Query 039084
Match_columns 87
No_of_seqs 102 out of 206
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 06:10:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039084.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039084hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02592 ent-copalyl diphospha 100.0 3E-39 6.4E-44 274.9 7.5 84 1-86 80-163 (800)
2 PLN02279 ent-kaur-16-ene synth 100.0 3.1E-38 6.6E-43 268.0 7.7 82 1-87 41-124 (784)
3 PF13243 Prenyltrans_1: Prenyl 98.0 1.4E-05 3.1E-10 51.1 4.8 45 16-60 24-68 (109)
4 PF13243 Prenyltrans_1: Prenyl 98.0 1.6E-06 3.5E-11 55.5 0.0 39 42-84 3-41 (109)
5 PF13249 Prenyltrans_2: Prenyl 97.7 3.4E-05 7.3E-10 49.1 3.2 37 44-83 1-37 (113)
6 PF13249 Prenyltrans_2: Prenyl 97.6 7.3E-05 1.6E-09 47.6 3.6 63 15-81 20-84 (113)
7 PF00432 Prenyltrans: Prenyltr 97.3 0.00035 7.5E-09 39.8 3.6 38 41-80 4-41 (44)
8 TIGR03463 osq_cycl 2,3-oxidosq 97.2 0.00051 1.1E-08 58.0 4.5 66 16-81 503-576 (634)
9 TIGR01507 hopene_cyclase squal 96.9 0.0012 2.6E-08 55.9 4.4 62 17-81 498-570 (635)
10 cd02897 A2M_2 Proteins similar 96.8 0.0021 4.5E-08 48.2 4.5 69 15-83 77-154 (292)
11 cd02889 SQCY Squalene cyclase 96.7 0.0023 5.1E-08 48.0 4.2 67 16-82 217-291 (348)
12 cd00688 ISOPREN_C2_like This g 96.6 0.0035 7.6E-08 43.7 3.9 70 15-84 79-155 (300)
13 cd02889 SQCY Squalene cyclase 96.5 0.0032 6.9E-08 47.3 3.8 35 42-81 3-37 (348)
14 cd02896 complement_C3_C4_C5 Pr 96.5 0.0035 7.7E-08 47.6 3.9 66 15-82 78-157 (297)
15 cd00688 ISOPREN_C2_like This g 96.3 0.005 1.1E-07 42.9 3.3 63 15-81 235-299 (300)
16 cd02891 A2M_like Proteins simi 96.2 0.0089 1.9E-07 43.5 4.6 65 15-81 76-151 (282)
17 cd02892 SQCY_1 Squalene cyclas 96.2 0.0065 1.4E-07 50.9 4.1 64 16-81 502-576 (634)
18 TIGR01787 squalene_cyclas squa 96.2 0.0068 1.5E-07 51.2 4.2 63 16-81 486-560 (621)
19 PLN03012 Camelliol C synthase 95.6 0.016 3.4E-07 50.7 4.2 65 15-81 615-692 (759)
20 TIGR03463 osq_cycl 2,3-oxidosq 95.5 0.011 2.3E-07 50.2 2.9 43 16-61 562-606 (634)
21 PF07678 A2M_comp: A-macroglob 95.4 0.031 6.7E-07 41.5 4.6 69 13-81 22-99 (246)
22 PLN02993 lupeol synthase 95.4 0.017 3.7E-07 50.5 3.7 65 15-81 615-692 (763)
23 PLN03012 Camelliol C synthase 95.4 0.018 3.8E-07 50.5 3.7 39 41-82 593-631 (759)
24 PLN02993 lupeol synthase 94.8 0.036 7.8E-07 48.6 3.9 38 41-81 593-630 (763)
25 cd02897 A2M_2 Proteins similar 94.8 0.043 9.3E-07 41.1 3.8 56 15-81 235-291 (292)
26 TIGR01787 squalene_cyclas squa 94.5 0.043 9.3E-07 46.4 3.6 68 12-83 21-89 (621)
27 TIGR01507 hopene_cyclase squal 93.7 0.089 1.9E-06 44.8 4.0 69 12-84 37-106 (635)
28 cd02892 SQCY_1 Squalene cyclas 93.7 0.11 2.3E-06 43.8 4.4 69 12-84 20-90 (634)
29 cd02890 PTase Protein prenyltr 93.4 0.086 1.9E-06 39.2 3.2 24 37-60 145-168 (286)
30 PLN03201 RAB geranylgeranyl tr 92.4 0.19 4.1E-06 39.1 3.9 40 40-81 58-97 (316)
31 cd02890 PTase Protein prenyltr 92.0 0.25 5.4E-06 36.7 3.9 43 37-81 46-89 (286)
32 cd02894 GGTase-II Geranylgeran 91.5 0.29 6.2E-06 37.0 3.9 40 40-81 150-189 (287)
33 cd02893 FTase Protein farnesyl 88.8 0.72 1.5E-05 35.5 4.2 40 40-81 49-88 (299)
34 cd02891 A2M_like Proteins simi 86.0 1.2 2.7E-05 32.3 3.8 41 40-81 51-91 (282)
35 cd02894 GGTase-II Geranylgeran 84.9 1.5 3.2E-05 33.2 3.9 21 40-60 102-122 (287)
36 PF07678 A2M_comp: A-macroglob 83.1 1.4 3.1E-05 32.6 3.1 35 40-83 211-245 (246)
37 TIGR02474 pec_lyase pectate ly 83.1 1.3 2.7E-05 35.1 3.0 38 23-60 52-89 (290)
38 cd02896 complement_C3_C4_C5 Pr 82.2 2 4.4E-05 32.6 3.7 52 17-80 244-295 (297)
39 KOG0497 Oxidosqualene-lanoster 82.1 1.4 3.1E-05 39.1 3.1 40 41-80 641-690 (760)
40 PLN03201 RAB geranylgeranyl tr 81.2 1.4 3.1E-05 34.2 2.6 21 40-60 154-174 (316)
41 PLN02710 farnesyltranstransfer 80.0 2.8 6.1E-05 34.8 4.1 39 41-81 95-133 (439)
42 cd02895 GGTase-I Geranylgerany 78.4 3.5 7.6E-05 31.9 4.0 22 39-60 166-187 (307)
43 cd02895 GGTase-I Geranylgerany 70.3 8 0.00017 29.9 4.1 41 41-81 52-104 (307)
44 KOG0497 Oxidosqualene-lanoster 61.7 9.2 0.0002 34.2 3.3 32 42-79 593-624 (760)
45 cd02893 FTase Protein farnesyl 61.5 9.3 0.0002 29.4 3.0 38 40-79 258-296 (299)
46 KOG0366 Protein geranylgeranyl 61.4 17 0.00036 29.5 4.4 41 41-83 69-109 (329)
47 PF09492 Pec_lyase: Pectic aci 59.4 6 0.00013 31.3 1.6 38 23-60 47-84 (289)
48 PF09282 Mago-bind: Mago bindi 55.6 1.7 3.7E-05 23.5 -1.4 14 47-60 5-18 (27)
49 COG5029 CAL1 Prenyltransferase 55.6 15 0.00033 30.0 3.4 44 37-80 173-220 (342)
50 COG1657 SqhC Squalene cyclase 49.4 13 0.00028 31.8 2.1 24 37-60 122-150 (517)
51 PF02467 Whib: Transcription f 47.4 12 0.00025 23.2 1.2 24 37-60 35-58 (66)
52 KOG0365 Beta subunit of farnes 46.6 33 0.00071 28.8 4.0 38 42-81 124-161 (423)
53 COG1657 SqhC Squalene cyclase 45.2 11 0.00025 32.1 1.2 19 42-60 356-374 (517)
54 PF07957 DUF3294: Protein of u 42.2 18 0.0004 27.8 1.8 39 2-47 94-134 (216)
55 PRK00227 glnD PII uridylyl-tra 36.2 18 0.00039 31.7 1.1 21 66-86 557-577 (693)
56 PF11888 DUF3408: Protein of u 29.1 20 0.00043 24.7 0.2 19 1-19 92-110 (136)
57 PF09397 Ftsk_gamma: Ftsk gamm 28.5 59 0.0013 20.3 2.2 17 37-53 5-21 (65)
58 PLN02710 farnesyltranstransfer 28.5 1.1E+02 0.0024 25.6 4.4 36 39-74 192-231 (439)
59 KOG3760 Heparan sulfate-glucur 27.3 40 0.00087 29.0 1.7 22 39-60 381-402 (594)
60 KOG1366 Alpha-macroglobulin [P 25.8 62 0.0013 31.0 2.7 47 14-60 998-1046(1436)
61 PF14836 Ubiquitin_3: Ubiquiti 24.1 12 0.00027 24.9 -1.5 12 47-58 76-87 (88)
62 TIGR02474 pec_lyase pectate ly 21.9 59 0.0013 25.8 1.6 20 38-57 137-156 (290)
63 PF01122 Cobalamin_bind: Eukar 20.7 1.3E+02 0.0028 24.3 3.3 30 42-80 219-248 (326)
No 1
>PLN02592 ent-copalyl diphosphate synthase
Probab=100.00 E-value=3e-39 Score=274.92 Aligned_cols=84 Identities=69% Similarity=1.193 Sum_probs=80.2
Q ss_pred CHHhhhccCCCCccccchhHhhHHhhcccCCCCCCCCCCchHHHHHHHhhcCCCCCcCCCCccchhHHHHHHHHHHHHHH
Q 039084 1 MIKLMLGSMGDGELGISAYDTAWVALIKNIDGSDINAPQFPSCLKWIADNQLPHGSWGDDKVFLAHDRLINTLACIVALK 80 (87)
Q Consensus 1 ~ik~~~~~~~~g~~S~S~YDTAWVAmv~~~~g~~~~~p~FP~~~~wil~nQ~~DGsWg~~~~~~~~d~ll~TLAcvlAL~ 80 (87)
+||+||++|++|++|||+||||||||||+++|+. +|+||+||+||++||++|||||.+..++.+|||+|||||||||+
T Consensus 80 ~ir~~l~~~~~g~~S~S~YDTAWVAmVp~~~g~~--~p~FP~~~~wIl~nQ~~DGsWG~~~~~~~~D~ll~TLAcvlAL~ 157 (800)
T PLN02592 80 TVKSMLSSMEDGEISISAYDTAWVALVEDINGSG--TPQFPSSLQWIANNQLSDGSWGDAYLFSAHDRLINTLACVVALK 157 (800)
T ss_pred HHHHHHhcccCCCcCCcHHHhHHHhhcccCCCCC--CCCCHHHHHHHHHccCCCCCCCCCCCcchHHHHHhHHHHHHHHH
Confidence 4899999999999999999999999999998888 89999999999999999999998766789999999999999999
Q ss_pred hhccCC
Q 039084 81 SWDAHL 86 (87)
Q Consensus 81 ~w~~~~ 86 (87)
+||+|+
T Consensus 158 ~w~~~~ 163 (800)
T PLN02592 158 SWNLHP 163 (800)
T ss_pred HhhccH
Confidence 999985
No 2
>PLN02279 ent-kaur-16-ene synthase
Probab=100.00 E-value=3.1e-38 Score=268.02 Aligned_cols=82 Identities=46% Similarity=0.870 Sum_probs=75.7
Q ss_pred CHHhhhccCCCCccccchhHhhHHhhcccCCCCCCCCCCchHHHHHHHhhcCCCCCcCCC--CccchhHHHHHHHHHHHH
Q 039084 1 MIKLMLGSMGDGELGISAYDTAWVALIKNIDGSDINAPQFPSCLKWIADNQLPHGSWGDD--KVFLAHDRLINTLACIVA 78 (87)
Q Consensus 1 ~ik~~~~~~~~g~~S~S~YDTAWVAmv~~~~g~~~~~p~FP~~~~wil~nQ~~DGsWg~~--~~~~~~d~ll~TLAcvlA 78 (87)
+||+||++| ++|||+||||||||||++++++ +|+||+||+||++||++|||||.+ ..++.+|+|+||||||||
T Consensus 41 ~i~~~l~~~---e~s~s~YDTAWvamv~~~~~~~--~p~Fp~~~~wil~nQ~~dGsWg~~~~~~~~~~D~ll~TlAcvlA 115 (784)
T PLN02279 41 RIKKMFDKV---ELSVSSYDTAWVAMVPSPNSQQ--APLFPECVKWLLENQLEDGSWGLPHDHPLLVKDALSSTLASILA 115 (784)
T ss_pred HHHHHhccC---cCCCchhhhHHHHhcccCCCCC--CCCChHHHHHHHhcCCCCCCCCCCCCCcchhHHhhHHHHHHHHH
Confidence 589999988 7999999999999999998777 999999999999999999999954 456779999999999999
Q ss_pred HHhhccCCC
Q 039084 79 LKSWDAHLD 87 (87)
Q Consensus 79 L~~w~~~~~ 87 (87)
||+||+|++
T Consensus 116 L~~w~~~~~ 124 (784)
T PLN02279 116 LKKWGVGEE 124 (784)
T ss_pred HHHHhcCcc
Confidence 999999974
No 3
>PF13243 Prenyltrans_1: Prenyltransferase-like; PDB: 3SDR_A 3SAE_A 3SDV_A 3SDT_A 3SDQ_A 3SDU_A.
