Query psy17149
Match_columns 98
No_of_seqs 73 out of 75
Neff 4.2
Searched_HMMs 46136
Date Fri Aug 16 23:10:42 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17149.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17149hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1961|consensus 99.9 5.4E-23 1.2E-27 176.5 6.8 84 2-85 28-111 (683)
2 PF04129 Vps52: Vps52 / Sac2 f 99.2 4.7E-12 1E-16 105.7 3.3 48 36-83 1-48 (508)
3 PF08700 Vps51: Vps51/Vps67; 86.1 6.1 0.00013 25.0 6.8 56 22-77 31-86 (87)
4 PF06148 COG2: COG (conserved 85.6 0.38 8.1E-06 33.5 0.9 56 21-76 34-89 (133)
5 PF09763 Sec3_C: Exocyst compl 83.7 3.8 8.2E-05 35.7 6.4 61 21-81 2-62 (701)
6 PF12086 DUF3563: Protein of u 66.5 23 0.00051 22.7 5.0 34 29-62 11-44 (59)
7 KOG2910|consensus 66.0 29 0.00063 27.3 6.4 56 18-74 24-88 (209)
8 KOG2307|consensus 62.8 11 0.00024 34.1 4.0 54 21-81 54-107 (705)
9 PF09718 Tape_meas_lam_C: Lamb 57.8 23 0.00051 22.6 4.0 36 38-75 9-44 (78)
10 PF15011 CK2S: Casein Kinase 2 49.4 22 0.00047 26.3 3.1 58 21-78 26-86 (168)
11 PF10475 DUF2450: Protein of u 47.7 93 0.002 24.3 6.6 64 20-83 38-101 (291)
12 TIGR01641 phageSPP1_gp7 phage 46.7 80 0.0017 20.7 5.3 27 9-35 2-28 (108)
13 KOG4515|consensus 46.1 1.3E+02 0.0029 23.7 7.1 62 22-83 118-185 (217)
14 PF11647 PMT_C: C-terminal reg 44.2 73 0.0016 20.5 4.6 50 10-60 4-53 (66)
15 PF10158 LOH1CR12: Tumour supp 42.9 1.2E+02 0.0027 21.7 6.9 45 38-82 76-120 (131)
16 PF06148 COG2: COG (conserved 42.1 5.9 0.00013 27.5 -0.8 72 9-81 16-87 (133)
17 PF10456 BAR_3_WASP_bdg: WASP- 40.9 1.1E+02 0.0025 23.9 6.1 57 15-75 180-236 (237)
18 PRK10328 DNA binding protein, 40.1 25 0.00054 25.4 2.2 60 14-75 6-68 (134)
19 cd07679 F-BAR_PACSIN2 The F-BA 39.9 86 0.0019 25.1 5.4 23 38-60 63-85 (258)
20 PF05696 DUF826: Protein of un 39.7 33 0.00071 23.2 2.5 29 6-34 7-35 (78)
21 PRK10947 global DNA-binding tr 38.9 27 0.00059 25.3 2.2 16 14-29 6-21 (135)
22 COG4778 PhnL ABC-type phosphon 38.5 11 0.00024 29.8 0.2 18 80-97 164-181 (235)
23 PF14071 YlbD_coat: Putative c 34.7 36 0.00079 24.6 2.3 32 50-81 78-109 (124)
24 PF04124 Dor1: Dor1-like famil 34.1 2.1E+02 0.0045 22.8 6.8 55 22-76 19-73 (338)
25 PF04108 APG17: Autophagy prot 34.0 53 0.0011 27.2 3.5 47 37-89 127-173 (412)
26 TIGR03516 ppisom_GldI peptidyl 32.6 84 0.0018 23.3 4.0 29 18-47 30-58 (177)
27 PF14767 RPA_interact_M: Repli 31.4 25 0.00055 23.5 1.0 37 43-79 24-60 (83)
28 COG5158 SEC1 Proteins involved 31.2 1.3E+02 0.0028 26.9 5.5 60 18-77 290-370 (582)
29 PF08716 nsp7: nsp7 replicase; 30.9 19 0.00042 24.6 0.3 33 41-73 22-54 (83)
30 cd03351 LbH_UDP-GlcNAc_AT UDP- 30.5 76 0.0016 24.0 3.6 39 11-49 212-251 (254)
31 PF04282 DUF438: Family of unk 30.4 1.6E+02 0.0034 19.3 4.6 43 17-59 10-62 (71)
32 PF14662 CCDC155: Coiled-coil 29.7 1.6E+02 0.0035 22.8 5.3 55 36-90 116-173 (193)
33 COG4477 EzrA Negative regulato 29.5 2.5E+02 0.0055 25.2 7.0 72 9-80 149-228 (570)
34 cd07666 BAR_SNX7 The Bin/Amphi 28.9 1.2E+02 0.0026 23.9 4.5 54 21-77 58-117 (243)
35 COG4663 FcbT1 TRAP-type mannit 28.4 1.5E+02 0.0033 25.1 5.2 52 8-59 289-340 (363)
36 COG5415 Predicted integral mem 28.3 55 0.0012 26.3 2.5 39 48-86 14-52 (251)
37 PF01406 tRNA-synt_1e: tRNA sy 27.7 1E+02 0.0023 25.1 4.1 28 8-35 57-84 (300)
38 smart00510 TFS2M Domain in the 27.5 1.6E+02 0.0034 20.0 4.4 40 12-51 11-57 (102)
39 PF06782 UPF0236: Uncharacteri 26.9 2.1E+02 0.0045 24.3 5.9 42 10-51 18-59 (470)
40 cd00672 CysRS_core catalytic c 26.9 1.2E+02 0.0026 22.9 4.1 28 8-35 69-96 (213)
41 PF03496 ADPrib_exo_Tox: ADP-r 25.4 1.8E+02 0.0039 20.8 4.7 45 24-68 7-68 (190)
42 PF00005 ABC_tran: ABC transpo 25.3 25 0.00054 23.1 0.1 13 84-96 124-136 (137)
43 PF08317 Spc7: Spc7 kinetochor 25.2 2.2E+02 0.0047 22.7 5.5 60 21-80 181-240 (325)
44 PF01025 GrpE: GrpE; InterPro 25.1 1.5E+02 0.0033 20.7 4.1 71 18-88 37-114 (165)
45 PF11248 DUF3046: Protein of u 24.7 44 0.00096 21.6 1.2 19 7-25 31-49 (63)
46 PF14182 YgaB: YgaB-like prote 24.4 2.3E+02 0.0051 19.1 5.2 38 24-70 24-61 (79)
47 cd07658 F-BAR_NOSTRIN The F-BA 24.0 1.3E+02 0.0029 23.0 3.9 40 38-79 61-100 (239)
48 PF05531 NPV_P10: Nucleopolyhe 23.7 1.4E+02 0.0029 19.9 3.4 45 40-84 26-70 (75)
49 PRK08453 fliD flagellar cappin 23.5 4.8E+02 0.01 23.8 7.7 53 21-75 618-672 (673)
50 cd07596 BAR_SNX The Bin/Amphip 23.3 2.7E+02 0.0059 19.5 6.8 51 20-71 7-57 (218)
51 PF02861 Clp_N: Clp amino term 23.2 1.2E+02 0.0027 16.8 2.8 24 10-33 28-52 (53)
52 cd07650 F-BAR_Syp1p_like The F 23.0 2.5E+02 0.0055 21.3 5.3 39 38-78 61-99 (228)
53 PF04233 Phage_Mu_F: Phage Mu 22.7 1.5E+02 0.0032 19.1 3.4 25 10-34 5-29 (112)
54 PF05008 V-SNARE: Vesicle tran 22.4 1.1E+02 0.0023 19.0 2.7 26 48-73 24-49 (79)
55 COG0410 LivF ABC-type branched 22.2 32 0.0007 27.4 0.2 14 84-97 152-165 (237)
56 KOG0095|consensus 22.1 64 0.0014 25.1 1.8 83 2-85 104-191 (213)
57 PF06969 HemN_C: HemN C-termin 21.8 71 0.0015 19.0 1.7 31 17-47 18-48 (66)
58 smart00528 HNS Domain in histo 21.7 80 0.0017 18.9 1.8 17 9-25 28-44 (46)
59 PF01221 Dynein_light: Dynein 21.6 2E+02 0.0044 18.5 4.0 26 10-35 23-48 (89)
60 PF12169 DNA_pol3_gamma3: DNA 21.3 1.9E+02 0.0042 19.4 4.0 29 10-38 35-63 (143)
61 PF05529 Bap31: B-cell recepto 21.1 3.3E+02 0.0072 19.7 5.8 62 16-77 128-189 (192)
62 PF15604 Toxin_43: Putative to 20.8 1.8E+02 0.0038 21.7 3.9 33 20-52 3-35 (152)
63 cd07681 F-BAR_PACSIN3 The F-BA 20.4 2E+02 0.0043 22.9 4.3 22 39-60 64-85 (258)
64 KOG3366|consensus 20.4 4E+02 0.0087 20.4 6.4 62 15-88 77-139 (172)
No 1
>KOG1961|consensus
Probab=99.88 E-value=5.4e-23 Score=176.46 Aligned_cols=84 Identities=51% Similarity=0.712 Sum_probs=80.6
Q ss_pred ccccccChHHHHHHHHcCCchHHHHHHHHHHHHHHHHHHHHHHHHhhHhHHHHHHHHHHhHHHHHhhccchhhhhhcccc
Q psy17149 2 ESSKLLDDEIVQEVVKTGTDLRQYSKQVEKELKDVENKSIQDYIKESENIVELHYQIQDCDNILEMSVLPPVLFHSIETT 81 (98)
Q Consensus 2 ~i~~~~~d~vVkeaL~~G~DLreYs~qVE~eL~~~E~~SIqDYi~esenl~~Lh~QI~~CD~IL~rME~mL~~FQs~l~~ 81 (98)
+++++.++++|++||++|.|||+|+++||.+|+++|+.||+||+++++++++||+||.+||+||+|||.||++||++|++
T Consensus 28 ~~~~~~~~e~v~~~lktg~~lr~y~~~ve~~l~k~e~~Siqdyi~es~~~~~lhNqi~~cd~Vl~rme~~L~~FQ~~L~s 107 (683)
T KOG1961|consen 28 QLQECLDDELVKEALKTGDDLREYSKQVENELRKAERKSIQDYIKESENLASLHNQIRACDSVLERMETMLSSFQSDLSS 107 (683)
T ss_pred HHHHhcchHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhhHHHHHhhhhhhhHhhhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 56788999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred cchh
Q psy17149 82 DTIE 85 (98)
Q Consensus 82 ~~~~ 85 (98)
-|-+
T Consensus 108 issD 111 (683)
T KOG1961|consen 108 ISSD 111 (683)
T ss_pred HHHH
Confidence 7654
No 2
>PF04129 Vps52: Vps52 / Sac2 family ; InterPro: IPR007258 Vps52 complexes with Vps53 and Vps54 to form a multi-subunit complex involved in regulating membrane trafficking events [].
Probab=99.23 E-value=4.7e-12 Score=105.70 Aligned_cols=48 Identities=48% Similarity=0.598 Sum_probs=45.5
Q ss_pred HHHHHHHHHHHhhHhHHHHHHHHHHhHHHHHhhccchhhhhhcccccc
Q psy17149 36 VENKSIQDYIKESENIVELHYQIQDCDNILEMSVLPPVLFHSIETTDT 83 (98)
Q Consensus 36 ~E~~SIqDYi~esenl~~Lh~QI~~CD~IL~rME~mL~~FQs~l~~~~ 83 (98)
+|++||+||++|++++++||+||+.||++|++||+||.+||++|++=+
T Consensus 1 ~e~~si~dy~~e~~~~~~Lh~~i~~cd~~L~~le~~L~~Fq~~L~~iS 48 (508)
T PF04129_consen 1 VERESIQDYLKESENFADLHNQIQECDSILESLEEMLSNFQNDLGSIS 48 (508)
T ss_pred ChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 588999999999999999999999999999999999999999998643
No 3
>PF08700 Vps51: Vps51/Vps67; InterPro: IPR014812 The VFT tethering complex (also known as GARP complex, Golgi associated retrograde protein complex, Vps53 tethering complex) is a conserved eukaryotic docking complex which is involved in recycling of proteins from endosomes to the late Golgi. Vps51 (also known as Vps67) is a subunit of VFT and interacts with the SNARE Tlg1 [].
