Query psy10068
Match_columns 157
No_of_seqs 57 out of 59
Neff 2.3
Searched_HMMs 46136
Date Fri Aug 16 17:04:06 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy10068.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/10068hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd07682 F-BAR_srGAP2 The F-BAR 99.9 2.8E-27 6E-32 200.3 7.0 88 5-92 1-91 (263)
2 cd07684 F-BAR_srGAP3 The F-BAR 99.9 5.8E-27 1.3E-31 197.3 7.0 88 5-92 1-91 (253)
3 cd07683 F-BAR_srGAP1 The F-BAR 99.9 1.5E-26 3.2E-31 194.8 6.2 89 5-93 1-93 (253)
4 cd07656 F-BAR_srGAP The F-BAR 99.8 2.4E-21 5.2E-26 158.4 6.5 88 5-92 1-89 (241)
5 cd07654 F-BAR_FCHSD The F-BAR 99.6 3.2E-16 7E-21 130.4 6.3 84 7-90 3-87 (264)
6 cd07678 F-BAR_FCHSD1 The F-BAR 99.5 2.3E-14 5E-19 120.5 7.2 79 6-85 2-84 (263)
7 PF00611 FCH: Fes/CIP4, and EF 99.3 3.1E-12 6.7E-17 85.7 4.6 79 3-86 3-81 (91)
8 cd07677 F-BAR_FCHSD2 The F-BAR 99.2 8.5E-12 1.9E-16 105.7 5.8 70 19-88 4-85 (260)
9 smart00055 FCH Fes/CIP4 homolo 99.2 5.7E-11 1.2E-15 80.4 7.0 76 6-87 6-82 (87)
10 cd07653 F-BAR_CIP4-like The F- 99.2 6E-11 1.3E-15 93.7 6.2 80 6-89 2-81 (251)
11 cd07610 FCH_F-BAR The Extended 99.0 5E-10 1.1E-14 83.8 5.8 72 11-89 2-73 (191)
12 cd07657 F-BAR_Fes_Fer The F-BA 99.0 1.5E-09 3.3E-14 88.8 7.1 70 13-87 9-79 (237)
13 cd07686 F-BAR_Fer The F-BAR (F 98.6 9.5E-08 2.1E-12 79.5 6.5 77 2-87 2-79 (234)
14 cd07676 F-BAR_FBP17 The F-BAR 98.5 3.6E-07 7.8E-12 75.6 7.5 76 6-83 2-77 (253)
15 cd07652 F-BAR_Rgd1 The F-BAR ( 98.3 2.6E-06 5.6E-11 69.3 7.9 70 12-85 8-77 (234)
16 cd07655 F-BAR_PACSIN The F-BAR 98.3 1.7E-06 3.7E-11 70.8 6.0 75 11-90 7-81 (258)
17 cd07675 F-BAR_FNBP1L The F-BAR 98.3 2.6E-06 5.5E-11 71.7 6.7 73 6-82 2-75 (252)
18 cd07648 F-BAR_FCHO The F-BAR ( 98.2 2.3E-06 5.1E-11 69.0 5.9 68 12-89 8-76 (261)
19 cd07651 F-BAR_PombeCdc15_like 98.2 3.3E-06 7E-11 67.4 5.6 70 11-89 7-76 (236)
20 cd07658 F-BAR_NOSTRIN The F-BA 98.0 2.5E-05 5.4E-10 63.6 8.1 71 12-89 8-78 (239)
21 cd07647 F-BAR_PSTPIP The F-BAR 98.0 1.9E-05 4E-10 63.7 6.9 69 12-89 8-76 (239)
22 cd07680 F-BAR_PACSIN1 The F-BA 97.9 4.4E-05 9.5E-10 64.3 7.4 75 11-91 7-82 (258)
23 cd07672 F-BAR_PSTPIP2 The F-BA 97.6 0.00015 3.2E-09 59.8 6.2 70 12-89 8-77 (240)
24 cd07674 F-BAR_FCHO1 The F-BAR 97.5 0.00032 7E-09 57.5 7.2 67 13-89 9-76 (261)
25 cd07649 F-BAR_GAS7 The F-BAR ( 97.5 0.00029 6.4E-09 58.0 6.1 68 12-89 8-76 (233)
26 cd07673 F-BAR_FCHO2 The F-BAR 97.4 0.0004 8.6E-09 57.8 6.2 61 13-83 16-77 (269)
27 cd07650 F-BAR_Syp1p_like The F 97.3 0.00079 1.7E-08 54.6 6.5 46 9-54 5-50 (228)
28 cd07671 F-BAR_PSTPIP1 The F-BA 97.2 0.00078 1.7E-08 55.7 6.0 69 12-89 8-76 (242)
29 cd07681 F-BAR_PACSIN3 The F-BA 97.0 0.0015 3.3E-08 55.4 6.1 72 12-89 8-80 (258)
30 cd07679 F-BAR_PACSIN2 The F-BA 96.9 0.0047 1E-07 52.8 7.7 73 12-89 8-80 (258)