Probab=97.99 E-value=1.4e-05 Score=51.07 Aligned_cols=45 Identities=22% Similarity=0.451 Sum_probs=17.5
Q ss_pred cchhHhhHHhhcccCCCCCCCCCCchHHHHHHHhhcCCCCCcCCC
Q 039084 16 ISAYDTAWVALIKNIDGSDINAPQFPSCLKWIADNQLPHGSWGDD 60 (87)
Q Consensus 16 ~S~YDTAWVAmv~~~~g~~~~~p~FP~~~~wil~nQ~~DGsWg~~ 60 (87)
...+-|+|+++.-...+.....+..-.+++||+++|.+||+|+..
T Consensus 24 ~~~~~t~~~~~al~~~~~~~~~~ai~ka~~~l~~~Q~~dG~w~~~ 68 (109)
T PF13243_consen 24 SDVFVTAALILALAAAGDAAVDEAIKKAIDWLLSHQNPDGGWGYS 68 (109)
T ss_dssp -----------------TS-SSBSSHHHHHHHHH---TTS--S-T
T ss_pred ccccccccccccccccCCCCcHHHHHHHHHHHHHhcCCCCCCCCc
Confidence 456778887776653222223788899999999999999999965
No 4
>PF13243 Prenyltrans_1: Prenyltransferase-like; PDB: 3SDR_A 3SAE_A 3SDV_A 3SDT_A 3SDQ_A 3SDU_A.
Probab=97.96 E-value=1.6e-06 Score=55.53 Aligned_cols=39 Identities=31% Similarity=0.524 Sum_probs=0.4
Q ss_pred HHHHHHHhhcCCCCCcCCCCccchhHHHHHHHHHHHHHHhhcc
Q 039084 42 SCLKWIADNQLPHGSWGDDKVFLAHDRLINTLACIVALKSWDA 84 (87)
Q Consensus 42 ~~~~wil~nQ~~DGsWg~~~~~~~~d~ll~TLAcvlAL~~w~~ 84 (87)
++++||+++|.+||||+.+. .+.+..|.+++++|+..+.
T Consensus 3 ~~~~~l~~~Q~~dG~W~~~~----~~~~~~t~~~~~al~~~~~ 41 (109)
T PF13243_consen 3 RAAEWLLSQQNPDGSWGYNW----GSDVFVTAALILALAAAGD 41 (109)
T ss_dssp ------------------------------------------T
T ss_pred cccccccccccccccccccc----cccccccccccccccccCC
Confidence 57899999999999998662 3568999999999998763
No 5
>PF13249 Prenyltrans_2: Prenyltransferase-like; PDB: 1O6R_B 1O6Q_B 1H35_C 1H3A_C 1SQC_A 1UMP_A 1O6H_C 1O79_B 1GSZ_C 1H37_C ....
Probab=97.73 E-value=3.4e-05 Score=49.11 Aligned_cols=37 Identities=24% Similarity=0.523 Sum_probs=28.4
Q ss_pred HHHHHhhcCCCCCcCCCCccchhHHHHHHHHHHHHHHhhc
Q 039084 44 LKWIADNQLPHGSWGDDKVFLAHDRLINTLACIVALKSWD 83 (87)
Q Consensus 44 ~~wil~nQ~~DGsWg~~~~~~~~d~ll~TLAcvlAL~~w~ 83 (87)
|+||++.|++||+|+.. ...-.+..|..++.||+...
T Consensus 1 v~~L~~~Q~~dGgw~~~---~~~~~~~~T~~al~aL~~~g 37 (113)
T PF13249_consen 1 VDWLLSRQNPDGGWGGF---GGPSDVWDTAFALLALAALG 37 (113)
T ss_dssp HHHHHHHB-TTSSBBSS---TS-BEHHHHHHHHHHHHHHT
T ss_pred CHhhHHHcCCCCCCcCC---CCCCCHHHHHHHHHHHHHhC
Confidence 68999999999999973 12556788889999998654
No 6
>PF13249 Prenyltrans_2: Prenyltransferase-like; PDB: 1O6R_B 1O6Q_B 1H35_C 1H3A_C 1SQC_A 1UMP_A 1O6H_C 1O79_B 1GSZ_C 1H37_C ....
Probab=97.62 E-value=7.3e-05 Score=47.56 Aligned_cols=63 Identities=24% Similarity=0.454 Sum_probs=37.3
Q ss_pred ccchhHhhHHhhcccCCCCCCCCCCchHH--HHHHHhhcCCCCCcCCCCccchhHHHHHHHHHHHHHHh
Q 039084 15 GISAYDTAWVALIKNIDGSDINAPQFPSC--LKWIADNQLPHGSWGDDKVFLAHDRLINTLACIVALKS 81 (87)
Q Consensus 15 S~S~YDTAWVAmv~~~~g~~~~~p~FP~~--~~wil~nQ~~DGsWg~~~~~~~~d~ll~TLAcvlAL~~ 81 (87)
.+.+++|+++.+.=..-+.. +.-.++ ++||.+.|.+||+|+.... .....+-.|..++.+|+.
T Consensus 20 ~~~~~~T~~al~aL~~~g~~---~~~~~~~~~~~L~~~q~~dGg~~~~~~-~~~~~~~~t~~~l~~l~~ 84 (113)
T PF13249_consen 20 PSDVWDTAFALLALAALGEE---PDRDRAAAVEWLLSQQNPDGGWGSNPD-GGPPDVYTTYVALAALEL 84 (113)
T ss_dssp -BEHHHHHHHHHHHHHHTSH---HCHHHHHHHHHHHHHB-TTSGBBSSTT-TT-BSHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHhCCc---ccHHHHHHHHHHHHhCCCCCCccCCCC-CCCccHHHHHHHHHHHHH
Confidence 35899999876643321211 124467 9999999999999996531 112224456666666543
No 7
>PF00432 Prenyltrans: Prenyltransferase and squalene oxidase repeat This Prosite family is a subset of the Pfam family.; InterPro: IPR001330 The beta subunit of the farnesyltransferases is responsible for peptide binding. Squalene-hopene cyclase is a bacterial enzyme that catalyzes the cyclization of squalene into hopene, a key step in hopanoid (triterpenoid) metabolism []. Lanosterol synthase (5.4.99.7 from EC) (oxidosqualene-lanosterol cyclase) catalyzes the cyclization of (S)-2,3-epoxysqualene to lanosterol, the initial precursor of cholesterol, steroid hormones and vitamin D in vertebrates and of ergosterol in fungi []. Cycloartenol synthase () (2,3-epoxysqualene-cycloartenol cyclase) is a plant enzyme that catalyzes the cyclization of (S)-2,3-epoxysqualene to cycloartenol.; GO: 0003824 catalytic activity; PDB: 2IEJ_B 1LD7_B 1LD8_B 2H6G_B 1TN6_B 1S63_B 1MZC_B 2H6I_B 2H6F_B 1JCQ_B ....
Probab=97.33 E-value=0.00035 Score=39.80 Aligned_cols=38 Identities=18% Similarity=0.339 Sum_probs=28.7
Q ss_pred hHHHHHHHhhcCCCCCcCCCCccchhHHHHHHHHHHHHHH
Q 039084 41 PSCLKWIADNQLPHGSWGDDKVFLAHDRLINTLACIVALK 80 (87)
Q Consensus 41 P~~~~wil~nQ~~DGsWg~~~~~~~~d~ll~TLAcvlAL~ 80 (87)
.+..+||+..|.+||+|+.... ....+..|.-|+.+|+
T Consensus 4 ~~~~~~l~~~Q~~dGGf~~~~~--~~~d~~~t~~~~~~L~ 41 (44)
T PF00432_consen 4 EKLIRFLLSCQNPDGGFGGRPG--GESDTCYTYCALAALS 41 (44)
T ss_dssp HHHHHHHHHTBBTTSSBBSSTT--SSBBHHHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCCCCCCCCCC--CCCChHHHHHHHHHHH
Confidence 4779999999999999996521 1335677777777775
No 8
>TIGR03463 osq_cycl 2,3-oxidosqualene cyclase. This model identifies 2,3-oxidosqualene cyclases from Stigmatella aurantiaca which produces cycloartenol, and Gemmata obscuriglobus and Methylococcus capsulatus which each produce the closely related sterol, lanosterol.
Probab=97.18 E-value=0.00051 Score=58.03 Aligned_cols=66 Identities=17% Similarity=0.231 Sum_probs=45.0
Q ss_pred cchhHhhHHhhcccCCCCCCCCCCchHHHHHHHhhcCCCCCcCCCCcc--------chhHHHHHHHHHHHHHHh
Q 039084 16 ISAYDTAWVALIKNIDGSDINAPQFPSCLKWIADNQLPHGSWGDDKVF--------LAHDRLINTLACIVALKS 81 (87)
Q Consensus 16 ~S~YDTAWVAmv~~~~g~~~~~p~FP~~~~wil~nQ~~DGsWg~~~~~--------~~~d~ll~TLAcvlAL~~ 81 (87)
+..|-|+++.+.=..-|.....+...++++||++.|++||+||+.-.. ...-....|..||+||..
T Consensus 503 ~~~Y~T~~al~aL~~~G~~~~~~~i~rA~~~Ll~~Q~~DGgWg~~~~s~~~~~y~~~~~S~~~~TA~Al~aL~~ 576 (634)
T TIGR03463 503 CFTYGTFHGVMGLRAAGASPDDMALQRAAAWLRSYQRADGGWGEVYESCLQARYVEGKQSQAVMTSWALLALAE 576 (634)
T ss_pred CCcHHHHHHHHHHHHcCCCcCcHHHHHHHHHHHHccCCCCCccCccCccccccccCCCCCcHHHHHHHHHHHHH
Confidence 567899986553221222111566788999999999999999864110 112347889999999975
No 9
>TIGR01507 hopene_cyclase squalene-hopene cyclase. SHC is an essential prokaryotic gene in hopanoid (triterpenoid) biosynthesis. Squalene hopene cyclase, an integral membrane protein, directly cyclizes squalene into hopanoid products.
Probab=96.91 E-value=0.0012 Score=55.91 Aligned_cols=62 Identities=27% Similarity=0.384 Sum_probs=41.6
Q ss_pred chhHhhHH--hhcccCCCCCCCCCCchHHHHHHHhhcCCCCCcCCCCccch---------hHHHHHHHHHHHHHHh
Q 039084 17 SAYDTAWV--ALIKNIDGSDINAPQFPSCLKWIADNQLPHGSWGDDKVFLA---------HDRLINTLACIVALKS 81 (87)
Q Consensus 17 S~YDTAWV--Amv~~~~g~~~~~p~FP~~~~wil~nQ~~DGsWg~~~~~~~---------~d~ll~TLAcvlAL~~ 81 (87)
-.|-|+.| |+...-.... .+.--++++||+++|++||+||... .+. .-.+..|..||+||..
T Consensus 498 ~~Y~T~~al~aL~~~g~~~~--~~~i~rAv~wL~~~Q~~DGGWge~~-~sy~~~~~~g~g~s~~s~TA~AL~AL~~ 570 (635)
T TIGR01507 498 YLYGTGAVLSALKAVGIDTR--EPYIQKALAWLESHQNPDGGWGEDC-RSYEDPAYAGKGASTASQTAWALIALIA 570 (635)
T ss_pred cccHHHHHHHHHHHcCCCcc--cHHHHHHHHHHHHhcCCCCCCCCCC-cccccccccCCCCCcHHHHHHHHHHHHH
Confidence 47888763 4432211112 4556689999999999999999542 111 2346789999999975
No 10
>cd02897 A2M_2 Proteins similar to alpha2-macroglobulin (alpha (2)-M). This group also contains the pregnancy zone protein (PZP). Alpha(2)-M and PZP are broadly specific proteinase inhibitors. Alpha (2)-M is a major carrier protein in serum. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of proteases. PZP is a trace protein in the plasma of non-pregnant females and males which is elevated in pregnancy. Alpha (2)-M and PZ bind to placental protein-14 and may modulate its activity in T-cell growth and cytokine production contributing to fetal survival. It has been suggested that thioester bond cleavage promotes the binding of PZ and alpha (2)-M to the CD91 receptor clearing them from circulation.
Probab=96.80 E-value=0.0021 Score=48.17 Aligned_cols=69 Identities=19% Similarity=0.191 Sum_probs=45.0
Q ss_pred ccchhHhhHHhhccc--CCCCCCCCCCchHHHHHHHhhcCCCCCcCCCCccc-------hhHHHHHHHHHHHHHHhhc
Q 039084 15 GISAYDTAWVALIKN--IDGSDINAPQFPSCLKWIADNQLPHGSWGDDKVFL-------AHDRLINTLACIVALKSWD 83 (87)
Q Consensus 15 S~S~YDTAWVAmv~~--~~g~~~~~p~FP~~~~wil~nQ~~DGsWg~~~~~~-------~~d~ll~TLAcvlAL~~w~ 83 (87)
..|+|-||.|.++=. ..+........-++++||+..|.+||+|+..+... ....+-.|.-|++||.+-+
T Consensus 77 ~~~~wlTa~v~~~L~~a~~~~~v~~~~i~ra~~wL~~~Q~~dG~f~~~~~~~~~~~~~~~~~~~~~TA~vl~aL~~~g 154 (292)
T cd02897 77 SGSTWLTAFVLKSFAQARPFIYIDENVLQQALTWLSSHQKSNGCFREVGRVFHKAMQGGVDDEVALTAYVLIALLEAG 154 (292)
T ss_pred CcchhhHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHhcCCCCCCCCCCcccChhhcCCCCCCcchHHHHHHHHHhcC
Confidence 457899998866421 12211113456789999999999999999643111 1123557899999997654
No 11
>cd02889 SQCY Squalene cyclase (SQCY) domain; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization cascade converting linear triterpenes to fused ring compounds. Bacterial SQCY catalyzes the convertion of squalene to hopene or diplopterol. Eukaryotic OSQCY transforms the 2,3-epoxide of squalene to compounds such as, lanosterol (a metabolic precursor of cholesterol and steroid hormones) in mammals and fungi or, cycloartenol in plants. Deletion of a single glycine residue of Alicyclobacillus acidocaldarius SQCY alters its substrate specificity into that of eukaryotic OSQCY. Both enzymes have a second minor domain, which forms an alpha-alpha barrel that is inserted into the major domain. This group also contains SQCY-like archael sequences and some bacterial SQCY's which lack this minor domain.
