Q psy14933 22 FSYYLNTGDLDQAFKSIAFIT---------RLDVACICLGNMRDIQGIWTLRY-AQ-AEPELEARVAALAIHLQLYVSDY 90 (100)
Q Consensus 22 Fs~~Lt~GnmD~Afkaik~Ik---------RlDVA~vCLG~m~~ar~A~alR~-A~-~e~e~ea~vA~lAi~LGm~dEA~ 90 (100)
...|+-.|+.++|++.++.+. +++++.+=+++++. ..+.++.+ .. ++++.-..++-.-+++|-.++|+
T Consensus 189 ~rlY~~l~dw~~Ai~lL~~L~k~~pl~~~~~~~L~~ay~q~l~~-~~a~al~~~~lk~d~~l~~ala~~yi~~G~~~~A~ 267 (987)
T PRK09782 189 LQRAIYLKQWSQADTLYNEARQQNTLSAAERRQWFDVLLAGQLD-DRLLALQSQGIFTDPQSRITYATALAYRGEKARLQ 267 (987)
T ss_pred HHHHHHHhCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhhCH-HHHHHHhchhcccCHHHHHHHHHHHHHCCCHHHHH
Confidence 668889999999999998655 67777755565677 55555422 11 22334456778899999999998
Q ss_pred hh
Q psy14933 91 SA 92 (100)
Q Consensus 91 ~~ 92 (100)
++
T Consensus 268 ~~ 269 (987)
T PRK09782 268 HY 269 (987)
T ss_pred HH
Confidence 64
No 60
>PF04505 Dispanin: Interferon-induced transmembrane protein; InterPro: IPR007593 This family includes the human leukocyte antigen CD225, which is an interferon inducible transmembrane protein, and is associated with interferon induced cell growth suppression [].; GO: 0009607 response to biotic stimulus, 0016021 integral to membrane
Probab=25.23 E-value=1.4e+02 Score=19.63 Aligned_cols=27 Identities=19% Similarity=0.341 Sum_probs=22.0
Q ss_pred hhcCCHHHHHHHhHhHHHHHHHHHHhh
Q psy14933 26 LNTGDLDQAFKSIAFITRLDVACICLG 52 (100)
Q Consensus 26 Lt~GnmD~Afkaik~IkRlDVA~vCLG 52 (100)
...||+++|.++=|.-+++-+..+.+|
T Consensus 48 ~~~Gd~~~A~~aS~~Ak~~~~ia~~~g 74 (82)
T PF04505_consen 48 YAAGDYEGARRASRKAKKWSIIAIIIG 74 (82)
T ss_pred HHCCCHHHHHHHHHHhHHHHHHHHHHH
Confidence 357999999999988888887777765
No 61
>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.
Probab=25.00 E-value=3.1e+02 Score=20.71 Aligned_cols=33 Identities=21% Similarity=0.369 Sum_probs=15.6
Q ss_pred HhhcCCHHHHHHHhHhHH--------HHHHHHHHhhcccch
Q psy14933 25 YLNTGDLDQAFKSIAFIT--------RLDVACICLGNMRDI 57 (100)
Q Consensus 25 ~Lt~GnmD~Afkaik~Ik--------RlDVA~vCLG~m~~a 57 (100)
|+..||.++|.+-.|.|. =--.-.+||-.+|+.
T Consensus 54 ~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~D~ 94 (160)
T PF09613_consen 54 HIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALGDP 94 (160)
T ss_pred HHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcCCh
Confidence 444455555555444444 112334555555554
No 62
>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models. The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding
Probab=24.79 E-value=91 Score=15.81 Aligned_cols=20 Identities=5% Similarity=-0.258 Sum_probs=16.0
Q ss_pred HHHHHHHHhcchhhhhhhcC
Q psy14933 75 RVAALAIHLQLYVSDYSAAD 94 (100)
Q Consensus 75 ~vA~lAi~LGm~dEA~~~a~ 94 (100)
.+|.+..+.|.+++|+.+.+
T Consensus 6 ~la~~~~~~G~~~eA~~~l~ 25 (26)
T PF07721_consen 6 ALARALLAQGDPDEAERLLR 25 (26)
T ss_pred HHHHHHHHcCCHHHHHHHHh
Confidence 46778889999999987653
No 63
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=24.77 E-value=4.6e+02 Score=23.24 Aligned_cols=68 Identities=13% Similarity=0.017 Sum_probs=44.4
Q ss_pred HhhcCCHHHHHHHhHhHHHH-----H-----HHHHHhhcccchHHHHHHHHHhhCch--------HHHHHHHHHHHhcch
Q psy14933 25 YLNTGDLDQAFKSIAFITRL-----D-----VACICLGNMRDIQGIWTLRYAQAEPE--------LEARVAALAIHLQLY 86 (100)
Q Consensus 25 ~Lt~GnmD~Afkaik~IkRl-----D-----VA~vCLG~m~~ar~A~alR~A~~e~e--------~ea~vA~lAi~LGm~ 86 (100)
.+..|++++|.+..+.+.+. + +|.+.+..=.-..+...++++.+.++ ....++..-.+.|.+
T Consensus 247 Ll~~g~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~ 326 (765)
T PRK10049 247 LLARDRYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENY 326 (765)
T ss_pred HHHhhhHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccH
Confidence 35779999999888877632 1 66666654334444555777755431 234455556788999
Q ss_pred hhhhhh
Q psy14933 87 VSDYSA 92 (100)
Q Consensus 87 dEA~~~ 92 (100)
++|.++
T Consensus 327 ~eA~~~ 332 (765)
T PRK10049 327 PGALTV 332 (765)
T ss_pred HHHHHH
Confidence 999876
No 64
>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.