Probab=86.13 E-value=6.1 Score=24.98 Aligned_cols=56 Identities=20% Similarity=0.335 Sum_probs=42.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhhHhHHHHHHHHHHhHHHHHhhccchhhhhh
Q psy17149 22 LRQYSKQVEKELKDVENKSIQDYIKESENIVELHYQIQDCDNILEMSVLPPVLFHS 77 (98)
Q Consensus 22 LreYs~qVE~eL~~~E~~SIqDYi~esenl~~Lh~QI~~CD~IL~rME~mL~~FQs 77 (98)
|+.-.....++|+.+=-..=.++|.-++.|..|...+..-...|..+...+.++++
T Consensus 31 L~~~i~~~~~eLr~~V~~nY~~fI~as~~I~~m~~~~~~l~~~l~~l~~~~~~l~~ 86 (87)
T PF08700_consen 31 LRQEIEEKDEELRKLVYENYRDFIEASDEISSMENDLSELRNLLSELQQSIQSLQE 86 (87)
T ss_pred HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 44444455555666555666799999999999999999888888888888877764
No 4
>PF06148 COG2: COG (conserved oligomeric Golgi) complex component, COG2; InterPro: IPR024602 This entry represents the uncharacterised N-terminal domain of subunit 2 of the COG complex. The COG complex comprises eight proteins COG1-8 and plays critical roles in Golgi structure and function [].; PDB: 2JQQ_A.
Probab=85.63 E-value=0.38 Score=33.54 Aligned_cols=56 Identities=27% Similarity=0.369 Sum_probs=6.3
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHhhHhHHHHHHHHHHhHHHHHhhccchhhhh
Q psy17149 21 DLRQYSKQVEKELKDVENKSIQDYIKESENIVELHYQIQDCDNILEMSVLPPVLFH 76 (98)
Q Consensus 21 DLreYs~qVE~eL~~~E~~SIqDYi~esenl~~Lh~QI~~CD~IL~rME~mL~~FQ 76 (98)
||+.|++.++++|-++=+..-+||++=|.+++.+-..|...-.=|.++..-+...+
T Consensus 34 dL~~~~~~L~~~Li~lIN~dY~dFv~Ls~~L~g~~~~i~~l~~~L~~~~~~v~~~~ 89 (133)
T PF06148_consen 34 DLRSYSKELKNELIELINDDYADFVSLSTNLVGMDEKIEELRKPLSQFREEVESVR 89 (133)
T ss_dssp ----------------------------------------HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 79999999999999999998888888888776666555544444444333333333
No 5
>PF09763 Sec3_C: Exocyst complex component Sec3; InterPro: IPR019160 The exocyst complex is composed of 8 subunits: Exoc1, Exoc2, Exoc3, Exoc4, Exoc5, Exoc6, Exoc7 and Exoc8. This entry represents the subunit Exoc1 (Sec3). Sec3 binds to the C-terminal cytoplasmic domain of GLYT1 (glycine transporter protein 1). Sec3 is the exocyst component that is closest to the plasma membrane docking site and it serves as a spatial landmark in the plasma membrane for incoming secretory vesicles. Sec3 is recruited to the sites of polarised membrane growth through its interaction with Rho1p, a small GTP-binding protein.
Probab=83.72 E-value=3.8 Score=35.68 Aligned_cols=61 Identities=13% Similarity=0.168 Sum_probs=55.3
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHhhHhHHHHHHHHHHhHHHHHhhccchhhhhhcccc
Q psy17149 21 DLRQYSKQVEKELKDVENKSIQDYIKESENIVELHYQIQDCDNILEMSVLPPVLFHSIETT 81 (98)
Q Consensus 21 DLreYs~qVE~eL~~~E~~SIqDYi~esenl~~Lh~QI~~CD~IL~rME~mL~~FQs~l~~ 81 (98)
|-..+.+.+.++|..+|.+.|+..+.....+..|-..|..+..=++.||..|..|--.|.+
T Consensus 2 dad~~~~~L~~eL~~le~~ni~~l~~s~~~v~~l~~~ld~a~~e~d~le~~l~~y~~~L~~ 62 (701)
T PF09763_consen 2 DADAFEERLSKELSALEAANIHSLLESEKQVNSLMEYLDEALAECDELESWLSLYDVELNS 62 (701)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567889999999999999999999999999999999999999999999999999877754
No 6
>PF12086 DUF3563: Protein of unknown function (DUF3563); InterPro: IPR021946 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 50 amino acids in length. This protein has conserved AYL and DLE sequence motifs.
Probab=66.50 E-value=23 Score=22.73 Aligned_cols=34 Identities=18% Similarity=0.423 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhHhHHHHHHHHHHhH
Q psy17149 29 VEKELKDVENKSIQDYIKESENIVELHYQIQDCD 62 (98)
Q Consensus 29 VE~eL~~~E~~SIqDYi~esenl~~Lh~QI~~CD 62 (98)
+.+-+...+.+.=..|+.+|.++++|-..+..+|
T Consensus 11 L~~l~~~~~~~r~eaYLA~s~D~~DLErRmr~le 44 (59)
T PF12086_consen 11 LKKLFERSERERREAYLAQSTDIYDLERRMRELE 44 (59)
T ss_pred HHHhccHHHHHHHHHHHHhcccHHHHHHHHHHHh
Confidence 3344444555556899999999999999999988
No 7
>KOG2910|consensus
Probab=65.99 E-value=29 Score=27.29 Aligned_cols=56 Identities=25% Similarity=0.267 Sum_probs=42.5
Q ss_pred cCCchHHHHHHHHHHHHHHHHHHHHHHHHhhHhHHHHH---------HHHHHhHHHHHhhccchhh
Q psy17149 18 TGTDLRQYSKQVEKELKDVENKSIQDYIKESENIVELH---------YQIQDCDNILEMSVLPPVL 74 (98)
Q Consensus 18 ~G~DLreYs~qVE~eL~~~E~~SIqDYi~esenl~~Lh---------~QI~~CD~IL~rME~mL~~ 74 (98)
+-..|++|.+.+++-+ ++|+..-.|+|.++..--.|. .=|+..|+-|..+|.|++.
T Consensus 24 QRdkl~qyqkR~e~~l-e~Er~~Ar~lird~rKdrAlllLKkKryQE~Ll~qt~~qL~nlEqmvsd 88 (209)
T KOG2910|consen 24 QRDKLKQYQKRLEKQL-EAERQLARDLIRDGRKDRALLLLKKKRYQEELLTQTDNQLINLEQMVSD 88 (209)
T ss_pred HHHHHHHHHHHHHHHH-HHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5556999999999887 678888888888776642221 2367888899999999864
No 8
>KOG2307|consensus
Probab=62.83 E-value=11 Score=34.06 Aligned_cols=54 Identities=26% Similarity=0.388 Sum_probs=43.4
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHhhHhHHHHHHHHHHhHHHHHhhccchhhhhhcccc
Q psy17149 21 DLRQYSKQVEKELKDVENKSIQDYIKESENIVELHYQIQDCDNILEMSVLPPVLFHSIETT 81 (98)
Q Consensus 21 DLreYs~qVE~eL~~~E~~SIqDYi~esenl~~Lh~QI~~CD~IL~rME~mL~~FQs~l~~ 81 (98)
|||-|-+.+...+-++=++.-.||++=|.|+|.| |..|.+|+.-|..|-++.++
T Consensus 54 dLrlylksl~~aMieLIN~DYADFVnLStnLVgl-------d~aln~i~qpL~qlreei~s 107 (705)
T KOG2307|consen 54 DLRLYLKSLQNAMIELINDDYADFVNLSTNLVGL-------DDALNKIEQPLNQLREEIKS 107 (705)
T ss_pred HHHHHHHHHHHHHHHHHhhhHHHHHhhhhhhccH-------HHHHHHHHhHHHHHHHHHHH
Confidence 6788888888888888888888888888888777 66677788888887777654
No 9
>PF09718 Tape_meas_lam_C: Lambda phage tail tape-measure protein (Tape_meas_lam_C); InterPro: IPR006431 This entry is represented by the C-terminal region of Bacteriophage lambda, GpH. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This group are characterised by a relatively well-conserved region near the C terminus of GpH - the tape measure protein of a lambda and related phage. This protein, which controls phage tail length, is typically about 1000 residues in length. Both low-complexity sequence and insertion/deletion events appear common in this family. Mutational studies suggest a ruler or template role in the determination of phage tail length. Similar behavior is attributed to proteins from distantly related or unrelated families in other phage.
Probab=57.78 E-value=23 Score=22.56 Aligned_cols=36 Identities=14% Similarity=0.189 Sum_probs=27.9
Q ss_pred HHHHHHHHHhhHhHHHHHHHHHHhHHHHHhhccchhhh
Q psy17149 38 NKSIQDYIKESENIVELHYQIQDCDNILEMSVLPPVLF 75 (98)
Q Consensus 38 ~~SIqDYi~esenl~~Lh~QI~~CD~IL~rME~mL~~F 75 (98)
+...++|..++.|.+....++. .+.+.+|++.|..|
T Consensus 9 ~~a~~~~~~~a~n~a~~~~~~~--~~a~~~~~dal~~f 44 (78)
T PF09718_consen 9 KSALADYADSAQNVASQAEDAF--SSAFDGMTDALVDF 44 (78)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHH
Confidence 4567899999999888777665 47888888887766
No 10
>PF15011 CK2S: Casein Kinase 2 substrate
Probab=49.38 E-value=22 Score=26.32 Aligned_cols=58 Identities=9% Similarity=0.075 Sum_probs=34.2
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHH-HHhhHhH--HHHHHHHHHhHHHHHhhccchhhhhhc
Q psy17149 21 DLRQYSKQVEKELKDVENKSIQDY-IKESENI--VELHYQIQDCDNILEMSVLPPVLFHSI 78 (98)
Q Consensus 21 DLreYs~qVE~eL~~~E~~SIqDY-i~esenl--~~Lh~QI~~CD~IL~rME~mL~~FQs~ 78 (98)
.+=.-..-+-.+|+.++.....+= +.--+++ .-.++|+..-|.+|.+|.++|..|++-
T Consensus 26 ~~l~sl~nL~eqL~al~~~~~~~~pL~~fpdl~~rL~~Kq~~ale~vl~~L~e~l~~l~~v 86 (168)
T PF15011_consen 26 PLLSSLANLAEQLQALQNVKNYGTPLRSFPDLQERLRRKQLEALETVLAKLRETLEELQKV 86 (168)
T ss_pred HHHHHHHHHHHHHHHHHhccccCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333344444444444443331 3333344 346788888889999999999999864
No 11
>PF10475 DUF2450: Protein of unknown function N-terminal domain (DUF2450) ; InterPro: IPR019515 This entry represents Vacuolar protein sorting-associated protein 54, and is thought to be involved in retrograde transport from early and late endosomes to late Golgi found in eukaryotes, but its function is not known.