Probab=96.73 E-value=0.0023 Score=48.00 Aligned_cols=67 Identities=22% Similarity=0.364 Sum_probs=45.1
Q ss_pred cchhHhhHHhhcccCCCCCCCCCCchHHHHHHHhhcCCCCCcCCCCcc--------chhHHHHHHHHHHHHHHhh
Q 039084 16 ISAYDTAWVALIKNIDGSDINAPQFPSCLKWIADNQLPHGSWGDDKVF--------LAHDRLINTLACIVALKSW 82 (87)
Q Consensus 16 ~S~YDTAWVAmv~~~~g~~~~~p~FP~~~~wil~nQ~~DGsWg~~~~~--------~~~d~ll~TLAcvlAL~~w 82 (87)
...|.||++.+.=..-|.....+.....++||++.|.+||+|+..... ...-.+..|..+|+||...
T Consensus 217 ~~~y~ta~a~~aL~~~g~~~~~~~~~~~~~~L~~~Q~~dG~w~~~~~~~~~~~~~~~~~~~~~~Ta~al~aL~~~ 291 (348)
T cd02889 217 CFIYGTWFALEALAAAGEDENSPYVRKACDWLLSKQNPDGGWGESYESYEDPSYAGGGRSTVVQTAWALLALMAA 291 (348)
T ss_pred cchHHHHHHHHHHHHcCCCcCcHHHHHHHHHHHHccCCCCCcCCcccccccccccCCCCCcHHHHHHHHHHHHhc
Confidence 467999987664332222111455778999999999999999853100 0122578999999999874
No 12
>cd00688 ISOPREN_C2_like This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate complement. Class II terpene cyclases include squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY), these integral membrane proteins catalyze a cationic cyclization cascade converting linear triterpenes to fused ring compounds. The protein prenyltransferases include protein farnesyltransferase (FTase) and geranylgeranyltransferase types I and II (GGTase-I and GGTase-II) which catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. Alpha (2)-M is a major carrier protein in serum and involved in the immobilization and entrapment of proteases. PZP is a pregnancy associated protein.
Probab=96.55 E-value=0.0035 Score=43.70 Aligned_cols=70 Identities=17% Similarity=0.183 Sum_probs=46.5
Q ss_pred ccchhHhhHHhhcccCCCC--CCCCCCchHHHHHHHhhcCCCCCcCCCCccc-----hhHHHHHHHHHHHHHHhhcc
Q 039084 15 GISAYDTAWVALIKNIDGS--DINAPQFPSCLKWIADNQLPHGSWGDDKVFL-----AHDRLINTLACIVALKSWDA 84 (87)
Q Consensus 15 S~S~YDTAWVAmv~~~~g~--~~~~p~FP~~~~wil~nQ~~DGsWg~~~~~~-----~~d~ll~TLAcvlAL~~w~~ 84 (87)
.+++++|+++.+.=..-+. ......-.+.++||++.|.+||+|....... ....+-.|..++.+|..-+.
T Consensus 79 ~~~~~~T~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~q~~dG~~~~~~~~~~~~~~~~~~~~~t~~al~aL~~~~~ 155 (300)
T cd00688 79 YPSLWLTAYALKALLLAGDYIAVDRIDLARALNWLLSLQNEDGGFREDGPGNHRIGGDESDVRLTAYALIALALLGK 155 (300)
T ss_pred CcchHhHHHHHHHHHHcCCccccCHHHHHHHHHHHHHccCCCCCeeeecCCCCcccCCCCcccHHHHHHHHHHHcCC
Confidence 4678999998775432111 0013446688999999999999998543211 13456678888888876543
No 13
>cd02889 SQCY Squalene cyclase (SQCY) domain; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization cascade converting linear triterpenes to fused ring compounds. Bacterial SQCY catalyzes the convertion of squalene to hopene or diplopterol. Eukaryotic OSQCY transforms the 2,3-epoxide of squalene to compounds such as, lanosterol (a metabolic precursor of cholesterol and steroid hormones) in mammals and fungi or, cycloartenol in plants. Deletion of a single glycine residue of Alicyclobacillus acidocaldarius SQCY alters its substrate specificity into that of eukaryotic OSQCY. Both enzymes have a second minor domain, which forms an alpha-alpha barrel that is inserted into the major domain. This group also contains SQCY-like archael sequences and some bacterial SQCY's which lack this minor domain.
Probab=96.52 E-value=0.0032 Score=47.28 Aligned_cols=35 Identities=23% Similarity=0.452 Sum_probs=27.1
Q ss_pred HHHHHHHhhcCCCCCcCCCCccchhHHHHHHHHHHHHHHh
Q 039084 42 SCLKWIADNQLPHGSWGDDKVFLAHDRLINTLACIVALKS 81 (87)
Q Consensus 42 ~~~~wil~nQ~~DGsWg~~~~~~~~d~ll~TLAcvlAL~~ 81 (87)
..++||+++|.+||+|+... ..+.-|..++.||..
T Consensus 3 ~~~~~L~~~Q~~dG~W~~~~-----~~~~~Ta~~~~al~~ 37 (348)
T cd02889 3 RALDFLLSLQAPDGHWPGEY-----SQVWDTALALQALLE 37 (348)
T ss_pred hHHHHHHHhccCCCCccccC-----CchHHHHHHHHHHHH
Confidence 46899999999999999641 345667777888764
No 14
>cd02896 complement_C3_C4_C5 Proteins similar to C3, C4 and C5 of vertebrate complement. The vertebrate complement system, comprised of a large number of distinct plasma proteins, is an effector of both the acquired and innate immune systems. The point of convergence of the classical, alternative and lectin pathways of the complement system is the proteolytic activation of C3. C4 plays a key role in propagating the classical and lectin pathways. C5 participates in the classical and alternative pathways. The thioester bond located within the structure of C3 and C4 is central to the function of complement. C5 does not contain an active thioester bond.
Probab=96.49 E-value=0.0035 Score=47.59 Aligned_cols=66 Identities=21% Similarity=0.267 Sum_probs=44.0
Q ss_pred ccchhHhhHHhhccc---CCC-CCCCCCCchHHHHHHHhhcCCCCCcCCCCccchh----------HHHHHHHHHHHHHH
Q 039084 15 GISAYDTAWVALIKN---IDG-SDINAPQFPSCLKWIADNQLPHGSWGDDKVFLAH----------DRLINTLACIVALK 80 (87)
Q Consensus 15 S~S~YDTAWVAmv~~---~~g-~~~~~p~FP~~~~wil~nQ~~DGsWg~~~~~~~~----------d~ll~TLAcvlAL~ 80 (87)
..|++.||.|.++=. ..+ .+ ....-+.++||+.+|.+||+|+....+... ..+..|.=+++||.
T Consensus 78 ~~s~wlTA~v~~~l~~a~~~~~v~--~~~l~~a~~wL~~~Q~~dG~f~e~~~~~~~~m~gg~~~~~~~~~lTA~vl~aL~ 155 (297)
T cd02896 78 PSSTWLTAFVVKVFSLARKYIPVD--QNVICGSVNWLISNQKPDGSFQEPSPVIHREMTGGVEGSEGDVSLTAFVLIALQ 155 (297)
T ss_pred CcchhhHHHHHHHHHHHHHcCCCC--HHHHHHHHHHHHhcCCCCCeeCCCCCccChhccCCccccCCCccchHHHHHHHH
Confidence 468899998877432 111 12 334557899999999999999966321111 24556888888887
Q ss_pred hh
Q 039084 81 SW 82 (87)
Q Consensus 81 ~w 82 (87)
+-
T Consensus 156 ~~ 157 (297)
T cd02896 156 EA 157 (297)
T ss_pred hh
Confidence 64
No 15
>cd00688 ISOPREN_C2_like This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate complement. Class II terpene cyclases include squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY), these integral membrane proteins catalyze a cationic cyclization cascade converting linear triterpenes to fused ring compounds. The protein prenyltransferases include protein farnesyltransferase (FTase) and geranylgeranyltransferase types I and II (GGTase-I and GGTase-II) which catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. Alpha (2)-M is a major carrier protein in serum and involved in the immobilization and entrapment of proteases. PZP is a pregnancy associated protein.
Probab=96.25 E-value=0.005 Score=42.90 Aligned_cols=63 Identities=17% Similarity=0.222 Sum_probs=42.9
Q ss_pred ccchhHhhHHhhccc-CCC-CCCCCCCchHHHHHHHhhcCCCCCcCCCCccchhHHHHHHHHHHHHHHh
Q 039084 15 GISAYDTAWVALIKN-IDG-SDINAPQFPSCLKWIADNQLPHGSWGDDKVFLAHDRLINTLACIVALKS 81 (87)
Q Consensus 15 S~S~YDTAWVAmv~~-~~g-~~~~~p~FP~~~~wil~nQ~~DGsWg~~~~~~~~d~ll~TLAcvlAL~~ 81 (87)
.++.+.|+|++..=. ... .. .+...+.++||+++|.+||+|+... ........|..++.||..
T Consensus 235 ~~~~~~~~~~~~aL~~~~~~~~--~~~~~~~~~~L~~~q~~~G~w~~~~--~~~~~~~~t~~al~aL~~ 299 (300)
T cd00688 235 LSDSCYTEWAAYALLALGKLGD--LEDAEKLVKWLLSQQNEDGGFSSKP--GKSYDTQHTVFALLALSL 299 (300)
T ss_pred cCchHHHHHHHHHHHHHhhhcC--cccHHHHHHHHHhccCCCCCcCcCC--CCCCcchhhHHHHHHHhc
Confidence 346677777544221 111 12 4567899999999999999999653 234457788888888853
No 16
>cd02891 A2M_like Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of proteases. This group contains another broadly specific proteinase inhibitor: pregnancy zone protein (PZP). PZP is a trace protein in the plasma of non-pregnant females and males which is elevated in pregnancy. Alpha (2)-M and PZ bind to placental protein-14 and may modulate its activity in T-cell growth and cytokine production thereby protecting the allogeneic fetus from attack by the maternal immune system. This group also contains C3, C4 and C5 of vertebrate complement. The vertebrate complement is an effector of both the acquired and innate immune systems The point of convergence of the classical, alternative and lectin pathways of the complement system is the proteolytic activation of C3. C4 plays a key role in propaga
Probab=96.24 E-value=0.0089 Score=43.51 Aligned_cols=65 Identities=22% Similarity=0.270 Sum_probs=42.9
Q ss_pred ccchhHhhHHhhccc----CCCCCCCCCCchHHHHHHHhhcCCCCCcCCCCccc-------hhHHHHHHHHHHHHHHh
Q 039084 15 GISAYDTAWVALIKN----IDGSDINAPQFPSCLKWIADNQLPHGSWGDDKVFL-------AHDRLINTLACIVALKS 81 (87)
Q Consensus 15 S~S~YDTAWVAmv~~----~~g~~~~~p~FP~~~~wil~nQ~~DGsWg~~~~~~-------~~d~ll~TLAcvlAL~~ 81 (87)
.+++|.||+|.++=. ..... .+..-++++||+..|.+||+|....... ....+-.|.-++.+|.+
T Consensus 76 ~~~~~~Ta~~~~~L~~a~~~~~v~--~~~i~ra~~~L~~~q~~~g~~~~~~~~~~~~~~~~~~~~~~~tA~al~~L~~ 151 (282)
T cd02891 76 SGSTWLTAYVVKFLSQARKYIDVD--ENVLARALGWLVPQQKEDGSFRELGPVIHREMKGGVDDSVSLTAYVLIALAE 151 (282)
T ss_pred CCchHHHHHHHHHHHHHHHcCCCC--HHHHHHHHHHHHhccCCCCCcCCCCCccCHhhcCCcCCCcchHHHHHHHHHH
Confidence 568999998766432 12222 4567789999999999999998653211 12233457777777754
No 17
>cd02892 SQCY_1 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization cascade converting linear triterpenes to fused ring compounds. This group contains bacterial SQCY which catalyzes the convertion of squalene to hopene or diplopterol and eukaryotic OSQCY which transforms the 2,3-epoxide of squalene to compounds such as, lanosterol in mammals and fungi or, cycloartenol in plants. Deletion of a single glycine residue of Alicyclobacillus acidocaldarius SQCY alters its substrate specificity into that of eukaryotic OSQCY. Both enzymes have a second minor domain, which forms an alpha-alpha barrel that is inserted into the major domain.
Probab=96.17 E-value=0.0065 Score=50.91 Aligned_cols=64 Identities=20% Similarity=0.379 Sum_probs=42.6
Q ss_pred cchhHhhHH--hhcccCCC-CCCCCCCchHHHHHHHhhcCCCCCcCCCCcc--------chhHHHHHHHHHHHHHHh
Q 039084 16 ISAYDTAWV--ALIKNIDG-SDINAPQFPSCLKWIADNQLPHGSWGDDKVF--------LAHDRLINTLACIVALKS 81 (87)
Q Consensus 16 ~S~YDTAWV--Amv~~~~g-~~~~~p~FP~~~~wil~nQ~~DGsWg~~~~~--------~~~d~ll~TLAcvlAL~~ 81 (87)
+-.|-|+++ |+...-.. .. .+...+.++||++.|.+||+||..... ...-.+..|..||+||..