Probab=23.63 E-value=3.2e+02 Score=20.52 Aligned_cols=69 Identities=14% Similarity=0.049 Sum_probs=36.2
Q ss_pred HHhhcCCHHHHHHHhHhHH---------HHHHHHHHhhcccch-HHHHHHHHHhhC----chHHH----HHHHHHHHhcc
Q psy14933 24 YYLNTGDLDQAFKSIAFIT---------RLDVACICLGNMRDI-QGIWTLRYAQAE----PELEA----RVAALAIHLQL 85 (100)
Q Consensus 24 ~~Lt~GnmD~Afkaik~Ik---------RlDVA~vCLG~m~~a-r~A~alR~A~~e----~e~ea----~vA~lAi~LGm 85 (100)
.++..|+.++|.+..+-.- ..-++.++.. .|+. .+...++++... ++... ..|.+..+.|.
T Consensus 123 ~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~-~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~ 201 (355)
T cd05804 123 GLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEM-QGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGD 201 (355)
T ss_pred HHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHH-cCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCC
Confidence 3466788888777665332 2223333322 3332 233344444432 22211 36777888888
Q ss_pred hhhhhhhc
Q psy14933 86 YVSDYSAA 93 (100)
Q Consensus 86 ~dEA~~~a 93 (100)
+++|..+-
T Consensus 202 ~~~A~~~~ 209 (355)
T cd05804 202 YEAALAIY 209 (355)
T ss_pred HHHHHHHH
Confidence 88887654
No 65
>KOG0567|consensus
Probab=23.07 E-value=56 Score=27.20 Aligned_cols=25 Identities=20% Similarity=0.190 Sum_probs=21.2
Q ss_pred HHHHHhhcccchHHHHHHHHHhhCc
Q psy14933 46 VACICLGNMRDIQGIWTLRYAQAEP 70 (100)
Q Consensus 46 VA~vCLG~m~~ar~A~alR~A~~e~ 70 (100)
=+.+|||.|++..+...+.+...+.
T Consensus 55 e~ay~LgQ~~~~~Av~~l~~vl~de 79 (289)
T KOG0567|consen 55 ELAYVLGQMQDEDAVPVLVEVLLDE 79 (289)
T ss_pred chhhhhhhhccchhhHHHHHHhccc
Confidence 3568999999999999999888764
No 66
>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]
Probab=22.97 E-value=96 Score=25.28 Aligned_cols=33 Identities=24% Similarity=0.136 Sum_probs=25.8
Q ss_pred HHHHHHhhCc------hHHHHHHHHHHHhcchhhhhhhc
Q psy14933 61 WTLRYAQAEP------ELEARVAALAIHLQLYVSDYSAA 93 (100)
Q Consensus 61 ~alR~A~~e~------e~ea~vA~lAi~LGm~dEA~~~a 93 (100)
|.+|||.++- ..--|+|.-+..||-+.||+.+=
T Consensus 74 R~~Rea~~~~~~ApTvqnr~rLa~al~elGr~~EA~~hy 112 (251)
T COG4700 74 RHLREATEELAIAPTVQNRYRLANALAELGRYHEAVPHY 112 (251)
T ss_pred HHHHHHHHHHhhchhHHHHHHHHHHHHHhhhhhhhHHHH
Confidence 5688888773 23567999999999999998763
No 67
>PF04685 DUF608: Protein of unknown function, DUF608; InterPro: IPR006775 This domain is found in non-lysosomal glucosylceramidases that catalyze the conversion of glucosylceramide to free glucose and ceramide []. It is involved in sphingomyelin generation and prevention of glycolipid accumulation and may also catalyze the hydrolysis of bile acid 3-O-glucosides, however, the relevance of such activity is unclear in vivo []. ; GO: 0004348 glucosylceramidase activity, 0006665 sphingolipid metabolic process, 0016021 integral to membrane; PDB: 1V7V_A 1V7W_A 1V7X_A.