Probab=47.74 E-value=93 Score=24.27 Aligned_cols=64 Identities=16% Similarity=0.125 Sum_probs=52.2
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHhhHhHHHHHHHHHHhHHHHHhhccchhhhhhcccccc
Q psy17149 20 TDLRQYSKQVEKELKDVENKSIQDYIKESENIVELHYQIQDCDNILEMSVLPPVLFHSIETTDT 83 (98)
Q Consensus 20 ~DLreYs~qVE~eL~~~E~~SIqDYi~esenl~~Lh~QI~~CD~IL~rME~mL~~FQs~l~~~~ 83 (98)
..|..|-.-|++.|...=...=..|+++-.++-.|+.++..|-....++-..|..-...++...
T Consensus 38 ekLs~~ldvVe~~L~~~I~~~s~~f~~a~~~v~el~~~l~~a~~~~~~~R~~L~~~~~~~~~~~ 101 (291)
T PF10475_consen 38 EKLSHYLDVVEKKLSREISEKSDSFFQAMSSVQELQDELEEALVICKNLRRNLKSADENLTKSG 101 (291)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 3477778888888887777777899999999999999999998888888888887777766643
No 12
>TIGR01641 phageSPP1_gp7 phage putative head morphogenesis protein, SPP1 gp7 family. This model describes a region of about 110 amino acids found exclusively in phage-related proteins, internally or toward the C-terminus. One member, gp7 of phage SPP1, appears involved in head morphogenesis.
Probab=46.74 E-value=80 Score=20.67 Aligned_cols=27 Identities=26% Similarity=0.433 Sum_probs=23.6
Q ss_pred hHHHHHHHHcCCchHHHHHHHHHHHHH
Q psy17149 9 DEIVQEVVKTGTDLRQYSKQVEKELKD 35 (98)
Q Consensus 9 d~vVkeaL~~G~DLreYs~qVE~eL~~ 35 (98)
+++|.+++.+|...++.++.|.+.+..
T Consensus 2 ~~~l~~gi~~G~~~~~iak~i~~~~~~ 28 (108)
T TIGR01641 2 EDILADGVQRGLGPNELAKRLRKELGV 28 (108)
T ss_pred hHHHHHHHHcCCCHHHHHHHHHHHHCc
Confidence 367889999999999999999988843
No 13
>KOG4515|consensus
Probab=46.15 E-value=1.3e+02 Score=23.69 Aligned_cols=62 Identities=23% Similarity=0.199 Sum_probs=47.9
Q ss_pred hHHHHHHHHHHHHH------HHHHHHHHHHHhhHhHHHHHHHHHHhHHHHHhhccchhhhhhcccccc
Q psy17149 22 LRQYSKQVEKELKD------VENKSIQDYIKESENIVELHYQIQDCDNILEMSVLPPVLFHSIETTDT 83 (98)
Q Consensus 22 LreYs~qVE~eL~~------~E~~SIqDYi~esenl~~Lh~QI~~CD~IL~rME~mL~~FQs~l~~~~ 83 (98)
|-...|.|+..... ..+.--..|.++-..+-+||+++..|..+|+..=-||....+.||.+.
T Consensus 118 lv~r~K~v~~s~~tLf~~~~~~qk~ya~yaeq~~k~n~ls~~l~riq~~l~~~Vp~le~lN~~L~~~e 185 (217)
T KOG4515|consen 118 LVARCKSVEASMITLFEETRAHQKQYAGYAEQLSKLNQLSDDLCRIQIILEDIVPMLETLNEILTPDE 185 (217)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhcCCccc
Confidence 33444455544432 344555678889999999999999999999999999999999999764
No 14
>PF11647 PMT_C: C-terminal region of Pasteurella multocida toxin residues 569-1285; InterPro: IPR020972 This entry represents the C-terminal domain of Pasteurella multocida toxin (PMT) which displays a Trojan horse-like shape with three domains, C1, C2 and C3. The C3 domain possesses the Cys-His-Asp catalytic triad. PMT is an enzyme toxin carrying the cysteine protease-like catalytic triad which functions on the cytoplasmic face of the plasma membrane of target cells []. This entry is also found in the Vibrio cholerae RTX toxin [], a bacterial toxin that self-process by a cysteine peptidase mechanism. These cysteine peptidases belong to MEROPS peptidase family C80 (RTX self-cleaving toxin, clan CD). ; PDB: 4ERR_A 2EC5_B 2EBH_X 2EBF_X.
Probab=44.25 E-value=73 Score=20.55 Aligned_cols=50 Identities=20% Similarity=0.183 Sum_probs=37.5
Q ss_pred HHHHHHHHcCCchHHHHHHHHHHHHHHHHHHHHHHHHhhHhHHHHHHHHHH
Q psy17149 10 EIVQEVVKTGTDLRQYSKQVEKELKDVENKSIQDYIKESENIVELHYQIQD 60 (98)
Q Consensus 10 ~vVkeaL~~G~DLreYs~qVE~eL~~~E~~SIqDYi~esenl~~Lh~QI~~ 60 (98)
++.+.|--.|.-..+.-++|-..|..+++.+.. +.+....+-.|++||..
T Consensus 4 eL~~~a~v~Gk~iGESy~~Il~kl~~i~n~~~l-~~~~V~~l~~L~~~ie~ 53 (66)
T PF11647_consen 4 ELKKAAKVFGKVIGESYQSILSKLFLIHNMSLL-GREGVETLYELRKQIEH 53 (66)
T ss_dssp HHHHHCHCCCCHHHHHHHHHHHHHHHHHH--SH-CHHHHHHHHHHHHHHHH
T ss_pred HHHHHhccCCcccCccHHHHHHHHHHHHhchhh-HHHHHHHHHHHHHHHHH
Confidence 445555568999999999999999999987765 66677777788888754
No 15
>PF10158 LOH1CR12: Tumour suppressor protein; InterPro: IPR018780 This entry represents a region of 130 amino acids that is the most conserved part of some hypothetical proteins involved in loss of heterozygosity, and thus, tumour suppression []. The exact function of these proteins is not known.
Probab=42.86 E-value=1.2e+02 Score=21.68 Aligned_cols=45 Identities=20% Similarity=0.379 Sum_probs=37.8
Q ss_pred HHHHHHHHHhhHhHHHHHHHHHHhHHHHHhhccchhhhhhccccc
Q psy17149 38 NKSIQDYIKESENIVELHYQIQDCDNILEMSVLPPVLFHSIETTD 82 (98)
Q Consensus 38 ~~SIqDYi~esenl~~Lh~QI~~CD~IL~rME~mL~~FQs~l~~~ 82 (98)
+.....|......+-.|+.+|..|..+|...=.++....+-|..+
T Consensus 76 qk~~~k~ae~L~kv~els~~L~~~~~lL~~~v~~ie~LN~~LP~~ 120 (131)
T PF10158_consen 76 QKRFAKFAEQLEKVNELSQQLSRCQSLLNQTVPSIETLNEILPEE 120 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCChh
Confidence 455667888888999999999999999999888888888777654
No 16
>PF06148 COG2: COG (conserved oligomeric Golgi) complex component, COG2; InterPro: IPR024602 This entry represents the uncharacterised N-terminal domain of subunit 2 of the COG complex. The COG complex comprises eight proteins COG1-8 and plays critical roles in Golgi structure and function [].; PDB: 2JQQ_A.
Probab=42.07 E-value=5.9 Score=27.50 Aligned_cols=72 Identities=18% Similarity=0.211 Sum_probs=12.6
Q ss_pred hHHHHHHHHcCCchHHHHHHHHHHHHHHHHHHHHHHHHhhHhHHHHHHHHHHhHHHHHhhccchhhhhhcccc
Q psy17149 9 DEIVQEVVKTGTDLRQYSKQVEKELKDVENKSIQDYIKESENIVELHYQIQDCDNILEMSVLPPVLFHSIETT 81 (98)
Q Consensus 9 d~vVkeaL~~G~DLreYs~qVE~eL~~~E~~SIqDYi~esenl~~Lh~QI~~CD~IL~rME~mL~~FQs~l~~ 81 (98)
++-|.+ ..++++|..-.++...=++.+..+-|.--=++-.++++|-..+...|..+..|..-|.+|+.++.+
T Consensus 16 d~Fl~~-~~~~~~Le~L~~dL~~~~~~L~~~Li~lIN~dY~dFv~Ls~~L~g~~~~i~~l~~~L~~~~~~v~~ 87 (133)
T PF06148_consen 16 DEFLSS-NRRYVSLEDLRKDLRSYSKELKNELIELINDDYADFVSLSTNLVGMDEKIEELRKPLSQFREEVES 87 (133)
T ss_dssp -----------------------------------------------------------HHHHHHHHHHHHHH
T ss_pred HHHHHH-ccCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHH
Confidence 444555 678888888888888888888888777666667889999999999999999999999999998875
No 17
>PF10456 BAR_3_WASP_bdg: WASP-binding domain of Sorting nexin protein; InterPro: IPR019497 The C-terminal region of the Sorting nexin group of proteins appears to carry a BAR-like (Bin/amphiphysin/Rvs) domain. This domain is very diverse and the similarities with other BAR domains are few. In the Sorting nexins it is associated with IPR001683 from INTERPRO, and in combination with PX appears to be necessary to bind WASP along with p85 to form a multimeric signalling complex []. ; PDB: 2RAK_A 2RAI_A 3DYU_C 2RAJ_A 3DYT_A.
Probab=40.87 E-value=1.1e+02 Score=23.91 Aligned_cols=57 Identities=21% Similarity=0.251 Sum_probs=44.3
Q ss_pred HHHcCCchHHHHHHHHHHHHHHHHHHHHHHHHhhHhHHHHHHHHHHhHHHHHhhccchhhh
Q psy17149 15 VVKTGTDLRQYSKQVEKELKDVENKSIQDYIKESENIVELHYQIQDCDNILEMSVLPPVLF 75 (98)
Q Consensus 15 aL~~G~DLreYs~qVE~eL~~~E~~SIqDYi~esenl~~Lh~QI~~CD~IL~rME~mL~~F 75 (98)
-+.+++|.-.|+ +-.|........+.||-.--.+. |..||.-+-.|.+++|+.|..|
T Consensus 180 ~v~~R~d~is~a--~lAEm~hfh~~r~~Df~~~m~~y--L~~Qi~Fyq~i~~kLe~a~~~f 236 (237)
T PF10456_consen 180 EVQRRCDVISYA--VLAEMNHFHQERVEDFKSMMKTY--LQQQIAFYQQIAEKLEQALQQF 236 (237)
T ss_dssp HHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHTTS
T ss_pred HHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHhc
Confidence 344455555554 44667778888888988777776 8899999999999999999988
No 18
>PRK10328 DNA binding protein, nucleoid-associated; Provisional
Probab=40.08 E-value=25 Score=25.45 Aligned_cols=60 Identities=8% Similarity=0.075 Sum_probs=27.9
Q ss_pred HHHHcCCchHHHHHHHHHHHHHHHH--HHHHHHHHhhHh-HHHHHHHHHHhHHHHHhhccchhhh
Q psy17149 14 EVVKTGTDLRQYSKQVEKELKDVEN--KSIQDYIKESEN-IVELHYQIQDCDNILEMSVLPPVLF 75 (98)
Q Consensus 14 eaL~~G~DLreYs~qVE~eL~~~E~--~SIqDYi~esen-l~~Lh~QI~~CD~IL~rME~mL~~F 75 (98)
++|.|+.-||.+++.+. |.++|. +-+.--+.+... ......+.++--..++.+.+|+..|
T Consensus 6 k~l~n~R~lra~~re~~--~e~Lee~~ekl~~vv~er~~~~~~~~~~~~er~~~l~~i~~~~~~~ 68 (134)
T PRK10328 6 QSLNNIRTLRAMAREFS--IDVLEEMLEKFRVVTKERREEEEQQQRELAERQEKINTWLELMKAD 68 (134)
T ss_pred HHHhhHHHHHHHHHhCC--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 55666666666666542 222221 122233333332 3333444444455555555555544
No 19
>cd07679 F-BAR_PACSIN2 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Protein kinase C and Casein kinase Substrate in Neurons 2 (PACSIN2). F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Protein kinase C and Casein kinase Substrate in Neurons (PACSIN) proteins, also called Synaptic dynamin-associated proteins (Syndapins), act as regulators of cytoskeletal and membrane dynamics. Vetebrates harbor three isoforms with distinct expression patterns and specific functions. PACSIN 2 or Syndapin II is expressed ubiquitously and is involved in the regulation of tubulin polymerization. It associates with Golgi membranes and forms a complex with dynamin II which is crucial in promoting vesicle formation from the trans-Golgi network. PACSIN 2 contains an N-terminal F-BAR domain and a C-terminal SH3 domain. F-BAR domains form banana-shaped dimers with a positively-charged concave su
Probab=39.88 E-value=86 Score=25.13 Aligned_cols=23 Identities=26% Similarity=0.495 Sum_probs=20.2
Q ss_pred HHHHHHHHHhhHhHHHHHHHHHH
Q psy17149 38 NKSIQDYIKESENIVELHYQIQD 60 (98)
Q Consensus 38 ~~SIqDYi~esenl~~Lh~QI~~ 60 (98)
..+-.-...+++++..+|.+|..