T Consensus 502 ~~~Y~T~~al~AL~~~G~~~~~--~~~i~~a~~~L~s~Q~~DGgWge~~~s~~~~~~~~~~~s~~~~TA~AllaLl~ 576 (634)
T cd02892 502 CYIYGTWFALEALAAAGEDYEN--SPYIRKACDFLLSKQNPDGGWGESYLSYEDKSYAGGGRSTVVQTAWALLALMA 576 (634)
T ss_pred ccHHHHHHHHHHHHHhCCcccC--cHHHHHHHHHHHhcCCCCCCCCCccccccCcccCCCCCCcHHHHHHHHHHHHH
Confidence 567899874 44432111 12 455678999999999999999953100 012237889999999975
No 18
>TIGR01787 squalene_cyclas squalene/oxidosqualene cyclases. This family of enzymes catalyzes the cyclization of the triterpenes squalene or 2-3-oxidosqualene to a variety of products including hopene, lanosterol, cycloartenol, amyrin, lupeol and isomultiflorenol.
Probab=96.16 E-value=0.0068 Score=51.19 Aligned_cols=63 Identities=29% Similarity=0.527 Sum_probs=42.2
Q ss_pred cchhHhhHHh--hcccCCCCCC-CCCCchHHHHHHHhhcCCCCCcCCCCccch---------hHHHHHHHHHHHHHHh
Q 039084 16 ISAYDTAWVA--LIKNIDGSDI-NAPQFPSCLKWIADNQLPHGSWGDDKVFLA---------HDRLINTLACIVALKS 81 (87)
Q Consensus 16 ~S~YDTAWVA--mv~~~~g~~~-~~p~FP~~~~wil~nQ~~DGsWg~~~~~~~---------~d~ll~TLAcvlAL~~ 81 (87)
+-.|-|+.|. +... |... ..+.-.++++||++.|++||+||+.. .+. ...+.+|.-||+||..
T Consensus 486 ~y~YgT~~al~aL~~~--G~~~~~~~~i~rA~~~L~~~Q~~DGGWge~~-~s~~~~~y~~~~~S~~s~Ta~AL~AL~~ 560 (621)
T TIGR01787 486 NYTYGTGFVLSALAAA--GRTYRNCPEVQKACDWLLSRQMPDGGWGEDC-FSYEDPSYVGSGGSTPSQTGWALMALIA 560 (621)
T ss_pred CCchhHHHHHHHHHHh--CCcccCCHHHHHHHHHHHhhcCCCCCCCcCC-ccccccccCCCCCCCHHHHHHHHHHHHH
Confidence 4578998754 3322 1110 02556689999999999999999642 111 2247889999999975
No 19
>PLN03012 Camelliol C synthase
Probab=95.59 E-value=0.016 Score=50.74 Aligned_cols=65 Identities=17% Similarity=0.238 Sum_probs=42.9
Q ss_pred ccchhHhhHHh--hccc-CCCCCCCCCCchHHHHHHHhhcCCCCCcCCCCccc----------hhHHHHHHHHHHHHHHh
Q 039084 15 GISAYDTAWVA--LIKN-IDGSDINAPQFPSCLKWIADNQLPHGSWGDDKVFL----------AHDRLINTLACIVALKS 81 (87)
Q Consensus 15 S~S~YDTAWVA--mv~~-~~g~~~~~p~FP~~~~wil~nQ~~DGsWg~~~~~~----------~~d~ll~TLAcvlAL~~ 81 (87)
.+=.|=|++|- +... .+... .+.--+.++||++.|++||+||+.-..+ ..-.+.+|.=||+||..
T Consensus 615 v~y~YgT~~aL~aL~a~g~~~~~--~~~Irrav~fLls~Q~~DGGWGEs~~Sc~~~~y~~~~~~~S~~~qTaWAl~aLi~ 692 (759)
T PLN03012 615 ICFTYGTWFALAGLAAAGKTFND--CEAIRKGVHFLLAAQKDNGGWGESYLSCPKKIYIAQEGEISNLVQTAWALMGLIH 692 (759)
T ss_pred ccCCcHHHHHHHHHHHhCccCCC--cHHHHHHHHHHHHhcCCCCCcCCCCCCCCCccccCCCCCCCcHHHHHHHHHHHHH
Confidence 45578887643 3332 11111 3556679999999999999999762111 12457899999999963
No 20
>TIGR03463 osq_cycl 2,3-oxidosqualene cyclase. This model identifies 2,3-oxidosqualene cyclases from Stigmatella aurantiaca which produces cycloartenol, and Gemmata obscuriglobus and Methylococcus capsulatus which each produce the closely related sterol, lanosterol.
Probab=95.54 E-value=0.011 Score=50.17 Aligned_cols=43 Identities=19% Similarity=0.418 Sum_probs=31.8
Q ss_pred cchhHhhHHhh--cccCCCCCCCCCCchHHHHHHHhhcCCCCCcCCCC
Q 039084 16 ISAYDTAWVAL--IKNIDGSDINAPQFPSCLKWIADNQLPHGSWGDDK 61 (87)
Q Consensus 16 ~S~YDTAWVAm--v~~~~g~~~~~p~FP~~~~wil~nQ~~DGsWg~~~ 61 (87)
.++|.|||.-| ... .... .+...+.++||+++|.+||+|+.+.
T Consensus 562 S~~~~TA~Al~aL~~~-g~~~--~~~i~rgi~~L~~~Q~~dG~W~~~~ 606 (634)
T TIGR03463 562 SQAVMTSWALLALAEA-GEGG--HDAVQRGVAWLRSRQQEDGRWPREP 606 (634)
T ss_pred CcHHHHHHHHHHHHHc-CCcC--CHHHHHHHHHHHHhCCCCCCCCCCc
Confidence 46899999444 332 1122 4557789999999999999999764
No 21
>PF07678 A2M_comp: A-macroglobulin complement component; InterPro: IPR011626 This domain covers the complement component region of the alpha-2-macroglobulin family. The alpha-macroglobulin (aM) family of proteins includes protease inhibitors [], typified by the human tetrameric a2-macroglobulin (a2M); they belong to the MEROPS proteinase inhibitor family I39, clan IL. These protease inhibitors share several defining properties, which include (i) the ability to inhibit proteases from all catalytic classes, (ii) the presence of a 'bait region' and a thiol ester, (iii) a similar protease inhibitory mechanism and (iv) the inactivation of the inhibitory capacity by reaction of the thiol ester with small primary amines. aM protease inhibitors inhibit by steric hindrance []. The mechanism involves protease cleavage of the bait region, a segment of the aM that is particularly susceptible to proteolytic cleavage, which initiates a conformational change such that the aM collapses about the protease. In the resulting aM-protease complex, the active site of the protease is sterically shielded, thus substantially decreasing access to protein substrates. Two additional events occur as a consequence of bait region cleavage, namely (i) the h-cysteinyl-g-glutamyl thiol ester becomes highly reactive and (ii) a major conformational change exposes a conserved COOH-terminal receptor binding domain [] (RBD). RBD exposure allows the aM protease complex to bind to clearance receptors and be removed from circulation []. Tetrameric, dimeric, and, more recently, monomeric aM protease inhibitors have been identified [, ].; GO: 0005615 extracellular space; PDB: 1QSJ_D 1QQF_A 4ACQ_C 2B39_B 2WIN_H 2I07_B 2ICF_B 2XWJ_D 3G6J_B 2NOJ_C ....
Probab=95.39 E-value=0.031 Score=41.48 Aligned_cols=69 Identities=22% Similarity=0.290 Sum_probs=44.5
Q ss_pred ccccchhHhhHHhhccc--CCCCCCCCCCchHHHHHHHhhcCCCCCcCCCCc----cc---hhHHHHHHHHHHHHHHh
Q 039084 13 ELGISAYDTAWVALIKN--IDGSDINAPQFPSCLKWIADNQLPHGSWGDDKV----FL---AHDRLINTLACIVALKS 81 (87)
Q Consensus 13 ~~S~S~YDTAWVAmv~~--~~g~~~~~p~FP~~~~wil~nQ~~DGsWg~~~~----~~---~~d~ll~TLAcvlAL~~ 81 (87)
.-++|.+=||.|.++=. ..-..+..-.--+.++||+.+|.+||++.+... .. ..+.+.-|.=+++||..
T Consensus 22 ~~~~s~WLTAfv~k~f~~a~~~i~vd~~~i~~a~~wL~~~Q~~dG~F~e~~~~~~~~~~g~~~~~~~lTA~VliAL~e 99 (246)
T PF07678_consen 22 DSPSSTWLTAFVVKVFSQAKKYIFVDENVICRAVKWLISQQQPDGSFEEDGPVIHREMQGGVEDDIALTAYVLIALLE 99 (246)
T ss_dssp TSSBBHHHHHHHHHHHHHHTTTS-CEHHHHHHHHHHHHHHBETTSEB--SSS-SSGGGSGGGTHHHHHHHHHHHHHHH
T ss_pred CCcccHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHhhcCCCccccCCCccccccCCCCCCCeeehHHHHHHHHh
Confidence 34678999999987532 111111133345789999999999999986531 01 13568888888888864
No 22
>PLN02993 lupeol synthase
Probab=95.38 E-value=0.017 Score=50.54 Aligned_cols=65 Identities=17% Similarity=0.282 Sum_probs=42.0
Q ss_pred ccchhHhhH--HhhcccCCCCCC-CCCCchHHHHHHHhhcCCCCCcCCCCcc------c----hhHHHHHHHHHHHHHHh
Q 039084 15 GISAYDTAW--VALIKNIDGSDI-NAPQFPSCLKWIADNQLPHGSWGDDKVF------L----AHDRLINTLACIVALKS 81 (87)
Q Consensus 15 S~S~YDTAW--VAmv~~~~g~~~-~~p~FP~~~~wil~nQ~~DGsWg~~~~~------~----~~d~ll~TLAcvlAL~~ 81 (87)
.+=+|=|++ .||+.. |... ..+.--.+++||++.|++||+||+.-.. . ..-.+.+|.=|++||..
T Consensus 615 v~y~YgT~~aL~aL~a~--G~~~~~~~~IrrAv~fLls~Q~~DGGWGEs~~S~~~~~y~~~~~~~St~~qTAwAllaL~~ 692 (763)
T PLN02993 615 ICFIYATWFALGGLAAA--GKTYNDCLAMRKGVHFLLTIQRDDGGWGESYLSCPEQRYIPLEGNRSNLVQTAWAMMGLIH 692 (763)
T ss_pred cccCcHHHHHHHHHHHc--CCCCCCcHHHHHHHHHHHHhcCCCCCcCcCcCcCCCcccccCCCCCCchhhHHHHHHHHHH
Confidence 344677775 444332 2110 1355678999999999999999975211 0 12446899999999864
No 23
>PLN03012 Camelliol C synthase
Probab=95.36 E-value=0.018 Score=50.45 Aligned_cols=39 Identities=18% Similarity=0.230 Sum_probs=29.6
Q ss_pred hHHHHHHHhhcCCCCCcCCCCccchhHHHHHHHHHHHHHHhh
Q 039084 41 PSCLKWIADNQLPHGSWGDDKVFLAHDRLINTLACIVALKSW 82 (87)
Q Consensus 41 P~~~~wil~nQ~~DGsWg~~~~~~~~d~ll~TLAcvlAL~~w 82 (87)
-.+++||++.|.+||||++.=..... -.|.+||.||..-
T Consensus 593 ~rAv~~L~~~Q~~DGsW~G~Wgv~y~---YgT~~aL~aL~a~ 631 (759)
T PLN03012 593 KKAAEYIENIQMLDGSWYGNWGICFT---YGTWFALAGLAAA 631 (759)
T ss_pred HHHHHHHHHhcCCCCCCcccccccCC---cHHHHHHHHHHHh
Confidence 35899999999999999975222222 3799999999753
No 24
>PLN02993 lupeol synthase
Probab=94.77 E-value=0.036 Score=48.58 Aligned_cols=38 Identities=21% Similarity=0.289 Sum_probs=27.7
Q ss_pred hHHHHHHHhhcCCCCCcCCCCccchhHHHHHHHHHHHHHHh
Q 039084 41 PSCLKWIADNQLPHGSWGDDKVFLAHDRLINTLACIVALKS 81 (87)
Q Consensus 41 P~~~~wil~nQ~~DGsWg~~~~~~~~d~ll~TLAcvlAL~~ 81 (87)
-.+++||++.|.+||||.+.-.....+ -|..||.||..
T Consensus 593 ~rAv~yL~~~Q~~DGSW~G~Wgv~y~Y---gT~~aL~aL~a 630 (763)
T PLN02993 593 EKAVQFIESKQTPDGSWYGNWGICFIY---ATWFALGGLAA 630 (763)
T ss_pred HHHHHHHHHhcCCCCCcccccccccCc---HHHHHHHHHHH
Confidence 457999999999999996542222233 78888888864
No 25
>cd02897 A2M_2 Proteins similar to alpha2-macroglobulin (alpha (2)-M). This group also contains the pregnancy zone protein (PZP). Alpha(2)-M and PZP are broadly specific proteinase inhibitors. Alpha (2)-M is a major carrier protein in serum. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of proteases. PZP is a trace protein in the plasma of non-pregnant females and males which is elevated in pregnancy. Alpha (2)-M and PZ bind to placental protein-14 and may modulate its activity in T-cell growth and cytokine production contributing to fetal survival. It has been suggested that thioester bond cleavage promotes the binding of PZ and alpha (2)-M to the CD91 receptor clearing them from circulation.