31 KOG3565|consensus 93.8 0.13 2.8E-06 48.8 5.7 49 6-54 11-59 (640)
32 cd07685 F-BAR_Fes The F-BAR (F 91.1 0.65 1.4E-05 39.9 6.1 86 13-108 9-97 (237)
33 KOG2398|consensus 89.1 0.37 8E-06 45.6 3.3 29 24-52 7-35 (611)
34 KOG2856|consensus 82.7 3.6 7.8E-05 38.5 6.2 69 17-90 22-90 (472)
35 PF14772 NYD-SP28: Sperm tail 69.3 27 0.00059 25.0 6.5 46 2-50 55-100 (104)
36 cd07291 PX_SNX5 The phosphoino 66.0 9.8 0.00021 30.7 3.9 33 29-61 91-126 (141)
37 COG4003 Uncharacterized protei 54.9 9 0.00019 29.5 1.9 22 27-48 52-73 (98)
38 PF07138 DUF1386: Protein of u 51.6 33 0.00072 31.1 5.2 95 1-114 110-207 (324)
39 PF00956 NAP: Nucleosome assem 49.1 68 0.0015 26.1 6.2 53 30-83 20-81 (244)
40 PTZ00007 (NAP-L) nucleosome as 46.8 89 0.0019 28.0 7.0 61 22-82 40-110 (337)
41 PF10550 Toxin_36: Conantokin- 44.0 23 0.0005 19.3 1.9 13 39-51 2-14 (15)
42 KOG3612|consensus 39.5 45 0.00099 32.4 4.3 38 33-70 493-532 (588)
43 PF09868 DUF2095: Uncharacteri 32.2 36 0.00079 27.4 2.1 24 26-49 81-104 (128)
44 cd06892 PX_SNX5_like The phosp 30.6 56 0.0012 26.1 3.0 32 30-61 92-126 (141)
45 PF13066 DUF3929: Protein of u 27.8 75 0.0016 22.9 2.9 25 25-55 11-35 (65)
46 PF04484 DUF566: Family of unk 27.3 2.6E+02 0.0055 24.5 6.7 28 28-55 219-246 (311)
47 PRK09413 IS2 repressor TnpA; R 26.7 1.3E+02 0.0027 22.1 4.1 30 10-39 82-111 (121)
48 PF08627 CRT-like: CRT-like; 26.5 28 0.0006 28.0 0.6 20 94-113 8-27 (130)
49 PF10168 Nup88: Nuclear pore c 26.2 3.4E+02 0.0073 26.5 7.8 45 3-54 559-603 (717)
50 PF04108 APG17: Autophagy prot 25.8 4.2E+02 0.009 23.7 7.8 52 17-68 326-391 (412)
51 PF07956 DUF1690: Protein of U 25.6 3.3E+02 0.0072 21.4 8.3 18 66-83 122-139 (142)
52 PF15539 CAF1-p150_C2: CAF1 co 24.5 48 0.001 29.8 1.7 76 68-151 168-245 (292)
53 PF01388 ARID: ARID/BRIGHT DNA 24.4 57 0.0012 22.3 1.8 23 16-38 2-24 (92)
54 PF07544 Med9: RNA polymerase 24.3 1.4E+02 0.003 21.1 3.8 22 9-30 59-80 (83)
55 PF14235 DUF4337: Domain of un 24.2 3.7E+02 0.0079 21.4 6.9 51 21-72 68-118 (157)
56 PF09457 RBD-FIP: FIP domain ; 23.7 2.3E+02 0.005 18.9 4.5 28 5-32 3-30 (48)
57 PF12668 DUF3791: Protein of u 23.0 71 0.0015 21.2 2.0 21 16-36 42-62 (62)
58 PF05511 ATP-synt_F6: Mitochon 22.5 92 0.002 23.8 2.7 35 20-54 37-82 (99)
59 PF14942 Muted: Organelle biog 22.3 1.6E+02 0.0035 23.3 4.2 28 29-56 114-141 (145)
60 PF08706 D5_N: D5 N terminal l 22.2 2.8E+02 0.0061 19.3 5.3 28 99-126 99-126 (150)
61 COG3418 Flagellar biosynthesis 21.3 1.4E+02 0.0031 24.4 3.7 43 13-55 39-86 (146)
62 cd07292 PX_SNX6 The phosphoino 21.2 1.6E+02 0.0036 23.8 4.0 34 29-62 91-127 (141)
63 PF11285 DUF3086: Protein of u 20.0 2.8E+02 0.006 25.0 5.5 51 8-61 3-53 (283)
No 1