T Consensus 63 ~~aw~~~~~Eae~~s~~H~~l~~ 85 (258)
T cd07679 63 EKAWCALMSEAEKVSELHLEVKA 85 (258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 66778889999999999999964
No 20
>PF05696 DUF826: Protein of unknown function (DUF826); InterPro: IPR008544 This entry is represented by Bacteriophage 933W, Orf26. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=39.69 E-value=33 Score=23.23 Aligned_cols=29 Identities=21% Similarity=0.360 Sum_probs=22.1
Q ss_pred ccChHHHHHHHHcCCchHHHHHHHHHHHH
Q psy17149 6 LLDDEIVQEVVKTGTDLRQYSKQVEKELK 34 (98)
Q Consensus 6 ~~~d~vVkeaL~~G~DLreYs~qVE~eL~ 34 (98)
..-++.||+||+++.=+.--..||.+.|.
T Consensus 7 lVT~e~VK~aL~Se~V~~alK~qvr~~le 35 (78)
T PF05696_consen 7 LVTAEAVKQALRSEEVTSALKQQVRQNLE 35 (78)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34478999999988887777777776664
No 21
>PRK10947 global DNA-binding transcriptional dual regulator H-NS; Provisional
Probab=38.95 E-value=27 Score=25.31 Aligned_cols=16 Identities=13% Similarity=0.314 Sum_probs=9.3
Q ss_pred HHHHcCCchHHHHHHH
Q psy17149 14 EVVKTGTDLRQYSKQV 29 (98)
Q Consensus 14 eaL~~G~DLreYs~qV 29 (98)
++|.|+.-||.+++.+
T Consensus 6 k~l~niR~lra~~re~ 21 (135)
T PRK10947 6 KILNNIRTLRAQAREC 21 (135)
T ss_pred HHHHhHHHHHHHHHHC
Confidence 4555666666666554
No 22
>COG4778 PhnL ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=38.49 E-value=11 Score=29.82 Aligned_cols=18 Identities=39% Similarity=0.733 Sum_probs=14.5
Q ss_pred cccchhhhhhheecCCCC
Q psy17149 80 TTDTIEDYRVLLVDQPSI 97 (98)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~ 97 (98)
+..-|-||.+||+|||+-
T Consensus 164 aRgfivd~pILLLDEPTa 181 (235)
T COG4778 164 ARGFIVDYPILLLDEPTA 181 (235)
T ss_pred hhhhhccCceEEecCCcc
Confidence 344588999999999974
No 23
>PF14071 YlbD_coat: Putative coat protein
Probab=34.67 E-value=36 Score=24.65 Aligned_cols=32 Identities=3% Similarity=0.095 Sum_probs=26.7
Q ss_pred hHHHHHHHHHHhHHHHHhhccchhhhhhcccc
Q psy17149 50 NIVELHYQIQDCDNILEMSVLPPVLFHSIETT 81 (98)
Q Consensus 50 nl~~Lh~QI~~CD~IL~rME~mL~~FQs~l~~ 81 (98)
++-.|-++|...-.+|+.++++|+.||..=+.
T Consensus 78 D~nq~q~hl~~~sqai~~vQ~~l~qFq~~~~~ 109 (124)
T PF14071_consen 78 DVNQMQKHLNNVSQAIGSVQQVLSQFQGNGQK 109 (124)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCC
Confidence 34678888999999999999999999986543
No 24
>PF04124 Dor1: Dor1-like family ; InterPro: IPR007255 Dor1 is involved in vesicle targeting to the yeast Golgi apparatus and complexes with a number of other trafficking proteins, which include Sec34 and Sec35 [].
Probab=34.06 E-value=2.1e+02 Score=22.82 Aligned_cols=55 Identities=9% Similarity=0.197 Sum_probs=43.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhhHhHHHHHHHHHHhHHHHHhhccchhhhh
Q psy17149 22 LRQYSKQVEKELKDVENKSIQDYIKESENIVELHYQIQDCDNILEMSVLPPVLFH 76 (98)
Q Consensus 22 LreYs~qVE~eL~~~E~~SIqDYi~esenl~~Lh~QI~~CD~IL~rME~mL~~FQ 76 (98)
|.+-...+..++..+...+=.-||..++....+...+..+..-+..+..=|..|+
T Consensus 19 L~~~~~~l~~ql~~La~~~y~~fi~~~~~~~~i~~~~~~~~~~l~~L~~~l~~L~ 73 (338)
T PF04124_consen 19 LSEEIASLDAQLQSLAFRNYKTFIDNAECSSDIRQELSSLSDSLDSLLDSLPELD 73 (338)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6677788999999999999999999999999998888777666655554444443
No 25
>PF04108 APG17: Autophagy protein Apg17 ; InterPro: IPR007240 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Autophagy protein 17 (Apg17) is required for activating Apg1 protein kinases. This entry also contains Autophagy protein 11 which is involved in cytoplasm to vacuole transport (Cvt) and pexophagy. ; GO: 0006914 autophagy
Probab=34.04 E-value=53 Score=27.25 Aligned_cols=47 Identities=17% Similarity=0.121 Sum_probs=32.7
Q ss_pred HHHHHHHHHHhhHhHHHHHHHHHHhHHHHHhhccchhhhhhcccccchhhhhh
Q psy17149 37 ENKSIQDYIKESENIVELHYQIQDCDNILEMSVLPPVLFHSIETTDTIEDYRV 89 (98)
Q Consensus 37 E~~SIqDYi~esenl~~Lh~QI~~CD~IL~rME~mL~~FQs~l~~~~~~~~~~ 89 (98)
=+..|+.|+++.+.+ -..-|+++.+++.++.+++..+-+....+|.-
T Consensus 127 L~~~l~~~i~~~~~~------~~~~d~~~~~~~~~~~~~~~~l~~~~~~~~~~ 173 (412)
T PF04108_consen 127 LRENLKISIDELQAI------QEQLDNSLLQFDNDLRKLKKQLINKRLKDYEL 173 (412)
T ss_pred HHHHHHHHHHHHHHH------HHHHHhHHHHHHHHHHHHHHHHhhhhhhhhhh
Confidence 344566666666666 34447888888899999988886666666654
No 26
>TIGR03516 ppisom_GldI peptidyl-prolyl isomerase, gliding motility-associated. Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldI is a FKBP-type peptidyl-prolyl cis-trans isomerase (pfam00254) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockout of this gene abolishes the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. This family is only found in Bacteroidetes containing the suite of genes proposed to confer the gliding motility phenotype.
Probab=32.57 E-value=84 Score=23.27 Aligned_cols=29 Identities=28% Similarity=0.424 Sum_probs=25.8
Q ss_pred cCCchHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy17149 18 TGTDLRQYSKQVEKELKDVENKSIQDYIKE 47 (98)
Q Consensus 18 ~G~DLreYs~qVE~eL~~~E~~SIqDYi~e 47 (98)
+|.++.+ |.+=+++|...|...|++|++.
T Consensus 30 ~~~~~~~-s~~rnk~l~~~e~~~I~~~i~~ 58 (177)
T TIGR03516 30 SGTTIKL-SAERNKKLIAAEEAAIKRIISA 58 (177)
T ss_pred CcchHHH-HHHHHHHHHHHHHHHHHHHHHh
Confidence 7888887 7788999999999999999995
No 27
>PF14767 RPA_interact_M: Replication protein A interacting middle
Probab=31.39 E-value=25 Score=23.46 Aligned_cols=37 Identities=22% Similarity=0.074 Sum_probs=27.4
Q ss_pred HHHHhhHhHHHHHHHHHHhHHHHHhhccchhhhhhcc
Q psy17149 43 DYIKESENIVELHYQIQDCDNILEMSVLPPVLFHSIE 79 (98)
Q Consensus 43 DYi~esenl~~Lh~QI~~CD~IL~rME~mL~~FQs~l 79 (98)
|.+-+-+.+..-..+..+||.||..||++...+-...
T Consensus 24 d~lw~~~~~~~a~~~~~e~~eiL~~mEei~~El~~eE 60 (83)
T PF14767_consen 24 DSLWEYDGLPEASPQEEEPDEILLVMEEIQQELIREE 60 (83)
T ss_pred hhhhccccchhhccchhhHHHHHHHHHHHHHHHHHHH
Confidence 5566666677777778999999999997766665553
No 28
>COG5158 SEC1 Proteins involved in synaptic transmission and general secretion, Sec1 family [Intracellular trafficking and secretion]
Probab=31.22 E-value=1.3e+02 Score=26.88 Aligned_cols=60 Identities=8% Similarity=0.171 Sum_probs=39.7
Q ss_pred cCCchHHHHHHHHHHHHHHHH------HHHHHHHHhhHhHHHHHHHH-------HHhHHHHH--------hhccchhhhh
Q psy17149 18 TGTDLRQYSKQVEKELKDVEN------KSIQDYIKESENIVELHYQI-------QDCDNILE--------MSVLPPVLFH 76 (98)
Q Consensus 18 ~G~DLreYs~qVE~eL~~~E~------~SIqDYi~esenl~~Lh~QI-------~~CD~IL~--------rME~mL~~FQ 76 (98)
-|..|++|+++...+-..... .-|+.++...+.+..+++++ .+|.+.++ .||+.|.++.
T Consensus 290 v~e~l~~~~~~l~~~~~~~~~~~~~s~~dik~~v~~lpel~~~~~~l~~H~~l~~e~l~~~~~~~l~~f~eIEq~l~~~~ 369 (582)
T COG5158 290 VGEKLKKLAKELKTKAQLRHKENAKSVNDIKEFVDKLPELQKRSRSLNKHLTLASELLKVVEERYLDDFSEIEQNLSTGN 369 (582)
T ss_pred HHHHHHHHHHHHHHHHhhhhhhhcccHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCC
Confidence 567778888877766554442 24667787777776666554 45666555 4788888877
Q ss_pred h
Q psy17149 77 S 77 (98)
Q Consensus 77 s 77 (98)
.
T Consensus 370 ~ 370 (582)
T COG5158 370 D 370 (582)
T ss_pred c
Confidence 3
No 29
>PF08716 nsp7: nsp7 replicase; InterPro: IPR014828 Nsp7 (non structural protein 7) has been implicated in viral RNA replication and is predominantly alpha helical in structure []. It forms a hexadecameric supercomplex with Nsp8 that adopts a hollow cylinder-like structure []. The dimensions of the central channel and positive electrostatic properties of the cylinder imply that it confers processivity on RNA-dependent RNA polymerase []. ; GO: 0004197 cysteine-type endopeptidase activity, 0008242 omega peptidase activity, 0016740 transferase activity; PDB: 3UB0_C 2AHM_C 2KYS_A 1YSY_A.