Probab=94.76 E-value=0.043 Score=41.09 Aligned_cols=56 Identities=21% Similarity=0.337 Sum_probs=36.2
Q ss_pred ccchhHhhHHhhccc-CCCCCCCCCCchHHHHHHHhhcCCCCCcCCCCccchhHHHHHHHHHHHHHHh
Q 039084 15 GISAYDTAWVALIKN-IDGSDINAPQFPSCLKWIADNQLPHGSWGDDKVFLAHDRLINTLACIVALKS 81 (87)
Q Consensus 15 S~S~YDTAWVAmv~~-~~g~~~~~p~FP~~~~wil~nQ~~DGsWg~~~~~~~~d~ll~TLAcvlAL~~ 81 (87)
++++=+|||+.|.-. ..... .+.--..++||.++|.+||+|+.- . .|.-|+.||.+
T Consensus 235 ~~~ve~TAyaLlall~~~~~~--~~~~~~~v~WL~~~q~~~Ggf~sT-----Q----dt~~al~AL~~ 291 (292)
T cd02897 235 SAEVEMTAYALLALLSAGGED--LAEALPIVKWLAKQRNSLGGFSST-----Q----DTVVALQALAK 291 (292)
T ss_pred cchHHHHHHHHHHHHHcCCcc--HhHHHHHHHHHHHcCCCCCCcccH-----H----HHHHHHHHHHc
Confidence 456667999776432 11112 222224577999999999999955 2 46677888864
No 26
>TIGR01787 squalene_cyclas squalene/oxidosqualene cyclases. This family of enzymes catalyzes the cyclization of the triterpenes squalene or 2-3-oxidosqualene to a variety of products including hopene, lanosterol, cycloartenol, amyrin, lupeol and isomultiflorenol.
Probab=94.45 E-value=0.043 Score=46.42 Aligned_cols=68 Identities=24% Similarity=0.250 Sum_probs=41.0
Q ss_pred CccccchhHhh-HHhhcccCCCCCCCCCCchHHHHHHHhhcCCCCCcCCCCccchhHHHHHHHHHHHHHHhhc
Q 039084 12 GELGISAYDTA-WVALIKNIDGSDINAPQFPSCLKWIADNQLPHGSWGDDKVFLAHDRLINTLACIVALKSWD 83 (87)
Q Consensus 12 g~~S~S~YDTA-WVAmv~~~~g~~~~~p~FP~~~~wil~nQ~~DGsWg~~~~~~~~d~ll~TLAcvlAL~~w~ 83 (87)
|+++.++.=|| +|-+.--.+-.. .+.--+.++||++.|++||+||.... ..--|..|.=+-+||+-=.
T Consensus 21 ~~~~~~~~~~a~~i~~~~~~g~~~--~~~~~~~~~~l~~~Q~~DGgW~~~~~--~~~~~~~Tv~aY~aLrl~G 89 (621)
T TIGR01787 21 GELEGPLTLLAEYVLLCHIADTPL--PGYREKIVRYLRHHQNEDGGWGLHIG--GKSTVFGTVLAYVALKILG 89 (621)
T ss_pred cccCCccccCHHHHHHHHHhcCCC--hHHHHHHHHHHHHhcCCCCCeeCCcC--CCcchHHHHHHHHHHHHcC
Confidence 44444454455 444433222111 23345889999999999999995421 1244677777788887543
No 27
>TIGR01507 hopene_cyclase squalene-hopene cyclase. SHC is an essential prokaryotic gene in hopanoid (triterpenoid) biosynthesis. Squalene hopene cyclase, an integral membrane protein, directly cyclizes squalene into hopanoid products.
Probab=93.68 E-value=0.089 Score=44.78 Aligned_cols=69 Identities=25% Similarity=0.289 Sum_probs=41.8
Q ss_pred CccccchhHhh-HHhhcccCCCCCCCCCCchHHHHHHHhhcCCCCCcCCCCccchhHHHHHHHHHHHHHHhhcc
Q 039084 12 GELGISAYDTA-WVALIKNIDGSDINAPQFPSCLKWIADNQLPHGSWGDDKVFLAHDRLINTLACIVALKSWDA 84 (87)
Q Consensus 12 g~~S~S~YDTA-WVAmv~~~~g~~~~~p~FP~~~~wil~nQ~~DGsWg~~~~~~~~d~ll~TLAcvlAL~~w~~ 84 (87)
|+++.++.=|| +|-+.--.+-.. .+.--+..+||++.|++||+||.... ..-.|..|.=+-+||+-=..
T Consensus 37 ~e~~~~~~~~a~~i~~~~~~g~~~--~~~~~~~~~~l~~~Q~~DGgWg~~~~--~~~~~~~Tv~~Y~aLrl~G~ 106 (635)
T TIGR01507 37 GELESNVTIEAEYVLLCHILDRVD--RDRMEKIRNYLLHEQREDGTWALYPG--GPGDLSTTVEAYVALKYIGM 106 (635)
T ss_pred cccCCcchhcHHHHHHHHHHCCCc--HHHHHHHHHHHHHhccCCCCccCccC--CCcchhHHHHHHHHHHHhCC
Confidence 45555555555 444433222111 33345778999999999999996521 13446677777778875443
No 28
>cd02892 SQCY_1 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization cascade converting linear triterpenes to fused ring compounds. This group contains bacterial SQCY which catalyzes the convertion of squalene to hopene or diplopterol and eukaryotic OSQCY which transforms the 2,3-epoxide of squalene to compounds such as, lanosterol in mammals and fungi or, cycloartenol in plants. Deletion of a single glycine residue of Alicyclobacillus acidocaldarius SQCY alters its substrate specificity into that of eukaryotic OSQCY. Both enzymes have a second minor domain, which forms an alpha-alpha barrel that is inserted into the major domain.
Probab=93.68 E-value=0.11 Score=43.78 Aligned_cols=69 Identities=23% Similarity=0.369 Sum_probs=42.4
Q ss_pred CccccchhHhh-HHhhcccCCCC-CCCCCCchHHHHHHHhhcCCCCCcCCCCccchhHHHHHHHHHHHHHHhhcc
Q 039084 12 GELGISAYDTA-WVALIKNIDGS-DINAPQFPSCLKWIADNQLPHGSWGDDKVFLAHDRLINTLACIVALKSWDA 84 (87)
Q Consensus 12 g~~S~S~YDTA-WVAmv~~~~g~-~~~~p~FP~~~~wil~nQ~~DGsWg~~~~~~~~d~ll~TLAcvlAL~~w~~ 84 (87)
|+++.++.=|| +|-+.--.+-. . .+.-.+.+.||++.|++||+||... . ..--|..|.=+-+||+-=..
T Consensus 20 ~e~~~~~~~~~~~i~~~~~~~~~~~--~~~~~~~~~~l~~~q~~dGgw~~~~-~-~~~~~~~T~~~Y~aLrl~G~ 90 (634)
T cd02892 20 GELEGPLFITAEYILLLYILGIPID--PEHRKEIARYLRNHQNPDGGWGLHH-E-GPSTMFGTVLNYVALRLLGV 90 (634)
T ss_pred cccCCcchhhHHHHHHHHHhcCCCC--HHHHHHHHHHHHHhccCCCCccCCC-C-CCcchHHHHHHHHHHHHcCC
Confidence 45555555555 55444332221 1 3344588999999999999999552 1 13346667777778875443
No 29
>cd02890 PTase Protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold). The protein prenyltransferase family of lipid-modifying enzymes includes protein farnesyltransferase (FTase) and geranylgeranyltransferase types I and II (GGTase-I and GGTase-II). They catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. Prenyltransferases employ a Zn2+ ion to alkylate a thiol group catalyzing the formation of thioether linkages between the C1 atom of farnesyl (15-carbon by FTase) or geranylgeranyl (20-carbon by GGTase-I, II) isoprenoid lipids and cysteine residues at or near the C-terminus of protein acceptors. FTase and GGTase-I prenylate the cysteine in the terminal sequence, "CAAX"; and GGTase-II prenylates both cysteines in the "CC" (or "CXC") terminal sequence. These enzymes are heterodimeric with both alpha and beta subunits re
Probab=93.43 E-value=0.086 Score=39.17 Aligned_cols=24 Identities=17% Similarity=0.184 Sum_probs=20.9
Q ss_pred CCCchHHHHHHHhhcCCCCCcCCC
Q 039084 37 APQFPSCLKWIADNQLPHGSWGDD 60 (87)
Q Consensus 37 ~p~FP~~~~wil~nQ~~DGsWg~~ 60 (87)
.....+.++||++.|.+||+|+..
T Consensus 145 ~~~~~~~~~~l~~~Q~~dGGf~~~ 168 (286)
T cd02890 145 DIDKEKLIDYILSCQNYDGGFGGV 168 (286)
T ss_pred hhhHHHHHHHHHHhCCCCCCcCCC
Confidence 456889999999999999999953
No 30
>PLN03201 RAB geranylgeranyl transferase beta-subunit; Provisional
Probab=92.43 E-value=0.19 Score=39.08 Aligned_cols=40 Identities=18% Similarity=0.361 Sum_probs=31.7
Q ss_pred chHHHHHHHhhcCCCCCcCCCCccchhHHHHHHHHHHHHHHh
Q 039084 40 FPSCLKWIADNQLPHGSWGDDKVFLAHDRLINTLACIVALKS 81 (87)
Q Consensus 40 FP~~~~wil~nQ~~DGsWg~~~~~~~~d~ll~TLAcvlAL~~ 81 (87)
.-..++||++.|.+||+++.... ....+.+|.+|+.+|.-
T Consensus 58 ~~~~i~~l~~cq~~~GGF~~~~~--~~~h~~~Ty~al~~L~l 97 (316)
T PLN03201 58 RDEVVSWVMRCQHESGGFGGNTG--HDPHILYTLSAVQILAL 97 (316)
T ss_pred HHHHHHHHHHhcCCCCCcCCCCC--CcccHHHHHHHHHHHHH
Confidence 56899999999999999986431 23468899999988853
No 31
>cd02890 PTase Protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold). The protein prenyltransferase family of lipid-modifying enzymes includes protein farnesyltransferase (FTase) and geranylgeranyltransferase types I and II (GGTase-I and GGTase-II). They catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. Prenyltransferases employ a Zn2+ ion to alkylate a thiol group catalyzing the formation of thioether linkages between the C1 atom of farnesyl (15-carbon by FTase) or geranylgeranyl (20-carbon by GGTase-I, II) isoprenoid lipids and cysteine residues at or near the C-terminus of protein acceptors. FTase and GGTase-I prenylate the cysteine in the terminal sequence, "CAAX"; and GGTase-II prenylates both cysteines in the "CC" (or "CXC") terminal sequence. These enzymes are heterodimeric with both alpha and beta subunits re
Probab=91.96 E-value=0.25 Score=36.70 Aligned_cols=43 Identities=19% Similarity=0.248 Sum_probs=33.7
Q ss_pred CCCchHHHHHHHhhc-CCCCCcCCCCccchhHHHHHHHHHHHHHHh
Q 039084 37 APQFPSCLKWIADNQ-LPHGSWGDDKVFLAHDRLINTLACIVALKS 81 (87)
Q Consensus 37 ~p~FP~~~~wil~nQ-~~DGsWg~~~~~~~~d~ll~TLAcvlAL~~ 81 (87)
.-...++++||++.| .+||+|+... ...-.+..|.+++.+|.-
T Consensus 46 ~~~~~~~i~~l~~~q~~~~Ggf~~~~--~~~~~~~~T~~al~~l~l 89 (286)
T cd02890 46 DENKDEIIDFIYSCQVNEDGGFGGGP--GQDPHLASTYAAVLSLAI 89 (286)
T ss_pred hHHHHHHHHHHHHhhcCCCCCCCCCC--CCCccHHHHHHHHHHHHH
Confidence 344678999999999 9999999642 134568899999998864
No 32
>cd02894 GGTase-II Geranylgeranyltransferase type II (GGTase-II)_like proteins containing the protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold). GGTase-IIs are a subgroup of the protein prenyltransferase family of lipid-modifying enzymes. PTases catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. Prenyltransferases employ a Zn2+ ion to alkylate a thiol group catalyzing the formation of thioether linkages between cysteine residues at or near the C-terminus of protein acceptors and the C1 atom of isoprenoid lipids (geranylgeranyl (20-carbon) in the case of GGTase-II ). GGTase-II catalyzes alkylation of both cysteine residues in Rab proteins containing carboxy-terminal "CC", "CXCX" or "CXC" motifs. PTases are heterodimeric with both alpha and beta subunits required for catalytic activity. In contrast to other prenyltr
Probab=91.50 E-value=0.29 Score=37.03 Aligned_cols=40 Identities=15% Similarity=0.208 Sum_probs=28.9
Q ss_pred chHHHHHHHhhcCCCCCcCCCCccchhHHHHHHHHHHHHHHh
Q 039084 40 FPSCLKWIADNQLPHGSWGDDKVFLAHDRLINTLACIVALKS 81 (87)
Q Consensus 40 FP~~~~wil~nQ~~DGsWg~~~~~~~~d~ll~TLAcvlAL~~ 81 (87)
...+++||++.|.+||+|+.... ..-....|-.||.+|+-
T Consensus 150 ~~~~~~~l~~~q~~dGGF~~~~~--~es~~~~t~cavasL~l 189 (287)
T cd02894 150 VDKAVDYLLSCYNFDGGFGCRPG--AESHAGQIFCCVGALAI 189 (287)
T ss_pred HHHHHHHHHHcCCCCCCcCCCCC--CCCchhHHHHHHHHHHH
Confidence 57999999999999999996421 12235667777777654
No 33