Probab=22.91 E-value=28 Score=28.69 Aligned_cols=64 Identities=20% Similarity=0.253 Sum_probs=16.8
Q ss_pred HHHHHHHhHhHHHHHHHHHHhhcccchHHHHHHHHHh----hCch----HHHHHHHHHHHhcchhhhhhhcC
Q psy14933 31 LDQAFKSIAFITRLDVACICLGNMRDIQGIWTLRYAQ----AEPE----LEARVAALAIHLQLYVSDYSAAD 94 (100)
Q Consensus 31 mD~Afkaik~IkRlDVA~vCLG~m~~ar~A~alR~A~----~e~e----~ea~vA~lAi~LGm~dEA~~~a~ 94 (100)
-|..-++++.|-+..|-...=|.+|-.-+...-.+-. +..| .+-.+|.+.|+.||.+||.++|.
T Consensus 252 ~e~v~sAL~sI~~~N~~~~~~~~~G~~n~~~p~g~~~~~~~q~~evW~G~~y~~Aa~mi~~G~~~e~~~~~~ 323 (365)
T PF04685_consen 252 EEKVKSALRSIYEYNVKYFLGGEMGAVNGVWPDGKPDTSSPQSNEVWTGVEYAVAAHMIQEGMVEEGLEIAK 323 (365)
T ss_dssp HHHHHHHHHHHHHHHEE-S-BTTTBGGGGS-T----------------------------------------
T ss_pred HHHHHHHHHHHHHhcCeEccCCCCcEEEeeeccccccccccccccccccccccccccccccccccccccccc
Confidence 3666667777766666644445555444433322211 1111 36679999999999999999875
No 68
>PF01997 Translin: Translin family; InterPro: IPR002848 Translins are DNA-binding proteins that specifically recognise consensus sequences at the breakpoint junctions in chromosomal translocations, mostly involving immunoglobulin (Ig)/T-cell receptor gene segments. They seem to recognise single-stranded DNA ends generated by staggered breaks occuring at recombination hot spots []. Translin folds into an alpha-alpha superhelix, consisting of two curved layers of alpha/alpha topology [, ].; GO: 0043565 sequence-specific DNA binding; PDB: 3QB5_K 3PJA_L 1J1J_D 3RIU_C 3AXJ_B 4DG7_C 2QVA_C 2QRX_A 1KEY_C.
Probab=22.40 E-value=95 Score=23.17 Aligned_cols=40 Identities=20% Similarity=0.365 Sum_probs=27.7
Q ss_pred HhhcCCHHHHHHHhHhHH-----------------------HHHHHHHHhhcccchHHHHHHH
Q psy14933 25 YLNTGDLDQAFKSIAFIT-----------------------RLDVACICLGNMRDIQGIWTLR 64 (100)
Q Consensus 25 ~Lt~GnmD~Afkaik~Ik-----------------------RlDVA~vCLG~m~~ar~A~alR 64 (100)
.++.||.+.+++....++ ++||.+.++-|+++.-=...+|
T Consensus 136 ~v~~gd~~~~~~i~~f~~~l~~~~~~l~~~~~~~~n~~LrkK~d~~k~~l~KvE~~~y~l~vR 198 (200)
T PF01997_consen 136 SVTKGDYERPEKILEFMRELYSGFQLLNLPDAIVKNDELRKKFDVLKYSLKKVEEVVYDLSVR 198 (200)
T ss_dssp HHHTT-SSHHHHHHHHHHHHHHHHHTSGGTTGS--SHHHHHHHHCHHHHHHHHHHHHHHHHHH
T ss_pred HhhccchhhHHHHHHHHHHHHHHHHhCcchhhcccchhHHHHHHHHHHHHHHHHHHhHhhhhc
Confidence 467788888888777666 7788888887777765555544
No 69
>KOG3785|consensus
Probab=22.03 E-value=1.1e+02 Score=27.21 Aligned_cols=47 Identities=19% Similarity=0.226 Sum_probs=35.6
Q ss_pred HHHhhcccchHHHHHHHHHhhC---c--hHHHHHHHHHHHhcchhhhhhhcC
Q psy14933 48 CICLGNMRDIQGIWTLRYAQAE---P--ELEARVAALAIHLQLYVSDYSAAD 94 (100)
Q Consensus 48 ~vCLG~m~~ar~A~alR~A~~e---~--e~ea~vA~lAi~LGm~dEA~~~a~ 94 (100)
..|-=|+|+-.-|...-++..+ + |+...+|.--.-||||.||++++.