Probab=30.88 E-value=19 Score=24.59 Aligned_cols=33 Identities=18% Similarity=-0.011 Sum_probs=23.5
Q ss_pred HHHHHHhhHhHHHHHHHHHHhHHHHHhhccchh
Q psy17149 41 IQDYIKESENIVELHYQIQDCDNILEMSVLPPV 73 (98)
Q Consensus 41 IqDYi~esenl~~Lh~QI~~CD~IL~rME~mL~ 73 (98)
|.--.+.-.-.+.|||.|-.|+..=+.||.|+.
T Consensus 22 veanSk~w~~cV~LHN~Il~~~d~~eA~e~l~~ 54 (83)
T PF08716_consen 22 VEANSKLWAYCVQLHNEILLSSDPEEAFEKLLA 54 (83)
T ss_dssp GGGSHHHHHHHHHHHHHHHCSSSHHHHHHHHHH
T ss_pred chhhhHHHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence 333345556789999999999887777766543
No 30
>cd03351 LbH_UDP-GlcNAc_AT UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic pathway and is also referred to as LpxA. Lipid A is essential for the growth of Escherichia coli and related bacteria. It is also essential for maintaining the integrity of the outer membrane. UDP-GlcNAc acyltransferase is a homotrimer of left-handed parallel beta helix (LbH) subunits. Each subunit contains an N-terminal LbH region with 9 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X), and a C-terminal alpha-helical region.
Probab=30.49 E-value=76 Score=24.01 Aligned_cols=39 Identities=21% Similarity=0.379 Sum_probs=29.7
Q ss_pred HHHHHHHcCCchHHHHHHHHHHH-HHHHHHHHHHHHHhhH
Q psy17149 11 IVQEVVKTGTDLRQYSKQVEKEL-KDVENKSIQDYIKESE 49 (98)
Q Consensus 11 vVkeaL~~G~DLreYs~qVE~eL-~~~E~~SIqDYi~ese 49 (98)
..+.+++.+.++++..++++++. ...|...+.+|+++++
T Consensus 212 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~ 251 (254)
T cd03351 212 AYRILYRSGLTLEEALEELEEEAPDSPEVEELVDFIRSSK 251 (254)
T ss_pred HHHHHHhcCCCHHHHHHHHHHhcCCCHHHHHHHHHHHhcC
Confidence 34566778999999999998875 4667777888887653
No 31
>PF04282 DUF438: Family of unknown function (DUF438); InterPro: IPR007380 This is a a group of uncharacterised proteins.
Probab=30.39 E-value=1.6e+02 Score=19.28 Aligned_cols=43 Identities=19% Similarity=0.354 Sum_probs=31.0
Q ss_pred HcCCchHHHHHHHHHHH--------HHHHHHHHHHH--HHhhHhHHHHHHHHH
Q psy17149 17 KTGTDLRQYSKQVEKEL--------KDVENKSIQDY--IKESENIVELHYQIQ 59 (98)
Q Consensus 17 ~~G~DLreYs~qVE~eL--------~~~E~~SIqDY--i~esenl~~Lh~QI~ 59 (98)
-+|.|+.+-.++..+.+ -.+|++-|++= +++...+.++|..+=
T Consensus 10 h~G~~~e~vk~~F~~~~~~Vs~~EI~~~Eq~Li~eG~~~eeiq~LCdvH~~lf 62 (71)
T PF04282_consen 10 HEGEDPEEVKEEFKKLFSDVSASEISAAEQELIQEGMPVEEIQKLCDVHAALF 62 (71)
T ss_pred hCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCCHHHHHHHhHHHHHHH
Confidence 38888877777766655 45788888764 677778888887653
No 32
>PF14662 CCDC155: Coiled-coil region of CCDC155
Probab=29.67 E-value=1.6e+02 Score=22.84 Aligned_cols=55 Identities=20% Similarity=0.218 Sum_probs=39.2
Q ss_pred HHHHHHHHHHHhh-HhHHHHHHHHHHhHHHHHhhccchh--hhhhcccccchhhhhhh
Q psy17149 36 VENKSIQDYIKES-ENIVELHYQIQDCDNILEMSVLPPV--LFHSIETTDTIEDYRVL 90 (98)
Q Consensus 36 ~E~~SIqDYi~es-enl~~Lh~QI~~CD~IL~rME~mL~--~FQs~l~~~~~~~~~~~ 90 (98)
++.+-+++=.++- ..-+.|-.|+..|+.++..++..++ .||-+--.-+|+.||.+
T Consensus 116 ~e~~~lk~~~~eL~~~~~~Lq~Ql~~~e~l~~~~da~l~e~t~~i~eL~~~ieEy~~~ 173 (193)
T PF14662_consen 116 AERDGLKKRSKELATEKATLQRQLCEFESLICQRDAILSERTQQIEELKKTIEEYRSI 173 (193)
T ss_pred HhhhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence 3334444444443 4558899999999999999999986 46666666778888764
No 33
>COG4477 EzrA Negative regulator of septation ring formation [Cell division and chromosome partitioning]
Probab=29.50 E-value=2.5e+02 Score=25.23 Aligned_cols=72 Identities=19% Similarity=0.269 Sum_probs=58.7
Q ss_pred hHHHHHHHHcCCchHHHHHHHHHHHHHHHHH--------HHHHHHHhhHhHHHHHHHHHHhHHHHHhhccchhhhhhccc
Q psy17149 9 DEIVQEVVKTGTDLRQYSKQVEKELKDVENK--------SIQDYIKESENIVELHYQIQDCDNILEMSVLPPVLFHSIET 80 (98)
Q Consensus 9 d~vVkeaL~~G~DLreYs~qVE~eL~~~E~~--------SIqDYi~esenl~~Lh~QI~~CD~IL~rME~mL~~FQs~l~ 80 (98)
...-++++.++--+.+-+..+|++|..++-. |=-|||..++=+...-.++..--.+.+++=.++..-|-++.
T Consensus 149 ~elr~~vl~n~~~~Ge~~~~lEk~Le~i~~~l~qf~~lt~~Gd~ieA~evl~~~ee~~~~L~~~~e~IP~L~~e~~~~lP 228 (570)
T COG4477 149 EELRRDVLANRHQYGEAAPELEKKLENIEEELSQFVELTSSGDYIEAREVLEEAEEHMIALRSIMERIPSLLAELQTELP 228 (570)
T ss_pred HHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhch
Confidence 4567888889988888899999999886543 44489999999999999998888888888888877777664
No 34
>cd07666 BAR_SNX7 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 7. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. The specific function of SNX7 is still unknown. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=28.87 E-value=1.2e+02 Score=23.93 Aligned_cols=54 Identities=9% Similarity=0.132 Sum_probs=39.7
Q ss_pred chHHHHHHHHHHHHHHHHHHH------HHHHHhhHhHHHHHHHHHHhHHHHHhhccchhhhhh
Q psy17149 21 DLRQYSKQVEKELKDVENKSI------QDYIKESENIVELHYQIQDCDNILEMSVLPPVLFHS 77 (98)
Q Consensus 21 DLreYs~qVE~eL~~~E~~SI------qDYi~esenl~~Lh~QI~~CD~IL~rME~mL~~FQs 77 (98)
++++|+..++..|..+++-+. .+|.....++.-++.-...|..- |+.-|++|.+
T Consensus 58 Emkey~d~L~~~L~~ieki~~Rl~kr~~ey~~~~~~fgk~~~lws~~E~~---L~~~L~~~a~ 117 (243)
T cd07666 58 EMNEYVEAFSQKINVLDKISQRIYKEQREYFEELKEYGPIYTLWSASEEE---LADSLKGMAS 117 (243)
T ss_pred HHHHHHHHHHHHhhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHhccchh---hhHHHHHHHH
Confidence 489999999999999887665 48888887777777776666554 4455555544
No 35
>COG4663 FcbT1 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=28.38 E-value=1.5e+02 Score=25.09 Aligned_cols=52 Identities=15% Similarity=0.301 Sum_probs=44.0
Q ss_pred ChHHHHHHHHcCCchHHHHHHHHHHHHHHHHHHHHHHHHhhHhHHHHHHHHH
Q psy17149 8 DDEIVQEVVKTGTDLRQYSKQVEKELKDVENKSIQDYIKESENIVELHYQIQ 59 (98)
Q Consensus 8 ~d~vVkeaL~~G~DLreYs~qVE~eL~~~E~~SIqDYi~esenl~~Lh~QI~ 59 (98)
+..-+++.+..|+.||.|+..|=+-+.++-.+..+.+..+-+.+...+.+.+
T Consensus 289 n~~a~~~l~~~g~klr~f~~eIl~a~~e~~~e~~ae~aa~np~fKeI~esq~ 340 (363)
T COG4663 289 NPTALKELVAEGAKLRPFSQEILKACREASDEVYAEKAAKNPLFKEIYESQK 340 (363)
T ss_pred ChHHHHHHHhCCceeccCCHHHHHHHHHHHHHHHHHHhccChhHHHHHHHHH
Confidence 4566788888999999999999999999999999988888888777666554
No 36
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=28.26 E-value=55 Score=26.33 Aligned_cols=39 Identities=21% Similarity=0.123 Sum_probs=32.2
Q ss_pred hHhHHHHHHHHHHhHHHHHhhccchhhhhhcccccchhh
Q psy17149 48 SENIVELHYQIQDCDNILEMSVLPPVLFHSIETTDTIED 86 (98)
Q Consensus 48 senl~~Lh~QI~~CD~IL~rME~mL~~FQs~l~~~~~~~ 86 (98)
..++..|-.||.+.|.-+.+.+..|++.|+-+|--.+.=
T Consensus 14 ~~~L~rle~qi~q~~~~~~~~qs~l~~~~~r~tv~slAl 52 (251)
T COG5415 14 TADLSRLESQIHQLDVALKKSQSILSQWQSRLTVYSLAL 52 (251)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence 457788889999999999999999999999888655443
No 37
>PF01406 tRNA-synt_1e: tRNA synthetases class I (C) catalytic domain; InterPro: IPR015803 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. Cysteinyl-tRNA synthetase (6.1.1.16 from EC) is an alpha monomer and belongs to class Ia.; GO: 0000166 nucleotide binding, 0004817 cysteine-tRNA ligase activity, 0005524 ATP binding, 0006423 cysteinyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3SP1_B 3TQO_A 3C8Z_B 1LI5_B 1LI7_B 1U0B_B.
Probab=27.68 E-value=1e+02 Score=25.15 Aligned_cols=28 Identities=21% Similarity=0.487 Sum_probs=23.5
Q ss_pred ChHHHHHHHHcCCchHHHHHHHHHHHHH
Q psy17149 8 DDEIVQEVVKTGTDLRQYSKQVEKELKD 35 (98)
Q Consensus 8 ~d~vVkeaL~~G~DLreYs~qVE~eL~~ 35 (98)
+|.+|+.|.+.|++..++++..+++..+
T Consensus 57 DDKii~~A~~~g~~~~ela~~y~~~f~~ 84 (300)
T PF01406_consen 57 DDKIIKRAREEGVSPQELARRYEEEFFE 84 (300)
T ss_dssp SHHHHHHHHHTTS-HHHHHHHHHHHHHH
T ss_pred chHHHHHHHhccCCHHHHHHHHHHHHHH
Confidence 6999999999999999999988777543
No 38
>smart00510 TFS2M Domain in the central regions of transcription elongation factor S-II (and elsewhere).
