Query psy1464
Match_columns 107
No_of_seqs 143 out of 1010
Neff 9.0
Searched_HMMs 46136
Date Fri Aug 16 16:51:16 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1464.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/1464hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF11838 ERAP1_C: ERAP1-like C 99.9 1.2E-21 2.5E-26 137.4 9.9 103 3-105 200-304 (324)
2 KOG1046|consensus 99.7 8.6E-16 1.9E-20 120.1 11.8 103 3-106 740-843 (882)
3 TIGR02412 pepN_strep_liv amino 99.4 1E-12 2.2E-17 102.7 11.1 101 3-104 699-802 (831)
4 COG0308 PepN Aminopeptidase N 95.9 0.014 3E-07 46.8 4.7 100 5-105 726-829 (859)
5 PF06685 DUF1186: Protein of u 90.2 2.1 4.6E-05 29.8 6.8 99 3-104 97-195 (249)
6 PF10805 DUF2730: Protein of u 89.9 0.73 1.6E-05 27.7 3.9 42 57-101 1-42 (106)
7 cd08330 CARD_ASC_NALP1 Caspase 82.7 4.7 0.0001 23.0 4.5 38 60-101 2-40 (82)
8 PF13646 HEAT_2: HEAT repeats; 70.5 7.1 0.00015 21.6 3.0 31 3-33 13-44 (88)
9 PF13812 PPR_3: Pentatricopept 70.2 8.4 0.00018 17.0 2.8 29 8-37 5-34 (34)
10 PF10045 DUF2280: Uncharacteri 67.9 9.9 0.00022 22.9 3.2 67 2-73 4-71 (104)
11 PF09832 DUF2059: Uncharacteri 65.6 12 0.00025 19.9 3.1 24 81-105 8-31 (64)
12 COG5556 Uncharacterized conser 64.3 11 0.00024 22.4 2.9 26 2-27 4-30 (110)
13 smart00583 SPK domain in SET a 64.0 11 0.00024 22.9 3.1 27 2-28 62-89 (114)
14 PTZ00479 RAP Superfamily; Prov 63.1 61 0.0013 24.6 7.1 60 6-65 136-199 (435)
15 cd08329 CARD_BIRC2_BIRC3 Caspa 59.3 31 0.00067 20.2 4.3 40 59-101 9-48 (94)
16 PF04435 SPK: Domain of unknow 59.2 16 0.00036 21.4 3.2 26 2-27 59-85 (109)
17 PF04391 DUF533: Protein of un 56.7 49 0.0011 22.1 5.3 48 2-55 96-145 (188)
18 PF03965 Penicillinase_R: Peni 53.4 47 0.001 19.8 6.1 78 18-104 34-114 (115)
19 TIGR03486 cas_csx13_C CRISPR-a 48.2 73 0.0016 20.6 6.6 29 3-31 84-113 (152)
20 smart00638 LPD_N Lipoprotein N 46.9 88 0.0019 24.1 6.1 59 5-63 461-525 (574)
21 PF08759 DUF1792: Domain of un 46.7 39 0.00085 23.2 3.7 84 18-104 23-114 (225)
22 PF00619 CARD: Caspase recruit 46.6 50 0.0011 18.2 4.4 40 58-101 1-41 (85)
23 KOG0030|consensus 45.5 41 0.00089 21.6 3.4 89 7-99 33-129 (152)
24 PF12069 DUF3549: Protein of u 45.4 69 0.0015 23.5 5.0 43 4-46 230-273 (340)
25 TIGR01837 PHA_granule_1 poly(h 45.1 71 0.0015 19.5 7.9 97 4-105 4-107 (118)
26 PF13864 Enkurin: Calmodulin-b 44.5 62 0.0013 18.9 4.0 52 51-103 39-90 (98)
27 cd03366 TOPRIM_TopoIIA_GyrB TO 43.0 15 0.00032 22.6 1.1 60 2-70 45-105 (114)
28 PF06919 Phage_T4_Gp30_7: Phag 41.2 53 0.0012 19.9 3.3 17 49-65 103-119 (121)
29 smart00567 EZ_HEAT E-Z type HE 39.9 37 0.00081 14.8 2.8 24 6-29 3-27 (30)
30 TIGR02698 CopY_TcrY copper tra 38.1 97 0.0021 19.1 5.7 38 65-105 77-116 (130)
31 PF12335 SBF2: Myotubularin pr 37.8 63 0.0014 22.2 3.7 47 18-67 23-72 (225)
32 PF07882 Fucose_iso_N2: L-fuco 37.8 29 0.00064 23.0 2.0 47 15-66 15-65 (181)
33 PF11952 DUF3469: Protein of u 37.4 41 0.0009 19.5 2.4 19 12-30 47-66 (87)
34 PF15572 Imm26: Immunity prote 36.7 18 0.00039 21.5 0.8 17 52-68 68-84 (96)
35 COG3251 Uncharacterized protei 36.0 26 0.00056 19.5 1.3 22 48-69 39-60 (71)
36 TIGR01254 sfuA ABC transporter 34.7 55 0.0012 22.7 3.2 18 16-33 235-253 (304)
37 TIGR01565 homeo_ZF_HD homeobox 34.4 52 0.0011 17.5 2.3 15 92-106 9-23 (58)
38 KOG4189|consensus 34.3 1.2E+02 0.0026 20.6 4.4 31 3-33 60-90 (209)
39 PF08565 CDC37_M: Cdc37 Hsp90 33.0 1.4E+02 0.0031 19.5 5.5 58 15-72 102-162 (173)
40 PF11256 DUF3055: Protein of u 32.7 47 0.001 19.1 2.1 15 92-106 67-81 (81)
41 cd01886 EF-G Elongation factor 32.4 20 0.00042 25.0 0.6 55 5-63 198-265 (270)
42 PF00034 Cytochrom_C: Cytochro 31.9 51 0.0011 17.6 2.2 17 90-106 74-90 (91)
43 PF13934 ELYS: Nuclear pore co 31.7 1.7E+02 0.0036 19.9 7.1 58 7-68 111-170 (226)
44 PF11894 DUF3414: Protein of u 31.5 3.4E+02 0.0074 24.4 7.8 43 23-65 481-524 (1691)
45 PF05597 Phasin: Poly(hydroxya 30.0 1.5E+02 0.0031 18.6 6.4 97 5-106 18-121 (132)
46 PF15186 TEX13: Testis-express 29.4 61 0.0013 20.9 2.4 38 35-72 9-47 (152)
47 PF13475 DUF4116: Domain of un 29.3 78 0.0017 15.3 3.1 30 43-72 5-34 (49)
48 PF11822 DUF3342: Domain of un 29.1 1.4E+02 0.003 21.8 4.3 79 18-98 54-136 (317)
49 smart00151 SWIB SWI complex, B 29.1 55 0.0012 18.2 2.0 15 50-64 22-36 (77)
50 PF09432 THP2: Tho complex sub 28.9 1.5E+02 0.0033 18.6 6.3 30 57-86 93-123 (132)
51 PF11626 Rap1_C: TRF2-interact 28.5 68 0.0015 18.3 2.4 38 7-45 11-51 (87)
52 cd04436 DEP_fRgd2 DEP (Disheve 28.2 63 0.0014 18.7 2.1 42 22-65 2-43 (84)
53 PF11116 DUF2624: Protein of u 28.0 78 0.0017 18.4 2.5 24 2-25 51-75 (85)
54 smart00700 JHBP Juvenile hormo 27.9 78 0.0017 21.2 2.9 37 38-74 159-196 (225)
55 TIGR01321 TrpR trp operon repr 27.6 54 0.0012 19.4 1.8 27 7-33 9-36 (94)
56 PF01369 Sec7: Sec7 domain; I 27.3 1.9E+02 0.004 19.0 6.4 84 8-104 23-110 (190)
57 KOG1062|consensus 27.1 3.7E+02 0.0081 22.4 7.5 70 35-104 509-580 (866)
58 PF04691 ApoC-I: Apolipoprotei 27.0 90 0.002 16.9 2.4 19 56-74 41-59 (61)
59 cd01030 TOPRIM_TopoIIA_like TO 26.9 44 0.00095 20.5 1.4 61 2-70 45-106 (115)
60 KOG2141|consensus 26.8 3.6E+02 0.0079 22.2 6.7 45 2-48 616-662 (822)
61 cd04386 RhoGAP_nadrin RhoGAP_n 26.8 1.5E+02 0.0032 19.6 4.1 14 55-68 185-198 (203)
62 cd08785 CARD_CARD9-like Caspas 26.2 1.4E+02 0.003 17.2 3.9 40 58-101 2-41 (86)
63 PF12926 MOZART2: Mitotic-spin 26.2 1.4E+02 0.0031 17.4 4.7 44 3-48 24-70 (88)
64 PF10384 Scm3: Centromere prot 26.0 80 0.0017 16.9 2.1 18 57-74 10-27 (58)
65 PRK01381 Trp operon repressor; 25.7 1.3E+02 0.0028 18.0 3.2 37 63-101 7-43 (99)
66 PF15612 WHIM1: WSTF, HB1, Itc 25.2 59 0.0013 16.2 1.5 26 2-27 17-44 (50)
67 PF01347 Vitellogenin_N: Lipop 25.1 63 0.0014 25.0 2.3 62 4-65 504-571 (618)
68 PF05106 Phage_holin_3: Phage 25.0 1.3E+02 0.0027 17.8 3.1 22 49-70 3-24 (100)
69 PLN03060 inositol phosphatase- 24.7 2.3E+02 0.0051 19.3 4.8 42 4-47 68-112 (206)
70 PF12125 Beta-TrCP_D: D domain 24.5 1E+02 0.0023 15.2 3.0 25 81-106 14-38 (40)
71 PF03130 HEAT_PBS: PBS lyase H 24.2 78 0.0017 13.6 2.9 22 7-28 2-24 (27)
72 PF02201 SWIB: SWIB/MDM2 domai 24.0 73 0.0016 17.6 1.9 15 50-64 22-36 (76)
73 PF06128 Shigella_OspC: Shigel 23.7 1.7E+02 0.0037 20.6 3.8 22 12-33 113-135 (284)
74 KOG1086|consensus 23.7 98 0.0021 23.8 2.9 29 1-29 168-197 (594)
75 KOG0635|consensus 23.7 12 0.00026 24.6 -1.6 24 13-36 46-71 (207)
76 cd08787 CARD_NOD2_1_CARD15 Cas 23.4 50 0.0011 19.1 1.1 30 4-33 2-32 (87)
77 PF01347 Vitellogenin_N: Lipop 23.0 2.1E+02 0.0045 22.2 4.7 43 5-48 379-422 (618)
78 PF11251 DUF3050: Protein of u 22.9 2.7E+02 0.0059 19.3 7.3 88 7-106 82-184 (232)
79 KOG3380|consensus 22.8 94 0.002 20.0 2.3 46 18-65 68-114 (152)
80 smart00638 LPD_N Lipoprotein N 22.8 2.3E+02 0.005 21.8 4.9 57 5-62 341-403 (574)
81 PHA02609 uvsW.1 hypothetical p 22.8 1.6E+02 0.0034 16.6 3.2 26 78-104 12-37 (76)
82 PF10776 DUF2600: Protein of u 22.6 2.8E+02 0.0061 20.3 5.0 47 18-65 190-236 (330)
83 TIGR02531 yecD_yerC TrpR-relat 22.4 1.7E+02 0.0037 16.9 3.5 28 7-34 5-33 (88)
84 PF02291 TFIID-31kDa: Transcri 22.4 1E+02 0.0023 19.2 2.5 23 8-30 19-43 (129)
85 COG4910 PduE Propanediol dehyd 22.1 2.2E+02 0.0048 18.1 5.1 45 23-68 60-105 (170)
86 PF14228 MOR2-PAG1_mid: Cell m 22.0 1.5E+02 0.0033 25.5 3.9 44 21-64 665-708 (1120)
87 cd03365 TOPRIM_TopoIIA TOPRIM_ 22.0 59 0.0013 20.1 1.3 62 2-71 48-111 (120)
88 PRK09687 putative lyase; Provi 21.8 1.9E+02 0.0041 20.3 4.0 30 4-33 142-172 (280)
89 PF06782 UPF0236: Uncharacteri 21.7 3E+02 0.0066 21.0 5.2 16 55-70 340-355 (470)
90 COG2938 Uncharacterized conser 21.5 1.6E+02 0.0034 17.4 3.0 25 2-26 44-68 (94)
91 KOG0859|consensus 21.5 1.6E+02 0.0034 20.1 3.2 29 47-75 66-94 (217)
92 COG3682 Predicted transcriptio 21.2 2.2E+02 0.0048 17.7 4.1 37 67-106 82-119 (123)
93 cd05027 S-100B S-100B: S-100B 21.2 1.8E+02 0.0038 16.5 4.5 45 2-47 27-80 (88)
94 KOG1662|consensus 21.2 1.8E+02 0.004 19.8 3.5 47 25-72 71-125 (210)
95 KOG1059|consensus 21.1 81 0.0018 25.8 2.1 58 7-64 126-189 (877)
96 KOG1756|consensus 21.0 2.3E+02 0.005 17.8 3.7 49 48-99 48-99 (131)
97 PF12854 PPR_1: PPR repeat 20.9 40 0.00087 15.4 0.3 20 87-106 14-33 (34)
98 PRK15455 PrkA family serine pr 20.9 2.1E+02 0.0045 23.0 4.2 27 78-106 594-620 (644)
99 PF07349 DUF1478: Protein of u 20.8 37 0.0008 21.8 0.2 20 43-62 30-49 (162)
100 PF04558 tRNA_synt_1c_R1: Glut 20.7 2.5E+02 0.0055 18.2 4.2 25 40-64 69-97 (164)
101 PF12931 Sec16_C: Sec23-bindin 20.5 3.1E+02 0.0068 19.2 5.2 25 14-39 30-55 (284)
102 cd04170 EF-G_bact Elongation f 20.5 39 0.00084 23.2 0.3 55 5-63 196-263 (268)
103 smart00190 IL4_13 Interleukins 20.2 1.5E+02 0.0032 18.9 2.8 29 78-106 94-125 (138)
104 TIGR02425 decarb_PcaC 4-carbox 20.2 2.2E+02 0.0048 17.4 5.0 22 9-30 23-44 (123)
105 PHA02790 Kelch-like protein; P 20.2 2.2E+02 0.0048 21.5 4.3 29 18-46 70-99 (480)
No 1
>PF11838 ERAP1_C: ERAP1-like C-terminal domain; InterPro: IPR024571 This entry represents the uncharacterised C-terminal domain of zinc metallopeptidases belonging to MEROPS peptidase family M1 (aminopeptidase N, clan MA), with a single member characterised in Streptomyces lividans: aminopeptidase G []. The rest of the members of this family are identified as aminopeptidase N of the actinomycete-type. The spectrum of activity may differ somewhat from the aminopeptidase N clade of Escherichia coli and most other proteobacteria, which are well separated phylogenetically within the M1 family. ; PDB: 3MDJ_A 2YD0_A 3QNF_C 3RJO_A 1Z5H_A 3Q7J_A 1Z1W_A 3SE6_B.
Probab=99.87 E-value=1.2e-21 Score=137.40 Aligned_cols=103 Identities=27% Similarity=0.407 Sum_probs=90.3
Q ss_pred cHHHHHHHHHhhccC-cHHHHHHHHHHhhcCCCCCcCcHHHHHHHhc-CChhhHHHHHHHHHHHHHHHHHHhCCCchhHH
Q psy1464 3 YACRSRRFLIGLICY-FLSLIFRYLEYALTESLIRKQDAPRVFSLVS-QSAVGHTVALDFLYNNWDRIKKHFNGTQFQVT 80 (107)
Q Consensus 3 ~~~ek~~ll~AL~cs-d~~ll~~~L~~~l~~~~ir~qd~~~~~~~v~-~n~~g~~~~w~fl~~n~~~i~~~~~~~~~~l~ 80 (107)
+++||..++.||||+ ||++++++|+++++++.++.||+..++.+++ .||.|++++|+|+++||+.|.++++++...+.
T Consensus 200 ~~~~k~~~l~aLa~~~d~~~~~~~l~~~l~~~~v~~~d~~~~~~~~~~~~~~~~~~~~~~~~~n~~~i~~~~~~~~~~~~ 279 (324)
T PF11838_consen 200 SPEEKRRLLSALACSPDPELLKRLLDLLLSNDKVRSQDIRYVLAGLASSNPVGRDLAWEFFKENWDAIIKKFGTNSSALS 279 (324)
T ss_dssp THHHHHHHHHHHTT-S-HHHHHHHHHHHHCTSTS-TTTHHHHHHHHH-CSTTCHHHHHHHHHHCHHHHHCHC-TTSHCCH
T ss_pred CHHHHHHHHHhhhccCCHHHHHHHHHHHcCCcccccHHHHHHHHHHhcCChhhHHHHHHHHHHHHHHHHHHhcCCChHHH
Confidence 478999999999999 9999999999999976699999999999997 99999999999999999999999987655789
Q ss_pred HHHHHhhcccCCHHHHHHHHHHHHh
Q psy1464 81 SIVKFCTKRISNELELTQAESQAIS 105 (107)
Q Consensus 81 ~~i~~~~~~~~t~~~~~~~~~f~~~ 105 (107)
.++..+++.++|+++++++++||++
T Consensus 280 ~~~~~~~~~~~t~~~~~~~~~f~~~ 304 (324)
T PF11838_consen 280 RVIKSFAGNFSTEEQLDELEEFFED 304 (324)
T ss_dssp HHHHCCCTT--SHHHHHHHHHHHHH
T ss_pred HHHHHHhccCCCHHHHHHHHHHHhh
Confidence 9999999999999999999999953
No 2
>KOG1046|consensus
Probab=99.67 E-value=8.6e-16 Score=120.14 Aligned_cols=103 Identities=24% Similarity=0.434 Sum_probs=96.9
Q ss_pred cHHHHHHHHHhhccC-cHHHHHHHHHHhhcCCCCCcCcHHHHHHHhcCChhhHHHHHHHHHHHHHHHHHHhCCCchhHHH
Q psy1464 3 YACRSRRFLIGLICY-FLSLIFRYLEYALTESLIRKQDAPRVFSLVSQSAVGHTVALDFLYNNWDRIKKHFNGTQFQVTS 81 (107)
Q Consensus 3 ~~~ek~~ll~AL~cs-d~~ll~~~L~~~l~~~~ir~qd~~~~~~~v~~n~~g~~~~w~fl~~n~~~i~~~~~~~~~~l~~ 81 (107)
.+.||..++.||+|+ +++.++++|++.++.+.++.||....+.+++.||.|...+|+|+++||+.+.++++ +.+.+.+
T Consensus 740 ~~~e~~~~l~al~~~~~~~~l~~~l~~~~~~~~v~~qd~~~~~~~~~~~~~g~~~a~~~~~~n~~~l~~~~~-~~~~~~~ 818 (882)
T KOG1046|consen 740 TAAEKRKLLNALSCSKDPWLLQRLLDLAFDAENVRDQDVLTLLQGISGNPRGVELAWKFLQDNWKELLNRYG-NNFELSR 818 (882)
T ss_pred cHHHHHHHHHHhccCccHHHHHHHHHHhcccccccchhHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcC-CcHHHHH
Confidence 468999999999999 99999999999998445999999999999999999999999999999999999999 6789999
Q ss_pred HHHHhhcccCCHHHHHHHHHHHHhc
Q psy1464 82 IVKFCTKRISNELELTQAESQAISL 106 (107)
Q Consensus 82 ~i~~~~~~~~t~~~~~~~~~f~~~~ 106 (107)
++......+.++.+++++++|++..
T Consensus 819 li~~~~~~~~~~~~~~~~~~f~~~~ 843 (882)
T KOG1046|consen 819 LISFITEPFATEEKLDEVEKFFADI 843 (882)
T ss_pred HHHHHHhccCCHHHHHHHHHHHhcC
Confidence 9999999999999999999999754
No 3
>TIGR02412 pepN_strep_liv aminopeptidase N, Streptomyces lividans type. This family is a subset of the members of the zinc metallopeptidase family M1 (pfam01433), with a single member characterized in Streptomyces lividans 66 and designated aminopeptidase N. The spectrum of activity may differ somewhat from the aminopeptidase N clade of E. coli and most other Proteobacteria, well separated phylogenetically within the M1 family. The M1 family also includes leukotriene A-4 hydrolase/aminopeptidase (with a bifunctional active site).