T Consensus 64 a~C~fhLgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y~eA~~~~~ 115 (557)
T KOG3785|consen 64 AHCYFHLGDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQYIEAKSIAE 115 (557)
T ss_pred HHHHHhhccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHHHHHHHHHh
Confidence 4788888888766666555433 1 567888888889999999999874
No 70
>PF12419 DUF3670: SNF2 Helicase protein ; InterPro: IPR022138 This domain family is found in bacteria, archaea and eukaryotes, and is approximately 140 amino acids in length. The family is found in association with PF00271 from PFAM, PF00176 from PFAM. Most of the proteins in this family are annotated as SNF2 helicases but there is little accompanying literature to confirm this.
Probab=21.73 E-value=21 Score=25.46 Aligned_cols=17 Identities=24% Similarity=0.464 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHhhcCCH
Q psy14933 15 TRSAVINFSYYLNTGDL 31 (100)
Q Consensus 15 tr~All~Fs~~Lt~Gnm 31 (100)
+.++|++|+|.+++|+-
T Consensus 66 gl~~l~~f~W~lalGd~ 82 (141)
T PF12419_consen 66 GLDQLLDFDWELALGDE 82 (141)
T ss_pred ChHHHhcceEEEEECCE
Confidence 45689999999999996
No 71
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=21.68 E-value=3.7e+02 Score=20.45 Aligned_cols=66 Identities=20% Similarity=0.149 Sum_probs=35.1
Q ss_pred hhcCCHHHHHHHhHhHH---------HHHHHHHHhhcccc-hHHHHHHHHHhhC-chH--H--HHHHHHHHHhcchhhhh
Q psy14933 26 LNTGDLDQAFKSIAFIT---------RLDVACICLGNMRD-IQGIWTLRYAQAE-PEL--E--ARVAALAIHLQLYVSDY 90 (100)
Q Consensus 26 Lt~GnmD~Afkaik~Ik---------RlDVA~vCLG~m~~-ar~A~alR~A~~e-~e~--e--a~vA~lAi~LGm~dEA~ 90 (100)
+..|+.++|.+..+..- ++-++.+. -+.|+ ..+...++++.+. |.. + ..++.+-..+|.+++|.
T Consensus 191 ~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~-~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~ 269 (389)
T PRK11788 191 LARGDLDAARALLKKALAADPQCVRASILLGDLA-LAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGL 269 (389)
T ss_pred HhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHH-HHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHH
Confidence 45678888777665432 22233332 23444 3445556666653 321 1 23455556778888776
Q ss_pred hh
Q psy14933 91 SA 92 (100)
Q Consensus 91 ~~ 92 (100)
+.
T Consensus 270 ~~ 271 (389)
T PRK11788 270 EF 271 (389)
T ss_pred HH
Confidence 64
No 72
>KOG0553|consensus
Probab=20.91 E-value=1.2e+02 Score=25.45 Aligned_cols=41 Identities=24% Similarity=0.410 Sum_probs=30.0
Q ss_pred HhhcCCHHHHHHHhH-hHH----------HHHHHHHHhhcccchHHHHHHHHHh
Q psy14933 25 YLNTGDLDQAFKSIA-FIT----------RLDVACICLGNMRDIQGIWTLRYAQ 67 (100)
Q Consensus 25 ~Lt~GnmD~Afkaik-~Ik----------RlDVA~vCLG~m~~ar~A~alR~A~ 67 (100)
|...|.++.|.+.-+ .|+ ||=+|.+|+|+...|- ++-++|.
T Consensus 125 y~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~A~--~aykKaL 176 (304)
T KOG0553|consen 125 YSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEEAI--EAYKKAL 176 (304)
T ss_pred HHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHHHH--HHHHhhh
Confidence 567888888887655 333 9999999999987764 4455555
No 73
>PF12870 Lumazine_bd: Lumazine-binding domain; InterPro: IPR024267 This entry represents a lumazine-binding domain found in a family of putative lipoproteins from bacteria. Lumazine is a fluorescent accessory protein having 6,7-dimethyl-8-(1'-D-ribityl) lumazine (DMRL) as its authentic chromophore; it modulates the emission of bacterial luciferase to shorter wavelengths with increasing luminous strength.; PDB: 3K7C_C.