Probab=27.49 E-value=1.6e+02 Score=20.00 Aligned_cols=40 Identities=13% Similarity=0.185 Sum_probs=29.9
Q ss_pred HHHHHHcCC-------chHHHHHHHHHHHHHHHHHHHHHHHHhhHhH
Q psy17149 12 VQEVVKTGT-------DLRQYSKQVEKELKDVENKSIQDYIKESENI 51 (98)
Q Consensus 12 VkeaL~~G~-------DLreYs~qVE~eL~~~E~~SIqDYi~esenl 51 (98)
+-+||+.|. +...+|.+||..+-.........|-...-+|
T Consensus 11 L~~al~~~~~~~~~~~~~~~lA~~IE~~lf~~~~~~~~~Yk~k~Rsl 57 (102)
T smart00510 11 LYKALQKISDPEEIELDPTELAVQIEAEMFSEFGTTDKKYKNKYRSL 57 (102)
T ss_pred HHHHHHhcCCCCcccccHHHHHHHHHHHHHHHcCCCcHHHHHHHHHH
Confidence 446666664 6788999999999877776777887766655
No 39
>PF06782 UPF0236: Uncharacterised protein family (UPF0236); InterPro: IPR009620 This is a group of proteins of unknown function.
Probab=26.94 E-value=2.1e+02 Score=24.27 Aligned_cols=42 Identities=12% Similarity=0.415 Sum_probs=36.1
Q ss_pred HHHHHHHHcCCchHHHHHHHHHHHHHHHHHHHHHHHHhhHhH
Q psy17149 10 EIVQEVVKTGTDLRQYSKQVEKELKDVENKSIQDYIKESENI 51 (98)
Q Consensus 10 ~vVkeaL~~G~DLreYs~qVE~eL~~~E~~SIqDYi~esenl 51 (98)
.++...++++.|+.++...|...+.++-.+.|..++++-++.
T Consensus 18 ~~~~~~~~~~~~~~ele~~~~~~~~~~~~~~i~~~le~~D~~ 59 (470)
T PF06782_consen 18 KVVEKLLENEKDFKELEEELKEILQELGREIIKEALEELDEE 59 (470)
T ss_pred HHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566789999999999999999999999999988887765
No 40
>cd00672 CysRS_core catalytic core domain of cysteinyl tRNA synthetase. Cysteinyl tRNA synthetase (CysRS) catalytic core domain. This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding.
Probab=26.86 E-value=1.2e+02 Score=22.86 Aligned_cols=28 Identities=21% Similarity=0.407 Sum_probs=23.8
Q ss_pred ChHHHHHHHHcCCchHHHHHHHHHHHHH
Q psy17149 8 DDEIVQEVVKTGTDLRQYSKQVEKELKD 35 (98)
Q Consensus 8 ~d~vVkeaL~~G~DLreYs~qVE~eL~~ 35 (98)
++.+++.|.+.|.+.++|+....+..++
T Consensus 69 g~ki~~~A~~~g~~p~e~~~~~~~~f~~ 96 (213)
T cd00672 69 DDKIIKRAREEGLSWKEVADYYTKEFFE 96 (213)
T ss_pred CCHHHHHHHHcCCCHHHHHHHHHHHHHH
Confidence 5789999999999999999888777654
No 41
>PF03496 ADPrib_exo_Tox: ADP-ribosyltransferase exoenzyme; InterPro: IPR003540 ADP-ribosylation is a posttranslational modification of proteins involving the addition of one or more ADP-ribose moieties [, ]. These reactions are involved in cell signaling and the control of many cell processes, including DNA repair and apoptosis [, ]. This entry represents an ADP-ribosyltransferase domain found in various proteins, including bacterial and viral toxins.; GO: 0009405 pathogenesis, 0005576 extracellular region; PDB: 2WN7_A 2WN5_A 2WN6_A 2WN4_A 2WN8_A 3NTS_B 1OJQ_A 1OJZ_A 1GZF_D 2BOV_B ....
Probab=25.43 E-value=1.8e+02 Score=20.83 Aligned_cols=45 Identities=31% Similarity=0.395 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH-hhHhH----------------HHHHHHHHHhHHHHHhh
Q psy17149 24 QYSKQVEKELKDVENKSIQDYIK-ESENI----------------VELHYQIQDCDNILEMS 68 (98)
Q Consensus 24 eYs~qVE~eL~~~E~~SIqDYi~-esenl----------------~~Lh~QI~~CD~IL~rM 68 (98)
++.+...+.|...|..+|.+|.. ....| ..+...|..-|++|+++
T Consensus 7 ~~~~~~~~~lt~~e~~ai~~Yt~~~y~~IN~~Lr~~~~~~~~~~~~~~~~~I~~ld~al~k~ 68 (190)
T PF03496_consen 7 KNYKEWKKSLTKEEKKAIEDYTGSGYRKINNYLRGNKGNIYQLDNEDLKKQIKNLDSALSKL 68 (190)
T ss_dssp HHHHHHHHTS-HHHHHHHHHHHHTTHHHHHHHHHCTTTSHHHCHHHHHHHHHHHHHHHHCTS
T ss_pred HHHHHHHhhCCHHHHHHHHHHhhcCHHHHHHHHHcCCCccccccHHHHHHHHHHHHHHHhhC
Confidence 34566777788888888888855 11111 45666777777777766
No 42
>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....
Probab=25.29 E-value=25 Score=23.09 Aligned_cols=13 Identities=31% Similarity=0.843 Sum_probs=10.3
Q ss_pred hhhhhhheecCCC
Q psy17149 84 IEDYRVLLVDQPS 96 (98)
Q Consensus 84 ~~~~~~~~~~~~~ 96 (98)
+.+-+++++|||+
T Consensus 124 ~~~~~llllDEPt 136 (137)
T PF00005_consen 124 LKNPKLLLLDEPT 136 (137)
T ss_dssp HTTSSEEEEESTT
T ss_pred HcCCCEEEEeCCC
Confidence 4567889999996
No 43
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=25.24 E-value=2.2e+02 Score=22.73 Aligned_cols=60 Identities=13% Similarity=0.143 Sum_probs=37.1
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHhhHhHHHHHHHHHHhHHHHHhhccchhhhhhccc
Q psy17149 21 DLRQYSKQVEKELKDVENKSIQDYIKESENIVELHYQIQDCDNILEMSVLPPVLFHSIET 80 (98)
Q Consensus 21 DLreYs~qVE~eL~~~E~~SIqDYi~esenl~~Lh~QI~~CD~IL~rME~mL~~FQs~l~ 80 (98)
.|+.+...++.++..+....=.-=.-..+.|..+..++...+.-++.+..-|...+..+.
T Consensus 181 ~l~~~~~~L~~e~~~Lk~~~~e~~~~D~~eL~~lr~eL~~~~~~i~~~k~~l~el~~el~ 240 (325)
T PF08317_consen 181 KLRERKAELEEELENLKQLVEEIESCDQEELEALRQELAEQKEEIEAKKKELAELQEELE 240 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467777777777766554432222233456677777777777777766666666665543
No 44
>PF01025 GrpE: GrpE; InterPro: IPR000740 Molecular chaperones are a diverse family of proteins that function to protect proteins in the intracellular milieu from irreversible aggregation during synthesis and in times of cellular stress. The bacterial molecular chaperone DnaK is an enzyme that couples cycles of ATP binding, hydrolysis, and ADP release by an N-terminal ATP-hydrolysing domain to cycles of sequestration and release of unfolded proteins by a C-terminal substrate binding domain. In prokaryotes the grpE protein. Dimeric GrpE is the co-chaperone for DnaK, and acts as a nucleotide exchange factor, stimulating the rate of ADP release 5000-fold []. DnaK is itself a weak ATPase; ATP hydrolysis by DnaK is stimulated by its interaction with another co-chaperone, DnaJ. Thus the co-chaperones DnaJ and GrpE are capable of tightly regulating the nucleotide-bound and substrate-bound state of DnaK in ways that are necessary for the normal housekeeping functions and stress-related functions of the DnaK molecular chaperone cycle. The X-ray crystal structure of GrpE in complex with the ATPase domain of DnaK revealed that GrpE is an asymmetric homodimer, bent in a manner that favours extensive contacts with only one DnaKATPase monomer []. GrpE does not actively compete for the atomic positions occupied by the nucleotide. GrpE and ADP mutually reduce one another's affinity for DnaK 200-fold, and ATP instantly dissociates GrpE from DnaK.; GO: 0000774 adenyl-nucleotide exchange factor activity, 0042803 protein homodimerization activity, 0051087 chaperone binding, 0006457 protein folding; PDB: 3A6M_A 4ANI_A 1DKG_B.
Probab=25.08 E-value=1.5e+02 Score=20.71 Aligned_cols=71 Identities=15% Similarity=0.311 Sum_probs=40.5
Q ss_pred cCCchHHHHHHHHHHHHHHHHHHHHHHHHhh----HhHHHHHHHH---HHhHHHHHhhccchhhhhhcccccchhhhh
Q psy17149 18 TGTDLRQYSKQVEKELKDVENKSIQDYIKES----ENIVELHYQI---QDCDNILEMSVLPPVLFHSIETTDTIEDYR 88 (98)
Q Consensus 18 ~G~DLreYs~qVE~eL~~~E~~SIqDYi~es----enl~~Lh~QI---~~CD~IL~rME~mL~~FQs~l~~~~~~~~~ 88 (98)
.--++.+|-+...++...+....++.++++- ++|....... ...+.+..+++.+...|..-|.+--|+-+.
T Consensus 37 ~~ae~en~~~r~~~e~~~~~~~~~~~~~~~ll~v~D~l~~a~~~~~~~~~~~~~~~g~~~~~~~l~~~L~~~Gv~~i~ 114 (165)
T PF01025_consen 37 LQAEFENYRKRLEKEKEEAKKYALEKFLKDLLPVLDNLERALEAAKSNEEEESLLEGLEMILKQLEDILEKNGVEEIE 114 (165)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCC-SHHCTCHHHHHHHHHHHHHHHHHHHTTTEEEE-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHHHHHHHCCCEecC
Confidence 3345667777777777776666666655543 3332222221 112566777777777777777665554443
No 45
>PF11248 DUF3046: Protein of unknown function (DUF3046); InterPro: IPR021408 This family of proteins with unknown function appears to be restricted to Actinobacteria.
Probab=24.72 E-value=44 Score=21.56 Aligned_cols=19 Identities=26% Similarity=0.435 Sum_probs=14.7
Q ss_pred cChHHHHHHHHcCCchHHH
Q psy17149 7 LDDEIVQEVVKTGTDLRQY 25 (98)
Q Consensus 7 ~~d~vVkeaL~~G~DLreY 25 (98)
+..-.+.+||+.|+|.|+-
T Consensus 31 LGgrT~~eAL~~G~dpr~V 49 (63)
T PF11248_consen 31 LGGRTAAEALEAGVDPRDV 49 (63)
T ss_pred cCCcCHHHHHHcCCCHHHH
Confidence 3445688999999998864
No 46
>PF14182 YgaB: YgaB-like protein
Probab=24.38 E-value=2.3e+02 Score=19.15 Aligned_cols=38 Identities=21% Similarity=0.352 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhHhHHHHHHHHHHhHHHHHhhcc
Q psy17149 24 QYSKQVEKELKDVENKSIQDYIKESENIVELHYQIQDCDNILEMSVL 70 (98)
Q Consensus 24 eYs~qVE~eL~~~E~~SIqDYi~esenl~~Lh~QI~~CD~IL~rME~ 70 (98)
+...+||++|..++..+ .+.+++.+|...-.-|..+..