Probab=99.45 E-value=1e-12 Score=102.66 Aligned_cols=101 Identities=5% Similarity=-0.091 Sum_probs=84.0
Q ss_pred cHHHHHHHHHhhccC-cHHHHHHHHHHhhcCCCCCcCcHHHHHHHhcCChhhHHHHHHHHHHHHHHHHHHhCCCchhHHH
Q psy1464 3 YACRSRRFLIGLICY-FLSLIFRYLEYALTESLIRKQDAPRVFSLVSQSAVGHTVALDFLYNNWDRIKKHFNGTQFQVTS 81 (107)
Q Consensus 3 ~~~ek~~ll~AL~cs-d~~ll~~~L~~~l~~~~ir~qd~~~~~~~v~~n~~g~~~~w~fl~~n~~~i~~~~~~~~~~l~~ 81 (107)
++++|..++.||||+ ||+++++.+...+.++.++.||...++.++. ++.+++++|+|+.+||+.|.++++..+..+.+
T Consensus 699 ~~~~~~~~l~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 777 (831)
T TIGR02412 699 TASGEEHAAAARAARPDAAAKREAWQKLVTTDALPNSKQRAIIEGFW-QPEQALLLAAYAERYFANLADIWKRRGPAIAQ 777 (831)
T ss_pred CHHHHHHHHHHhccCCCHHHHHHHHHHHhCCCCCCHHHHHHHHhhcC-CCCcHHHHHHHHHHHHHHHHHHHHhCCHHHHH
Confidence 457899999999999 9999997677666655599999999999988 56999999999999999999999752245555
Q ss_pred HHHHhhc--ccCCHHHHHHHHHHHH
Q psy1464 82 IVKFCTK--RISNELELTQAESQAI 104 (107)
Q Consensus 82 ~i~~~~~--~~~t~~~~~~~~~f~~ 104 (107)
.+...+. .+|+++.++++++||+
T Consensus 778 ~~~~~~~p~~~~~~~~~~~~~~~~~ 802 (831)
T TIGR02412 778 AISRGLFPATAVNYDTLATADKWLR 802 (831)
T ss_pred HHHHhcCCcccCCHHHHHHHHHHHH
Confidence 5554444 7899999999999996
No 4
>COG0308 PepN Aminopeptidase N [Amino acid transport and metabolism]
Probab=95.95 E-value=0.014 Score=46.84 Aligned_cols=100 Identities=10% Similarity=-0.039 Sum_probs=80.3
Q ss_pred HHHHHHHHhhccC-cHHHHHHHHHHhhcCCCCCcCcHHHHHHHhcCChhhHHHHHHHHHHHHH---HHHHHhCCCchhHH
Q psy1464 5 CRSRRFLIGLICY-FLSLIFRYLEYALTESLIRKQDAPRVFSLVSQSAVGHTVALDFLYNNWD---RIKKHFNGTQFQVT 80 (107)
Q Consensus 5 ~ek~~ll~AL~cs-d~~ll~~~L~~~l~~~~ir~qd~~~~~~~v~~n~~g~~~~w~fl~~n~~---~i~~~~~~~~~~l~ 80 (107)
..+..+..+.+.. .+..+.+.|..+..+..+.+|++..+......++.++++.|.|...||+ .+....+.+.....
T Consensus 726 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 805 (859)
T COG0308 726 EALRDFADAFGRFPLVMDKWFALQAISPGDTVLEQDIGLMIHAAFEAPNPNEARWLYGTFAFENPALLHALDGSGYRFLG 805 (859)
T ss_pred HHHHHHHHHhcccccHHHHHHHHHhcCCCcchHHHHHHHHhhhhhhCCcchhhHHHHHHHhhhchhhhhhhccccccccc
Confidence 5688899999999 9999999999988775589999999999998999999999999999998 56666655433344
Q ss_pred HHHHHhhcccCCHHHHHHHHHHHHh
Q psy1464 81 SIVKFCTKRISNELELTQAESQAIS 105 (107)
Q Consensus 81 ~~i~~~~~~~~t~~~~~~~~~f~~~ 105 (107)
.++. ....++....+++++.|++.
T Consensus 806 ~~v~-~~~~~~~~~~~~~i~~~~~~ 829 (859)
T COG0308 806 VIVL-ELNIFNPQLALRKIEEFLEL 829 (859)
T ss_pred eEEE-EeeccchhhHHHHHHHHhhh
Confidence 3333 34567788889999999864
No 5
>PF06685 DUF1186: Protein of unknown function (DUF1186); InterPro: IPR010602 This family consists of several hypothetical bacterial proteins of around 250 residues in length and is found in several Chlamydia and Anabaena species. The function of this family is unknown.
Probab=90.25 E-value=2.1 Score=29.75 Aligned_cols=99 Identities=11% Similarity=0.042 Sum_probs=63.7
Q ss_pred cHHHHHHHHHhhccCcHHHHHHHHHHhhcCCCCCcCcHHHHHHHhcCChhhHHHHHHHHHHHHHHHHHHhCCCchhHHHH
Q psy1464 3 YACRSRRFLIGLICYFLSLIFRYLEYALTESLIRKQDAPRVFSLVSQSAVGHTVALDFLYNNWDRIKKHFNGTQFQVTSI 82 (107)
Q Consensus 3 ~~~ek~~ll~AL~csd~~ll~~~L~~~l~~~~ir~qd~~~~~~~v~~n~~g~~~~w~fl~~n~~~i~~~~~~~~~~l~~~ 82 (107)
.+++-.+++.++|--+++.+++++.----+.-+|..-...+..-+..+|..|+.+.+|+.+=++...++-+ .+..+.+
T Consensus 97 ~tE~l~~ilasv~~G~~~~L~~li~~~~~~~yvR~aa~~aL~~l~~~~~~~Re~vi~~f~~ll~~~l~~~~--~~~~~~L 174 (249)
T PF06685_consen 97 ITEDLPRILASVGDGDIEPLKELIEDPDADEYVRMAAISALAFLVHEGPISREEVIQYFRELLNYFLERNP--SFLWGSL 174 (249)
T ss_pred hHhHHHHHHHHHhCCCHHHHHHHHhCCcHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHhccCc--hHHHHHH
Confidence 34556667777666688888887542211111544444444555568899999999999887766444332 3567787
Q ss_pred HHHhhcccCCHHHHHHHHHHHH
Q psy1464 83 VKFCTKRISNELELTQAESQAI 104 (107)
Q Consensus 83 i~~~~~~~~t~~~~~~~~~f~~ 104 (107)
|..++. ++-.+-+.+++.-|.
T Consensus 175 v~~~~d-L~~~EL~~~I~~~f~ 195 (249)
T PF06685_consen 175 VADICD-LYPEELLPEIRKAFE 195 (249)
T ss_pred HHHHHh-cCHHHhHHHHHHHHH
Confidence 776544 767777888887664
No 6
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=89.93 E-value=0.73 Score=27.72 Aligned_cols=42 Identities=14% Similarity=0.233 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHhCCCchhHHHHHHHhhcccCCHHHHHHHHH
Q psy1464 57 ALDFLYNNWDRIKKHFNGTQFQVTSIVKFCTKRISNELELTQAES 101 (107)
Q Consensus 57 ~w~fl~~n~~~i~~~~~~~~~~l~~~i~~~~~~~~t~~~~~~~~~ 101 (107)
.|+|+++||..|...++. ..+-+.--+.+.+.+.++++++++
T Consensus 1 ~~~~~~~~w~ii~a~~~~---~~~~~~~~l~~~~a~~~~~~~l~~ 42 (106)
T PF10805_consen 1 MWEFIKKNWGIIWAVFGI---AGGIFWLWLRRTYAKREDIEKLEE 42 (106)
T ss_pred ChHHHHhCcHHHHHHHHH---HHHHHHHHHHHhhccHHHHHHHHH
Confidence 388999999998776642 222333335566778888777743
No 7
>cd08330 CARD_ASC_NALP1 Caspase activation and recruitment domain found in Human ASC, NALP1, and similar proteins. Caspase activation and recruitment domain (CARD) similar to those found in human ASC (Apoptosis-associated speck-like protein containing a CARD) and NALP1 (CARD7, NLRP1). ASC, an adaptor molecule, and NALP1, a member of the Nod-like receptor (NLR) family, are involved in the assembly of the 'inflammasome', a multiprotein platform, which is responsible for caspase-1 activation and regulation of IL-1beta maturation. In general, CARDs are death domains (DDs) associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation and host-defense mechanisms. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including PYRIN and DED (Death Effector Domain). They se
Probab=82.68 E-value=4.7 Score=22.99 Aligned_cols=38 Identities=8% Similarity=0.213 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHhCCCchhHHHHHHHhhc-ccCCHHHHHHHHH
Q psy1464 60 FLYNNWDRIKKHFNGTQFQVTSIVKFCTK-RISNELELTQAES 101 (107)
Q Consensus 60 fl~~n~~~i~~~~~~~~~~l~~~i~~~~~-~~~t~~~~~~~~~ 101 (107)
|+.+||..+.++... +..++..+.+ .+-|+++++++++
T Consensus 2 fv~~~r~~Li~~v~~----v~~ilD~L~~~~Vit~e~~~~I~a 40 (82)
T cd08330 2 FVDQHREALIARVTN----VDPILDKLHGKKVITQEQYSEVRA 40 (82)
T ss_pred hHHHHHHHHHHHHhh----HHHHHHHHHHCCCCCHHHHHHHHc
Confidence 788999999888753 3344443333 4557777777764
No 8
>PF13646 HEAT_2: HEAT repeats; PDB: 1OYZ_A 3FGA_A 2PF4_C 2IAE_A 3B2A_A.
Probab=70.48 E-value=7.1 Score=21.58 Aligned_cols=31 Identities=13% Similarity=-0.182 Sum_probs=23.5
Q ss_pred cHHHHHHHHHhhccC-cHHHHHHHHHHhhcCC
Q psy1464 3 YACRSRRFLIGLICY-FLSLIFRYLEYALTES 33 (107)
Q Consensus 3 ~~~ek~~ll~AL~cs-d~~ll~~~L~~~l~~~ 33 (107)
++..|...+.+||.. ++..+..+++..-+++
T Consensus 13 ~~~vr~~a~~~L~~~~~~~~~~~L~~~l~d~~ 44 (88)
T PF13646_consen 13 DPQVRAEAARALGELGDPEAIPALIELLKDED 44 (88)
T ss_dssp SHHHHHHHHHHHHCCTHHHHHHHHHHHHTSSS
T ss_pred CHHHHHHHHHHHHHcCCHhHHHHHHHHHcCCC
Confidence 355688889999988 9988888887764433
No 9
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=70.23 E-value=8.4 Score=17.05 Aligned_cols=29 Identities=3% Similarity=-0.019 Sum_probs=20.4
Q ss_pred HHHHHhhccC-cHHHHHHHHHHhhcCCCCCc
Q psy1464 8 RRFLIGLICY-FLSLIFRYLEYALTESLIRK 37 (107)
Q Consensus 8 ~~ll~AL~cs-d~~ll~~~L~~~l~~~~ir~ 37 (107)
..++.|.+.. +++...++++.....+ |+|
T Consensus 5 ~~ll~a~~~~g~~~~a~~~~~~M~~~g-v~P 34 (34)
T PF13812_consen 5 NALLRACAKAGDPDAALQLFDEMKEQG-VKP 34 (34)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCC
Confidence 3577888888 8888888887766543 543
No 10
>PF10045 DUF2280: Uncharacterized conserved protein (DUF2280); InterPro: IPR018738 This entry is represented by Burkholderia phage Bups phi1, Orf2.36. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=67.89 E-value=9.9 Score=22.87 Aligned_cols=67 Identities=12% Similarity=0.199 Sum_probs=41.4
Q ss_pred ccHHHHHHHHHhhccC-cHHHHHHHHHHhhcCCCCCcCcHHHHHHHhcCChhhHHHHHHHHHHHHHHHHHHhC
Q psy1464 2 FYACRSRRFLIGLICY-FLSLIFRYLEYALTESLIRKQDAPRVFSLVSQSAVGHTVALDFLYNNWDRIKKHFN 73 (107)
Q Consensus 2 ~~~~ek~~ll~AL~cs-d~~ll~~~L~~~l~~~~ir~qd~~~~~~~v~~n~~g~~~~w~fl~~n~~~i~~~~~ 73 (107)
+..+.|.-|..||+|. .|...-+....-++=+ |.+|-.. ..--....|++..-+| .+=|+.-.++|-
T Consensus 4 L~~~vK~FIVQ~LAcfdTPs~v~~aVk~eFgi~-vsrQqve---~yDPTK~aG~~Ls~k~-~~lF~~TR~~F~ 71 (104)
T PF10045_consen 4 LKKEVKAFIVQSLACFDTPSEVAEAVKEEFGID-VSRQQVE---SYDPTKRAGRDLSKKW-VDLFEETRKRFL 71 (104)
T ss_pred ccHHHHHHHHHHHHhhCCHHHHHHHHHHHhCCc-cCHHHHH---HcCchHHHHHHHHHHH-HHHHHHHHHHHH
Confidence 4567899999999999 9999888777666433 4444321 1112233566666555 344555555553
No 11
>PF09832 DUF2059: Uncharacterized protein conserved in bacteria (DUF2059); InterPro: IPR018637 This entry contains proteins that have no known function. ; PDB: 2X3O_B 3OAO_A.
Probab=65.59 E-value=12 Score=19.92 Aligned_cols=24 Identities=17% Similarity=0.099 Sum_probs=15.6
Q ss_pred HHHHHhhcccCCHHHHHHHHHHHHh
Q psy1464 81 SIVKFCTKRISNELELTQAESQAIS 105 (107)
Q Consensus 81 ~~i~~~~~~~~t~~~~~~~~~f~~~ 105 (107)
.++......| |+++++.+.+|++|
T Consensus 8 ~~~~~y~~~f-t~~El~~i~~FY~S 31 (64)
T PF09832_consen 8 QMAPIYAEHF-TEEELDAILAFYES 31 (64)
T ss_dssp HHHHHHHHHS--HHHHHHHHHHHHS
T ss_pred HHHHHHHHHC-CHHHHHHHHHHHCC
Confidence 3344444545 78999999999874
No 12
>COG5556 Uncharacterized conserved protein [Function unknown]
Probab=64.27 E-value=11 Score=22.42 Aligned_cols=26 Identities=12% Similarity=0.163 Sum_probs=21.5
Q ss_pred ccHHHHHHHHHhhccC-cHHHHHHHHH
Q psy1464 2 FYACRSRRFLIGLICY-FLSLIFRYLE 27 (107)
Q Consensus 2 ~~~~ek~~ll~AL~cs-d~~ll~~~L~ 27 (107)
+.++-|.-|..||+|+ .|..+.....
T Consensus 4 LsdevKtfIvQalACFDs~S~Va~aVk 30 (110)
T COG5556 4 LSDEVKTFIVQALACFDSPSVVAAAVK 30 (110)
T ss_pred ccHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence 4577899999999999 9988776555
No 13
>smart00583 SPK domain in SET and PHD domain containing proteins and protein kinases.
Probab=63.96 E-value=11 Score=22.89 Aligned_cols=27 Identities=11% Similarity=0.007 Sum_probs=22.9
Q ss_pred ccHHHHHHHHHhhccC-cHHHHHHHHHH
Q psy1464 2 FYACRSRRFLIGLICY-FLSLIFRYLEY 28 (107)
Q Consensus 2 ~~~~ek~~ll~AL~cs-d~~ll~~~L~~ 28 (107)
++.++|.+++.|||.. ++..++++-..
T Consensus 62 y~~~~kirm~Fals~~V~~~Fl~~l~~~ 89 (114)
T smart00583 62 YSIEERIRMMFALSGKVEDDFLERIRTI 89 (114)
T ss_pred CCHHHHHHHHHhcCCccCHHHHHHHHhc
Confidence 4678999999999999 99999876554
No 14
>PTZ00479 RAP Superfamily; Provisional
Probab=63.05 E-value=61 Score=24.56 Aligned_cols=60 Identities=12% Similarity=0.005 Sum_probs=41.6
Q ss_pred HHHHHHHhhccC---cHHHHHHHHHHhhcC-CCCCcCcHHHHHHHhcCChhhHHHHHHHHHHHH
Q psy1464 6 RSRRFLIGLICY---FLSLIFRYLEYALTE-SLIRKQDAPRVFSLVSQSAVGHTVALDFLYNNW 65 (107)
Q Consensus 6 ek~~ll~AL~cs---d~~ll~~~L~~~l~~-~~ir~qd~~~~~~~v~~n~~g~~~~w~fl~~n~ 65 (107)
.-..++-||+.- |+.++.++-..++.. +.++++|...++++++.=-.......+++.++.
T Consensus 136 ~L~~i~wALsrL~Ird~~fL~~~ak~vl~r~~~~r~~dl~k~~nslakLg~~~~~l~k~l~~~~ 199 (435)
T PTZ00479 136 SLMCIAWALNRVQIRDEAFLSRFAKEVGEKFDDIRTTDLIKICNSLAKLGGYTNNLKKFLSEKM 199 (435)
T ss_pred HHHHHHHHHHhcCCCcHHHHHHHHHHHHhhccccCchhHHHHHHHHHHhcCCcHHHHHHHHHHH
Confidence 445566777754 888888866665543 239999999999998643344556667787775
No 15
>cd08329 CARD_BIRC2_BIRC3 Caspase activation and recruitment domain found in Baculoviral IAP repeat-containing proteins, BIRC2 (c-IAP1) and BIRC3 (c-IAP2). Caspase activation and recruitment domain (CARD) similar to those found in Baculoviral IAP repeat (BIR)-containing protein 2 (BIRC2) or cellular Inhibitor of Apoptosis Protein 1 (c-IAP1), and BIRC3 (or c-IAP2). IAPs are anti-apoptotic proteins that contain at least one BIR domain. Most IAPs also contain a C-terminal RING domain. In addition, both BIRC2 and BIRC3 contain a CARD. BIRC2 and BIRC3, through their binding with TRAF (TNF receptor-associated factor) 2, are recruited to TNFR-1/2 signaling complexes, where they regulate caspase-8 activity. They also play important roles in pro-survival NF-kB signaling pathways. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation and host-defense mechanisms. DDs are protein-protein interac
Probab=59.35 E-value=31 Score=20.19 Aligned_cols=40 Identities=13% Similarity=0.174 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHhCCCchhHHHHHHHhhcccCCHHHHHHHHH
Q psy1464 59 DFLYNNWDRIKKHFNGTQFQVTSIVKFCTKRISNELELTQAES 101 (107)
Q Consensus 59 ~fl~~n~~~i~~~~~~~~~~l~~~i~~~~~~~~t~~~~~~~~~ 101 (107)
.+++.|+..+..++......+..++. .++-|+++++++++
T Consensus 9 ~~L~~~R~~Lv~~l~~v~~ilD~Ll~---~~Vlt~ee~e~I~~ 48 (94)
T cd08329 9 SLIRKNRMALFQHLTSVLPILDSLLS---ANVITEQEYDVIKQ 48 (94)
T ss_pred HHHHHhHHHHHHHHhhhHHHHHHHHH---cCCCCHHHHHHHHc
Confidence 58889999998888422224444442 33557777777764
No 16
>PF04435 SPK: Domain of unknown function (DUF545) ; InterPro: IPR006570 SPK is a domain of unknown function found in SET and PHD domain containing proteins and protein kinases.
Probab=59.21 E-value=16 Score=21.40 Aligned_cols=26 Identities=12% Similarity=0.014 Sum_probs=21.9
Q ss_pred ccHHHHHHHHHhhccC-cHHHHHHHHH
Q psy1464 2 FYACRSRRFLIGLICY-FLSLIFRYLE 27 (107)
Q Consensus 2 ~~~~ek~~ll~AL~cs-d~~ll~~~L~ 27 (107)
++.++|.+++.+|+.. +++.++++-.
T Consensus 59 ~d~~tk~~m~F~l~~pV~~~fl~~L~~ 85 (109)
T PF04435_consen 59 FDLETKAKMLFALSIPVDEEFLKELRK 85 (109)
T ss_pred CCHHHHHHHHHHcCCCcCHHHHHHHHh
Confidence 5678999999999999 9998886544
No 17
>PF04391 DUF533: Protein of unknown function (DUF533); InterPro: IPR007486 Some family members may be secreted or integral membrane proteins.
Probab=56.74 E-value=49 Score=22.05 Aligned_cols=48 Identities=13% Similarity=-0.022 Sum_probs=31.2
Q ss_pred ccHHHHHHHHHhhccC--cHHHHHHHHHHhhcCCCCCcCcHHHHHHHhcCChhhHH
Q psy1464 2 FYACRSRRFLIGLICY--FLSLIFRYLEYALTESLIRKQDAPRVFSLVSQSAVGHT 55 (107)
Q Consensus 2 ~~~~ek~~ll~AL~cs--d~~ll~~~L~~~l~~~~ir~qd~~~~~~~v~~n~~g~~ 55 (107)
++.+||.+|...|... |++. ++++..-|. +|.|...+...+ .+|.-..