>cd02893 FTase Protein farnesyltransferase (FTase)_like proteins containing the protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold). FTases are a subgroup of PTase family of lipid-modifying enzymes. PTases catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. These proteins are heterodimers of alpha and beta subunits. Both subunits are required for catalytic activity. Prenyltransferases employ a Zn2+ ion to alkylate a thiol group catalyzing the formation of thioether linkages between cysteine residues at or near the C-terminus of protein acceptors and the C1 atom of isoprenoid lipids. Ftase attaches a 15-carbon farnesyl group to the cysteine within the C-terminal CaaX motif of substrate proteins when X is Ala, Met, Ser, Cys or Gln. Protein farnesylation has been shown to play critical roles in a variety of cellular pro
Probab=88.83 E-value=0.72 Score=35.50 Aligned_cols=40 Identities=23% Similarity=0.298 Sum_probs=31.5
Q ss_pred chHHHHHHHhhcCCCCCcCCCCccchhHHHHHHHHHHHHHHh
Q 039084 40 FPSCLKWIADNQLPHGSWGDDKVFLAHDRLINTLACIVALKS 81 (87)
Q Consensus 40 FP~~~~wil~nQ~~DGsWg~~~~~~~~d~ll~TLAcvlAL~~ 81 (87)
-.+.++||...|.+||+-+... ...--+.+|.+|+.+|.-
T Consensus 49 ~~~~i~~i~~~q~~~GgF~~~~--~~~~h~~~Ty~A~~~L~l 88 (299)
T cd02893 49 ADDVISFLRRCQNPSGGFGGGP--GQLPHLATTYAAVNALAI 88 (299)
T ss_pred HHHHHHHHHHhcCCCCCCCCCC--CCCccHHHHHHHHHHHHH
Confidence 3589999999999999998642 124558899999988864
No 34
>cd02891 A2M_like Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of proteases. This group contains another broadly specific proteinase inhibitor: pregnancy zone protein (PZP). PZP is a trace protein in the plasma of non-pregnant females and males which is elevated in pregnancy. Alpha (2)-M and PZ bind to placental protein-14 and may modulate its activity in T-cell growth and cytokine production thereby protecting the allogeneic fetus from attack by the maternal immune system. This group also contains C3, C4 and C5 of vertebrate complement. The vertebrate complement is an effector of both the acquired and innate immune systems The point of convergence of the classical, alternative and lectin pathways of the complement system is the proteolytic activation of C3. C4 plays a key role in propaga
Probab=85.99 E-value=1.2 Score=32.25 Aligned_cols=41 Identities=12% Similarity=-0.056 Sum_probs=25.2
Q ss_pred chHHHHHHHhhcCCCCCcCCCCccchhHHHHHHHHHHHHHHh
Q 039084 40 FPSCLKWIADNQLPHGSWGDDKVFLAHDRLINTLACIVALKS 81 (87)
Q Consensus 40 FP~~~~wil~nQ~~DGsWg~~~~~~~~d~ll~TLAcvlAL~~ 81 (87)
--+.+++|++.|++|||||--...... ..--|.-++.+|.+
T Consensus 51 i~~~~~~l~~~Q~~dGgf~~w~~~~~~-~~~~Ta~~~~~L~~ 91 (282)
T cd02891 51 IRKGYQRLLTYQRSDGSFSAWGNSDSG-STWLTAYVVKFLSQ 91 (282)
T ss_pred HHHHHHHHHhhcCCCCCccccCCCCCC-chHHHHHHHHHHHH
Confidence 346799999999999999833211011 22235556666653
No 35
>cd02894 GGTase-II Geranylgeranyltransferase type II (GGTase-II)_like proteins containing the protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold). GGTase-IIs are a subgroup of the protein prenyltransferase family of lipid-modifying enzymes. PTases catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. Prenyltransferases employ a Zn2+ ion to alkylate a thiol group catalyzing the formation of thioether linkages between cysteine residues at or near the C-terminus of protein acceptors and the C1 atom of isoprenoid lipids (geranylgeranyl (20-carbon) in the case of GGTase-II ). GGTase-II catalyzes alkylation of both cysteine residues in Rab proteins containing carboxy-terminal "CC", "CXCX" or "CXC" motifs. PTases are heterodimeric with both alpha and beta subunits required for catalytic activity. In contrast to other prenyltr
Probab=84.87 E-value=1.5 Score=33.21 Aligned_cols=21 Identities=29% Similarity=0.298 Sum_probs=18.3
Q ss_pred chHHHHHHHhhcCCCCCcCCC
Q 039084 40 FPSCLKWIADNQLPHGSWGDD 60 (87)
Q Consensus 40 FP~~~~wil~nQ~~DGsWg~~ 60 (87)
-.+.++||.+-|.+||+|+..
T Consensus 102 ~~~~~~~i~~~q~~dGgf~~~ 122 (287)
T cd02894 102 KEKIAKFIKGLQNEDGSFSGD 122 (287)
T ss_pred HHHHHHHHHHHcCCCCCeecC
Confidence 457899999999999999854
No 36
>PF07678 A2M_comp: A-macroglobulin complement component; InterPro: IPR011626 This domain covers the complement component region of the alpha-2-macroglobulin family. The alpha-macroglobulin (aM) family of proteins includes protease inhibitors [], typified by the human tetrameric a2-macroglobulin (a2M); they belong to the MEROPS proteinase inhibitor family I39, clan IL. These protease inhibitors share several defining properties, which include (i) the ability to inhibit proteases from all catalytic classes, (ii) the presence of a 'bait region' and a thiol ester, (iii) a similar protease inhibitory mechanism and (iv) the inactivation of the inhibitory capacity by reaction of the thiol ester with small primary amines. aM protease inhibitors inhibit by steric hindrance []. The mechanism involves protease cleavage of the bait region, a segment of the aM that is particularly susceptible to proteolytic cleavage, which initiates a conformational change such that the aM collapses about the protease. In the resulting aM-protease complex, the active site of the protease is sterically shielded, thus substantially decreasing access to protein substrates. Two additional events occur as a consequence of bait region cleavage, namely (i) the h-cysteinyl-g-glutamyl thiol ester becomes highly reactive and (ii) a major conformational change exposes a conserved COOH-terminal receptor binding domain [] (RBD). RBD exposure allows the aM protease complex to bind to clearance receptors and be removed from circulation []. Tetrameric, dimeric, and, more recently, monomeric aM protease inhibitors have been identified [, ].; GO: 0005615 extracellular space; PDB: 1QSJ_D 1QQF_A 4ACQ_C 2B39_B 2WIN_H 2I07_B 2ICF_B 2XWJ_D 3G6J_B 2NOJ_C ....
Probab=83.11 E-value=1.4 Score=32.61 Aligned_cols=35 Identities=17% Similarity=0.516 Sum_probs=26.7
Q ss_pred chHHHHHHHhhcCCCCCcCCCCccchhHHHHHHHHHHHHHHhhc
Q 039084 40 FPSCLKWIADNQLPHGSWGDDKVFLAHDRLINTLACIVALKSWD 83 (87)
Q Consensus 40 FP~~~~wil~nQ~~DGsWg~~~~~~~~d~ll~TLAcvlAL~~w~ 83 (87)
-...++||.++|..+|+|+.. . .|.-|+.||....
T Consensus 211 ~~~iv~WL~~qr~~~Ggf~ST-----Q----dTvvaL~AL~~Ya 245 (246)
T PF07678_consen 211 ASPIVRWLISQRNSGGGFGST-----Q----DTVVALQALAEYA 245 (246)
T ss_dssp HHHHHHHHHHCTTTTSSTSSH-----H----HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCccCcH-----H----HHHHHHHHHHHHh
Confidence 446799999999999999954 3 3666777876653
No 37
>TIGR02474 pec_lyase pectate lyase, PelA/Pel-15E family. Members of this family are isozymes of pectate lyase (EC 4.2.2.2), also called polygalacturonic transeliminase and alpha-1,4-D-endopolygalacturonic acid lyase.
Probab=83.09 E-value=1.3 Score=35.13 Aligned_cols=38 Identities=13% Similarity=0.317 Sum_probs=25.4
Q ss_pred HHhhcccCCCCCCCCCCchHHHHHHHhhcCCCCCcCCC
Q 039084 23 WVALIKNIDGSDINAPQFPSCLKWIADNQLPHGSWGDD 60 (87)
Q Consensus 23 WVAmv~~~~g~~~~~p~FP~~~~wil~nQ~~DGsWg~~ 60 (87)
.+|.+-...+...-.-.|-.+++|||.-|.++|+|..-
T Consensus 52 fLa~~y~~t~d~~y~~A~~rgld~LL~aQypnGGWPQf 89 (290)
T TIGR02474 52 YLAQVYQQEKNAKYRDAARKGIEYLLKAQYPNGGWPQF 89 (290)
T ss_pred HHHHHHHhcCchhHHHHHHHHHHHHHhhhCCCCCcCcc
Confidence 55655443221111345778899999999999999843
No 38
>cd02896 complement_C3_C4_C5 Proteins similar to C3, C4 and C5 of vertebrate complement. The vertebrate complement system, comprised of a large number of distinct plasma proteins, is an effector of both the acquired and innate immune systems. The point of convergence of the classical, alternative and lectin pathways of the complement system is the proteolytic activation of C3. C4 plays a key role in propagating the classical and lectin pathways. C5 participates in the classical and alternative pathways. The thioester bond located within the structure of C3 and C4 is central to the function of complement. C5 does not contain an active thioester bond.
Probab=82.25 E-value=2 Score=32.60 Aligned_cols=52 Identities=23% Similarity=0.357 Sum_probs=32.8
Q ss_pred chhHhhHHhhcccCCCCCCCCCCchHHHHHHHhhcCCCCCcCCCCccchhHHHHHHHHHHHHHH
Q 039084 17 SAYDTAWVALIKNIDGSDINAPQFPSCLKWIADNQLPHGSWGDDKVFLAHDRLINTLACIVALK 80 (87)
Q Consensus 17 S~YDTAWVAmv~~~~g~~~~~p~FP~~~~wil~nQ~~DGsWg~~~~~~~~d~ll~TLAcvlAL~ 80 (87)
++-=|||+.|.--..+ + ...-...++||.++|..+|+|+.- .| |.-|+-||.
T Consensus 244 ~vE~TAYALLall~~~-~--~~~a~~iv~WL~~qr~~~Ggf~sT-----Qd----Tvval~AL~ 295 (297)
T cd02896 244 TVETTAYALLALLKLG-D--IEYANPIARWLTEQRNYGGGFGST-----QD----TVVALQALA 295 (297)
T ss_pred hhHHHHHHHHHHHhcC-C--chhHHHHHHHHHhcCCCCCCeehH-----HH----HHHHHHHHh
Confidence 5667888666432112 1 112335699999999999999853 33 555666664
No 39
>KOG0497 consensus Oxidosqualene-lanosterol cyclase and related proteins [Lipid transport and metabolism]
Probab=82.06 E-value=1.4 Score=39.06 Aligned_cols=40 Identities=20% Similarity=0.442 Sum_probs=30.3
Q ss_pred hHHHHHHHhhcCCCCCcCCCCccc----------hhHHHHHHHHHHHHHH
Q 039084 41 PSCLKWIADNQLPHGSWGDDKVFL----------AHDRLINTLACIVALK 80 (87)
Q Consensus 41 P~~~~wil~nQ~~DGsWg~~~~~~----------~~d~ll~TLAcvlAL~ 80 (87)
-.++++|+..|++||+||.+...+ ..--+++|.=|+.||-
T Consensus 641 rka~~Fll~~Q~~~GGWgEs~lscp~~~Yi~~~gn~s~vv~T~wAlm~Li 690 (760)
T KOG0497|consen 641 RKACDFLLSKQNPDGGWGESYLSCPEKRYIPLEGNKSNVVQTAWALMALI 690 (760)
T ss_pred HHHHHHHHhhhcccCCCccccccCccccccccccccccchhHHHHHHHHH
Confidence 467999999999999999762111 1345888888888874
No 40
>PLN03201 RAB geranylgeranyl transferase beta-subunit; Provisional
Probab=81.17 E-value=1.4 Score=34.24 Aligned_cols=21 Identities=14% Similarity=0.295 Sum_probs=18.7
Q ss_pred chHHHHHHHhhcCCCCCcCCC
Q 039084 40 FPSCLKWIADNQLPHGSWGDD 60 (87)
Q Consensus 40 FP~~~~wil~nQ~~DGsWg~~ 60 (87)
...+++||++-|..||+++..