T Consensus 24 ERCqeIE~eL~~l~~ea---------~l~~i~~EI~~mkk~Lk~Iq~ 61 (79)
T PF14182_consen 24 ERCQEIEKELKELEREA---------ELHSIQEEISQMKKELKEIQR 61 (79)
T ss_pred HHHHHHHHHHHHHHHHH---------hHHHHHHHHHHHHHHHHHHHH
Confidence 34678999998776654 344445555544444444443
No 47
>cd07658 F-BAR_NOSTRIN The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Nitric Oxide Synthase TRaffic INducer (NOSTRIN). F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Nitric Oxide Synthase TRaffic INducer (NOSTRIN) is expressed in endothelial and epithelial cells and is involved in the regulation, trafficking and targeting of endothelial NOS (eNOS). NOSTRIN facilitates the endocytosis of eNOS by coordinating the functions of dynamin and the Wiskott-Aldrich syndrome protein (WASP). Increased expression of NOSTRIN may be correlated to preeclampsia. NOSTRIN contains an N-terminal F-BAR domain and a C-terminal SH3 domain. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation in the form of long tubules. The F-BAR domain of NOSTRIN is necessary and sufficient fo
Probab=24.04 E-value=1.3e+02 Score=22.96 Aligned_cols=40 Identities=13% Similarity=0.148 Sum_probs=32.5
Q ss_pred HHHHHHHHHhhHhHHHHHHHHHHhHHHHHhhccchhhhhhcc
Q psy17149 38 NKSIQDYIKESENIVELHYQIQDCDNILEMSVLPPVLFHSIE 79 (98)
Q Consensus 38 ~~SIqDYi~esenl~~Lh~QI~~CD~IL~rME~mL~~FQs~l 79 (98)
..+......+.++++.+|.++. .+|...++.-|..|+.+.
T Consensus 61 ~~aw~~~~~e~e~~a~~H~~la--~~L~~ev~~~l~~~~~~~ 100 (239)
T cd07658 61 SSAWTCVAEEMESEADIHRNLG--SALTEEAIKPLRQVLDEQ 100 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHH
Confidence 3566778999999999998886 477778888888888864
No 48
>PF05531 NPV_P10: Nucleopolyhedrovirus P10 protein; InterPro: IPR008702 This family consists of several nucleopolyhedrovirus P10 proteins which are thought to be involved in the morphogenesis of the polyhedra [].; GO: 0019028 viral capsid
Probab=23.71 E-value=1.4e+02 Score=19.94 Aligned_cols=45 Identities=13% Similarity=0.146 Sum_probs=36.5
Q ss_pred HHHHHHHhhHhHHHHHHHHHHhHHHHHhhccchhhhhhcccccch
Q psy17149 40 SIQDYIKESENIVELHYQIQDCDNILEMSVLPPVLFHSIETTDTI 84 (98)
Q Consensus 40 SIqDYi~esenl~~Lh~QI~~CD~IL~rME~mL~~FQs~l~~~~~ 84 (98)
.|.+--...+++..|-..+..-..-|..++.-+...|+.|+.|++
T Consensus 26 ~V~~l~~~~~~v~~l~~klDa~~~~l~~l~~~V~~I~~iL~~~~~ 70 (75)
T PF05531_consen 26 QVDDLESNLPDVTELNKKLDAQSAQLTTLNTKVNEIQDILNPDIV 70 (75)
T ss_pred HHHHHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccC
Confidence 345556666778888888988888899999999999999997764
No 49
>PRK08453 fliD flagellar capping protein; Validated
Probab=23.45 E-value=4.8e+02 Score=23.78 Aligned_cols=53 Identities=11% Similarity=0.166 Sum_probs=33.6
Q ss_pred chHHHHHHHHHHHHHHHHHH--HHHHHHhhHhHHHHHHHHHHhHHHHHhhccchhhh
Q psy17149 21 DLRQYSKQVEKELKDVENKS--IQDYIKESENIVELHYQIQDCDNILEMSVLPPVLF 75 (98)
Q Consensus 21 DLreYs~qVE~eL~~~E~~S--IqDYi~esenl~~Lh~QI~~CD~IL~rME~mL~~F 75 (98)
-+..+...+.++++.++..- .++=+. .....|+.|....|..+++|..-++.-
T Consensus 618 ~l~~~~~sL~~q~k~L~~q~~~~e~rL~--~ry~rl~~qFsAmDs~IsqmNsq~~~~ 672 (673)
T PRK08453 618 KLKIYEDSLTRDAKSLTKDKENAQELLK--TRYDIMAERFAAYDSQISKANQKFNSV 672 (673)
T ss_pred eehhHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHhhhhcC
Confidence 46667777777777755432 332232 223567888888888888887665543
No 50
>cd07596 BAR_SNX The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=23.27 E-value=2.7e+02 Score=19.50 Aligned_cols=51 Identities=16% Similarity=0.166 Sum_probs=43.5
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHhhHhHHHHHHHHHHhHHHHHhhccc
Q psy17149 20 TDLRQYSKQVEKELKDVENKSIQDYIKESENIVELHYQIQDCDNILEMSVLP 71 (98)
Q Consensus 20 ~DLreYs~qVE~eL~~~E~~SIqDYi~esenl~~Lh~QI~~CD~IL~rME~m 71 (98)
.+.++|.+.++..|+.+. .++..+++....++.-+.++..|=.-|+..|.-
T Consensus 7 ~~~~~~v~~le~~l~~l~-~~~~~~~k~~~~l~~~~~elg~~~~~Ls~~e~~ 57 (218)
T cd07596 7 EEAKDYILKLEEQLKKLS-KQAQRLVKRRRELGSALGEFGKALIKLAKCEEE 57 (218)
T ss_pred HHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 357899999999999887 677889999999999999999988888887754
No 51
>PF02861 Clp_N: Clp amino terminal domain; InterPro: IPR004176 This short domain is found in one or two copies at the amino terminus of ClpA and ClpB proteins from bacteria and eukaryotes. The function of these domains is uncertain but they may form a protein binding site []. The proteins are thought to be subunits of ATP-dependent proteases which act as chaperones to target the proteases to substrates.; GO: 0019538 protein metabolic process; PDB: 3FH2_A 3ZRJ_A 3ZRI_A 1QVR_C 3FES_C 2Y1R_F 3PXG_D 2Y1Q_A 3PXI_C 2K77_A ....
Probab=23.18 E-value=1.2e+02 Score=16.79 Aligned_cols=24 Identities=33% Similarity=0.504 Sum_probs=18.8
Q ss_pred HHHHHHHH-cCCchHHHHHHHHHHH
Q psy17149 10 EIVQEVVK-TGTDLRQYSKQVEKEL 33 (98)
Q Consensus 10 ~vVkeaL~-~G~DLreYs~qVE~eL 33 (98)
..+.++|+ .|+|..+..+.|++.+
T Consensus 28 ~~~~~il~~~~id~~~l~~~i~~~l 52 (53)
T PF02861_consen 28 SIAARILKKLGIDPEQLKAAIEKAL 52 (53)
T ss_dssp SHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHh
Confidence 37777774 8899999888888765
No 52
>cd07650 F-BAR_Syp1p_like The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of yeast Syp1 protein. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Syp1p is associated with septins, a family of GTP-binding proteins that serve as elements of septin filaments, which are required for cell morphogenesis and division. Syp1p regulates cell-cycle dependent septin cytoskeletal dynamics in yeast. It contains an N-terminal F-BAR domain and a C-terminal domain of unknown function named SAFF which is also present in FCH domain Only (FCHO) proteins and endophilin interacting protein 1. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation in the form of long tubules.
Probab=22.97 E-value=2.5e+02 Score=21.26 Aligned_cols=39 Identities=18% Similarity=0.070 Sum_probs=33.1
Q ss_pred HHHHHHHHHhhHhHHHHHHHHHHhHHHHHhhccchhhhhhc
Q psy17149 38 NKSIQDYIKESENIVELHYQIQDCDNILEMSVLPPVLFHSI 78 (98)
Q Consensus 38 ~~SIqDYi~esenl~~Lh~QI~~CD~IL~rME~mL~~FQs~ 78 (98)
..+......+.++++..|.+|.. .+-+.++..+..|++.
T Consensus 61 ~~~w~~i~~e~e~~a~~H~~la~--~l~~~ve~~l~~~~~~ 99 (228)
T cd07650 61 QNPWLTIESETEFIAASHGELAQ--RIETDVEEPLRDFATS 99 (228)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHhc
Confidence 37778889999999999999874 7778888888888875
No 53
>PF04233 Phage_Mu_F: Phage Mu protein F like protein; InterPro: IPR006528 This domain is found exclusively in phage-related proteins, internally or toward the C terminus. Some of these proteins have been identified as being involved in phage head morphogenesis [, ].
Probab=22.73 E-value=1.5e+02 Score=19.06 Aligned_cols=25 Identities=12% Similarity=0.236 Sum_probs=21.5
Q ss_pred HHHHHHHHcCCchHHHHHHHHHHHH
Q psy17149 10 EIVQEVVKTGTDLRQYSKQVEKELK 34 (98)
Q Consensus 10 ~vVkeaL~~G~DLreYs~qVE~eL~ 34 (98)
..|.+++.+|...++.++.|.+..+
T Consensus 5 ~~v~~~i~~G~~~~~~~~~l~~~~~ 29 (112)
T PF04233_consen 5 QAVTQGIERGKSPQEIAKRLRDRGG 29 (112)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHhC
Confidence 5688999999999999999888853
No 54
>PF05008 V-SNARE: Vesicle transport v-SNARE protein N-terminus; InterPro: IPR007705 V-SNARE proteins are required for protein traffic between eukaryotic organelles. The v-SNAREs on transport vesicles interact with t-SNAREs on target membranes in order to facilitate this []. This domain is the N-terminal half of the V-Snare proteins. ; GO: 0006886 intracellular protein transport, 0016020 membrane; PDB: 2V8S_V 1VCS_A 3ONL_C 3ONJ_A 2QYW_A.
Probab=22.44 E-value=1.1e+02 Score=19.01 Aligned_cols=26 Identities=15% Similarity=0.247 Sum_probs=16.5
Q ss_pred hHhHHHHHHHHHHhHHHHHhhccchh
Q psy17149 48 SENIVELHYQIQDCDNILEMSVLPPV 73 (98)
Q Consensus 48 senl~~Lh~QI~~CD~IL~rME~mL~ 73 (98)
..-+......|.+|+.+|.+||-=+.
T Consensus 24 ~~~i~~~e~~l~ea~~~l~qMe~E~~ 49 (79)
T PF05008_consen 24 KSLIREIERDLDEAEELLKQMELEVR 49 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455666667777777777764443
No 55
>COG0410 LivF ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]
Probab=22.23 E-value=32 Score=27.41 Aligned_cols=14 Identities=36% Similarity=0.645 Sum_probs=11.3
Q ss_pred hhhhhhheecCCCC
Q psy17149 84 IEDYRVLLVDQPSI 97 (98)
Q Consensus 84 ~~~~~~~~~~~~~~ 97 (98)
+-.-++||+||||.