T Consensus 96 ID~~Er~~I~~~l~~~g~d~e~-~~~l~~eL~----~P~d~~~la~~v-~~~e~A~ 145 (188)
T PF04391_consen 96 IDEEERQRIEGALQELGLDAEE-RAWLQAELA----APLDPDALAAAV-TDPEQAA 145 (188)
T ss_pred CCHHHHHHHHHHHHHhCCCHHH-HHHHHHHHh----CCCCHHHHHHhC-CCHHHHH
Confidence 5788999998888775 5554 444444442 556777777777 5565443
No 18
>PF03965 Penicillinase_R: Penicillinase repressor; InterPro: IPR005650 Proteins in this entry are transcriptional regulators found in a variety of bacteria and a small number of archaea. Many are BlaI/MecI proteins which regulate resistance to penicillins (beta-lactams), though at least one protein (Q47839 from SWISSPROT) appears to be involved in the regulation of copper homeostasis []. BlaI regulators repress the expression of penicillin-degrading enzymes (penicillinases) until the cell encounters the antiobiotic, at which point repression ceases and penicillinase expression occurs, allowing cell growth []. MecI regulators repress the expression of MecA, a cell-wall biosynthetic enzyme not inhibited by penicillins at clinically achievable concentrations, until the presence of the antibiotic is detected []. At this point repression ends and MecA expression occurs which, together with the switching off of the penicillin-sensitive enzymes, allows the cell to grow despite the presence of antibiotic.; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent; PDB: 2G9W_A 2K4B_A 1XSD_A 1SD4_A 1SD7_A 1SD6_A 2P7C_B 1P6R_A 1OKR_B 2D45_B ....
Probab=53.42 E-value=47 Score=19.81 Aligned_cols=78 Identities=12% Similarity=0.179 Sum_probs=41.9
Q ss_pred cHHHHHHHHHHhhcCCCCCcCcHHH--HHHHhcCChhhHHHHHHHHHHHHHHHHHHhCCCchhHHHHHHHhhcc-cCCHH
Q psy1464 18 FLSLIFRYLEYALTESLIRKQDAPR--VFSLVSQSAVGHTVALDFLYNNWDRIKKHFNGTQFQVTSIVKFCTKR-ISNEL 94 (107)
Q Consensus 18 d~~ll~~~L~~~l~~~~ir~qd~~~--~~~~v~~n~~g~~~~w~fl~~n~~~i~~~~~~~~~~l~~~i~~~~~~-~~t~~ 94 (107)
.+..+..+|......+.|..+.... ++..+ ..++ +|...-...+.+++-++ ....++..++.. -.|++
T Consensus 34 ~~sTv~t~L~rL~~Kg~l~~~~~gr~~~Y~p~----is~~---e~~~~~~~~~l~~~~~g--s~~~l~~~l~~~~~ls~~ 104 (115)
T PF03965_consen 34 AYSTVQTLLNRLVEKGFLTREKIGRAYVYSPL----ISRE---EYLAQELRQFLDRLFDG--SIPQLVAALVESEELSPE 104 (115)
T ss_dssp -HHHHHHHHHHHHHTTSEEEEEETTCEEEEES----SSHH---HHHHHHHHHHHHHHSTT--HHHHHHHHHHHCT-S-HH
T ss_pred chhHHHHHHHHHHhCCceeEeecCCceEEEeC----CcHH---HHHHHHHHHHHHHHhCC--CHHHHHHHHHhcCCCCHH
Confidence 4566666676666554444433222 22111 2222 34444444555544333 577777777665 45899
Q ss_pred HHHHHHHHHH
Q psy1464 95 ELTQAESQAI 104 (107)
Q Consensus 95 ~~~~~~~f~~ 104 (107)
+++++++.++
T Consensus 105 el~~L~~li~ 114 (115)
T PF03965_consen 105 ELEELRKLID 114 (115)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHHc
Confidence 9999998765
No 19
>TIGR03486 cas_csx13_C CRISPR-associated protein, Cas_csx13 family, C-terminal region. Members of this family are found among cas (CRISPR-Associated) genes close to CRISPR repeats in Leptospira interrogans (a spirochete), Myxococcus xanthus (a delta-proteobacterium), and Lyngbya sp. PCC 8106 (a cyanobacterium). It is found with other cas genes in Anabaena variabilis ATCC 29413. In Lyngbya sp., the protein is split into two tandem genes. This model corresponds to the C-terminal region or upstream gene; the N-terminal region is modelled by TIGR03485. CRISPR/cas systems are associated with prokaryotic acquired resistance to phage and other exogenous DNA.
Probab=48.24 E-value=73 Score=20.57 Aligned_cols=29 Identities=7% Similarity=0.025 Sum_probs=21.9
Q ss_pred cHHHHHHHHHhhccC-cHHHHHHHHHHhhc
Q psy1464 3 YACRSRRFLIGLICY-FLSLIFRYLEYALT 31 (107)
Q Consensus 3 ~~~ek~~ll~AL~cs-d~~ll~~~L~~~l~ 31 (107)
+.-|++++.+.|.|. +++-+..++.-.++
T Consensus 84 ~e~e~erir~~l~r~kt~~~fr~~i~df~s 113 (152)
T TIGR03486 84 WKRENERIYSSLARAKTSEQFRTFIADLWA 113 (152)
T ss_pred HHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Confidence 345788899999888 88888876665554
No 20
>smart00638 LPD_N Lipoprotein N-terminal Domain.
Probab=46.88 E-value=88 Score=24.06 Aligned_cols=59 Identities=14% Similarity=-0.041 Sum_probs=35.5
Q ss_pred HHHHHHHHhhccC-cHHHHHHHHHHhhcCCCCCcCcHHHHHHHh---c--CChhhHHHHHHHHHH
Q psy1464 5 CRSRRFLIGLICY-FLSLIFRYLEYALTESLIRKQDAPRVFSLV---S--QSAVGHTVALDFLYN 63 (107)
Q Consensus 5 ~ek~~ll~AL~cs-d~~ll~~~L~~~l~~~~ir~qd~~~~~~~v---~--~n~~g~~~~w~fl~~ 63 (107)
.++..+|.|||.. .|..+..+..++.........-....+.++ + .....+.++++.+.+
T Consensus 461 ~~~~~~LkaLGN~g~~~~i~~l~~~l~~~~~~~~~iR~~Av~Alr~~a~~~p~~v~~~l~~i~~n 525 (574)
T smart00638 461 EEIQLYLKALGNAGHPSSIKVLEPYLEGAEPLSTFIRLAAILALRNLAKRDPRKVQEVLLPIYLN 525 (574)
T ss_pred hheeeHHHhhhccCChhHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHhCchHHHHHHHHHHcC
Confidence 4567799999999 999998877776522212111122222222 2 344677777877754
No 21
>PF08759 DUF1792: Domain of unknown function (DUF1792); InterPro: IPR014869 This domain is found at the C terminus of proteins such as Q97P75 from SWISSPROT that also contain the glycosyl transferase domain at the N terminus. Sometimes it is found independently.
Probab=46.66 E-value=39 Score=23.25 Aligned_cols=84 Identities=10% Similarity=-0.041 Sum_probs=48.6
Q ss_pred cHHHHHHHHHHhhcCCC---CCcCcHHHHHHHh-cCChhhHHHHHHHHHHHHHHHHHHhCCCc----hhHHHHHHHhhcc
Q psy1464 18 FLSLIFRYLEYALTESL---IRKQDAPRVFSLV-SQSAVGHTVALDFLYNNWDRIKKHFNGTQ----FQVTSIVKFCTKR 89 (107)
Q Consensus 18 d~~ll~~~L~~~l~~~~---ir~qd~~~~~~~v-~~n~~g~~~~w~fl~~n~~~i~~~~~~~~----~~l~~~i~~~~~~ 89 (107)
||++.+|+.+.+.+++. |- ++.+|..+ .-|+..+.....++..+++.+.+....+. ..+.+........
T Consensus 23 ~~~La~rLkeil~~~~~~~lVc---lpd~F~~~~~~n~~~~~fw~~~~~~~~~~~~~~~~~~~~Y~~tfisRpY~d~~dK 99 (225)
T PF08759_consen 23 DPELAKRLKEILRSSNENLLVC---LPDVFHDLDRYNEDARRFWKTHFFEYGEFYLKLLNPGKWYGSTFISRPYIDYKDK 99 (225)
T ss_pred CHHHHHHHHHHHhCCCCCEEEE---CCcccCChhhccHhHHHHHHHHHHHHHHHHHHHhcccceecceeeeeeeeecccc
Confidence 89999998877644331 22 23345555 35677777777888888888877663321 2233333233233
Q ss_pred cCCHHHHHHHHHHHH
Q psy1464 90 ISNELELTQAESQAI 104 (107)
Q Consensus 90 ~~t~~~~~~~~~f~~ 104 (107)
...+...++++..++
T Consensus 100 ~~~~~~f~klK~iW~ 114 (225)
T PF08759_consen 100 SKSARYFEKLKQIWK 114 (225)
T ss_pred hHHHHHHHHHHHHhC
Confidence 334566666666553
No 22
>PF00619 CARD: Caspase recruitment domain; InterPro: IPR001315 The caspase recruitment domain domain (CARD) is a homotypic protein interaction module composed of a bundle of six alpha-helices. CARD is related in sequence and structure to the death domain (DD, see IPR000488 from INTERPRO) and the death effector domain (DED, see IPR001875 from INTERPRO), which work in similar pathways and show similar interaction properties []. The CARD domain typically associates with other CARD-containing proteins, forming either dimers or trimers. CARD domains can be found in isolation, or in combination with other domains. Domains associated with CARD include: NACHT (IPR007111 from INTERPRO) (in Nal1 and Bir1), NB-ARC (IPR002182 from INTERPRO) (in Apaf-1), pyrin/dapin domains (IPR004020 from INTERPRO) (in Nal1), leucine-rich repeats () (in Nal1), WD repeats (IPR001680 from INTERPRO) (in Apaf1), Src homology domains (IPR001452 from INTERPRO), PDZ (IPR001478 from INTERPRO), RING, kinase and DD domains []. CARD-containing proteins are involved in apoptosis through their regulation of caspases that contain CARDs in their N-terminal pro-domains, including human caspases 1, 2, 9, 11 and 12 []. CARD-containing proteins are also involved in inflammation through their regulation of NF-kappaB []. The mechanisms by which CARDs activate caspases and NF-kappaB involve the assembly of multi-protein complexes, which can facilitate dimerisation or serve as scaffolds on which proteases and kinases are assembled and activated.; GO: 0005515 protein binding, 0042981 regulation of apoptosis, 0005622 intracellular; PDB: 2NSN_A 2NZ7_B 2DBD_A 4E9M_C 2B1W_A 3YGS_P 2KN6_A 3CRD_A 1DGN_A 3KAT_A ....
Probab=46.63 E-value=50 Score=18.21 Aligned_cols=40 Identities=15% Similarity=0.309 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHHhCCCchhHHHHHHHh-hcccCCHHHHHHHHH
Q psy1464 58 LDFLYNNWDRIKKHFNGTQFQVTSIVKFC-TKRISNELELTQAES 101 (107)
Q Consensus 58 w~fl~~n~~~i~~~~~~~~~~l~~~i~~~-~~~~~t~~~~~~~~~ 101 (107)
|+.+..|+..+.+.+. .+..++..+ ..++-|+++.+++..
T Consensus 1 ~~~L~~~r~~Lv~~l~----~~~~ild~L~~~~vlt~~e~e~I~~ 41 (85)
T PF00619_consen 1 QELLRKNRQELVEDLD----DLDDILDHLLSRGVLTEEEYEEIRS 41 (85)
T ss_dssp HHHHHHTHHHHHHHSS----HHHHHHHHHHHTTSSSHHHHHHHHT
T ss_pred CHHHHHhHHHHHHHhC----cHHHHHHHHHHCCCCCHHHHHHHHc
Confidence 5678888888887775 123333332 233557777776654
No 23
>KOG0030|consensus
Probab=45.46 E-value=41 Score=21.58 Aligned_cols=89 Identities=9% Similarity=0.038 Sum_probs=49.5
Q ss_pred HHHHHHhhccC-cHHHHHHHHHHhhcCC----CCCcCcHHHHHHHhcCChhhHHHHHHHHHHHHHHHHHHhCCC---chh
Q psy1464 7 SRRFLIGLICY-FLSLIFRYLEYALTES----LIRKQDAPRVFSLVSQSAVGHTVALDFLYNNWDRIKKHFNGT---QFQ 78 (107)
Q Consensus 7 k~~ll~AL~cs-d~~ll~~~L~~~l~~~----~ir~qd~~~~~~~v~~n~~g~~~~w~fl~~n~~~i~~~~~~~---~~~ 78 (107)
--..|+|||.. ..+-+.+.|..-...+ .+.-.+...++++|+.|..+. .+=+|+.. ... ..+-+++ ...
T Consensus 33 ~gdvlRalG~nPT~aeV~k~l~~~~~~~~~~~rl~FE~fLpm~q~vaknk~q~-t~edfveg-Lrv-FDkeg~G~i~~ae 109 (152)
T KOG0030|consen 33 VGDVLRALGQNPTNAEVLKVLGQPKRREMNVKRLDFEEFLPMYQQVAKNKDQG-TYEDFVEG-LRV-FDKEGNGTIMGAE 109 (152)
T ss_pred HHHHHHHhcCCCcHHHHHHHHcCcccchhhhhhhhHHHHHHHHHHHHhccccC-cHHHHHHH-HHh-hcccCCcceeHHH
Confidence 34678999988 4444545554333221 133455677889998774332 44455432 111 1122222 135
Q ss_pred HHHHHHHhhcccCCHHHHHHH
Q psy1464 79 VTSIVKFCTKRISNELELTQA 99 (107)
Q Consensus 79 l~~~i~~~~~~~~t~~~~~~~ 99 (107)
+.+++..++.+++ +++.+++
T Consensus 110 LRhvLttlGekl~-eeEVe~L 129 (152)
T KOG0030|consen 110 LRHVLTTLGEKLT-EEEVEEL 129 (152)
T ss_pred HHHHHHHHHhhcc-HHHHHHH
Confidence 8899999988884 5555554
No 24
>PF12069 DUF3549: Protein of unknown function (DUF3549); InterPro: IPR021936 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 340 amino acids in length. This protein has a conserved LDE sequence motif.
Probab=45.39 E-value=69 Score=23.47 Aligned_cols=43 Identities=9% Similarity=-0.038 Sum_probs=29.6
Q ss_pred HHHHHHHHHhhccC-cHHHHHHHHHHhhcCCCCCcCcHHHHHHH
Q psy1464 4 ACRSRRFLIGLICY-FLSLIFRYLEYALTESLIRKQDAPRVFSL 46 (107)
Q Consensus 4 ~~ek~~ll~AL~cs-d~~ll~~~L~~~l~~~~ir~qd~~~~~~~ 46 (107)
......+++||+++ ........++..++.......|+...+.+
T Consensus 230 ~~~~~a~lRAls~~~~~~~~~~~i~~~L~~~~~~~~e~Li~IAg 273 (340)
T PF12069_consen 230 LELLSALLRALSSAPASDLVAILIDALLQSPRLCHPEVLIAIAG 273 (340)
T ss_pred HHHHHHHHHHHcCCCchhHHHHHHHHHhcCcccCChHHHHHHHh
Confidence 34567789999999 88888877888886544555555444433
No 25
>TIGR01837 PHA_granule_1 poly(hydroxyalkanoate) granule-associated protein. This model describes a domain found in some proteins associated with polyhydroxyalkanoate (PHA) granules in a subset of species that have PHA inclusion granules. Included are two tandem proteins of Pseudomonas oleovorans, PhaI and PhaF, and their homologs in related species. PhaF proteins have a low-complexity C-terminal region with repeats similar to AAAKP.
Probab=45.11 E-value=71 Score=19.48 Aligned_cols=97 Identities=13% Similarity=0.236 Sum_probs=62.6
Q ss_pred HHHHHHHHHhhccC--cHHHHHHHHHHhhcCCCCCcCcHHHHHHHhcC--C---hhhHHHHHHHHHHHHHHHHHHhCCCc
Q psy1464 4 ACRSRRFLIGLICY--FLSLIFRYLEYALTESLIRKQDAPRVFSLVSQ--S---AVGHTVALDFLYNNWDRIKKHFNGTQ 76 (107)
Q Consensus 4 ~~ek~~ll~AL~cs--d~~ll~~~L~~~l~~~~ir~qd~~~~~~~v~~--n---~~g~~~~w~fl~~n~~~i~~~~~~~~ 76 (107)
..-|..+|.+||.+ -.+-..++++-......+...+....+.-+.. + +.-.+-+.+-...+|+.+...+..
T Consensus 4 ~~~rki~LAGLGa~a~~~ek~~k~~~~LVkkGe~~~ee~k~~~~e~~~~~~e~~~~~~~~~~~~~~~~~~~le~~~~~-- 81 (118)
T TIGR01837 4 ESARKVWLAGIGALARVQEEGSKFFNRLVKEGELAEKRGQKRFDESVDAAREEVKTALEQTRDQVQRNWDKLEKAFDE-- 81 (118)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhhHHHHHHHHHH--
Confidence 34577889999977 78888888888775544666666666555421 1 111223444556788888777743
Q ss_pred hhHHHHHHHhhcccCCHHHHHHHHHHHHh
Q psy1464 77 FQVTSIVKFCTKRISNELELTQAESQAIS 105 (107)
Q Consensus 77 ~~l~~~i~~~~~~~~t~~~~~~~~~f~~~ 105 (107)
.+..++..+. +.|.+++++++.=+..
T Consensus 82 -~v~~~L~~lg--~~tk~ev~~L~~RI~~ 107 (118)
T TIGR01837 82 -RVEQALNRLN--IPSREEIEALSAKIEQ 107 (118)
T ss_pred -HHHHHHHHcC--CCCHHHHHHHHHHHHH
Confidence 4666666543 6788888888765543
No 26
>PF13864 Enkurin: Calmodulin-binding
Probab=44.52 E-value=62 Score=18.89 Aligned_cols=52 Identities=23% Similarity=0.372 Sum_probs=30.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhCCCchhHHHHHHHhhcccCCHHHHHHHHHHH
Q psy1464 51 AVGHTVALDFLYNNWDRIKKHFNGTQFQVTSIVKFCTKRISNELELTQAESQA 103 (107)
Q Consensus 51 ~~g~~~~w~fl~~n~~~i~~~~~~~~~~l~~~i~~~~~~~~t~~~~~~~~~f~ 103 (107)
..-+..+.+=++.||+.+...|..=++...++ +.....-.=+.++.+++.=.
T Consensus 39 eeER~~lL~~Lk~~~~el~~ey~~lp~~~DT~-~~~~rK~~lE~~L~qlE~dI 90 (98)
T PF13864_consen 39 EEERQELLEGLKKNWDELNKEYQKLPFSIDTL-RKKRRKEELEKELKQLEKDI 90 (98)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCcccCCH-HHHHHHHHHHHHHHHHHHHH
Confidence 45677788899999999999886523332221 11112222255556655433
No 27
>cd03366 TOPRIM_TopoIIA_GyrB TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. These proteins also catenate/ decatenate duplex rings. DNA gyrase is more effective at relaxing supercoils than decatentating DNA. DNA gyrase in addition inserts negative supercoils in the presence of ATP. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general base in strand joining and as a general acid in strand cleava
Probab=43.01 E-value=15 Score=22.56 Aligned_cols=60 Identities=12% Similarity=0.016 Sum_probs=34.3
Q ss_pred ccHHHHHHHHHhhccC-cHHHHHHHHHHhhcCCCCCcCcHHHHHHHhcCChhhHHHHHHHHHHHHHHHHH
Q psy1464 2 FYACRSRRFLIGLICY-FLSLIFRYLEYALTESLIRKQDAPRVFSLVSQSAVGHTVALDFLYNNWDRIKK 70 (107)
Q Consensus 2 ~~~~ek~~ll~AL~cs-d~~ll~~~L~~~l~~~~ir~qd~~~~~~~v~~n~~g~~~~w~fl~~n~~~i~~ 70 (107)
+..+|-..++.||||- .++ ++.+..|...+..+-.+=.....-+.....|+...|..+.+
T Consensus 45 ~~n~Ei~~li~alG~g~~~~---------~~~~~lrY~kiiimtDaD~DG~hI~~Llltff~~~~p~Li~ 105 (114)
T cd03366 45 LKNEEIRALITALGTGIGED---------FDLEKLRYHKIIIMTDADVDGAHIRTLLLTFFFRYMRPLIE 105 (114)
T ss_pred hcChHHHHHHHHhCCCCCCC---------CChhhCCcCeEEEEeCCCCCchHHHHHHHHHHHHHhHHHHh
Confidence 3446777899999998 643 12112333333222222122334455678899999988865
No 28
>PF06919 Phage_T4_Gp30_7: Phage Gp30.7 protein; InterPro: IPR009690 This family consists of several phage Gp30.7 proteins of 121 residues in length. Family members seem to be exclusively from the T4-like viruses. The function of this family is unknown.