>cd07682 F-BAR_srGAP2 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Slit-Robo GTPase Activating Protein 2. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Slit-Robo GTPase Activating Proteins (srGAPs) are Rho GAPs that interact with Robo1, the transmembrane receptor of Slit proteins. Slit proteins are secreted proteins that control axon guidance and the migration of neurons and leukocytes. Vertebrates contain three isoforms of srGAPs. srGAP2 is expressed in zones of neuronal differentiation. It plays a role in the regeneration of neurons and axons. srGAP2 contains an N-terminal F-BAR domain, a Rho GAP 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.
Probab=99.94 E-value=2.8e-27 Score=200.26 Aligned_cols=88 Identities=32% Similarity=0.533 Sum_probs=82.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH---HhhhhhccCCCCcchhHHHHHhh
Q psy10068 5 LQLNEQLRCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHK---EQKQNELDNNVNSLGYQYEVEDL 81 (157)
Q Consensus 5 ~QL~EQLKcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K---~~k~krdqw~lss~~~W~~lL~~ 81 (157)
+||+|||||||+|+|.++++|+||+|||||||+||.|||++|+|||++|..|+. ....++++|.+++++||+.||++
T Consensus 1 ~ql~eQlkcld~q~e~~i~lLqDLqdFyRrRAeIE~EYS~~L~KLA~~f~~K~~~~~~~~s~~d~~~~Sp~~~W~~lL~Q 80 (263)
T cd07682 1 AQLVEQLKCLDQQCELRVQLLQDLQDFFRKKAEIEMDYSRNLEKLAERFLAKTRSTKDQQFKKDQNVLSPVNCWNLLLNQ 80 (263)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccCCCCccCHHHHHHHHHHH
Confidence 599999999999999999999999999999999999999999999999999985 34568999999999999999999
Q ss_pred hhhhccCcCCC
Q psy10068 82 SMKSTSGKASP 92 (157)
Q Consensus 82 t~~~~~g~asp 92 (157)
|+..+..|++-
T Consensus 81 T~~~Skdh~~L 91 (263)
T cd07682 81 VKRESRDHATL 91 (263)
T ss_pred HHHHHHHHHHH
Confidence 99999887654
No 2
>cd07684 F-BAR_srGAP3 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Slit-Robo GTPase Activating Protein 3. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Slit-Robo GTPase Activating Proteins (srGAPs) are Rho GAPs that interact with Robo1, the transmembrane receptor of Slit proteins. Slit proteins are secreted proteins that control axon guidance and the migration of neurons and leukocytes. Vertebrates contain three isoforms of srGAPs. srGAP3, also called MEGAP (MEntal disorder associated GTPase-Activating Protein), is a Rho GAP with activity towards Rac1 and Cdc42. It impacts cell migration by regulating actin and microtubule cytoskeletal dynamics. The association between srGAP3 haploinsufficiency and mental retardation is under debate. srGAP3 contains an N-terminal F-BAR domain, a Rho GAP domain, and a C-terminal SH3 domain. F-BAR domains form banana-shaped dimers wit
Probab=99.94 E-value=5.8e-27 Score=197.34 Aligned_cols=88 Identities=28% Similarity=0.526 Sum_probs=80.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHh---hhhhccCCCCcchhHHHHHhh