T Consensus 154 ~~~~~~~i~scq~~dGGF~~~ 174 (316)
T PLN03201 154 VEKAVDYIVSCKNFDGGFGCT 174 (316)
T ss_pred HHHHHHHHHHhcCCCCCcCCC
Confidence 568999999999999999953
No 41
>PLN02710 farnesyltranstransferase subunit beta
Probab=80.01 E-value=2.8 Score=34.81 Aligned_cols=39 Identities=21% Similarity=0.356 Sum_probs=30.3
Q ss_pred hHHHHHHHhhcCCCCCcCCCCccchhHHHHHHHHHHHHHHh
Q 039084 41 PSCLKWIADNQLPHGSWGDDKVFLAHDRLINTLACIVALKS 81 (87)
Q Consensus 41 P~~~~wil~nQ~~DGsWg~~~~~~~~d~ll~TLAcvlAL~~ 81 (87)
.+.++||.+-|.+||+.|.... ..--+.+|.+||.+|.-
T Consensus 95 ~~ii~~l~~cQ~~dGGFgg~pg--~~~hl~~TY~Av~~L~i 133 (439)
T PLN02710 95 NDTIDFLSRCQDPNGGYGGGPG--QLPHLATTYAAVNTLVT 133 (439)
T ss_pred HHHHHHHHHhcCCCcCCCCCCC--CCccHHHHHHHHHHHHH
Confidence 4689999999999999985421 23468889999888854
No 42
>cd02895 GGTase-I Geranylgeranyltransferase types I (GGTase-I)-like proteins containing the protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold). GGTase-I s are a subgroup of the protein prenyltransferase family of lipid-modifying enzymes PTases catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. Prenyltransferases employ a Zn2+ ion to alkylate a thiol group catalyzing the formation of thioether linkages between cysteine residues at or near the C-terminus of protein acceptors and the C1 atom of isoprenoid lipids (geranylgeranyl (20-carbon) in the case of GGTase-I ). GGTase-I prenylates the cysteine in the terminal sequence, "CAAX" when X is Leu or Phe. Substrates for GTTase-I include the gamma subunit of neural G-proteins and several Ras-related G-proteins. PTases are heterodimeric with both alpha and beta subunits r
Probab=78.39 E-value=3.5 Score=31.88 Aligned_cols=22 Identities=18% Similarity=0.368 Sum_probs=19.1
Q ss_pred CchHHHHHHHhhcCCCCCcCCC
Q 039084 39 QFPSCLKWIADNQLPHGSWGDD 60 (87)
Q Consensus 39 ~FP~~~~wil~nQ~~DGsWg~~ 60 (87)
-....++||++-|..||+++..
T Consensus 166 d~~~li~~l~s~Q~~dGGF~~~ 187 (307)
T cd02895 166 DKEKLIDYIKSSQSYDGGFGQG 187 (307)
T ss_pred cHHHHHHHHHHccCCCCCccCC
Confidence 3678999999999999999854
No 43
>cd02895 GGTase-I Geranylgeranyltransferase types I (GGTase-I)-like proteins containing the protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold). GGTase-I s are a subgroup of the protein prenyltransferase family of lipid-modifying enzymes PTases catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. Prenyltransferases employ a Zn2+ ion to alkylate a thiol group catalyzing the formation of thioether linkages between cysteine residues at or near the C-terminus of protein acceptors and the C1 atom of isoprenoid lipids (geranylgeranyl (20-carbon) in the case of GGTase-I ). GGTase-I prenylates the cysteine in the terminal sequence, "CAAX" when X is Leu or Phe. Substrates for GTTase-I include the gamma subunit of neural G-proteins and several Ras-related G-proteins. PTases are heterodimeric with both alpha and beta subunits r
Probab=70.26 E-value=8 Score=29.92 Aligned_cols=41 Identities=22% Similarity=0.370 Sum_probs=30.4
Q ss_pred hHHHHHHHhhc----CCCCCcCCCCc--------cchhHHHHHHHHHHHHHHh
Q 039084 41 PSCLKWIADNQ----LPHGSWGDDKV--------FLAHDRLINTLACIVALKS 81 (87)
Q Consensus 41 P~~~~wil~nQ----~~DGsWg~~~~--------~~~~d~ll~TLAcvlAL~~ 81 (87)
.+.++||.+.| .+||+.+.... ......+..|.+|+.+|.-
T Consensus 52 ~~~i~~i~~~q~~~~~~~GgF~~~~~~~~~~~~~~~~~~~l~~ty~Al~~L~l 104 (307)
T cd02895 52 DDIIEWIYSLQVLSNLPRGGFRGSSTLGLPGTASKYDTGNLAMTYFALLSLLI 104 (307)
T ss_pred HHHHHHHHHHhcccCCCCCCCCCCCCCccccccccCCcccHHHHHHHHHHHHH
Confidence 57899999999 99999886421 1124568888888887753
No 44
>KOG0497 consensus Oxidosqualene-lanosterol cyclase and related proteins [Lipid transport and metabolism]
Probab=61.68 E-value=9.2 Score=34.16 Aligned_cols=32 Identities=31% Similarity=0.452 Sum_probs=22.4
Q ss_pred HHHHHHHhhcCCCCCcCCCCccchhHHHHHHHHHHHHH
Q 039084 42 SCLKWIADNQLPHGSWGDDKVFLAHDRLINTLACIVAL 79 (87)
Q Consensus 42 ~~~~wil~nQ~~DGsWg~~~~~~~~d~ll~TLAcvlAL 79 (87)
..++||.+.|++||||-..= +++=|.+..-|+
T Consensus 593 ~av~~ie~~Q~~DGSWyGsW------gvCFtY~t~Fa~ 624 (760)
T KOG0497|consen 593 KAVEFIEKLQLPDGSWYGSW------GVCFTYGTWFAL 624 (760)
T ss_pred HHHHHHHHcCCCCCcccchh------hHHHHHHHHHhc
Confidence 46789999999999997652 344455544444
No 45
>cd02893 FTase Protein farnesyltransferase (FTase)_like proteins containing the protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold). FTases are a subgroup of PTase family of lipid-modifying enzymes. PTases catalyze the carboxyl-terminal lipidation of Ras, Rab, and several other cellular signal transduction proteins, facilitating membrane associations and specific protein-protein interactions. These proteins are heterodimers of alpha and beta subunits. Both subunits are required for catalytic activity. Prenyltransferases employ a Zn2+ ion to alkylate a thiol group catalyzing the formation of thioether linkages between cysteine residues at or near the C-terminus of protein acceptors and the C1 atom of isoprenoid lipids. Ftase attaches a 15-carbon farnesyl group to the cysteine within the C-terminal CaaX motif of substrate proteins when X is Ala, Met, Ser, Cys or Gln. Protein farnesylation has been shown to play critical roles in a variety of cellular pro
Probab=61.53 E-value=9.3 Score=29.39 Aligned_cols=38 Identities=16% Similarity=0.083 Sum_probs=25.3
Q ss_pred chHHHHHHH-hhcCCCCCcCCCCccchhHHHHHHHHHHHHH
Q 039084 40 FPSCLKWIA-DNQLPHGSWGDDKVFLAHDRLINTLACIVAL 79 (87)
Q Consensus 40 FP~~~~wil-~nQ~~DGsWg~~~~~~~~d~ll~TLAcvlAL 79 (87)
.+...+||+ .+|..+|+|.+.. . ..-.+..|.-++.+|
T Consensus 258 ~~~l~~~il~~~q~~~GGf~~~p-~-~~~D~yHT~~~l~~L 296 (299)
T cd02893 258 QEALQEYILLCCQSEEGGLRDKP-G-KPRDFYHTCYALSGL 296 (299)
T ss_pred HHHHHHHHHHhcCCCCCCcCCCC-C-CCCCchhHHHHHHHH
Confidence 788999999 5677899997532 1 122355666666655
No 46
>KOG0366 consensus Protein geranylgeranyltransferase type II, beta subunit [Posttranslational modification, protein turnover, chaperones]
Probab=61.35 E-value=17 Score=29.51 Aligned_cols=41 Identities=17% Similarity=0.275 Sum_probs=31.9
Q ss_pred hHHHHHHHhhcCCCCCcCCCCccchhHHHHHHHHHHHHHHhhc
Q 039084 41 PSCLKWIADNQLPHGSWGDDKVFLAHDRLINTLACIVALKSWD 83 (87)
Q Consensus 41 P~~~~wil~nQ~~DGsWg~~~~~~~~d~ll~TLAcvlAL~~w~ 83 (87)
-+-+.|++.=|++||+-+.... --.-|++||.||--|...+
T Consensus 69 eeiv~~v~~C~~~~GGfa~~~G--hd~hll~TlsAvQiL~~yd 109 (329)
T KOG0366|consen 69 EEIVSFVLSCQHEDGGFAGCPG--HDPHLLYTLSAVQILALYD 109 (329)
T ss_pred HHHHHHHHheecCCCCcCCCCC--CChHHHHHHHHHHHHHHHc
Confidence 4789999999999999985421 1345999999998776554
No 47
>PF09492 Pec_lyase: Pectic acid lyase; InterPro: IPR012669 Members of this family are isozymes of pectate lyase (4.2.2.2 from EC), also called polygalacturonic transeliminase and alpha-1,4-D-endopolygalacturonic acid lyase.; PDB: 1R76_A 1GXM_B 1GXN_A 1GXO_A.
Probab=59.43 E-value=6 Score=31.30 Aligned_cols=38 Identities=18% Similarity=0.359 Sum_probs=21.8
Q ss_pred HHhhcccCCCCCCCCCCchHHHHHHHhhcCCCCCcCCC
Q 039084 23 WVALIKNIDGSDINAPQFPSCLKWIADNQLPHGSWGDD 60 (87)
Q Consensus 23 WVAmv~~~~g~~~~~p~FP~~~~wil~nQ~~DGsWg~~ 60 (87)
.+|.+-...+..--+.-|-..|+|||..|-+.|+|...
T Consensus 47 fLa~~y~~t~d~~y~~A~~kgl~ylL~aQypnGGWPQ~ 84 (289)
T PF09492_consen 47 FLARVYQATKDPRYREAFLKGLDYLLKAQYPNGGWPQF 84 (289)
T ss_dssp HHHHHHHHCG-HHHHHHHHHHHHHHHHHS-TTS--BSE
T ss_pred HHHHHHHHhCChHHHHHHHHHHHHHHHhhCCCCCCCcc
Confidence 55655542221100344678899999999999999853
No 48
>PF09282 Mago-bind: Mago binding; InterPro: IPR015362 Members of this family adopt a structure consisting of a small globular all-beta-domain, with a three-stranded beta-sheet and a contiguous beta-hairpin. They bind to Mago alpha-helices via extensive electrostatic interactions and at a beta2-beta3 loop via hydrophobic interactions []. ; GO: 0005515 protein binding; PDB: 1RK8_C.
Probab=55.65 E-value=1.7 Score=23.51 Aligned_cols=14 Identities=36% Similarity=0.902 Sum_probs=6.9
Q ss_pred HHhhcCCCCCcCCC
Q 039084 47 IADNQLPHGSWGDD 60 (87)
Q Consensus 47 il~nQ~~DGsWg~~ 60 (87)
|-..|++||+|--+
T Consensus 5 I~~s~RpDGt~RK~ 18 (27)
T PF09282_consen 5 IPASQRPDGTWRKE 18 (27)
T ss_dssp E--EE-TTS-EE--
T ss_pred cCcccCCCCCcccc
Confidence 45679999999744
No 49
>COG5029 CAL1 Prenyltransferase, beta subunit [Posttranslational modification, protein turnover, chaperones]
Probab=55.55 E-value=15 Score=30.03 Aligned_cols=44 Identities=16% Similarity=0.089 Sum_probs=33.7
Q ss_pred CCCchHHHHHHHhhcCCCCCcCCC----CccchhHHHHHHHHHHHHHH
Q 039084 37 APQFPSCLKWIADNQLPHGSWGDD----KVFLAHDRLINTLACIVALK 80 (87)
Q Consensus 37 ~p~FP~~~~wil~nQ~~DGsWg~~----~~~~~~d~ll~TLAcvlAL~ 80 (87)
.+.|-..++||+.-|+-||+-|.- .+.-...+-++|||-+.+|-
T Consensus 173 ~~~~e~~vdyl~kCqnyeGGFg~~p~aEaHag~tFcalaalalL~~Ld 220 (342)
T COG5029 173 KELFEGAVDYLKKCQNYEGGFGLCPYAEAHAGYTFCALAALALLGKLD 220 (342)
T ss_pred hhhhHHHHHHHHHhhccCCcccCCCchhhccchHHHHHHHHHHHhccc
Confidence 677889999999999999999932 23445667788887766654
No 50
>COG1657 SqhC Squalene cyclase [Lipid metabolism]
Probab=49.43 E-value=13 Score=31.81 Aligned_cols=24 Identities=29% Similarity=0.536 Sum_probs=19.0
Q ss_pred CCCchHHHH-----HHHhhcCCCCCcCCC
Q 039084 37 APQFPSCLK-----WIADNQLPHGSWGDD 60 (87)
Q Consensus 37 ~p~FP~~~~-----wil~nQ~~DGsWg~~ 60 (87)
.|.+++.++ |++++|..||+|..+
T Consensus 122 ~~~~~~~~~~~a~l~~~e~Qn~dg~w~g~ 150 (517)
T COG1657 122 APVTSLRVRKEAELWKLERQNDDGSWRGI 150 (517)
T ss_pred ccchhhhhhhhhheeeeeecccccccccc
Confidence 455555555 999999999999866
No 51
>PF02467 Whib: Transcription factor WhiB; InterPro: IPR003482 WhiB is a putative transcription factor in Actinobacteria, required for differentiation and sporulation. The process of mycelium formation in Streptomyces, which occurs in response to nutrient limitation, is controlled by a number of whi genes, named for the white colour of aerial hyphae when mutations occur in these genes. The normal colour is grey. The exact role of WhiB is not clear, but a mutation in the gene results in white, tightly coiled aerial hyphae.