Probab=41.17 E-value=53 Score=19.90 Aligned_cols=17 Identities=12% Similarity=0.219 Sum_probs=13.5
Q ss_pred CChhhHHHHHHHHHHHH
Q psy1464 49 QSAVGHTVALDFLYNNW 65 (107)
Q Consensus 49 ~n~~g~~~~w~fl~~n~ 65 (107)
..|+.++..||++.+.+
T Consensus 103 a~~e~~EAi~D~V~NEf 119 (121)
T PF06919_consen 103 AKPEHLEAIFDVVLNEF 119 (121)
T ss_pred CCHHHHHHHHHHHHhhc
Confidence 46889999999987654
No 29
>smart00567 EZ_HEAT E-Z type HEAT repeats. Present in subunits of cyanobacterial phycocyanin lyase, and other proteins. Probable scaffolding role.
Probab=39.92 E-value=37 Score=14.80 Aligned_cols=24 Identities=4% Similarity=-0.207 Sum_probs=17.4
Q ss_pred HHHHHHHhhccC-cHHHHHHHHHHh
Q psy1464 6 RSRRFLIGLICY-FLSLIFRYLEYA 29 (107)
Q Consensus 6 ek~~ll~AL~cs-d~~ll~~~L~~~ 29 (107)
.|.....+||.. +|..+..+.+..
T Consensus 3 vR~~aa~aLg~~~~~~a~~~L~~~l 27 (30)
T smart00567 3 VRHEAAFALGQLGDEEAVPALIKAL 27 (30)
T ss_pred HHHHHHHHHHHcCCHhHHHHHHHHh
Confidence 467778888888 888777665543
No 30
>TIGR02698 CopY_TcrY copper transport repressor, CopY/TcrY family. This family includes metal-fist type transcriptional repressors of copper transport systems such as copYZAB of Enterococcus hirae and tcrYAZB (transferble copper resistance) of an Enterocuccus faecium plasmid. High levels of copper can displace zinc and prevent binding by the repressor, activating efflux by copper resistance transporters. The most closely related proteins excluded by this model are antibiotic resistance regulators including the methicillin resistance regulatory protein MecI.
Probab=38.13 E-value=97 Score=19.08 Aligned_cols=38 Identities=5% Similarity=0.010 Sum_probs=23.2
Q ss_pred HHHHHH-HhCCCchhHHHHHHHhhc-ccCCHHHHHHHHHHHHh
Q psy1464 65 WDRIKK-HFNGTQFQVTSIVKFCTK-RISNELELTQAESQAIS 105 (107)
Q Consensus 65 ~~~i~~-~~~~~~~~l~~~i~~~~~-~~~t~~~~~~~~~f~~~ 105 (107)
-..+.+ .|++ .+..++..+.. .--+++++++++++++.
T Consensus 77 ~~~~~~~~f~g---s~~~ll~~l~~~~~ls~eele~L~~li~~ 116 (130)
T TIGR02698 77 AQELFSRICSR---KVGAVIADLIEESPLSQTDIEKLEKLLSE 116 (130)
T ss_pred HHHHHHHHHCC---CHHHHHHHHHhcCCCCHHHHHHHHHHHHh
Confidence 334443 3444 34555555544 23589999999998864
No 31
>PF12335 SBF2: Myotubularin protein ; InterPro: IPR022096 This domain family is found in eukaryotes, and is approximately 220 amino acids in length. The family is found in association with PF02141 from PFAM, PF03456 from PFAM, PF03455 from PFAM. This family is the middle region of SBF2, a member of the myotubularin family. Myotubularin-related proteins have been suggested to work in phosphoinositide-mediated signalling events that may also convey control of myelination. Mutations of SBF2 are implicated in Charcot-Marie-Tooth disease.
Probab=37.82 E-value=63 Score=22.18 Aligned_cols=47 Identities=9% Similarity=0.115 Sum_probs=32.1
Q ss_pred cHHHHHHHHHHhhcCCCCCcCcHHHHHHH---hcCChhhHHHHHHHHHHHHHH
Q psy1464 18 FLSLIFRYLEYALTESLIRKQDAPRVFSL---VSQSAVGHTVALDFLYNNWDR 67 (107)
Q Consensus 18 d~~ll~~~L~~~l~~~~ir~qd~~~~~~~---v~~n~~g~~~~w~fl~~n~~~ 67 (107)
.-+.+++.+..+++++. .+...++.+ +..+..||...-+.|..+...
T Consensus 23 rlevlr~ci~~if~~k~---~e~~k~~~av~~~lk~~~aR~~~~~~L~~~~~~ 72 (225)
T PF12335_consen 23 RLEVLRNCISFIFDNKI---LEARKSLPAVLRALKSRSARQAFCRELSKHVKS 72 (225)
T ss_pred HHHHHHHHHHHHHcccH---HHHHHHHHHHHHHHccchHHHHHHHHHHHHHhc
Confidence 78899999999998653 343343333 346678888877777766443
No 32
>PF07882 Fucose_iso_N2: L-fucose isomerase, second N-terminal domain; InterPro: IPR012889 Proteins containing this domain are similar to L-fucose isomerase expressed by Escherichia coli (P11552 from SWISSPROT, 5.3.1.3 from EC). This enzyme corresponds to glucose-6-phosphate isomerase in glycolysis, and converts an aldo-hexose to a ketose to prepare it for aldol cleavage. The enzyme is a hexamer, with each subunit being wedge-shaped and composed of three domains. Both domains 1 and 2 contain central parallel beta- sheets with surrounding alpha helices. The active centre is shared between pairs of subunits related along the molecular three-fold axis, with domains 2 and 3 from one subunit providing most of the substrate-contacting residues []. ; GO: 0008736 L-fucose isomerase activity, 0006004 fucose metabolic process, 0005737 cytoplasm; PDB: 3A9R_A 3A9T_C 3A9S_C 1FUI_E.
Probab=37.82 E-value=29 Score=23.00 Aligned_cols=47 Identities=13% Similarity=0.099 Sum_probs=26.7
Q ss_pred ccC-cHHHHHHHHHHhhcCCCCCcCcHHHHHHHh---cCChhhHHHHHHHHHHHHH
Q psy1464 15 ICY-FLSLIFRYLEYALTESLIRKQDAPRVFSLV---SQSAVGHTVALDFLYNNWD 66 (107)
Q Consensus 15 ~cs-d~~ll~~~L~~~l~~~~ir~qd~~~~~~~v---~~n~~g~~~~w~fl~~n~~ 66 (107)
|+. ||+.+++||..- +..-|...++..+ ...+.-.+.|++|+++|..
T Consensus 15 gsivd~~f~~~ylGmr-----~E~VD~~Ei~RR~e~~iyD~~E~e~A~~W~~~~~~ 65 (181)
T PF07882_consen 15 GSIVDPDFFQEYLGMR-----VEYVDMSEIIRRMEEGIYDEEEFEKALAWVKENCK 65 (181)
T ss_dssp GGS--HHHHHHCT--E-----EEEE-THHHHHHHHCT-S-HHHHHHHHHHHHHHSE
T ss_pred ccccCHHHHHHHhCCC-----ceeecHHHHHHHHHccCCCHHHHHHHHHHHHHhCC
Confidence 456 999998888753 2223334444443 2456778888888888865
No 33
>PF11952 DUF3469: Protein of unknown function (DUF3469); InterPro: IPR021859 This family of proteins are functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 108 to 439 amino acids in length.
Probab=37.39 E-value=41 Score=19.46 Aligned_cols=19 Identities=21% Similarity=0.058 Sum_probs=16.8
Q ss_pred HhhccC-cHHHHHHHHHHhh
Q psy1464 12 IGLICY-FLSLIFRYLEYAL 30 (107)
Q Consensus 12 ~AL~cs-d~~ll~~~L~~~l 30 (107)
..|||. .+++.+++.+++-
T Consensus 47 ~fLGC~Yp~~~m~~v~ema~ 66 (87)
T PF11952_consen 47 EFLGCRYPPEVMEKVMEMAE 66 (87)
T ss_pred HHHhcCCCHHHHHHHHHHhc
Confidence 579999 9999999998874
No 34
>PF15572 Imm26: Immunity protein 26
Probab=36.75 E-value=18 Score=21.50 Aligned_cols=17 Identities=24% Similarity=0.802 Sum_probs=12.9
Q ss_pred hhHHHHHHHHHHHHHHH
Q psy1464 52 VGHTVALDFLYNNWDRI 68 (107)
Q Consensus 52 ~g~~~~w~fl~~n~~~i 68 (107)
.++.+--+|+.+||+..
T Consensus 68 ~~~aiSt~Wli~NW~kw 84 (96)
T PF15572_consen 68 EGRAISTEWLIENWEKW 84 (96)
T ss_pred ccccccHHHHHHHHHHh
Confidence 34456678999999885
No 35
>COG3251 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.00 E-value=26 Score=19.50 Aligned_cols=22 Identities=14% Similarity=0.454 Sum_probs=18.6
Q ss_pred cCChhhHHHHHHHHHHHHHHHH
Q psy1464 48 SQSAVGHTVALDFLYNNWDRIK 69 (107)
Q Consensus 48 ~~n~~g~~~~w~fl~~n~~~i~ 69 (107)
...|.+++...+|+..+|..+.
T Consensus 39 v~~~~sr~aCldyve~~Wtdmr 60 (71)
T COG3251 39 VHEPGSREACLDYVEVHWTDMR 60 (71)
T ss_pred ecccccHHHHHHHHHHHhccCC
Confidence 4567899999999999998764
No 36
>TIGR01254 sfuA ABC transporter periplasmic binding protein, thiB subfamily. The model describes thiamine ABC transporter, periplasmic protein in bacteria and archae. The protein belongs to the larger ABC transport system. It consists of at least three components: the thiamine binding periplasmic protein; an inner membrane permease; an ATP-binding subunit. It has been experimentally demonstrated that the mutants in the various steps in the de novo synthesis of the thiamine and the biologically active form, namely thiamine pyrophosphate can be exogenously supplemented with thiamine, thiamine monophosphate (TMP) or thiamine pyrophosphate (TPP).
Probab=34.65 E-value=55 Score=22.73 Aligned_cols=18 Identities=11% Similarity=0.207 Sum_probs=15.3
Q ss_pred cC-cHHHHHHHHHHhhcCC
Q psy1464 16 CY-FLSLIFRYLEYALTES 33 (107)
Q Consensus 16 cs-d~~ll~~~L~~~l~~~ 33 (107)
.+ +++..+++++++++++
T Consensus 235 ~a~n~e~A~~fi~fllspe 253 (304)
T TIGR01254 235 GAKQPELADKFVQFLLSPA 253 (304)
T ss_pred CCCCHHHHHHHHHHHcCHH
Confidence 56 8999999999998875
No 37
>TIGR01565 homeo_ZF_HD homeobox domain, ZF-HD class. This model represents a class of homoebox domain that differs substantially from the typical homoebox domain described in pfam model pfam00046. It is found in both C4 and C3 plants.
Probab=34.40 E-value=52 Score=17.55 Aligned_cols=15 Identities=13% Similarity=0.005 Sum_probs=12.7
Q ss_pred CHHHHHHHHHHHHhc
Q psy1464 92 NELELTQAESQAISL 106 (107)
Q Consensus 92 t~~~~~~~~~f~~~~ 106 (107)
|++|+++++.||+..
T Consensus 9 t~~Q~~~Le~~fe~~ 23 (58)
T TIGR01565 9 TAEQKEKMRDFAEKL 23 (58)
T ss_pred CHHHHHHHHHHHHHc
Confidence 789999999999753
No 38
>KOG4189|consensus
Probab=34.29 E-value=1.2e+02 Score=20.58 Aligned_cols=31 Identities=16% Similarity=-0.088 Sum_probs=25.2
Q ss_pred cHHHHHHHHHhhccCcHHHHHHHHHHhhcCC
Q psy1464 3 YACRSRRFLIGLICYFLSLIFRYLEYALTES 33 (107)
Q Consensus 3 ~~~ek~~ll~AL~csd~~ll~~~L~~~l~~~ 33 (107)
+-.+|...|..|..+||+.++..+++....+
T Consensus 60 Dv~aKid~L~~l~ssd~et~rtild~~~e~~ 90 (209)
T KOG4189|consen 60 DVRAKIDDLVELRSSDPETYRTILDLDTEES 90 (209)
T ss_pred HHHHHHHHHHHHhhcChHHHHHHHHHHHHHh
Confidence 4457888999988779999999999887544
No 39
>PF08565 CDC37_M: Cdc37 Hsp90 binding domain; InterPro: IPR013874 Cdc37 is a molecular chaperone required for the activity of numerous eukaryotic protein kinases. This entry corresponds to the Hsp90 chaperone (heat shock protein 90) binding domain of Cdc37 []. It is found between the N-terminal Cdc37 domain IPR013855 from INTERPRO, which is predominantly involved in kinase binding, and the C-terminal domain of Cdc37 IPR013873 from INTERPRO whose function is unclear. ; PDB: 1US7_B 2W0G_A 2K5B_B.
Probab=33.04 E-value=1.4e+02 Score=19.52 Aligned_cols=58 Identities=16% Similarity=0.032 Sum_probs=34.6
Q ss_pred ccC-cHHHHHHHHHHhhcCCCCCcCcHHHHHHHhc--CChhhHHHHHHHHHHHHHHHHHHh
Q psy1464 15 ICY-FLSLIFRYLEYALTESLIRKQDAPRVFSLVS--QSAVGHTVALDFLYNNWDRIKKHF 72 (107)
Q Consensus 15 ~cs-d~~ll~~~L~~~l~~~~ir~qd~~~~~~~v~--~n~~g~~~~w~fl~~n~~~i~~~~ 72 (107)
-|+ ..-+|+-++++.-.+..-++..+...|..+. ++|.++....+=|.+-+++|..|.
T Consensus 102 q~vhQsllLqyi~eLak~~~~~pr~~v~~FF~r~~~~~~~~~~~~F~~dv~~~~~rIk~Ra 162 (173)
T PF08565_consen 102 QVVHQSLLLQYIRELAKSLKRDPRDGVRLFFKRIKTPGHPEAKKVFEDDVEAFYERIKERA 162 (173)
T ss_dssp HHHHHHHHHHHHHHHHHHHTS-GGGCHHHHHHHHTT-SSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHHHHHH
Confidence 355 5556666666553333122344555566674 467778777777777777777664
No 40
>PF11256 DUF3055: Protein of unknown function (DUF3055); InterPro: IPR021415 This family of proteins with unknown function appear to be restricted to Firmicutes.
Probab=32.72 E-value=47 Score=19.09 Aligned_cols=15 Identities=20% Similarity=0.109 Sum_probs=13.1
Q ss_pred CHHHHHHHHHHHHhc
Q psy1464 92 NELELTQAESQAISL 106 (107)
Q Consensus 92 t~~~~~~~~~f~~~~ 106 (107)
++++++++..|+..+
T Consensus 67 ~~eea~eL~~fl~~~ 81 (81)
T PF11256_consen 67 SEEEAEELREFLYEL 81 (81)
T ss_pred CHHHHHHHHHHHhhC
Confidence 899999999998753
No 41
>cd01886 EF-G Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group conta
Probab=32.42 E-value=20 Score=25.05 Aligned_cols=55 Identities=16% Similarity=0.134 Sum_probs=34.0
Q ss_pred HHHHHHHHhhccCcHHHHHHHHHHhhcCCCCCcCcHHHHHHH-------------hcCChhhHHHHHHHHHH
Q psy1464 5 CRSRRFLIGLICYFLSLIFRYLEYALTESLIRKQDAPRVFSL-------------VSQSAVGHTVALDFLYN 63 (107)
Q Consensus 5 ~ek~~ll~AL~csd~~ll~~~L~~~l~~~~ir~qd~~~~~~~-------------v~~n~~g~~~~w~fl~~ 63 (107)
+-|..++.+++-+|.+++++||+- +.+...++...+.. =+.+..|.+..++++..
T Consensus 198 ~~r~~l~e~vae~dd~L~e~yl~~----~~~~~~el~~~l~~~~~~~~~~PV~~gSa~~~~Gi~~lld~i~~ 265 (270)
T cd01886 198 EAREELIETLAEFDDELMEKYLEG----EEITEEEIKAAIRKGTIANKIVPVLCGSAFKNKGVQPLLDAVVD 265 (270)
T ss_pred HHHHHHHHHHhcCCHHHHHHHhCC----CCCCHHHHHHHHHHHHHcCcEEEEEeCcCCCCcCHHHHHHHHHH
Confidence 457788899877799999999863 22555555444432 22234566666666543
No 42
>PF00034 Cytochrom_C: Cytochrome c; InterPro: IPR003088 Cytochromes c (cytC) can be defined as electron-transfer proteins having one or several haem c groups, bound to the protein by one or, more generally, two thioether bonds involving sulphydryl groups of cysteine residues. The fifth haem iron ligand is always provided by a histidine residue. CytC possess a wide range of properties and function in a large number of different redox processes. Ambler [] recognised four classes of cytC. Class I includes the low-spin soluble cytC of mitochondria and bacteria, with the haem-attachment site towards the N terminus, and the sixth ligand provided by a methionine residue about 40 residues further on towards the C terminus. On the basis of sequence similarity, class I cytC were further subdivided into five classes, IA to IE. Class IB includes the eukaryotic mitochondrial cytC and prokaryotic 'short' cyt c2 exemplified by Rhodopila globiformis cyt c2; class IA includes 'long' cyt c2, such as Rhodospirillum rubrum cyt c2 and Aquaspirillum itersonii cyt c-550, which have several extra loops by comparison with class IB cytC.; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0020037 heme binding; PDB: 1YNR_B 2AI5_A 1AYG_A 3O5C_C 1YEA_A 3CXH_W 1YTC_A 1YEB_A 2YBB_Y 2B4Z_A ....
Probab=31.88 E-value=51 Score=17.62 Aligned_cols=17 Identities=24% Similarity=0.225 Sum_probs=14.7
Q ss_pred cCCHHHHHHHHHHHHhc
Q psy1464 90 ISNELELTQAESQAISL 106 (107)
Q Consensus 90 ~~t~~~~~~~~~f~~~~ 106 (107)
.-|++|++.|-+|+.++
T Consensus 74 ~ls~~e~~~l~ayl~sl 90 (91)
T PF00034_consen 74 ILSDEEIADLAAYLRSL 90 (91)
T ss_dssp TSSHHHHHHHHHHHHHT
T ss_pred CCCHHHHHHHHHHHHHh
Confidence 34789999999999987
No 43
>PF13934 ELYS: Nuclear pore complex assembly
Probab=31.66 E-value=1.7e+02 Score=19.89 Aligned_cols=58 Identities=21% Similarity=0.227 Sum_probs=37.8
Q ss_pred HHHHHHhhccC-cHHHHHHHHHHhhcCCCCCcCcHHH-HHHHhcCChhhHHHHHHHHHHHHHHH
Q psy1464 7 SRRFLIGLICY-FLSLIFRYLEYALTESLIRKQDAPR-VFSLVSQSAVGHTVALDFLYNNWDRI 68 (107)
Q Consensus 7 k~~ll~AL~cs-d~~ll~~~L~~~l~~~~ir~qd~~~-~~~~v~~n~~g~~~~w~fl~~n~~~i 68 (107)
-..|+.+|.+. ++.+.-+|+... .+. +...+... .+..++++ ...-||.|.+..-+..
T Consensus 111 ~~~Il~~L~~~~~~~lAL~y~~~~-~p~-l~s~~~~~~~~~~La~~--~v~EAf~~~R~~~~~~ 170 (226)
T PF13934_consen 111 PDKILQALLRRGDPKLALRYLRAV-GPP-LSSPEALTLYFVALANG--LVTEAFSFQRSYPDEL 170 (226)
T ss_pred HHHHHHHHHHCCChhHHHHHHHhc-CCC-CCCHHHHHHHHHHHHcC--CHHHHHHHHHhCchhh
Confidence 34688999999 999888888764 343 44444444 44445543 5667888887655543
No 44
>PF11894 DUF3414: Protein of unknown function (DUF3414); InterPro: IPR021827 This family of proteins are functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 764 to 2011 amino acids in length. This protein has a conserved LLG sequence motif.