Q psy10068 5 LQLNEQLRCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQ---KQNELDNNVNSLGYQYEVEDL 81 (157)
Q Consensus 5 ~QL~EQLKcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~---k~krdqw~lss~~~W~~lL~~ 81 (157)
.||+|||||||+|+|.++++|+||+||||||||||.|||++|+|||++|..|++.. ..+++++.+++++||+.||++
T Consensus 1 ~ql~eQlkcld~~~e~~i~~LqDLqdFyRrRAeIE~EYS~~L~KLA~~f~~K~~~~~~~~s~~d~~~~Sp~~~W~~lL~Q 80 (253)
T cd07684 1 TQLVEQFKCLEQQSESRLQLLQDLQEFFRRKAEIELEYSRSLEKLAERFSSKIRTSREHQFKKDQQLLSPVNCWYLVLEQ 80 (253)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccccccCCCCccCHHHHHHHHHHH
Confidence 49999999999999999999999999999999999999999999999999997543 357888888888999999999
Q ss_pred hhhhccCcCCC
Q psy10068 82 SMKSTSGKASP 92 (157)
Q Consensus 82 t~~~~~g~asp 92 (157)
|+..+..|++-
T Consensus 81 T~~iskdh~~L 91 (253)
T cd07684 81 TRRESRDHATL 91 (253)
T ss_pred HHHHHHHHHHH
Confidence 99999887654
No 3
>cd07683 F-BAR_srGAP1 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Slit-Robo GTPase Activating Protein 1. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Slit-Robo GTPase Activating Proteins (srGAPs) are Rho GAPs that interact with Robo1, the transmembrane receptor of Slit proteins. Slit proteins are secreted proteins that control axon guidance and the migration of neurons and leukocytes. Vertebrates contain three isoforms of srGAPs. srGAP1, also called Rho GTPase-Activating Protein 13 (ARHGAP13), is a Cdc42- and RhoA-specific GAP and is expressed later in the development of CNS (central nervous system) tissues. It is an important downstream signaling molecule of Robo1. srGAP1 contains an N-terminal F-BAR domain, a Rho GAP domain, and a C-terminal SH3 domain. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-cha
Probab=99.93 E-value=1.5e-26 Score=194.81 Aligned_cols=89 Identities=28% Similarity=0.509 Sum_probs=81.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH---Hh-hhhhccCCCCcchhHHHHHh
Q psy10068 5 LQLNEQLRCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHK---EQ-KQNELDNNVNSLGYQYEVED 80 (157)
Q Consensus 5 ~QL~EQLKcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K---~~-k~krdqw~lss~~~W~~lL~ 80 (157)
.||+|||||||+|+|.++++|+||+|||||||+||.|||++|+|||++|..|++ .+ ..++++|..++++||+.||+
T Consensus 1 ~ql~eQlkcld~~~e~~~~lLqDlqdF~RrRAeIE~EYS~~L~KLa~~f~~K~~s~~~~~~~~~~s~~~S~~~~W~~lL~ 80 (253)
T cd07683 1 AQLVEQQKCLEQQTEMRVQLLQDLQDFFRKKAEIESEYSRNLEKLAERFMAKTRSTKDHQQYKKDQNLLSPVNCWYLLLN 80 (253)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccCCCCCcchhhHHHHHHHHHH
Confidence 499999999999999999999999999999999999999999999999999984 22 35788888899999999999
Q ss_pred hhhhhccCcCCCC
Q psy10068 81 LSMKSTSGKASPP 93 (157)
Q Consensus 81 ~t~~~~~g~asp~ 93 (157)
+|+..+..|++-.