Probab=20.74 E-value=1.4e+02 Score=18.41 Aligned_cols=27 Identities=26% Similarity=0.436 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHhhcCCHHHHHHHhH
Q psy14933 13 EVTRSAVINFSYYLNTGDLDQAFKSIA 39 (100)
Q Consensus 13 ~~tr~All~Fs~~Lt~GnmD~Afkaik 39 (100)
..-.+++-+|--.|..||.++|++.+-
T Consensus 7 ~~P~~~v~~f~~al~~gd~~~a~~~~~ 33 (111)
T PF12870_consen 7 STPEEVVKNFFDALKNGDYEKAYAYLS 33 (111)
T ss_dssp --HHHHHHHHHHHHCTT-HHHHHHTB-
T ss_pred CCHHHHHHHHHHHHHcCCHHHHHHhhC
Confidence 344567889999999999999987654
No 74
>COG3772 Phage-related lysozyme (muraminidase) [General function prediction only]
Probab=20.64 E-value=81 Score=23.69 Aligned_cols=23 Identities=17% Similarity=0.417 Sum_probs=18.7
Q ss_pred cCHHHHHHHHHHHHHhhcCCHHH
Q psy14933 11 CDEVTRSAVINFSYYLNTGDLDQ 33 (100)
Q Consensus 11 ~D~~tr~All~Fs~~Lt~GnmD~ 33 (100)
..+...+||..|+|++-.|++-.
T Consensus 80 l~~~q~dalvSf~fNiG~~~~~~ 102 (152)
T COG3772 80 LTQPQFDALVSFAYNIGAGNFFS 102 (152)
T ss_pred CChhHHHHHHHHHHhhccchhhh
Confidence 44558999999999999887654
No 75
>PRK14562 haloacid dehalogenase superfamily protein; Provisional
Probab=20.41 E-value=2.8e+02 Score=21.11 Aligned_cols=32 Identities=28% Similarity=0.423 Sum_probs=26.0
Q ss_pred HhhcCCHHHHHHHhHhHH---------------------HHHHHHHHhhcccc
Q psy14933 25 YLNTGDLDQAFKSIAFIT---------------------RLDVACICLGNMRD 56 (100)
Q Consensus 25 ~Lt~GnmD~Afkaik~Ik---------------------RlDVA~vCLG~m~~ 56 (100)
.++.||.+.|.+....++ +.||++.++-+...
T Consensus 132 ~l~~gd~~~~~~i~~fm~~ly~~~~~l~~~~~~~~~LRkK~D~~r~~lekt~~ 184 (204)
T PRK14562 132 LLRKGEIEEAEKLLEIMEEIYEFLMTLDYPDAITPGLRRKQDVARSLLERTRG 184 (204)
T ss_pred HHhcCChHHHHHHHHHHHHHHHHHHhcCCCCcccchhhHHHHHHHHHHHHHHH
Confidence 467899999988877666 88999999988843
No 76
>PRK12370 invasion protein regulator; Provisional
Probab=20.08 E-value=3.8e+02 Score=22.66 Aligned_cols=16 Identities=0% Similarity=-0.297 Sum_probs=8.8
Q ss_pred HHHHHhcchhhhhhhc
Q psy14933 78 ALAIHLQLYVSDYSAA 93 (100)
Q Consensus 78 ~lAi~LGm~dEA~~~a 93 (100)
.+....|.++||+..+
T Consensus 414 ~~~~~~g~~eeA~~~~ 429 (553)
T PRK12370 414 WITYYHTGIDDAIRLG 429 (553)
T ss_pred HHHHhccCHHHHHHHH
Confidence 3455566666665543
No 77
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=20.02 E-value=97 Score=15.22 Aligned_cols=18 Identities=22% Similarity=0.106 Sum_probs=13.6
Q ss_pred HHHHHHHHhcchhhhhhh
Q psy14933 75 RVAALAIHLQLYVSDYSA 92 (100)
Q Consensus 75 ~vA~lAi~LGm~dEA~~~ 92 (100)
++|.+-..+|.+++|.++
T Consensus 5 ~~a~~~~~~g~~~~A~~~ 22 (33)
T PF13174_consen 5 RLARCYYKLGDYDEAIEY 22 (33)
T ss_dssp HHHHHHHHHCHHHHHHHH
T ss_pred HHHHHHHHccCHHHHHHH
Confidence 467777788888888764
Done!