Probab=31.52 E-value=3.4e+02 Score=24.37 Aligned_cols=43 Identities=16% Similarity=0.225 Sum_probs=29.7
Q ss_pred HHHHHHhhcCCC-CCcCcHHHHHHHhcCChhhHHHHHHHHHHHH
Q psy1464 23 FRYLEYALTESL-IRKQDAPRVFSLVSQSAVGHTVALDFLYNNW 65 (107)
Q Consensus 23 ~~~L~~~l~~~~-ir~qd~~~~~~~v~~n~~g~~~~w~fl~~n~ 65 (107)
-+++.++.+... ....-...++.+++.+|.+-..+|+|+.+|=
T Consensus 481 ~gFl~wa~~~~~~~l~~af~~ML~sLs~g~~~A~~a~~~L~~~~ 524 (1691)
T PF11894_consen 481 YGFLRWASDRNPSPLVSAFLEMLASLSSGPECASAAFNFLKDNS 524 (1691)
T ss_pred hHHHHHHhhcCCchhHHHHHHHHHHHcCChHHHHHHHHHHhhcc
Confidence 346666653321 2223445678999999999999999998764
No 45
>PF05597 Phasin: Poly(hydroxyalcanoate) granule associated protein (phasin); InterPro: IPR008769 Polyhydroxyalkanoates (PHAs) are storage polyesters synthesised by various bacteria as intracellular carbon and energy reserve material. PHAs are accumulated as water-insoluble inclusions within the cells. This family consists of the phasins PhaF and PhaI which act as a transcriptional regulator of PHA biosynthesis genes. PhaF has been proposed to repress expression of the phaC1 gene and the phaIF operon.
Probab=30.01 E-value=1.5e+02 Score=18.64 Aligned_cols=97 Identities=13% Similarity=0.195 Sum_probs=53.3
Q ss_pred HHHHHHHHhhccC--cHHHHHHHHHHhhcCC-CCCcCcHHHHHHHhcCCh----hhHHHHHHHHHHHHHHHHHHhCCCch
Q psy1464 5 CRSRRFLIGLICY--FLSLIFRYLEYALTES-LIRKQDAPRVFSLVSQSA----VGHTVALDFLYNNWDRIKKHFNGTQF 77 (107)
Q Consensus 5 ~ek~~ll~AL~cs--d~~ll~~~L~~~l~~~-~ir~qd~~~~~~~v~~n~----~g~~~~w~fl~~n~~~i~~~~~~~~~ 77 (107)
.-|...|.+||.. -.+--.++++...... .+...-...+=..+..-. ...+-+.+-+...|+.+.+.|..
T Consensus 18 ~arqIWLAGLGA~ak~~~EG~k~F~~LVk~Ge~~e~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~dklE~~fd~--- 94 (132)
T PF05597_consen 18 SARQIWLAGLGAYAKAQEEGSKVFEALVKEGEKLEKKTRKKAEEQVEEARDQVKSRVDDVKERATGQWDKLEQAFDE--- 94 (132)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---
Confidence 4567788888765 4444555555544322 122221111111111111 22345566778888888887753
Q ss_pred hHHHHHHHhhcccCCHHHHHHHHHHHHhc
Q psy1464 78 QVTSIVKFCTKRISNELELTQAESQAISL 106 (107)
Q Consensus 78 ~l~~~i~~~~~~~~t~~~~~~~~~f~~~~ 106 (107)
.+.+.+..+. +-|..+++.+..=+..|
T Consensus 95 rV~~aL~rLg--vPs~~dv~~L~~rId~L 121 (132)
T PF05597_consen 95 RVARALNRLG--VPSRKDVEALSARIDQL 121 (132)
T ss_pred HHHHHHHhcC--CCCHHHHHHHHHHHHHH
Confidence 5667676653 66788888877655443
No 46
>PF15186 TEX13: Testis-expressed sequence 13 protein family
Probab=29.42 E-value=61 Score=20.85 Aligned_cols=38 Identities=11% Similarity=0.260 Sum_probs=31.4
Q ss_pred CCcCcHHHHHHH-hcCChhhHHHHHHHHHHHHHHHHHHh
Q psy1464 35 IRKQDAPRVFSL-VSQSAVGHTVALDFLYNNWDRIKKHF 72 (107)
Q Consensus 35 ir~qd~~~~~~~-v~~n~~g~~~~w~fl~~n~~~i~~~~ 72 (107)
++-.++...++. |..|..|.+.-..|..--|+.|.+++
T Consensus 9 FrH~~Vv~FINee~~~n~~GpeFYl~~~S~sW~eVEdkL 47 (152)
T PF15186_consen 9 FRHGEVVAFINEEMLRNGGGPEFYLENRSLSWEEVEDKL 47 (152)
T ss_pred ccccHHHHHHHHHHHhcCCCchHHHHhccCCHHHHHHHH
Confidence 777887777776 78888999988888888899987765
No 47
>PF13475 DUF4116: Domain of unknown function (DUF4116)
Probab=29.30 E-value=78 Score=15.30 Aligned_cols=30 Identities=20% Similarity=0.154 Sum_probs=12.2
Q ss_pred HHHHhcCChhhHHHHHHHHHHHHHHHHHHh
Q psy1464 43 VFSLVSQSAVGHTVALDFLYNNWDRIKKHF 72 (107)
Q Consensus 43 ~~~~v~~n~~g~~~~w~fl~~n~~~i~~~~ 72 (107)
++..+..+|.....+-+-++.+.+.+....
T Consensus 5 v~~~v~~~~~~l~~~~~~lk~D~e~vl~av 34 (49)
T PF13475_consen 5 VLEAVKKNGYALQYASEELKNDKEFVLKAV 34 (49)
T ss_pred HHHHHHhCCHHHHHhCHHHhCCHHHHHHHH
Confidence 333444444433333334444444444433
No 48
>PF11822 DUF3342: Domain of unknown function (DUF3342); InterPro: IPR021777 This family of proteins are functionally uncharacterised. This family is found in bacteria. This presumed domain is typically between 170 to 303 amino acids in length. The N-terminal half of this family is a BTB-like domain.
Probab=29.11 E-value=1.4e+02 Score=21.78 Aligned_cols=79 Identities=9% Similarity=0.026 Sum_probs=50.9
Q ss_pred cHHHHHHHHHHhhcCCC-CCcCcHHHHHHH--hcCChhhHHHHHHHHHHHHHHHHHHhCCCc-hhHHHHHHHhhcccCCH
Q psy1464 18 FLSLIFRYLEYALTESL-IRKQDAPRVFSL--VSQSAVGHTVALDFLYNNWDRIKKHFNGTQ-FQVTSIVKFCTKRISNE 93 (107)
Q Consensus 18 d~~ll~~~L~~~l~~~~-ir~qd~~~~~~~--v~~n~~g~~~~w~fl~~n~~~i~~~~~~~~-~~l~~~i~~~~~~~~t~ 93 (107)
|-.+.+.++.++-.+.. +.+..+..++.+ ...-..-.+....|+.+|..+|...= -+. -.=+.++.-++..+ |+
T Consensus 54 Dv~iF~WLm~yv~~~~p~l~~~NvvsIliSS~FL~M~~Lve~cl~y~~~~~~~Iv~~~-~nl~Cl~~~Ll~RLa~~~-t~ 131 (317)
T PF11822_consen 54 DVHIFEWLMRYVKGEPPSLTPSNVVSILISSEFLQMESLVEECLQYCHDHMSEIVASP-CNLNCLNDNLLTRLADMF-TH 131 (317)
T ss_pred ChhHHHHHHHHhhcCCCcCCcCcEEEeEehhhhhccHHHHHHHHHHHHHhHHHHHcCC-CCcccCCHHHHHHHHHhc-Cc
Confidence 67778888888875432 777777666554 24556677788899999998887631 111 12335565565544 56
Q ss_pred HHHHH
Q psy1464 94 LELTQ 98 (107)
Q Consensus 94 ~~~~~ 98 (107)
++++.
T Consensus 132 ~el~~ 136 (317)
T PF11822_consen 132 EELEA 136 (317)
T ss_pred ccHhH
Confidence 66665
No 49
>smart00151 SWIB SWI complex, BAF60b domains.
Probab=29.10 E-value=55 Score=18.19 Aligned_cols=15 Identities=0% Similarity=-0.028 Sum_probs=11.5
Q ss_pred ChhhHHHHHHHHHHH
Q psy1464 50 SAVGHTVALDFLYNN 64 (107)
Q Consensus 50 n~~g~~~~w~fl~~n 64 (107)
.+.-...+|+|+++|
T Consensus 22 r~ev~~~lw~YIk~n 36 (77)
T smart00151 22 RTEIIKRLWEYIKEH 36 (77)
T ss_pred HHHHHHHHHHHHHHh
Confidence 456677889999876
No 50
>PF09432 THP2: Tho complex subunit THP2; InterPro: IPR018557 The THO complex plays a role in coupling transcription elongation to mRNA export. It is composed of subunits THP2, HPR1, THO2 and MFT1 [].
Probab=28.89 E-value=1.5e+02 Score=18.59 Aligned_cols=30 Identities=13% Similarity=0.421 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHH-HhCCCchhHHHHHHHh
Q psy1464 57 ALDFLYNNWDRIKK-HFNGTQFQVTSIVKFC 86 (107)
Q Consensus 57 ~w~fl~~n~~~i~~-~~~~~~~~l~~~i~~~ 86 (107)
-.++.+++|+.|.. .||.++.++..+++.+
T Consensus 93 EVn~Wr~ewd~iE~~mFGD~pnSmkkMl~nv 123 (132)
T PF09432_consen 93 EVNYWRKEWDNIEMLMFGDGPNSMKKMLQNV 123 (132)
T ss_pred HHHHHHHHHHHHHHHHhcCChHHHHHHHHHH
Confidence 35677999999976 5677777888888765
No 51
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=28.55 E-value=68 Score=18.28 Aligned_cols=38 Identities=16% Similarity=0.116 Sum_probs=19.9
Q ss_pred HHHHHHhhc-cC-cHHHHHHHHHHhhc-CCCCCcCcHHHHHH
Q psy1464 7 SRRFLIGLI-CY-FLSLIFRYLEYALT-ESLIRKQDAPRVFS 45 (107)
Q Consensus 7 k~~ll~AL~-cs-d~~ll~~~L~~~l~-~~~ir~qd~~~~~~ 45 (107)
+..+..||- || |+.+..+++.-.+. +..+ |.+..-++.
T Consensus 11 ~~~v~~aL~~tSgd~~~a~~~vl~~l~~g~~~-P~n~~GiWT 51 (87)
T PF11626_consen 11 REFVTHALYATSGDPELARRFVLNFLQAGKGI-PDNMPGIWT 51 (87)
T ss_dssp HHHHHHHHHHTTTBHHHHHHHHHHCHCHTTSS--TT-TT---
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC-CCCCCCCcC
Confidence 445667884 55 99999995444443 3223 444444443
No 52
>cd04436 DEP_fRgd2 DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in fungal RhoGAP (GTPase-activator protein) Rgd2-like proteins. Rgd2-like proteins share a common domain architecture, containing, beside the RhoGAP domain, a DEP and a FCH (Fes/CIP4 homology) domain. Yeast Rgd2 is a GAP protein for Cdc42 and Rho5.
Probab=28.19 E-value=63 Score=18.70 Aligned_cols=42 Identities=19% Similarity=0.106 Sum_probs=25.4
Q ss_pred HHHHHHHhhcCCCCCcCcHHHHHHHhcCChhhHHHHHHHHHHHH
Q psy1464 22 IFRYLEYALTESLIRKQDAPRVFSLVSQSAVGHTVALDFLYNNW 65 (107)
Q Consensus 22 l~~~L~~~l~~~~ir~qd~~~~~~~v~~n~~g~~~~w~fl~~n~ 65 (107)
++++|...++. |+..+....+-+--.|-..-+..-+|+++|-
T Consensus 2 lk~lL~~ml~~--ip~~~~kvPilGty~nt~sG~~Iv~~L~~n~ 43 (84)
T cd04436 2 LKELLAAMLKE--IPLADYKVPILGTYQNTSSGSEIVSWLQENM 43 (84)
T ss_pred HHHHHHHHHHh--CCCccceecccccccCcccHHHHHHHHHHcC
Confidence 45566666653 5666655544443345555556778999885
No 53
>PF11116 DUF2624: Protein of unknown function (DUF2624); InterPro: IPR020277 This entry contains proteins with no known function.
Probab=27.99 E-value=78 Score=18.37 Aligned_cols=24 Identities=8% Similarity=0.009 Sum_probs=19.9
Q ss_pred ccHHHHHHHHHhhccC-cHHHHHHH
Q psy1464 2 FYACRSRRFLIGLICY-FLSLIFRY 25 (107)
Q Consensus 2 ~~~~ek~~ll~AL~cs-d~~ll~~~ 25 (107)
|+.+||.+++.=++.. ||+..+.+
T Consensus 51 fn~~~r~~llkeia~iT~p~ta~~v 75 (85)
T PF11116_consen 51 FNEQERKKLLKEIAKITSPQTAKQV 75 (85)
T ss_pred CCHHHHHHHHHHHHHhcCHHHHHHH
Confidence 6788999999999888 88887754
No 54
>smart00700 JHBP Juvenile hormone binding protein domains in insects. The juvenile hormone exerts pleiotropic functions during insect life cycles and its binding proteins regulate these functions.
Probab=27.86 E-value=78 Score=21.15 Aligned_cols=37 Identities=14% Similarity=0.159 Sum_probs=26.7
Q ss_pred CcHHHHHHHhc-CChhhHHHHHHHHHHHHHHHHHHhCC
Q psy1464 38 QDAPRVFSLVS-QSAVGHTVALDFLYNNWDRIKKHFNG 74 (107)
Q Consensus 38 qd~~~~~~~v~-~n~~g~~~~w~fl~~n~~~i~~~~~~ 74 (107)
.++..-+..+- +++.-.+.+-+|+.+||+.+.+-...
T Consensus 159 ~~~~~~~~NLfngn~~L~~~~n~~lNen~~~i~~e~~p 196 (225)
T smart00700 159 GDVKSHLDNLFNGNKDLNDAINKFLNENWKALINELLP 196 (225)
T ss_pred ceEEEEeeccCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444455553 56777888999999999999887654
No 55
>TIGR01321 TrpR trp operon repressor, proteobacterial. This model represents TrpR, the repressor of the trp operon. It is found so far only in the gamma subdivision of the proteobacteria and in Chlamydia trachomatis. All members belong to species capable of tryptophan biosynthesis.
Probab=27.61 E-value=54 Score=19.38 Aligned_cols=27 Identities=30% Similarity=0.032 Sum_probs=23.1
Q ss_pred HHHHHHhhccC-cHHHHHHHHHHhhcCC
Q psy1464 7 SRRFLIGLICY-FLSLIFRYLEYALTES 33 (107)
Q Consensus 7 k~~ll~AL~cs-d~~ll~~~L~~~l~~~ 33 (107)
=..++.+|.+. +++.+..+|...++++
T Consensus 9 w~~~~~ll~~~~~~~~l~~~l~~lLTp~ 36 (94)
T TIGR01321 9 WEAFLKLLKKADSEDDMQLLLELILTRS 36 (94)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHhCCHH
Confidence 35678899999 9999999999998875
No 56
>PF01369 Sec7: Sec7 domain; InterPro: IPR000904 The SEC7 domain was named after the first protein found to contain such a region []. It has been shown to be linked with guanine nucleotide exchange function [, ]. The 3D structure of the domain displays several alpha-helices []. It was found to be associated with other domains involved in guanine nucleotide exchange (e.g., CDC25, Dbl) in mammalian factors [].; GO: 0005086 ARF guanyl-nucleotide exchange factor activity, 0032012 regulation of ARF protein signal transduction, 0005622 intracellular; PDB: 3SWV_A 3L8N_A 2R09_A 2R0D_B 1RE0_B 3LTL_A 1KU1_A 1XSZ_A 1XT0_B 1R8Q_E ....
Probab=27.31 E-value=1.9e+02 Score=18.99 Aligned_cols=84 Identities=12% Similarity=0.079 Sum_probs=43.7
Q ss_pred HHHHHhhcc---C-cHHHHHHHHHHhhcCCCCCcCcHHHHHHHhcCChhhHHHHHHHHHHHHHHHHHHhCCCchhHHHHH
Q psy1464 8 RRFLIGLIC---Y-FLSLIFRYLEYALTESLIRKQDAPRVFSLVSQSAVGHTVALDFLYNNWDRIKKHFNGTQFQVTSIV 83 (107)
Q Consensus 8 ~~ll~AL~c---s-d~~ll~~~L~~~l~~~~ir~qd~~~~~~~v~~n~~g~~~~w~fl~~n~~~i~~~~~~~~~~l~~~i 83 (107)
...+...+. . +|..+.++|. ..++ +.++.+...+.. .++....+.-.|+ +.++. ....+...+
T Consensus 23 i~~l~~~~~~~~~~~~~~iA~fL~--~~~~-l~k~~ige~Lg~--~~~~n~~vL~~y~-~~fdf-------~~~~i~~AL 89 (190)
T PF01369_consen 23 IEYLIQNGFLENEDDPKSIAKFLF--QTPG-LDKKKIGEYLGK--DNPFNRDVLKEYI-SLFDF-------SGMSIDEAL 89 (190)
T ss_dssp HHHHHHTTSSTS-SSHHHHHHHHH--HTTT-S-HHHHHHHHTS--SSHHHHHHHHHHH-HTSS--------TTS-HHHHH
T ss_pred HHHHHHCCCCCCCCCHHHHHHHHH--hCCC-CCHHHHHHHHhc--cchHHHHHHHHHH-HHcCC-------cCccHHHHH
Confidence 334444444 5 7777777772 2232 555555544444 4456665555554 22221 123566667
Q ss_pred HHhhcccCCHHHHHHHHHHHH
Q psy1464 84 KFCTKRISNELELTQAESQAI 104 (107)
Q Consensus 84 ~~~~~~~~t~~~~~~~~~f~~ 104 (107)
+.+.+.|.=+.+.++++.+++
T Consensus 90 R~~l~~f~LpgE~q~idril~ 110 (190)
T PF01369_consen 90 RKFLSSFRLPGESQQIDRILE 110 (190)
T ss_dssp HHHCTSS-BTSSHHHHHHHHH
T ss_pred HHhcceeeeccchHHHHHHHH
Confidence 777777776777777766654
No 57
>KOG1062|consensus
Probab=27.09 E-value=3.7e+02 Score=22.41 Aligned_cols=70 Identities=6% Similarity=0.125 Sum_probs=47.2
Q ss_pred CCcCcHHHHHHHhcCChhhHHHHHHHHHHHHHHHHHHhCCCchhHHHHHHHhhcccCC--HHHHHHHHHHHH
Q psy1464 35 IRKQDAPRVFSLVSQSAVGHTVALDFLYNNWDRIKKHFNGTQFQVTSIVKFCTKRISN--ELELTQAESQAI 104 (107)
Q Consensus 35 ir~qd~~~~~~~v~~n~~g~~~~w~fl~~n~~~i~~~~~~~~~~l~~~i~~~~~~~~t--~~~~~~~~~f~~ 104 (107)
+...|+.-++-.+..+...-.....|...=--++..|++.....+.++|....+.+.+ +...-|++.+|.
T Consensus 509 vtesdivd~l~~v~~~~~s~~~tk~yal~Al~KLSsr~~s~~~ri~~lI~~~~~s~~~elQQRa~E~~~l~~ 580 (866)
T KOG1062|consen 509 VTESDIVDKLEKVLMSHSSDSTTKGYALTALLKLSSRFHSSSERIKQLISSYKSSLDTELQQRAVEYNALFA 580 (866)
T ss_pred CCHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHhhccccHHHHHHHHHHhcccccHHHHHHHHHHHHHHH
Confidence 6667777777776444334456666666666678888876545688888887777766 445567777774
No 58
>PF04691 ApoC-I: Apolipoprotein C-I (ApoC-1); InterPro: IPR006781 Exchangeable apolipoproteins are water-soluble protein components of lipoproteins that solubilise lipids and regulate their metabolism by binding to cell receptors or activating specific enzymes. Apolipoprotein C-I (ApoC-1) is the smallest exchangeable apolipoprotein and transfers among HDL (high density lipoprotein), VLDL (very low-density lipoprotein) and chlylomicrons. ApoC-1 activates lecithin:choline acetyltransferase (LCAT), inhibits cholesteryl ester transfer protein, can inhibit hepatic lipase and phospholipase 2 and can stimulate cell growth. ApoC-1 delays the clearance of beta-VLDL by inhibiting its uptake via the LDL receptor-related pathway []. ApoC-1 has been implicated in hypertriglyceridemia [], and Alzheimer s disease []. ApoC-1 is believed to comprise of two dynamic helices that are stabilised by interhelical interactions and are connected by a short linker region. The minimal folding unit in the lipid-free state of this and other exchangeable apolipoproteins comprises the helix-turn-helix motif formed of four 11-mer sequence repeats.; GO: 0042157 lipoprotein metabolic process, 0005576 extracellular region; PDB: 1ALF_A 1ALE_A 1OPP_A 1IOJ_A 1EZE_A.