Probab=47.35 E-value=12 Score=23.21 Aligned_cols=24 Identities=33% Similarity=0.758 Sum_probs=21.8
Q ss_pred CCCchHHHHHHHhhcCCCCCcCCC
Q 039084 37 APQFPSCLKWIADNQLPHGSWGDD 60 (87)
Q Consensus 37 ~p~FP~~~~wil~nQ~~DGsWg~~ 60 (87)
-|..-+|++|-++++.+.|-||+-
T Consensus 35 CPVr~~C~~~Al~~~~~~GVWGG~ 58 (66)
T PF02467_consen 35 CPVRAECLEYALDTREEHGVWGGL 58 (66)
T ss_pred ChhHHHHHHHHHHcCCCeEEECCC
Confidence 588889999999999999999965
No 52
>KOG0365 consensus Beta subunit of farnesyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=46.59 E-value=33 Score=28.78 Aligned_cols=38 Identities=24% Similarity=0.296 Sum_probs=30.9
Q ss_pred HHHHHHHhhcCCCCCcCCCCccchhHHHHHHHHHHHHHHh
Q 039084 42 SCLKWIADNQLPHGSWGDDKVFLAHDRLINTLACIVALKS 81 (87)
Q Consensus 42 ~~~~wil~nQ~~DGsWg~~~~~~~~d~ll~TLAcvlAL~~ 81 (87)
..+++|-+=|.+.|+.|+.. -...-|.+|-|||.||..
T Consensus 124 ~~i~fL~~c~~PeGGfgGGP--GQl~HLA~TYAAVnaL~~ 161 (423)
T KOG0365|consen 124 NAIDFLFTCQGPEGGFGGGP--GQLPHLAPTYAAVNALCL 161 (423)
T ss_pred HHHHHHHhcCCCCCCCCCCC--ccchhhhHHHHHHHHHHh
Confidence 56889999999999998542 247779999999999964
No 53
>COG1657 SqhC Squalene cyclase [Lipid metabolism]
Probab=45.21 E-value=11 Score=32.12 Aligned_cols=19 Identities=37% Similarity=0.889 Sum_probs=16.5
Q ss_pred HHHHHHHhhcCCCCCcCCC
Q 039084 42 SCLKWIADNQLPHGSWGDD 60 (87)
Q Consensus 42 ~~~~wil~nQ~~DGsWg~~ 60 (87)
..++||+..|.+||+|-..
T Consensus 356 ~a~e~LL~~Q~~~GsW~g~ 374 (517)
T COG1657 356 RALEWLLSDQEPDGSWYGR 374 (517)
T ss_pred HHHhhhhhhccccCceeeE
Confidence 5699999999999999653
No 54
>PF07957 DUF3294: Protein of unknown function (DUF3294); InterPro: IPR012917 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This is a family of mitochondrial ribosomal proteins, which appears to be fungal specific [].
Probab=42.22 E-value=18 Score=27.79 Aligned_cols=39 Identities=26% Similarity=0.268 Sum_probs=28.4
Q ss_pred HHhhhccCCCCccccchhHhhHHhhcccCCCCCCC--CCCchHHHHHH
Q 039084 2 IKLMLGSMGDGELGISAYDTAWVALIKNIDGSDIN--APQFPSCLKWI 47 (87)
Q Consensus 2 ik~~~~~~~~g~~S~S~YDTAWVAmv~~~~g~~~~--~p~FP~~~~wi 47 (87)
||++++ |-..+|+.-+|=+|..+|.-+. ...||..+.-.
T Consensus 94 iRR~~N-------S~~~~~~d~laPlpn~DGe~P~~~~~~fP~TL~eF 134 (216)
T PF07957_consen 94 IRRTVN-------STKTDDDDLLAPLPNADGEIPPGKDFLFPKTLKEF 134 (216)
T ss_pred HHHHHh-------cccCCcccccccCCCCCCCCCCCCcccChhhHHHH
Confidence 677777 3366899999999998875521 35899987643
No 55
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=36.21 E-value=18 Score=31.71 Aligned_cols=21 Identities=19% Similarity=0.363 Sum_probs=18.3
Q ss_pred hHHHHHHHHHHHHHHhhccCC
Q 039084 66 HDRLINTLACIVALKSWDAHL 86 (87)
Q Consensus 66 ~d~ll~TLAcvlAL~~w~~~~ 86 (87)
.-+++++.|+|||+++|+|..
T Consensus 557 ~~~~~~~~~~~~a~~~~~~~~ 577 (693)
T PRK00227 557 YPRELVRVLALIAAKGWNILS 577 (693)
T ss_pred cccHHHHHHHHHHhcCceeeE
Confidence 456999999999999999863
No 56
>PF11888 DUF3408: Protein of unknown function (DUF3408); InterPro: IPR021823 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 128 to 160 amino acids in length.
Probab=29.05 E-value=20 Score=24.73 Aligned_cols=19 Identities=21% Similarity=0.545 Sum_probs=16.0
Q ss_pred CHHhhhccCCCCccccchh
Q 039084 1 MIKLMLGSMGDGELGISAY 19 (87)
Q Consensus 1 ~ik~~~~~~~~g~~S~S~Y 19 (87)
+|+++++-++++.||.|.|
T Consensus 92 ~l~~Iv~~ig~~~~si~~y 110 (136)
T PF11888_consen 92 RLSRIVRVIGERKMSISGY 110 (136)
T ss_pred HHHHHHHHHCCCCCcHHHH
Confidence 3678888889999999887
No 57
>PF09397 Ftsk_gamma: Ftsk gamma domain; InterPro: IPR018541 This domain directs oriented DNA translocation and forms a winged helix structure []. Mutated proteins with substitutions in the FtsK gamma DNA-recognition helix are impaired in DNA binding []. ; PDB: 2VE9_B 2VE8_E 2J5O_A 2J5P_A.
Probab=28.53 E-value=59 Score=20.31 Aligned_cols=17 Identities=6% Similarity=0.407 Sum_probs=15.1
Q ss_pred CCCchHHHHHHHhhcCC
Q 039084 37 APQFPSCLKWIADNQLP 53 (87)
Q Consensus 37 ~p~FP~~~~wil~nQ~~ 53 (87)
.|+|.++++|++++|..
T Consensus 5 D~ly~~a~~~V~~~~~~ 21 (65)
T PF09397_consen 5 DPLYEEAVEFVIEEGKA 21 (65)
T ss_dssp STTHHHHHHHHHHCTCE
T ss_pred cHHHHHHHHHHHHcCCc
Confidence 79999999999998764
No 58
>PLN02710 farnesyltranstransferase subunit beta
Probab=28.47 E-value=1.1e+02 Score=25.59 Aligned_cols=36 Identities=11% Similarity=-0.066 Sum_probs=24.7
Q ss_pred CchHHHHHHHhhcCCCCCcCCCC----ccchhHHHHHHHH
Q 039084 39 QFPSCLKWIADNQLPHGSWGDDK----VFLAHDRLINTLA 74 (87)
Q Consensus 39 ~FP~~~~wil~nQ~~DGsWg~~~----~~~~~d~ll~TLA 74 (87)
.+...++||++-|..||+-+... +.....+.+.+|+
T Consensus 192 ~~e~~~~~I~scQ~~dGGF~g~P~~EaH~gyTfcavAsL~ 231 (439)
T PLN02710 192 LVKGVGDYILSCQTYEGGIGGEPGAEAHGGYTFCGLAAMI 231 (439)
T ss_pred hHHHHHHHHHHhCCCCCCCCCCCCCCCchHHHHHHHHHHH
Confidence 46789999999999999998442 2223444555554
No 59
>KOG3760 consensus Heparan sulfate-glucuronic acid C5-epimerase [Carbohydrate transport and metabolism]
Probab=27.30 E-value=40 Score=29.00 Aligned_cols=22 Identities=27% Similarity=0.646 Sum_probs=19.1
Q ss_pred CchHHHHHHHhhcCCCCCcCCC
Q 039084 39 QFPSCLKWIADNQLPHGSWGDD 60 (87)
Q Consensus 39 ~FP~~~~wil~nQ~~DGsWg~~ 60 (87)
.|=.+-+|+.+||.+-|+|.-+
T Consensus 381 aFyaAadWlV~NQd~kGGW~~p 402 (594)
T KOG3760|consen 381 AFYAAADWLVKNQDDKGGWSVP 402 (594)
T ss_pred HHHHHHHHHhhCCCCCCCCcch
Confidence 3667789999999999999865
No 60
>KOG1366 consensus Alpha-macroglobulin [Posttranslational modification, protein turnover, chaperones]
Probab=25.81 E-value=62 Score=30.97 Aligned_cols=47 Identities=21% Similarity=0.292 Sum_probs=33.4
Q ss_pred cccchhHhhHHhhcccCCCC--CCCCCCchHHHHHHHhhcCCCCCcCCC
Q 039084 14 LGISAYDTAWVALIKNIDGS--DINAPQFPSCLKWIADNQLPHGSWGDD 60 (87)
Q Consensus 14 ~S~S~YDTAWVAmv~~~~g~--~~~~p~FP~~~~wil~nQ~~DGsWg~~ 60 (87)
-+.|+..||.|-.+=..... .+...--++.++||+++|.++|+--..
T Consensus 998 ~~~stWLtafvlr~f~~a~~~i~id~~~i~~a~~wl~~~Qk~~GsF~e~ 1046 (1436)
T KOG1366|consen 998 RSGSTWLTAFVLRVFSQAKEYIFIDPNVITQALNWLSQQQKENGSFKEV 1046 (1436)
T ss_pred CcccHHHHHHHHHHhhhccCceEecHHHHHHHHHHHHHhhccCceEecc
Confidence 67889999988775432211 111344689999999999999998654
No 61
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=24.11 E-value=12 Score=24.88 Aligned_cols=12 Identities=17% Similarity=0.686 Sum_probs=5.4
Q ss_pred HHhhcCCCCCcC
Q 039084 47 IADNQLPHGSWG 58 (87)
Q Consensus 47 il~nQ~~DGsWg 58 (87)
|++.+.+||+|-
T Consensus 76 liE~rn~DGtWP 87 (88)
T PF14836_consen 76 LIEERNEDGTWP 87 (88)
T ss_dssp EEEE--TTS--T
T ss_pred EEEeeccCCCCC
Confidence 445568999995
No 62
>TIGR02474 pec_lyase pectate lyase, PelA/Pel-15E family. Members of this family are isozymes of pectate lyase (EC 4.2.2.2), also called polygalacturonic transeliminase and alpha-1,4-D-endopolygalacturonic acid lyase.
Probab=21.90 E-value=59 Score=25.84 Aligned_cols=20 Identities=10% Similarity=0.106 Sum_probs=15.6
Q ss_pred CCchHHHHHHHhhcCCCCCc
Q 039084 38 PQFPSCLKWIADNQLPHGSW 57 (87)
Q Consensus 38 p~FP~~~~wil~nQ~~DGsW 57 (87)
..+-..+++||+.|..+|+|
T Consensus 137 ~Ai~Rgid~ILktQ~~~gg~ 156 (290)
T TIGR02474 137 TAVTKGIECILKTQVVQNGK 156 (290)
T ss_pred HHHHHHHHHHHHhhcccCCc
Confidence 34557799999999998843
No 63
>PF01122 Cobalamin_bind: Eukaryotic cobalamin-binding protein; InterPro: IPR002157 Cobalamin (Cbl or vitamin B12) is only accessible through diet in mammals. Absorption, plasma transport and cellular uptake of Cbl in mammals involves three Cbl-transporting proteins, which are listed below in order of increasing Cbl-specificity: Haptocorrin (cobalophilin), which binds Cbl and Cbl-derivatives such as cobinamide; it may play a role in preventing the absorption of cobalamin analogues produced by bacteria. Transcobalamin (TC), which transport Cbl from blood to cells. Intrinsic factor (IF), which promotes Cbl absorption in the ileum by specific receptor-mediated endocytosis. The structure of TC reveals a two-domain structure, an N-terminal alpha(6)-alpha(6) barrel, and a smaller C-terminal domain []. Many interactions between Cbl and its binding site in the interface of the two domains are conserved among the other Cbl transporters. Specificity for Cbl between the different transporters may reside in a beta-hairpin motif found in the smaller C-terminal domain []. ; GO: 0031419 cobalamin binding, 0015889 cobalamin transport; PDB: 3KQ4_A 2PMV_A 2BB5_A 2V3N_A 2BBC_A 2BB6_D 2V3P_A.
Probab=20.67 E-value=1.3e+02 Score=24.32 Aligned_cols=30 Identities=30% Similarity=0.355 Sum_probs=18.9
Q ss_pred HHHHHHHhhcCCCCCcCCCCccchhHHHHHHHHHHHHHH
Q 039084 42 SCLKWIADNQLPHGSWGDDKVFLAHDRLINTLACIVALK 80 (87)
Q Consensus 42 ~~~~wil~nQ~~DGsWg~~~~~~~~d~ll~TLAcvlAL~ 80 (87)
.-++.|+..|.+||.-|.- -||--|+-||.
T Consensus 219 ~~~~kIl~~q~~~G~~GNi---------ySTglAmQAL~ 248 (326)
T PF01122_consen 219 SLVEKILSQQKPNGLFGNI---------YSTGLAMQALS 248 (326)
T ss_dssp HHHHHHHHTB-TTS-BSST---------TTHHHHHHHHT
T ss_pred HHHHHHHHhcCCCCcccch---------hhHHHHHHHHh
Confidence 3456789999999999954 24555555553
Done!