T Consensus 81 qT~~~sk~h~~LS 93 (253)
T cd07683 81 QVRRESKDHATLS 93 (253)
T ss_pred HHHHHHHHHHHHH
Confidence 9999998876543
No 4
>cd07656 F-BAR_srGAP The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Slit-Robo GTPase Activating Proteins. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Slit-Robo GTPase Activating Proteins (srGAPs) are Rho GAPs that interact with Robo1, the transmembrane receptor of Slit proteins. Slit proteins are secreted proteins that control axon guidance and the migration of neurons and leukocytes. Vertebrates contain three isoforms of srGAPs, all of which are expressed during embryonic and early development in the nervous system but with different localization and timing. srGAPs contain an N-terminal F-BAR domain, a Rho GAP 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.
Probab=99.84 E-value=2.4e-21 Score=158.36 Aligned_cols=88 Identities=39% Similarity=0.636 Sum_probs=79.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhccCC-CCcchhHHHHHhhhh
Q psy10068 5 LQLNEQLRCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQKQNELDNN-VNSLGYQYEVEDLSM 83 (157)
Q Consensus 5 ~QL~EQLKcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~k~krdqw~-lss~~~W~~lL~~t~ 83 (157)
+||.||++|||.++|..+.+|+||++|||+||+||.|||+.|+|||++|..|++..+.+.+.|+ .++..||+.||++|.
T Consensus 1 ~qL~dQ~~~L~~~te~~i~lLed~~~F~r~RaeIE~EYs~~L~kL~k~~~~K~~~~~~~~~~~~~~s~~~~W~~lL~qt~ 80 (241)
T cd07656 1 QQLSEQLKCLDLRTEAQVQLLADLQDYFRRRAEIELEYSRSLEKLADRFSSKHKNEKSKREDWSLLSPVNCWNTLLVQTK 80 (241)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccccccccccccCcCCHHHHHHHHHHHHH
Confidence 5899999999999999999999999999999999999999999999999999988777777887 555589999999999
Q ss_pred hhccCcCCC
Q psy10068 84 KSTSGKASP 92 (157)
Q Consensus 84 ~~~~g~asp 92 (157)
..+.-|..-
T Consensus 81 ~~a~~h~~l 89 (241)
T cd07656 81 QESRDHSTL 89 (241)
T ss_pred HHHHHHHHH
Confidence 877766543
No 5
>cd07654 F-BAR_FCHSD The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of FCH and double SH3 domains proteins (FCHSD). F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. This subfamily is composed of FCH and double SH3 domain (FCHSD) proteins, so named as they contain an N-terminal F-BAR domain and two SH3 domains at the C-terminus. Vertebrates harbor two subfamily members, FCHSD1 and FCHSD2, which have been characterized only in silico. Their biological function is still unknown. 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=99.63 E-value=3.2e-16 Score=130.37 Aligned_cols=84 Identities=18% Similarity=0.213 Sum_probs=71.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHh-hhhhccCCCCcchhHHHHHhhhhhh
Q psy10068 7 LNEQLRCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQ-KQNELDNNVNSLGYQYEVEDLSMKS 85 (157)
Q Consensus 7 L~EQLKcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~-k~krdqw~lss~~~W~~lL~~t~~~ 85 (157)
.+||++||+.+++..+.+|+||++|||+||+||.|||+.|.|||++|..|.... ....+....+++.||+.+|+++...