Probab=27.03 E-value=90 Score=16.93 Aligned_cols=19 Identities=5% Similarity=0.373 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHHhCC
Q psy1464 56 VALDFLYNNWDRIKKHFNG 74 (107)
Q Consensus 56 ~~w~fl~~n~~~i~~~~~~ 74 (107)
-.++|+.+.++.+..++..
T Consensus 41 KTrnWfsEtf~kvKeK~~~ 59 (61)
T PF04691_consen 41 KTRNWFSETFEKVKEKVKE 59 (61)
T ss_dssp CCHHHHHHHHHHHHHHSSS
T ss_pred HHHHHHHHHHHHHHHHhhc
Confidence 3578999999999988753
No 59
>cd01030 TOPRIM_TopoIIA_like TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. These proteins also catenate/ decatenate duplex rings. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general base in strand joining and as a general acid in strand cleavage by topisomerases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Probab=26.93 E-value=44 Score=20.51 Aligned_cols=61 Identities=11% Similarity=0.039 Sum_probs=34.0
Q ss_pred ccHHHHHHHHHhhccC-cHHHHHHHHHHhhcCCCCCcCcHHHHHHHhcCChhhHHHHHHHHHHHHHHHHH
Q psy1464 2 FYACRSRRFLIGLICY-FLSLIFRYLEYALTESLIRKQDAPRVFSLVSQSAVGHTVALDFLYNNWDRIKK 70 (107)
Q Consensus 2 ~~~~ek~~ll~AL~cs-d~~ll~~~L~~~l~~~~ir~qd~~~~~~~v~~n~~g~~~~w~fl~~n~~~i~~ 70 (107)
+..+|-..++.||||. ...- .+.+..|...+..+-.+=.....-+.....|+...|..+.+
T Consensus 45 ~~n~Ei~~l~~alG~~~~~~~--------~~~~~lrY~kiiimtDaD~DG~hI~~Llltff~~~~p~Li~ 106 (115)
T cd01030 45 LKNEEIQNIIKALGLGIGKDD--------FDLDKLRYGKIIIMTDADVDGSHIRTLLLTFFYRFWPSLLE 106 (115)
T ss_pred hcChHHHHHHHHhCCCCCccc--------CChhhcCcCeEEEEeCCCCCccHhHHHHHHHHHHHhhHhhh
Confidence 3446777889999998 6211 11111333332222222122334556778899999988876
No 60
>KOG2141|consensus
Probab=26.83 E-value=3.6e+02 Score=22.23 Aligned_cols=45 Identities=11% Similarity=0.253 Sum_probs=31.0
Q ss_pred ccHHHHHHHHHhhccC--cHHHHHHHHHHhhcCCCCCcCcHHHHHHHhc
Q psy1464 2 FYACRSRRFLIGLICY--FLSLIFRYLEYALTESLIRKQDAPRVFSLVS 48 (107)
Q Consensus 2 ~~~~ek~~ll~AL~cs--d~~ll~~~L~~~l~~~~ir~qd~~~~~~~v~ 48 (107)
|+.+.|+.|.=++.++ --+-.+++|.+.|.+. ...++.+|+..+.
T Consensus 616 MNTdiRr~IFcsImsaeDyiDAFEklLkL~LK~~--Q~rEI~~VllhC~ 662 (822)
T KOG2141|consen 616 MNTDIRRAIFCSIMSAEDYIDAFEKLLKLSLKGK--QEREIARVLLHCC 662 (822)
T ss_pred cchHhhhhheeeeecchHHHHHHHHHHhccCCCc--chHHHHHHHHHHH
Confidence 6677888888777777 4566788888888654 2245666666654
No 61
>cd04386 RhoGAP_nadrin RhoGAP_nadrin: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of Nadrin-like proteins. Nadrin, also named Rich-1, has been shown to be involved in the regulation of Ca2+-dependent exocytosis in neurons and recently has been implicated in tight junction maintenance in mammalian epithelium. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=26.79 E-value=1.5e+02 Score=19.56 Aligned_cols=14 Identities=7% Similarity=0.252 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHH
Q psy1464 55 TVALDFLYNNWDRI 68 (107)
Q Consensus 55 ~~~w~fl~~n~~~i 68 (107)
.-+.+++.+||+.|
T Consensus 185 ~~iv~~LI~~~~~i 198 (203)
T cd04386 185 VAIVELIISHADWF 198 (203)
T ss_pred HHHHHHHHHhHHHh
Confidence 35667777887776
No 62
>cd08785 CARD_CARD9-like Caspase activation and recruitment domain of CARD9 and related proteins. Caspase activation and recruitment domain (CARD) found in CARD9, CARD14 (CARMA2), CARD10 (CARMA3), CARD11 (CARMA1) and BCL10. BCL10 (B-cell lymphoma 10), together with Malt1 (mucosa-associated lymphoid tissue-lymphoma-translocation gene 1), are integral components of the CBM signalosome. They associate with CARD9 to form M-CBM (CBM complex in myeloid immune cells), and with CARD11 to form L-CBM (CBM complex in lymphoid immune cells), which mediates activation of NF-kB and MAPK by ITAM-coupled receptors expressed on immune cells. BCL10/Malt1 also associates with CARD10, which is more widely expressed and is not restricted to hematopoietic cells, to play a role in GPCR-induced NF-kB activation. CARD14 has also been shown to associate with BCL10. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inf
Probab=26.22 E-value=1.4e+02 Score=17.20 Aligned_cols=40 Identities=13% Similarity=0.118 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHHhCCCchhHHHHHHHhhcccCCHHHHHHHHH
Q psy1464 58 LDFLYNNWDRIKKHFNGTQFQVTSIVKFCTKRISNELELTQAES 101 (107)
Q Consensus 58 w~fl~~n~~~i~~~~~~~~~~l~~~i~~~~~~~~t~~~~~~~~~ 101 (107)
|+-++.|+..+.+..... ..+..++ ...+-|+++.+++.+
T Consensus 2 ~~~L~~~R~~L~~~l~~~-~l~d~L~---q~~VLt~~d~EeI~~ 41 (86)
T cd08785 2 WEALEGMRHRLTRKINPS-RLTPYLR---QCKVLDEQDEEEVLS 41 (86)
T ss_pred HHHHHHHHHHHHHHhhHH-HHHHHHH---hcCCCCHHHHHHHhC
Confidence 777888888887766432 2333332 233557777777654
No 63
>PF12926 MOZART2: Mitotic-spindle organizing gamma-tubulin ring associated; InterPro: IPR024332 The MOZART2 family of proteins (also known as FAM128 and Mitotic-spindle organizing protein 2) operate as part of the gamma-tubulin ring complex, gamma-TuRC, one of the complexes necessary for chromosome segregation. This complex is located at centrosomes and mediates the formation of bipolar spindles in mitosis; it consists of six subunits. However, unlike the other four known subunits, the MOZART proteins, both 1 and 2, do not carry the conserved 'Spc97-Spc98' GCP domain, so the TUBGCP nomenclature cannot be used for it. The exact function of MOZART2 is not clear [].
Probab=26.21 E-value=1.4e+02 Score=17.39 Aligned_cols=44 Identities=5% Similarity=-0.162 Sum_probs=30.3
Q ss_pred cHHHHHHHH--HhhccC-cHHHHHHHHHHhhcCCCCCcCcHHHHHHHhc
Q psy1464 3 YACRSRRFL--IGLICY-FLSLIFRYLEYALTESLIRKQDAPRVFSLVS 48 (107)
Q Consensus 3 ~~~ek~~ll--~AL~cs-d~~ll~~~L~~~l~~~~ir~qd~~~~~~~v~ 48 (107)
.++|++-+- .+=|-. ||++.+.+|++.-- + +-|..+..++.++.
T Consensus 24 s~eE~EL~ELa~~AGv~~dp~VFriildLL~~-n-VsP~AI~qmLK~m~ 70 (88)
T PF12926_consen 24 SAEEVELYELAQLAGVPMDPEVFRIILDLLRL-N-VSPDAIFQMLKSMC 70 (88)
T ss_pred CHHHHHHHHHHHHhCCCcChHHHHHHHHHHHc-C-CCHHHHHHHHHHHH
Confidence 344544433 333556 99999999987643 3 88888888888874
No 64
>PF10384 Scm3: Centromere protein Scm3; InterPro: IPR018465 The centromere protein Scm3 is a non-histone component of centromeric chromatin that binds to CenH3-H4 histones, which are required for kinetochore assembly. Scm3 is required for Cse4 localisation and is required for its centromeric association [, ]. The histone H3 variant Cse4 replaces conventional histone H3 in centromeric chromatin and helps direct the assembly of the kinetochore. In addition, Scm3 has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for G2/M progression []. Scm3 is required to maintain kinetochore function throughout the cell cycle. Scm3 contains a nuclear export signal (NES). The N-terminal region of Scm3 is well conserved and functions as the CenH3-interacting domain, while the C-terminal region is variable in size and sometimes consists of DNA binding motifs [].; GO: 0005634 nucleus; PDB: 3R45_C 2YFV_C 2L5A_A.
Probab=26.02 E-value=80 Score=16.86 Aligned_cols=18 Identities=11% Similarity=0.386 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHhCC
Q psy1464 57 ALDFLYNNWDRIKKHFNG 74 (107)
Q Consensus 57 ~w~fl~~n~~~i~~~~~~ 74 (107)
.-.-|+..|+.|.++|+.
T Consensus 10 s~~r~k~~~e~I~~KY~~ 27 (58)
T PF10384_consen 10 SDQRFKSRWESIIEKYGQ 27 (58)
T ss_dssp HHHHHHHHHHHHHHHHCS
T ss_pred HHHHHHHHHHHHHHHhcC
Confidence 344578999999999976
No 65
>PRK01381 Trp operon repressor; Provisional
Probab=25.70 E-value=1.3e+02 Score=17.99 Aligned_cols=37 Identities=11% Similarity=0.100 Sum_probs=20.2
Q ss_pred HHHHHHHHHhCCCchhHHHHHHHhhcccCCHHHHHHHHH
Q psy1464 63 NNWDRIKKHFNGTQFQVTSIVKFCTKRISNELELTQAES 101 (107)
Q Consensus 63 ~n~~~i~~~~~~~~~~l~~~i~~~~~~~~t~~~~~~~~~ 101 (107)
++|+.+...+... +.-.. +..+..-++|+.+.+.+..
T Consensus 7 ~~W~~~v~ll~~a-~~~~~-~~~~l~~llTp~Er~al~~ 43 (99)
T PRK01381 7 QEWQRFVDLLKQA-FEEDL-HLPLLTLLLTPDEREALGT 43 (99)
T ss_pred hhHHHHHHHHHHh-ccHHH-HHHHHHHhCCHHHHHHHHH
Confidence 5677766655431 12222 3334455678888777654
No 66
>PF15612 WHIM1: WSTF, HB1, Itc1p, MBD9 motif 1; PDB: 2Y9Z_B 2Y9Y_B.
Probab=25.18 E-value=59 Score=16.22 Aligned_cols=26 Identities=15% Similarity=-0.045 Sum_probs=14.6
Q ss_pred ccHHHHHHHHHhhccC--cHHHHHHHHH
Q psy1464 2 FYACRSRRFLIGLICY--FLSLIFRYLE 27 (107)
Q Consensus 2 ~~~~ek~~ll~AL~cs--d~~ll~~~L~ 27 (107)
+.+.+|..+|.+|+-- +...++..++
T Consensus 17 L~~~~kl~iL~~L~~~~l~s~~vr~~i~ 44 (50)
T PF15612_consen 17 LSPEEKLEILRALCDQLLSSSSVRNEIE 44 (50)
T ss_dssp S-HHHHHHHHHHHHHHHCC-CCHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence 4677888888887532 4444444443
No 67
>PF01347 Vitellogenin_N: Lipoprotein amino terminal region; InterPro: IPR001747 This entry represents a conserved region found in several lipid transport proteins, including vitellogenin, microsomal triglyceride transfer protein and apolipoprotein B-100 []. Vitellinogen precursors provide the major egg yolk proteins that are a source of nutrients during early development of oviparous vertebrates and invertebrates. Vitellinogen precursors are multi-domain apolipoproteins that are cleaved into distinct yolk proteins. Different vitellinogen precursors exist, which are composed of variable combinations of yolk protein components; however, the cleavage sites are conserved. In vertebrates, a complete vitellinogen is composed of an N-terminal signal peptide for export, followed by four regions that can be cleaved into yolk proteins: lipovitellin-1, phosvitin, lipovitellin-2, and a von Willebrand factor type D domain (YGP40) [, ]. Microsomal triglyceride transfer protein (MTTP) is an endoplasmic reticulum lipid transfer protein involved in the biosynthesis and lipid loading of apolipoprotein B. MTTP is also involved in the late stage of CD1d trafficking in the lysosomal compartment, CD1d being the MHC I-like lipid antigen presenting molecule []. Apolipoprotein B can exist in two forms: B-100 and B-48. Apoliporotein B-100 is present on several lipoproteins, including very low-density lipoproteins (VLDL), intermediate density lipoproteins (IDL) and low density lipoproteins (LDL), and can assemble VLDL particles in the liver []. Apolipoprotein B-100 has been linked to the development of atherosclerosis.; GO: 0005319 lipid transporter activity, 0006869 lipid transport; PDB: 1LSH_A.
Probab=25.06 E-value=63 Score=24.98 Aligned_cols=62 Identities=11% Similarity=-0.006 Sum_probs=36.9
Q ss_pred HHHHHHHHHhhccC-cHHHHHHHHHHhhcCCCCCcCcHHHHHHHhc----CCh-hhHHHHHHHHHHHH
Q psy1464 4 ACRSRRFLIGLICY-FLSLIFRYLEYALTESLIRKQDAPRVFSLVS----QSA-VGHTVALDFLYNNW 65 (107)
Q Consensus 4 ~~ek~~ll~AL~cs-d~~ll~~~L~~~l~~~~ir~qd~~~~~~~v~----~n~-~g~~~~w~fl~~n~ 65 (107)
..++..+|.|||.. .|..+..++.++.+.......-....+.++. ..| ..++++|.-+.+.-
T Consensus 504 ~~~~~~~LkaLgN~g~~~~i~~l~~~i~~~~~~~~~~R~~Ai~Alr~~~~~~~~~v~~~l~~I~~n~~ 571 (618)
T PF01347_consen 504 EEEKIVYLKALGNLGHPESIPVLLPYIEGKEEVPHFIRVAAIQALRRLAKHCPEKVREILLPIFMNTT 571 (618)
T ss_dssp HHHHHHHHHHHHHHT-GGGHHHHHTTSTTSS-S-HHHHHHHHHTTTTGGGT-HHHHHHHHHHHHH-TT
T ss_pred HHHHHHHHHHhhccCCchhhHHHHhHhhhccccchHHHHHHHHHHHHHhhcCcHHHHHHHHHHhcCCC
Confidence 36788899999999 9998988887776553222222233333332 233 66777777766543
No 68
>PF05106 Phage_holin_3: Phage holin family (Lysis protein S); InterPro: IPR006481 This entry is represented by the Bacteriophage lambda, GpS. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This protein family represent one of a large number of mutually dissimilar families of phage holins. Holins act against the host cell membrane to allow lytic enzymes of the phage to reach the bacterial cell wall. This family includes the product of the S gene of phage lambda.
Probab=24.95 E-value=1.3e+02 Score=17.82 Aligned_cols=22 Identities=18% Similarity=0.292 Sum_probs=17.2
Q ss_pred CChhhHHHHHHHHHHHHHHHHH
Q psy1464 49 QSAVGHTVALDFLYNNWDRIKK 70 (107)
Q Consensus 49 ~n~~g~~~~w~fl~~n~~~i~~ 70 (107)
.+|..-...++|+++||+.+..
T Consensus 3 k~P~~W~~ll~wl~~~~~~~~~ 24 (100)
T PF05106_consen 3 KNPDFWAQLLAWLQSHWPQIYG 24 (100)
T ss_pred CCccHHHHHHHHHHHHHHHHHH
Confidence 4677777888999999987653
No 69
>PLN03060 inositol phosphatase-like protein; Provisional
Probab=24.66 E-value=2.3e+02 Score=19.25 Aligned_cols=42 Identities=10% Similarity=-0.100 Sum_probs=26.0
Q ss_pred HHHHHHHHHhhccC---cHHHHHHHHHHhhcCCCCCcCcHHHHHHHh
Q psy1464 4 ACRSRRFLIGLICY---FLSLIFRYLEYALTESLIRKQDAPRVFSLV 47 (107)
Q Consensus 4 ~~ek~~ll~AL~cs---d~~ll~~~L~~~l~~~~ir~qd~~~~~~~v 47 (107)
+++|..|..||+.+ ||+.++.--..+.. ..+.+....+..-+
T Consensus 68 ee~~~~IF~Alc~a~~~dp~~~r~dA~~l~~--~a~~~s~~~l~~~l 112 (206)
T PLN03060 68 ATDRDAIFKAYIEALGEDPDQYRKDAKKLEE--WASSQSASGIADFN 112 (206)
T ss_pred hHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH--HHhcCCHHHHHHHH
Confidence 57899999999754 99988865444432 13334444444444
No 70
>PF12125 Beta-TrCP_D: D domain of beta-TrCP; InterPro: IPR021977 This domain is found in eukaryotes, and is approximately 40 amino acids in length. It is found associated with PF00646 from PFAM, PF00400 from PFAM. The protein that contains this domain functions as a ubiquitin ligase. Ubiquitination is required to direct proteins towards the proteasome for degradation. This protein is part of the WD40 class of F box proteins. The D domain of these F box proteins is involved in mediating the dimerisation of the protein. Dimerisation is necessary to polyubiquitinate substrates so this D domain is vital in directing substrates towards the proteasome for degradation. ; PDB: 2P64_A 1P22_A.
Probab=24.49 E-value=1e+02 Score=15.17 Aligned_cols=25 Identities=12% Similarity=0.114 Sum_probs=16.6
Q ss_pred HHHHHhhcccCCHHHHHHHHHHHHhc
Q psy1464 81 SIVKFCTKRISNELELTQAESQAISL 106 (107)
Q Consensus 81 ~~i~~~~~~~~t~~~~~~~~~f~~~~ 106 (107)
.++..+.+++| ..+..++.+|+++|
T Consensus 14 dFVe~Ll~rM~-H~Qhg~In~fL~Pm 38 (40)
T PF12125_consen 14 DFVEQLLSRMC-HYQHGQINAFLKPM 38 (40)
T ss_dssp HHHHHHHHTS--HHHHHHHHHHHGGG
T ss_pred HHHHHHHHHHH-HHHHHhHHHHHHHh
Confidence 34556666664 57778888888775
No 71
>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=24.20 E-value=78 Score=13.62 Aligned_cols=22 Identities=18% Similarity=-0.141 Sum_probs=15.8
Q ss_pred HHHHHHhhccC-cHHHHHHHHHH
Q psy1464 7 SRRFLIGLICY-FLSLIFRYLEY 28 (107)
Q Consensus 7 k~~ll~AL~cs-d~~ll~~~L~~ 28 (107)
|.....|||.. |+.-+..+++.
T Consensus 2 R~~Aa~aLg~igd~~ai~~L~~~ 24 (27)
T PF03130_consen 2 RRAAARALGQIGDPRAIPALIEA 24 (27)
T ss_dssp HHHHHHHHGGG-SHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCHHHHHHHHHH
Confidence 55677888888 88777766553
No 72
>PF02201 SWIB: SWIB/MDM2 domain; InterPro: IPR003121 The SWI/SNF family of complexes, which are conserved from yeast to humans, are ATP-dependent chromatin-remodelling proteins that facilitate transcription activation []. The mammalian complexes are made up of 9-12 proteins called BAFs (BRG1-associated factors). The BAF60 family have at least three members: BAF60a, which is ubiquitous, BAF60b and BAF60c, which are expressed in muscle and pancreatic tissues, respectively. BAF60b is present in alternative forms of the SWI/SNF complex, including complex B (SWIB), which lacks BAF60a. The SWIB domain is a conserved region found within the BAF60b proteins [], and can be found fused to the C terminus of DNA topoisomerase in Chlamydia. MDM2 is an oncoprotein that acts as a cellular inhibitor of the p53 tumour suppressor by binding to the transactivation domain of p53 and suppressing its ability to activate transcription []. p53 acts in response to DNA damage, inducing cell cycle arrest and apoptosis. Inactivation of p53 is a common occurrence in neoplastic transformations. The core of MDM2 folds into an open bundle of four helices, which is capped by two small 3-stranded beta-sheets. It consists of a duplication of two structural repeats. MDM2 has a deep hydrophobic cleft on which the p53 alpha-helix binds; p53 residues involved in transactivation are buried deep within the cleft of MDM2, thereby concealing the p53 transactivation domain. The SWIB and MDM2 domains are homologous and share a common fold.; GO: 0005515 protein binding; PDB: 1V31_A 3FE7_A 3JZQ_B 3EQY_B 2VYR_A 3JZO_A 3DAB_E 3LBJ_E 3FEA_A 3FDO_A ....