T Consensus 152 m~~PklLLLDEPs~ 165 (237)
T COG0410 152 MSRPKLLLLDEPSE 165 (237)
T ss_pred hcCCCEEEecCCcc
Confidence 45668999999985
No 56
>KOG0095|consensus
Probab=22.11 E-value=64 Score=25.07 Aligned_cols=83 Identities=16% Similarity=0.205 Sum_probs=53.4
Q ss_pred ccccccChHHHHHHHHcCCch---HHHHHHHHHHHHHHHH-HHHHHHHHhhHhHHHHHHHHHHhHHH-HHhhccchhhhh
Q psy17149 2 ESSKLLDDEIVQEVVKTGTDL---RQYSKQVEKELKDVEN-KSIQDYIKESENIVELHYQIQDCDNI-LEMSVLPPVLFH 76 (98)
Q Consensus 2 ~i~~~~~d~vVkeaL~~G~DL---reYs~qVE~eL~~~E~-~SIqDYi~esenl~~Lh~QI~~CD~I-L~rME~mL~~FQ 76 (98)
+|+.|++..+++-...|-+|+ |+-..||..+..+++- .-...-.++++|+..|.-++.. --| -.|.-...+.|-
T Consensus 104 eie~yan~kvlkilvgnk~d~~drrevp~qigeefs~~qdmyfletsakea~nve~lf~~~a~-rli~~ar~~d~v~~~~ 182 (213)
T KOG0095|consen 104 EIEQYANNKVLKILVGNKIDLADRREVPQQIGEEFSEAQDMYFLETSAKEADNVEKLFLDLAC-RLISEARQNDLVNNVS 182 (213)
T ss_pred HHHHHhhcceEEEeeccccchhhhhhhhHHHHHHHHHhhhhhhhhhcccchhhHHHHHHHHHH-HHHHHHHhccchhhcc
Confidence 466777777776555677776 5668899999877632 2233446789999888887743 222 234445566777
Q ss_pred hcccccchh
Q psy17149 77 SIETTDTIE 85 (98)
Q Consensus 77 s~l~~~~~~ 85 (98)
+..+|..-+
T Consensus 183 a~a~~~~se 191 (213)
T KOG0095|consen 183 APAPNSSSE 191 (213)
T ss_pred ccCccccCC
Confidence 777665433
No 57
>PF06969 HemN_C: HemN C-terminal domain; InterPro: IPR010723 Proteins containing this domain are all oxygen-independent coproporphyrinogen-III oxidases (HemN). This enzyme catalyses the oxygen-independent conversion of coproporphyrinogen-III to protoporphyrinogen-IX [], one of the last steps in haem biosynthesis. The function of this domain is unclear, but comparison to other proteins containing a radical SAM domain suggest it may be a substrate binding domain.; GO: 0004109 coproporphyrinogen oxidase activity, 0006779 porphyrin-containing compound biosynthetic process, 0055114 oxidation-reduction process, 0005737 cytoplasm; PDB: 1OLT_A.
Probab=21.81 E-value=71 Score=18.97 Aligned_cols=31 Identities=13% Similarity=0.398 Sum_probs=20.1
Q ss_pred HcCCchHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy17149 17 KTGTDLRQYSKQVEKELKDVENKSIQDYIKE 47 (98)
Q Consensus 17 ~~G~DLreYs~qVE~eL~~~E~~SIqDYi~e 47 (98)
..|+|+..|.+.-..++.+.-...++.|.++
T Consensus 18 ~~Gi~~~~~~~~~g~~~~~~~~~~l~~l~~~ 48 (66)
T PF06969_consen 18 NEGIDLSEFEQRFGIDFAEEFQKELEELQED 48 (66)
T ss_dssp HSEEEHHHHHHHTT--THHH-HHHHHHHHHT
T ss_pred HCCcCHHHHHHHHCcCHHHHHHHHHHHHHHC
Confidence 4799999999987777666555556665543
No 58
>smart00528 HNS Domain in histone-like proteins of HNS family.
Probab=21.71 E-value=80 Score=18.90 Aligned_cols=17 Identities=12% Similarity=0.413 Sum_probs=14.3
Q ss_pred hHHHHHHHHcCCchHHH
Q psy17149 9 DEIVQEVVKTGTDLRQY 25 (98)
Q Consensus 9 d~vVkeaL~~G~DLreY 25 (98)
..-++++|++|.++.+|
T Consensus 28 P~W~~~~l~~G~~~e~f 44 (46)
T smart00528 28 PRWLAAALDSGKSLEDF 44 (46)
T ss_pred CHHHHHHHHcCCCHHHh
Confidence 45688999999998876
No 59
>PF01221 Dynein_light: Dynein light chain type 1 ; InterPro: IPR001372 Dynein is a multisubunit microtubule-dependent motor enzyme that acts as the force generating protein of eukaryotic cilia and flagella. The cytoplasmic isoform of dynein acts as a motor for the intracellular retrograde motility of vesicles and organelles along microtubules. Dynein is composed of a number of ATP-binding large subunits (see IPR004273 from INTERPRO), intermediate size subunits and small subunits. Among the small subunits, there is a family of highly conserved proteins which make up this family [, ]. Both type 1 (DLC1) and 2 (DLC2) dynein light chains have a similar two-layer alpha-beta core structure consisting of beta-alpha(2)-beta-X-beta(2) [, ].; GO: 0007017 microtubule-based process, 0005875 microtubule associated complex; PDB: 1F95_A 1F96_A 1F3C_A 3P8M_B 2XQQ_C 1RE6_A 1CMI_A 1PWK_A 1PWJ_A 4DS1_C ....
Probab=21.65 E-value=2e+02 Score=18.48 Aligned_cols=26 Identities=23% Similarity=0.418 Sum_probs=19.6
Q ss_pred HHHHHHHHcCCchHHHHHHHHHHHHH
Q psy17149 10 EIVQEVVKTGTDLRQYSKQVEKELKD 35 (98)
Q Consensus 10 ~vVkeaL~~G~DLreYs~qVE~eL~~ 35 (98)
+++++|+++-.+.++-|+.|.+.|..
T Consensus 23 ~~~~~a~~~~~~~~eiA~~iK~~lD~ 48 (89)
T PF01221_consen 23 ELAKEALKKYQDEKEIAEFIKQELDK 48 (89)
T ss_dssp HHHHHHHHHCSSHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHCCcHHHHHHHHHHHHhc
Confidence 35677788877888888888877754
No 60
>PF12169 DNA_pol3_gamma3: DNA polymerase III subunits gamma and tau domain III; InterPro: IPR022754 This domain is found in bacteria and eukaryotes, and is approximately 110 amino acids in length. It is found in association with PF00004 from PFAM. This domain is also present in the tau subunit before it undergoes cleavage. Domains I-III are shared between the tau and the gamma subunits, while most of the DnaB-binding Domain IV and all of the alpha-interacting Domain V are unique to tau. ; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G.
Probab=21.31 E-value=1.9e+02 Score=19.38 Aligned_cols=29 Identities=24% Similarity=0.475 Sum_probs=21.1
Q ss_pred HHHHHHHHcCCchHHHHHHHHHHHHHHHH
Q psy17149 10 EIVQEVVKTGTDLRQYSKQVEKELKDVEN 38 (98)
Q Consensus 10 ~vVkeaL~~G~DLreYs~qVE~eL~~~E~ 38 (98)
..+++++.+|.|++.+..++-.-++.+=.
T Consensus 35 ~~~~~l~~~G~d~~~~l~~L~~~~R~ll~ 63 (143)
T PF12169_consen 35 ELLNELLEQGKDPKQFLDDLIEYLRDLLL 63 (143)
T ss_dssp HHHHHHHHCT--HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhCCCHHHHHHHHHHHHHHHHH
Confidence 35778889999999999988877776433
No 61
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=21.12 E-value=3.3e+02 Score=19.73 Aligned_cols=62 Identities=19% Similarity=0.169 Sum_probs=38.1
Q ss_pred HHcCCchHHHHHHHHHHHHHHHHHHHHHHHHhhHhHHHHHHHHHHhHHHHHhhccchhhhhh
Q psy17149 16 VKTGTDLRQYSKQVEKELKDVENKSIQDYIKESENIVELHYQIQDCDNILEMSVLPPVLFHS 77 (98)
Q Consensus 16 L~~G~DLreYs~qVE~eL~~~E~~SIqDYi~esenl~~Lh~QI~~CD~IL~rME~mL~~FQs 77 (98)
......++...+|.++.-+..+...-.+.-+..+.+..|.+++...+.=.+.|-.-..+++.
T Consensus 128 ~~~~~~~~~~~kq~~~~~~~~~~~~~~~~~~~~~ei~~lk~el~~~~~~~~~LkkQ~~~l~~ 189 (192)
T PF05529_consen 128 IKLEEKLEALKKQAESASEAAEKLLKEENKKLSEEIEKLKKELEKKEKEIEALKKQSEGLQK 189 (192)
T ss_pred HHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 33333444455555544444444334455667788888888888888777777666655554
No 62
>PF15604 Toxin_43: Putative toxin 43
Probab=20.78 E-value=1.8e+02 Score=21.69 Aligned_cols=33 Identities=15% Similarity=0.580 Sum_probs=28.2
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHhhHhHH
Q psy17149 20 TDLRQYSKQVEKELKDVENKSIQDYIKESENIV 52 (98)
Q Consensus 20 ~DLreYs~qVE~eL~~~E~~SIqDYi~esenl~ 52 (98)
.|..+|.+|...+=.-+-.-+|++|++..+.+.
T Consensus 3 ~~~~EF~RQLk~Qe~GlN~ltv~eyl~nR~~y~ 35 (152)
T PF15604_consen 3 SDIKEFDRQLKGQEDGLNNLTVEEYLENREAYI 35 (152)
T ss_pred ccHHHHHHHHHHHHHHHhhCCHHHHHHHHHHHH
Confidence 366799999999988899999999999977664
No 63
>cd07681 F-BAR_PACSIN3 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Protein kinase C and Casein kinase Substrate in Neurons 3 (PACSIN3). F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Protein kinase C and Casein kinase Substrate in Neurons (PACSIN) proteins, also called Synaptic dynamin-associated proteins (Syndapins), act as regulators of cytoskeletal and membrane dynamics. Vetebrates harbor three isoforms with distinct expression patterns and specific functions. PACSIN 3 or Syndapin III is expressed ubiquitously and regulates glucose uptake in adipocytes through its role in GLUT1 trafficking. It also modulates the subcellular localization and stimulus-specific function of the cation channel TRPV4. PACSIN 3 contains an N-terminal F-BAR domain and a C-terminal SH3 domain. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to
Probab=20.40 E-value=2e+02 Score=22.88 Aligned_cols=22 Identities=18% Similarity=0.596 Sum_probs=19.1
Q ss_pred HHHHHHHHhhHhHHHHHHHHHH
Q psy17149 39 KSIQDYIKESENIVELHYQIQD 60 (98)
Q Consensus 39 ~SIqDYi~esenl~~Lh~QI~~ 60 (98)
.|..-+..+.++++.+|.++..
T Consensus 64 ~sw~~~~~e~E~ia~~H~~l~~ 85 (258)
T cd07681 64 KAWHAFLTAAERLSEIHLELRE 85 (258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4667789999999999999876
No 64
>KOG3366|consensus
Probab=20.38 E-value=4e+02 Score=20.40 Aligned_cols=62 Identities=31% Similarity=0.350 Sum_probs=38.6
Q ss_pred HHH-cCCchHHHHHHHHHHHHHHHHHHHHHHHHhhHhHHHHHHHHHHhHHHHHhhccchhhhhhcccccchhhhh
Q psy17149 15 VVK-TGTDLRQYSKQVEKELKDVENKSIQDYIKESENIVELHYQIQDCDNILEMSVLPPVLFHSIETTDTIEDYR 88 (98)
Q Consensus 15 aL~-~G~DLreYs~qVE~eL~~~E~~SIqDYi~esenl~~Lh~QI~~CD~IL~rME~mL~~FQs~l~~~~~~~~~ 88 (98)
+|+ -++|...|.++|+.+-+.+ ...|..|...| -++|++.-.-|+.|++|.- | ..=|+|||+
T Consensus 77 slk~v~~~~~ky~~~vda~~k~~-~~~~ke~~~~s------~~~iq~l~k~le~v~~~~P-~----demT~ed~~ 139 (172)
T KOG3366|consen 77 SLKPVPVDEDKYLKEVDAEEKAA-VKEIKEYESLS------KKRIQELEKELEKVKSARP-F----DEMTMEDLN 139 (172)
T ss_pred hccccCCCHHHHHHHhhHHHHHH-HHHHHHHHHHH------HHHHHHHHHHHHHHHhcCC-c----ccccHHHHH
Confidence 455 7899999999998776432 33444443333 2457777777777877765 2 233555554
Done!