Probab=24.05 E-value=73 Score=17.64 Aligned_cols=15 Identities=7% Similarity=0.031 Sum_probs=10.9
Q ss_pred ChhhHHHHHHHHHHH
Q psy1464 50 SAVGHTVALDFLYNN 64 (107)
Q Consensus 50 n~~g~~~~w~fl~~n 64 (107)
.+.-....|+|+++|
T Consensus 22 r~~v~~~lw~YIk~~ 36 (76)
T PF02201_consen 22 RSEVVKRLWQYIKEN 36 (76)
T ss_dssp HHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHh
Confidence 355667889998876
No 73
>PF06128 Shigella_OspC: Shigella flexneri OspC protein; InterPro: IPR010366 This family consists of the Shigella flexneri specific protein OspC. The function of this family is unknown but it is thought that Osp proteins may be involved in postinvasion events related to virulence. Since bacterial pathogens adapt to multiple environments during the course of infecting a host, it has been proposed that Shigella evolved a mechanism to take advantage of a unique intracellular cue, which is mediated through MxiE, to express proteins when the organism reaches the eukaryotic cytosol [].
Probab=23.71 E-value=1.7e+02 Score=20.60 Aligned_cols=22 Identities=9% Similarity=0.025 Sum_probs=19.5
Q ss_pred HhhccC-cHHHHHHHHHHhhcCC
Q psy1464 12 IGLICY-FLSLIFRYLEYALTES 33 (107)
Q Consensus 12 ~AL~cs-d~~ll~~~L~~~l~~~ 33 (107)
.||.|- ++.-|.|++++++.++
T Consensus 113 Faln~~l~~~~LDRiiNfvFQ~E 135 (284)
T PF06128_consen 113 FALNKNLSSVDLDRIINFVFQPE 135 (284)
T ss_pred HHHhcCCchHHHHHHHHHhhchh
Confidence 578889 9999999999999876
No 74
>KOG1086|consensus
Probab=23.67 E-value=98 Score=23.81 Aligned_cols=29 Identities=10% Similarity=0.007 Sum_probs=23.4
Q ss_pred CccHHHHHHHHHhhccC-cHHHHHHHHHHh
Q psy1464 1 MFYACRSRRFLIGLICY-FLSLIFRYLEYA 29 (107)
Q Consensus 1 ~~~~~ek~~ll~AL~cs-d~~ll~~~L~~~ 29 (107)
.|+.+||..+|.+|=.+ .|+-++..=.++
T Consensus 168 vFddEEksklL~rLLkSn~PeDLqaANkLI 197 (594)
T KOG1086|consen 168 VFDDEEKSKLLARLLKSNHPEDLQAANKLI 197 (594)
T ss_pred ccCcHHHHHHHHHHHhcCChHHHHHHHHHH
Confidence 47899999999999999 998887544443
No 75
>KOG0635|consensus
Probab=23.65 E-value=12 Score=24.59 Aligned_cols=24 Identities=33% Similarity=0.477 Sum_probs=15.7
Q ss_pred hhccC-cHHHHHH-HHHHhhcCCCCC
Q psy1464 13 GLICY-FLSLIFR-YLEYALTESLIR 36 (107)
Q Consensus 13 AL~cs-d~~ll~~-~L~~~l~~~~ir 36 (107)
.|+|+ ...+++| .+.+.|+++.||
T Consensus 46 tlACaL~q~L~qrgkl~Y~LDGDNvR 71 (207)
T KOG0635|consen 46 TLACALSQALLQRGKLTYILDGDNVR 71 (207)
T ss_pred hHHHHHHHHHHhcCceEEEecCcccc
Confidence 56777 7777776 566677766443
No 76
>cd08787 CARD_NOD2_1_CARD15 Caspase activation and recruitment domain of NOD2, repeat 1. Caspase activation and recruitment domain (CARD) similar to that found in human NOD2 (CARD15), repeat 1. NOD2 is a member of the Nod-like receptor (NLR) family, which plays a central role in the innate immune response. NLRs typically contain an N-terminal effector domain, a central nucleotide-binding domain and a C-terminal ligand-binding region of several leucine-rich repeats (LRRs). In NOD2, as well as NOD1, the N-terminal effector domain is a CARD. NOD2 contains two N-terminal CARD repeats. Mutations in NOD2 have been associated with Crohns disease and Blau syndrome. Nod2-CARDs have been shown to interact with the CARD domain of the downstream effector RICK (RIP2, CARDIAK), a serine/threonine kinase. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are pr
Probab=23.43 E-value=50 Score=19.07 Aligned_cols=30 Identities=17% Similarity=0.132 Sum_probs=22.4
Q ss_pred HHHHHHHHHhhccC-cHHHHHHHHHHhhcCC
Q psy1464 4 ACRSRRFLIGLICY-FLSLIFRYLEYALTES 33 (107)
Q Consensus 4 ~~ek~~ll~AL~cs-d~~ll~~~L~~~l~~~ 33 (107)
...|..++.-|..+ ..+-++-+|+..++.+
T Consensus 2 ~~qRs~Ll~vL~~~gs~e~~esvLD~LLs~e 32 (87)
T cd08787 2 LAQRSELLEVLCSGGSLEPFESVLDWLLSQE 32 (87)
T ss_pred chHHHHHHHHHHcCCCcccHHHHHHHHHHHh
Confidence 45778888888777 7777777788877665
No 77
>PF01347 Vitellogenin_N: Lipoprotein amino terminal region; InterPro: IPR001747 This entry represents a conserved region found in several lipid transport proteins, including vitellogenin, microsomal triglyceride transfer protein and apolipoprotein B-100 []. Vitellinogen precursors provide the major egg yolk proteins that are a source of nutrients during early development of oviparous vertebrates and invertebrates. Vitellinogen precursors are multi-domain apolipoproteins that are cleaved into distinct yolk proteins. Different vitellinogen precursors exist, which are composed of variable combinations of yolk protein components; however, the cleavage sites are conserved. In vertebrates, a complete vitellinogen is composed of an N-terminal signal peptide for export, followed by four regions that can be cleaved into yolk proteins: lipovitellin-1, phosvitin, lipovitellin-2, and a von Willebrand factor type D domain (YGP40) [, ]. Microsomal triglyceride transfer protein (MTTP) is an endoplasmic reticulum lipid transfer protein involved in the biosynthesis and lipid loading of apolipoprotein B. MTTP is also involved in the late stage of CD1d trafficking in the lysosomal compartment, CD1d being the MHC I-like lipid antigen presenting molecule []. Apolipoprotein B can exist in two forms: B-100 and B-48. Apoliporotein B-100 is present on several lipoproteins, including very low-density lipoproteins (VLDL), intermediate density lipoproteins (IDL) and low density lipoproteins (LDL), and can assemble VLDL particles in the liver []. Apolipoprotein B-100 has been linked to the development of atherosclerosis.; GO: 0005319 lipid transporter activity, 0006869 lipid transport; PDB: 1LSH_A.
Probab=22.97 E-value=2.1e+02 Score=22.19 Aligned_cols=43 Identities=9% Similarity=0.064 Sum_probs=32.0
Q ss_pred HHHHHHHHhhccC-cHHHHHHHHHHhhcCCCCCcCcHHHHHHHhc
Q psy1464 5 CRSRRFLIGLICY-FLSLIFRYLEYALTESLIRKQDAPRVFSLVS 48 (107)
Q Consensus 5 ~ek~~ll~AL~cs-d~~ll~~~L~~~l~~~~ir~qd~~~~~~~v~ 48 (107)
..|..++.||+.+ .+.-+.-+++++.+++ +...+...++.++.
T Consensus 379 ~~r~~~lDal~~aGT~~av~~i~~~I~~~~-~~~~ea~~~l~~l~ 422 (618)
T PF01347_consen 379 QARKIFLDALPQAGTNPAVKFIKDLIKSKK-LTDDEAAQLLASLP 422 (618)
T ss_dssp HHHHHHHHHHHHH-SHHHHHHHHHHHHTT--S-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHcCC-CCHHHHHHHHHHHH
Confidence 4678889999988 7777888888888765 77777777777653
No 78
>PF11251 DUF3050: Protein of unknown function (DUF3050); InterPro: IPR024423 This family of proteins has no known function.
Probab=22.86 E-value=2.7e+02 Score=19.34 Aligned_cols=88 Identities=15% Similarity=-0.027 Sum_probs=52.1
Q ss_pred HHHHHHhhc-cC-cHHHHHHHHHHhhcCCCCCcCcHHHHHHHhcCChhhHHHHHHHHHHHHHHHHHH----------hCC
Q psy1464 7 SRRFLIGLI-CY-FLSLIFRYLEYALTESLIRKQDAPRVFSLVSQSAVGHTVALDFLYNNWDRIKKH----------FNG 74 (107)
Q Consensus 7 k~~ll~AL~-cs-d~~ll~~~L~~~l~~~~ir~qd~~~~~~~v~~n~~g~~~~w~fl~~n~~~i~~~----------~~~ 74 (107)
=+.++.||- |- |+..+++++..+-.+. ++...+... .....+-+|++..|+.|... ||-
T Consensus 82 FElYl~AM~e~GAdt~~I~~fl~~~~~g~-----~v~~Al~~~----~~p~~~~~Fv~~Tf~~i~~~~~H~iAAaFtfGR 152 (232)
T PF11251_consen 82 FELYLDAMEEVGADTSPIDRFLSLLREGT-----SVFEALQQA----DVPEPAKRFVRFTFEIIAEGKPHEIAAAFTFGR 152 (232)
T ss_pred HHHHHHHHHHcCCChHHHHHHHHHHHcCC-----CHHHHHHhc----CCCHHHHHHHHHHHHHHhcCCHHHHHHHHHhcc
Confidence 356889996 45 9999999999876553 233333332 22234567888888877542 221
Q ss_pred C---chhHHHHHHHhhcccCCHHHHHHHHHHHHhc
Q psy1464 75 T---QFQVTSIVKFCTKRISNELELTQAESQAISL 106 (107)
Q Consensus 75 ~---~~~l~~~i~~~~~~~~t~~~~~~~~~f~~~~ 106 (107)
. +.++.+++..+ -..+.++..+.-+++.+
T Consensus 153 EdlIP~MF~~il~~~---~~~~~~~~~f~yYL~RH 184 (232)
T PF11251_consen 153 EDLIPDMFRSILKDL---NIPPGQLPTFRYYLERH 184 (232)
T ss_pred ccchHHHHHHHHHHh---cCCccccHHHHHHHHhh
Confidence 1 12344444443 12467777777777654
No 79
>KOG3380|consensus
Probab=22.79 E-value=94 Score=20.04 Aligned_cols=46 Identities=15% Similarity=0.183 Sum_probs=32.2
Q ss_pred cHHHHHHHHHHhhcCC-CCCcCcHHHHHHHhcCChhhHHHHHHHHHHHH
Q psy1464 18 FLSLIFRYLEYALTES-LIRKQDAPRVFSLVSQSAVGHTVALDFLYNNW 65 (107)
Q Consensus 18 d~~ll~~~L~~~l~~~-~ir~qd~~~~~~~v~~n~~g~~~~w~fl~~n~ 65 (107)
+++.=.+++..++.-= .||..|+...+..++.+ +.++..+|+..=+
T Consensus 68 ~q~vK~~a~~~v~~vL~~ik~adI~~~v~~Ls~e--~~DiLmKYiYkGm 114 (152)
T KOG3380|consen 68 DQEVKDRALNVVLKVLTSIKQADIEAAVKKLSTE--EIDILMKYIYKGM 114 (152)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhhHH--HHHHHHHHHHHHh
Confidence 6666667776655321 28888888888888754 8888888876433
No 80
>smart00638 LPD_N Lipoprotein N-terminal Domain.
Probab=22.79 E-value=2.3e+02 Score=21.79 Aligned_cols=57 Identities=9% Similarity=0.049 Sum_probs=40.3
Q ss_pred HHHHHHHHhhccC-cHHHHHHHHHHhhcCCCCCcCcHHHHHHHhc-----CChhhHHHHHHHHH
Q psy1464 5 CRSRRFLIGLICY-FLSLIFRYLEYALTESLIRKQDAPRVFSLVS-----QSAVGHTVALDFLY 62 (107)
Q Consensus 5 ~ek~~ll~AL~cs-d~~ll~~~L~~~l~~~~ir~qd~~~~~~~v~-----~n~~g~~~~w~fl~ 62 (107)
..|..++.||+.+ .+.-++-+.+++.+++ +...+...++..+. -++...+.++++++
T Consensus 341 ~~r~~~~Dal~~~GT~~a~~~i~~~i~~~~-~~~~ea~~~~~~~~~~~~~Pt~~~l~~l~~l~~ 403 (574)
T smart00638 341 KARRIFLDAVAQAGTPPALKFIKQWIKNKK-ITPLEAAQLLAVLPHTARYPTEEILKALFELAE 403 (574)
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhhhcCCHHHHHHHHHHhc
Confidence 4577899999999 9999998898888766 77766666555532 24455556666554
No 81
>PHA02609 uvsW.1 hypothetical protein; Provisional
Probab=22.77 E-value=1.6e+02 Score=16.57 Aligned_cols=26 Identities=12% Similarity=-0.005 Sum_probs=19.1
Q ss_pred hHHHHHHHhhcccCCHHHHHHHHHHHH
Q psy1464 78 QVTSIVKFCTKRISNELELTQAESQAI 104 (107)
Q Consensus 78 ~l~~~i~~~~~~~~t~~~~~~~~~f~~ 104 (107)
.+..++..+++ ..|.+.++++++|.+
T Consensus 12 ~Id~Fm~Kias-C~T~eGl~ELEkyY~ 37 (76)
T PHA02609 12 AIDSFMSKIAS-CQTLEGLEELEKYYK 37 (76)
T ss_pred HHHHHHHHHhc-cchhhhHHHHHHHHH
Confidence 35566666544 668999999999875
No 82
>PF10776 DUF2600: Protein of unknown function (DUF2600); InterPro: IPR019712 This is a bacterial family of proteins. Some members in the family are annotated as YtpB, however no function is currently known.
Probab=22.63 E-value=2.8e+02 Score=20.35 Aligned_cols=47 Identities=19% Similarity=0.248 Sum_probs=33.1
Q ss_pred cHHHHHHHHHHhhcCCCCCcCcHHHHHHHhcCChhhHHHHHHHHHHHH
Q psy1464 18 FLSLIFRYLEYALTESLIRKQDAPRVFSLVSQSAVGHTVALDFLYNNW 65 (107)
Q Consensus 18 d~~ll~~~L~~~l~~~~ir~qd~~~~~~~v~~n~~g~~~~w~fl~~n~ 65 (107)
..=-+--++.++.+++ +.+.++..+..+.----.|..+.+||+.+-=
T Consensus 190 STLgIF~L~a~A~~p~-~t~~~a~~i~~aYFPwI~gLHILLDy~IDq~ 236 (330)
T PF10776_consen 190 STLGIFALFAYAADPD-LTPEDAEKIKDAYFPWICGLHILLDYFIDQE 236 (330)
T ss_pred cHHHHHHHHHHHcCCC-CCHHHHHHHHHcccHHHHHHHHHHHHHhhhH
Confidence 4444444677777776 8888888888775433468899999987643
No 83
>TIGR02531 yecD_yerC TrpR-related protein YerC/YecD. This model represents a protein subfamily found mostly in the Firmicutes (Bacillus and allies). This family is similar in sequence to the trp operon repressor TrpR described by TIGR01321, and represents a distinct clade within the broader family described by pfam01371. At least one species, Xylella fastidiosa, in the Proteobacteria, has a member of both this family and TIGR01321. Several genomes with a member of this family do not synthesize tryptophan, and members of this family should not be considered trp operon repressors without new evidence.
Probab=22.39 E-value=1.7e+02 Score=16.88 Aligned_cols=28 Identities=7% Similarity=0.092 Sum_probs=23.6
Q ss_pred HHHHHHhhccC-cHHHHHHHHHHhhcCCC
Q psy1464 7 SRRFLIGLICY-FLSLIFRYLEYALTESL 34 (107)
Q Consensus 7 k~~ll~AL~cs-d~~ll~~~L~~~l~~~~ 34 (107)
...++.++-.. ||+-+..+|+.++++..
T Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~l~t~~e 33 (88)
T TIGR02531 5 LDELFDAILTLKNREECYRFFDDIATINE 33 (88)
T ss_pred HHHHHHHHHhCCCHHHHHHHHHHhCCHHH
Confidence 35678899889 99999999999998753
No 84
>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=22.36 E-value=1e+02 Score=19.22 Aligned_cols=23 Identities=17% Similarity=0.148 Sum_probs=16.3
Q ss_pred HHHHHhhccC--cHHHHHHHHHHhh
Q psy1464 8 RRFLIGLICY--FLSLIFRYLEYAL 30 (107)
Q Consensus 8 ~~ll~AL~cs--d~~ll~~~L~~~l 30 (107)
..||.++|.+ +|.++..+|+++.
T Consensus 19 ~~iL~~~Gv~~yeprVv~qLLEfay 43 (129)
T PF02291_consen 19 HLILKSMGVTEYEPRVVNQLLEFAY 43 (129)
T ss_dssp HHHHHHTT---B-THHHHHHHHHHH
T ss_pred HHHHHHcCCcccCHHHHHHHHHHHH
Confidence 4588999987 9998888888765
No 85
>COG4910 PduE Propanediol dehydratase, small subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=22.13 E-value=2.2e+02 Score=18.10 Aligned_cols=45 Identities=18% Similarity=0.136 Sum_probs=23.7
Q ss_pred HHHHHHhhcCCCCCcCcHHHHHHHh-cCChhhHHHHHHHHHHHHHHH
Q psy1464 23 FRYLEYALTESLIRKQDAPRVFSLV-SQSAVGHTVALDFLYNNWDRI 68 (107)
Q Consensus 23 ~~~L~~~l~~~~ir~qd~~~~~~~v-~~n~~g~~~~w~fl~~n~~~i 68 (107)
.-.|+.++.++ |..+|...--..+ ..-.+.++.--.-+-.||++-
T Consensus 60 diTL~sVL~g~-vt~eD~RiTpetL~~QA~vArDaGR~tLA~NFERa 105 (170)
T COG4910 60 DITLDSVLAGD-VTMEDLRITPETLQAQADVARDAGRPTLALNFERA 105 (170)
T ss_pred HhhHHHHhcCC-CcHHHhhcCHHHHHHHHHHHHhcCchHHHhhHHhh
Confidence 34577788776 8888875544433 122233333333444555543
No 86
>PF14228 MOR2-PAG1_mid: Cell morphogenesis central region
Probab=22.03 E-value=1.5e+02 Score=25.46 Aligned_cols=44 Identities=11% Similarity=0.136 Sum_probs=29.6
Q ss_pred HHHHHHHHhhcCCCCCcCcHHHHHHHhcCChhhHHHHHHHHHHH
Q psy1464 21 LIFRYLEYALTESLIRKQDAPRVFSLVSQSAVGHTVALDFLYNN 64 (107)
Q Consensus 21 ll~~~L~~~l~~~~ir~qd~~~~~~~v~~n~~g~~~~w~fl~~n 64 (107)
+|+.++..+..-+..-+.++..++.+++.+|....++.+|+.+.
T Consensus 665 vL~nL~~iT~k~~d~~~~Eve~lW~~L~~~~~N~~~il~FLi~~ 708 (1120)
T PF14228_consen 665 VLNNLFYITIKFGDDHPNEVEALWIALASNPQNIRVILDFLIEL 708 (1120)
T ss_pred HHHHHHHHHHHhccccHHHHHHHHHHHhcCcccHHHHHHHHHHH
Confidence 44444444432212344688888999888888899999998854
No 87
>cd03365 TOPRIM_TopoIIA TOPRIM_TopoIIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. These proteins also catenate/ decatenate duplex rings. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in strand joining and as a general acid in strand cleavage by topisomerases. The DXD motif may co-ordinate Mg2+, a cofact
Probab=22.00 E-value=59 Score=20.10 Aligned_cols=62 Identities=8% Similarity=-0.037 Sum_probs=36.0
Q ss_pred ccHHHHHHHHHhhccC-cH-HHHHHHHHHhhcCCCCCcCcHHHHHHHhcCChhhHHHHHHHHHHHHHHHHHH
Q psy1464 2 FYACRSRRFLIGLICY-FL-SLIFRYLEYALTESLIRKQDAPRVFSLVSQSAVGHTVALDFLYNNWDRIKKH 71 (107)
Q Consensus 2 ~~~~ek~~ll~AL~cs-d~-~ll~~~L~~~l~~~~ir~qd~~~~~~~v~~n~~g~~~~w~fl~~n~~~i~~~ 71 (107)
+..+|-..++.||||- .+ +. .+.+..|...+..+-.+=.....-+..+..|+...|..+.+.
T Consensus 48 ~~n~Ei~~li~alG~g~~~~~~--------~~~~~lrY~kiiimtDaD~DG~hI~~Llltff~r~~p~Li~~ 111 (120)
T cd03365 48 MENAEIQNIKKILGLQHGKSDY--------ESTKSLRYGRLMIMTDQDHDGSHIKGLLINFIHSFWPSLLKI 111 (120)
T ss_pred hcCHHHHHHHHHhCCCCCcccc--------cccccCCcCeEEEEeCCCCCccHHHHHHHHHHHHHhHHHhcC
Confidence 3446777899999999 74 11 122224433333333322233345567788999999888763
No 88
>PRK09687 putative lyase; Provisional
Probab=21.82 E-value=1.9e+02 Score=20.29 Aligned_cols=30 Identities=7% Similarity=-0.151 Sum_probs=20.8
Q ss_pred HHHHHHHHHhhccC-cHHHHHHHHHHhhcCC
Q psy1464 4 ACRSRRFLIGLICY-FLSLIFRYLEYALTES 33 (107)
Q Consensus 4 ~~ek~~ll~AL~cs-d~~ll~~~L~~~l~~~ 33 (107)
+..|.....|||+. ++..+.-++...-+++
T Consensus 142 ~~VR~~a~~aLg~~~~~~ai~~L~~~L~d~~ 172 (280)
T PRK09687 142 TNVRFAVAFALSVINDEAAIPLLINLLKDPN 172 (280)
T ss_pred HHHHHHHHHHHhccCCHHHHHHHHHHhcCCC
Confidence 34567778888888 8887777666554443
No 89
>PF06782 UPF0236: Uncharacterised protein family (UPF0236); InterPro: IPR009620 This is a group of proteins of unknown function.
Probab=21.71 E-value=3e+02 Score=20.98 Aligned_cols=16 Identities=44% Similarity=0.758 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHH
Q psy1464 55 TVALDFLYNNWDRIKK 70 (107)
Q Consensus 55 ~~~w~fl~~n~~~i~~ 70 (107)
.-...|+..||+.|..
T Consensus 340 ~~~~~Yl~~n~~~i~~ 355 (470)
T PF06782_consen 340 RKLRKYLLNNWDGIKP 355 (470)
T ss_pred HHHHHHHHHCHHHhhh
Confidence 3568899999999853
No 90
>COG2938 Uncharacterized conserved protein [Function unknown]
Probab=21.48 E-value=1.6e+02 Score=17.42 Aligned_cols=25 Identities=16% Similarity=-0.023 Sum_probs=17.1
Q ss_pred ccHHHHHHHHHhhccCcHHHHHHHH
Q psy1464 2 FYACRSRRFLIGLICYFLSLIFRYL 26 (107)
Q Consensus 2 ~~~~ek~~ll~AL~csd~~ll~~~L 26 (107)
+..+|+..+..-|.|.|++++..+.
T Consensus 44 lsd~el~~f~~LLe~~D~dL~~Wi~ 68 (94)
T COG2938 44 LSDEELDEFERLLECEDNDLFNWIM 68 (94)
T ss_pred CCHHHHHHHHHHHcCCcHHHHHHHh
Confidence 4567777777778888777665433
No 91
>KOG0859|consensus
Probab=21.45 E-value=1.6e+02 Score=20.13 Aligned_cols=29 Identities=24% Similarity=0.496 Sum_probs=24.8
Q ss_pred hcCChhhHHHHHHHHHHHHHHHHHHhCCC
Q psy1464 47 VSQSAVGHTVALDFLYNNWDRIKKHFNGT 75 (107)
Q Consensus 47 v~~n~~g~~~~w~fl~~n~~~i~~~~~~~ 75 (107)
++....||.+.+.|+.+=-+++.++||++
T Consensus 66 vadds~gR~ipfaFLe~Ik~~F~k~YG~~ 94 (217)
T KOG0859|consen 66 VADDSAGRQIPFAFLERIKEDFKKRYGGG 94 (217)
T ss_pred EEeccccccccHHHHHHHHHHHHHHhccc
Confidence 35678999999999988888999999874
No 92
>COG3682 Predicted transcriptional regulator [Transcription]
Probab=21.18 E-value=2.2e+02 Score=17.70 Aligned_cols=37 Identities=14% Similarity=0.165 Sum_probs=24.7
Q ss_pred HHHHHhCCCchhHHHHHHHhhccc-CCHHHHHHHHHHHHhc
Q psy1464 67 RIKKHFNGTQFQVTSIVKFCTKRI-SNELELTQAESQAISL 106 (107)
Q Consensus 67 ~i~~~~~~~~~~l~~~i~~~~~~~-~t~~~~~~~~~f~~~~ 106 (107)
.+.+.+.+ .+..+|..++.+- -++++++++++.++..
T Consensus 82 ~l~k~~d~---~~~~lv~~F~~~~~l~~~eie~L~~il~~~ 119 (123)
T COG3682 82 LLDKICDG---GLASLVAHFAEKEKLTADEIEALKAILDEI 119 (123)
T ss_pred HHHHHHcc---cchHHHHHHHHhccCCHHHHHHHHHHHHHH
Confidence 34455554 3567777777761 2789999999887643
No 93
>cd05027 S-100B S-100B: S-100B domain found in proteins similar to S100B. S100B is a calcium-binding protein belonging to a large S100 vertebrate-specific protein family within the EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100B group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100B is most abundant in glial cells of the central nervous system, predominately in astrocytes. S100B is involved in signal transduction via the inhibition of protein phoshorylation, regulation of enzyme activity and by affecting the calcium homeostasis. Upon calcium binding the S100B homodimer changes conformation to expose a hydrophobic cleft, which represents the interaction site of S100B with its more than 20 known target proteins. These target proteins include several cellular architecture proteins such as tubulin and GFAP; S100B can inhibit polymerization of these oligomeric molecules. Furthermore, S100B i
Probab=21.17 E-value=1.8e+02 Score=16.55 Aligned_cols=45 Identities=9% Similarity=0.004 Sum_probs=26.0
Q ss_pred ccHHHHHHHHHh-----hccC-cHHHHHHHHHHhhcCC--C-CCcCcHHHHHHHh
Q psy1464 2 FYACRSRRFLIG-----LICY-FLSLIFRYLEYALTES--L-IRKQDAPRVFSLV 47 (107)
Q Consensus 2 ~~~~ek~~ll~A-----L~cs-d~~ll~~~L~~~l~~~--~-ir~qd~~~~~~~v 47 (107)
+...|-..++.+ +|.. ++.-+++++... +++ + |.-++...++..+
T Consensus 27 I~~~eL~~ll~~~~~~~lg~~~~~~~v~~~i~~~-D~n~dG~v~f~eF~~li~~~ 80 (88)
T cd05027 27 LKKSELKELINNELSHFLEEIKEQEVVDKVMETL-DSDGDGECDFQEFMAFVAMV 80 (88)
T ss_pred ECHHHHHHHHHHHhHHHhcCCCCHHHHHHHHHHh-CCCCCCcCcHHHHHHHHHHH
Confidence 345566666776 7776 777677776654 222 1 5555555555444
No 94
>KOG1662|consensus
Probab=21.16 E-value=1.8e+02 Score=19.75 Aligned_cols=47 Identities=17% Similarity=0.336 Sum_probs=28.2
Q ss_pred HHHHhhcCCCCCcCcHHHHHHHhcCChhhHHHHHHHHH--------HHHHHHHHHh
Q psy1464 25 YLEYALTESLIRKQDAPRVFSLVSQSAVGHTVALDFLY--------NNWDRIKKHF 72 (107)
Q Consensus 25 ~L~~~l~~~~ir~qd~~~~~~~v~~n~~g~~~~w~fl~--------~n~~~i~~~~ 72 (107)
+.+++++|. +...+...++..+.....-....-||+. .|.+.|.+.|
T Consensus 71 ~~~f~~nP~-l~~~~k~~~i~di~~~~~~~~~t~NflnlLaeNgRL~~l~~Ivk~F 125 (210)
T KOG1662|consen 71 FAQFVLNPT-LTREKKKTAIDDIVEKLKLAPLTKNFLNLLAENGRLNNLTEIVKAF 125 (210)
T ss_pred HHHHhcCCc-cchHHHHHHHHHHHHHhcccHhHHHHHHHHHHcCchhhHHHHHHHH
Confidence 456777776 8888888888877543333334445543 3455555555
No 95
>KOG1059|consensus
Probab=21.12 E-value=81 Score=25.80 Aligned_cols=58 Identities=16% Similarity=0.139 Sum_probs=37.8
Q ss_pred HHHHHHhhccC-cHHHHHHHHHHhh---cCC-C-CCcCcHHHHHHHhcCChhhHHHHHHHHHHH
Q psy1464 7 SRRFLIGLICY-FLSLIFRYLEYAL---TES-L-IRKQDAPRVFSLVSQSAVGHTVALDFLYNN 64 (107)
Q Consensus 7 k~~ll~AL~cs-d~~ll~~~L~~~l---~~~-~-ir~qd~~~~~~~v~~n~~g~~~~w~fl~~n 64 (107)
-...|.+|+|. .|++.+.+-+-++ +.+ . +|+.-+..++.-...-|.+....+.-++++
T Consensus 126 ~giAL~GLS~fvTpdLARDLa~Dv~tLL~sskpYvRKkAIl~lykvFLkYPeAlr~~FprL~Ek 189 (877)
T KOG1059|consen 126 VGLALSGLSCIVTPDLARDLADDVFTLLNSSKPYVRKKAILLLYKVFLKYPEALRPCFPRLVEK 189 (877)
T ss_pred hhheecccccccCchhhHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHhhhHhHhhhHHHHHHh
Confidence 34568899999 9999887665543 222 2 777777777766677777655444444443
No 96
>KOG1756|consensus
Probab=20.99 E-value=2.3e+02 Score=17.81 Aligned_cols=49 Identities=14% Similarity=0.117 Sum_probs=28.9
Q ss_pred cCChhhHHHHHHHHHHHHHHHHHHhCCC---chhHHHHHHHhhcccCCHHHHHHH
Q psy1464 48 SQSAVGHTVALDFLYNNWDRIKKHFNGT---QFQVTSIVKFCTKRISNELELTQA 99 (107)
Q Consensus 48 ~~n~~g~~~~w~fl~~n~~~i~~~~~~~---~~~l~~~i~~~~~~~~t~~~~~~~ 99 (107)
++.|+-...+++|+..+--++......+ .....+-+. -.+++.+|+.++
T Consensus 48 ~gapV~laavLeYL~Aeile~agnaardnkk~ri~PrH~~---lAI~NDeEL~~l 99 (131)
T KOG1756|consen 48 AGAPVYLAAVLEYLTAEILELAGNAARDNKKTRITPRHLQ---LAIRNDEELNKL 99 (131)
T ss_pred CCChHHHHHHHHHHHHHHHHHhHHHhhhcCccccChHHHH---HHHhCcHHHHHH
Confidence 4667888888999998765554433221 112233332 336778887765
No 97
>PF12854 PPR_1: PPR repeat
Probab=20.94 E-value=40 Score=15.40 Aligned_cols=20 Identities=5% Similarity=-0.120 Sum_probs=14.2
Q ss_pred hcccCCHHHHHHHHHHHHhc
Q psy1464 87 TKRISNELELTQAESQAISL 106 (107)
Q Consensus 87 ~~~~~t~~~~~~~~~f~~~~ 106 (107)
...+|...++++...+|+.|
T Consensus 14 I~~~Ck~G~~~~A~~l~~~M 33 (34)
T PF12854_consen 14 IDGYCKAGRVDEAFELFDEM 33 (34)
T ss_pred HHHHHHCCCHHHHHHHHHhC
Confidence 34466677888888888765
No 98
>PRK15455 PrkA family serine protein kinase; Provisional
Probab=20.91 E-value=2.1e+02 Score=23.03 Aligned_cols=27 Identities=4% Similarity=0.059 Sum_probs=17.7
Q ss_pred hHHHHHHHhhcccCCHHHHHHHHHHHHhc
Q psy1464 78 QVTSIVKFCTKRISNELELTQAESQAISL 106 (107)
Q Consensus 78 ~l~~~i~~~~~~~~t~~~~~~~~~f~~~~ 106 (107)
.+-.+++ .++-.++++.++.+.|.+.|
T Consensus 594 dll~~~s--~~~~~d~e~~~k~~~~v~rl 620 (644)
T PRK15455 594 DLLPVIS--FNAKTSTDEQKKHDDFVDRM 620 (644)
T ss_pred Hhhhhhc--cccCCCHHHHHHHHHHHHHH
Confidence 3444443 23356888889999888765
No 99
>PF07349 DUF1478: Protein of unknown function (DUF1478); InterPro: IPR009949 This family consists of several hypothetical Sapovirus VP3 proteins of around 165 residues in length. The function of this family is unknown.
Probab=20.77 E-value=37 Score=21.81 Aligned_cols=20 Identities=20% Similarity=0.416 Sum_probs=15.7
Q ss_pred HHHHhcCChhhHHHHHHHHH
Q psy1464 43 VFSLVSQSAVGHTVALDFLY 62 (107)
Q Consensus 43 ~~~~v~~n~~g~~~~w~fl~ 62 (107)
++--|.+||.|..-||.|+.
T Consensus 30 ll~lI~nNpmgp~nAW~WLL 49 (162)
T PF07349_consen 30 LLLLIRNNPMGPHNAWSWLL 49 (162)
T ss_pred hhhhhhcCCCCCchHHHHhc
Confidence 34445689999999999975
No 100
>PF04558 tRNA_synt_1c_R1: Glutaminyl-tRNA synthetase, non-specific RNA binding region part 1 ; InterPro: IPR007639 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This is a domain found N-terminal to the catalytic domain of glutaminyl-tRNA synthetase (6.1.1.18 from EC) in eukaryotes but not in Escherichia coli. This domain is thought to bind RNA in a non-specific manner, enhancing interactions between the tRNA and enzyme, but is not essential for enzyme function [].; GO: 0000166 nucleotide binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006418 tRNA aminoacylation for protein translation, 0005737 cytoplasm; PDB: 3TL4_X.
Probab=20.68 E-value=2.5e+02 Score=18.19 Aligned_cols=25 Identities=20% Similarity=0.394 Sum_probs=16.1
Q ss_pred HHHHHHHhc----CChhhHHHHHHHHHHH
Q psy1464 40 APRVFSLVS----QSAVGHTVALDFLYNN 64 (107)
Q Consensus 40 ~~~~~~~v~----~n~~g~~~~w~fl~~n 64 (107)
...+..+|. .++.-.+.|++|+.+|
T Consensus 69 r~~iv~~I~~gklkt~~Ql~AA~~Yl~~~ 97 (164)
T PF04558_consen 69 RPFIVKYIVDGKLKTNLQLDAALKYLKSN 97 (164)
T ss_dssp HHHHHHHHHTTS--SHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhCCCCCHHHHHHHHHHHHHC
Confidence 445555553 3567778888888876
No 101
>PF12931 Sec16_C: Sec23-binding domain of Sec16; PDB: 3MZK_C.
Probab=20.55 E-value=3.1e+02 Score=19.21 Aligned_cols=25 Identities=8% Similarity=-0.057 Sum_probs=13.7
Q ss_pred hccC-cHHHHHHHHHHhhcCCCCCcCc
Q psy1464 14 LICY-FLSLIFRYLEYALTESLIRKQD 39 (107)
Q Consensus 14 L~cs-d~~ll~~~L~~~l~~~~ir~qd 39 (107)
|+.. +|+..+++...-+... +..++
T Consensus 30 LAs~~g~e~~~~v~~~y~~~~-~~~~~ 55 (284)
T PF12931_consen 30 LASSLGPELWKKVVQEYFRRE-FSAGS 55 (284)
T ss_dssp HHHTS-HHHHHHHHHHHHH--------
T ss_pred HHHhcCHHHHHHHHHHHHHHh-ccCCC
Confidence 4777 9999999888777655 44433
No 102
>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group
Probab=20.49 E-value=39 Score=23.20 Aligned_cols=55 Identities=16% Similarity=0.115 Sum_probs=33.5
Q ss_pred HHHHHHHHhhccCcHHHHHHHHHHhhcCCCCCcCcHHHHHH-------------HhcCChhhHHHHHHHHHH
Q psy1464 5 CRSRRFLIGLICYFLSLIFRYLEYALTESLIRKQDAPRVFS-------------LVSQSAVGHTVALDFLYN 63 (107)
Q Consensus 5 ~ek~~ll~AL~csd~~ll~~~L~~~l~~~~ir~qd~~~~~~-------------~v~~n~~g~~~~w~fl~~ 63 (107)
+.|..++.+++-.|.+++++||+- ++ +.+.++...+. +=+.+..|.+..++.+.+
T Consensus 196 ~~~~~l~e~~a~~dd~l~e~yl~~---~~-~~~~~l~~~l~~~~~~~~~~pv~~gSa~~~~G~~~ll~~~~~ 263 (268)
T cd04170 196 EAREELLEAVAETDDELMEKYLEG---GE-LTEEELHAGLRRALRAGLLVPVLCGSALTNIGVRELLDALVH 263 (268)
T ss_pred HHHHHHHHHHhhCCHHHHHHHhCC---CC-CCHHHHHHHHHHHHHhCCEEEEEEeeCCCCcCHHHHHHHHHH
Confidence 346778888887799999999862 22 55554443332 212344666666666543
No 103
>smart00190 IL4_13 Interleukins 4 and 13. Interleukins-4 and -13 are cytokines involved in inflammatory and immune responses. IL-4 stimulates B and T cells.
Probab=20.22 E-value=1.5e+02 Score=18.88 Aligned_cols=29 Identities=14% Similarity=-0.034 Sum_probs=17.0
Q ss_pred hHHHHHHHhhccc---CCHHHHHHHHHHHHhc
Q psy1464 78 QVTSIVKFCTKRI---SNELELTQAESQAISL 106 (107)
Q Consensus 78 ~l~~~i~~~~~~~---~t~~~~~~~~~f~~~~ 106 (107)
.+.+.++..++.- .++..-.++++|+++|
T Consensus 94 ~L~r~l~~l~~~~~c~v~e~~~ttl~dFL~~L 125 (138)
T smart00190 94 KLDRNCSGLASQTSCTVNEAKDTTLADFLERL 125 (138)
T ss_pred HHHhhhhcccCCCcCCcccCcccHHHHHHHHH
Confidence 3556666655544 2334445788888765
No 104
>TIGR02425 decarb_PcaC 4-carboxymuconolactone decarboxylase. Members of this family are 4-carboxymuconolactone decarboxylase, which catalyzes the third step in the catabolism of protocatechuate (and therefore the fourth step in the catabolism of para-hydroxybenzoate, of 3-hydroxybenzoate, of vanillate, etc.). Most members of this family are encoded within protocatechuate catabolism operons. This protein is sometimes found as a fusion protein with other enzymes of the pathway, as in Rhodococcus opacus, Streptomyces avermitilis, and Caulobacter crescentus.
Probab=20.21 E-value=2.2e+02 Score=17.38 Aligned_cols=22 Identities=23% Similarity=0.085 Sum_probs=10.7
Q ss_pred HHHHhhccCcHHHHHHHHHHhh
Q psy1464 9 RFLIGLICYFLSLIFRYLEYAL 30 (107)
Q Consensus 9 ~ll~AL~csd~~ll~~~L~~~l 30 (107)
.+..++...+|++.+-+.++++
T Consensus 23 ~~~~~~~~~~p~~~~~~~~~~f 44 (123)
T TIGR02425 23 RALAATTDFDQPFQELITEYAW 44 (123)
T ss_pred HHHhcccccCHHHHHHHHHHHh
Confidence 3445544445655554444443
No 105
>PHA02790 Kelch-like protein; Provisional
Probab=20.18 E-value=2.2e+02 Score=21.53 Aligned_cols=29 Identities=10% Similarity=0.180 Sum_probs=20.7
Q ss_pred cHHHHHHHHHHhhcCCC-CCcCcHHHHHHH
Q psy1464 18 FLSLIFRYLEYALTESL-IRKQDAPRVFSL 46 (107)
Q Consensus 18 d~~ll~~~L~~~l~~~~-ir~qd~~~~~~~ 46 (107)
+++.++.+|+++.+++. +...++..++.+
T Consensus 70 ~~~~l~~lldy~YTg~l~it~~nV~~ll~a 99 (480)
T PHA02790 70 DIHSLTSIVIYSYTGKVYIDSHNVVNLLRA 99 (480)
T ss_pred CHHHHHHHHHhheeeeEEEecccHHHHHHH
Confidence 77788888888888764 666666655543
Done!