T Consensus 3 ~~Eq~~~L~~~~~~~i~lLedi~~F~reRa~IE~EYa~~L~kLakky~~Kk~~~~~~~~~~~~~s~~~~W~~~L~qt~~~ 82 (264)
T cd07654 3 HLEQLSKLQAKHQTECDLLEDIRTYSQKKAAIEREYGQALQKLASQFLKREWPGSGELKPEDDRSGYTVWGAWLEGLDAV 82 (264)
T ss_pred hHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCCccccccccchHHHHHHHHHHHHHHH
Confidence 689999999999999999999999999999999999999999999999886422 2233344467789999999999866
Q ss_pred ccCcC
Q psy10068 86 TSGKA 90 (157)
Q Consensus 86 ~~g~a 90 (157)
+..|.
T Consensus 83 A~~~~ 87 (264)
T cd07654 83 AQSRQ 87 (264)
T ss_pred HHHHH
Confidence 65554
No 6
>cd07678 F-BAR_FCHSD1 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of FCH and double SH3 domains 1 (FCHSD1). F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. FCH and double SH3 domains 1 (FCHSD1) contains an N-terminal F-BAR domain and two SH3 domains at the C-terminus. It has been characterized only in silico, and its biological function is still unknown. 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=99.52 E-value=2.3e-14 Score=120.46 Aligned_cols=79 Identities=19% Similarity=0.292 Sum_probs=67.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH----hhhhhccCCCCcchhHHHHHhh
Q psy10068 6 QLNEQLRCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKE----QKQNELDNNVNSLGYQYEVEDL 81 (157)
Q Consensus 6 QL~EQLKcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~----~k~krdqw~lss~~~W~~lL~~ 81 (157)
.++||++||+.+++..+.+|+||++|+|+|++||.|||+.|.||+++|..|.+. ... +..+..++.+||+.+.++
T Consensus 2 ~~~eQ~~~L~~~~~~~~~~le~~~~f~k~R~~iE~eYa~~L~~L~k~~~~k~~~~~~~e~~-~~~~~~s~~~~~~e~~~~ 80 (263)
T cd07678 2 RFLEQLSILQTKQQRDAELLEDIRSYSKQRAAIEREYGQALQRLASQFLKRDWHRGGNETE-MDRSVRTVWGAWREGTAA 80 (263)
T ss_pred chHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCchhhh-hccccchHHHHHHHHHHH
Confidence 478999999999999999999999999999999999999999999999988742 111 334445555899999999
Q ss_pred hhhh
Q psy10068 82 SMKS 85 (157)
Q Consensus 82 t~~~ 85 (157)
+...
T Consensus 81 a~Q~ 84 (263)
T cd07678 81 TGQG 84 (263)
T ss_pred HHHH
Confidence 8755
No 7
>PF00611 FCH: Fes/CIP4, and EFC/F-BAR homology domain; InterPro: IPR001060 The FCH domain is a short conserved region of around 60 amino acids first described as a region of homology between FER and CIP4 proteins []. Many proteins containing an FCH domain are involved in the regulation of cytoskeletal rearrangements, vesicular transport and endocytosis. In the CIP4 protein the FCH domain binds to microtubules []. The FCH domain is always found N-terminally and is followed by a coiled-coil region. Proteins containing an FCH domain can be divided in 3 classes []: A subfamily of protein kinases usually associated with an SH2 domain: Fps/fes (Fujimani poultry sarcoma/feline sarcoma) proto-oncogenes. They are non-receptor protein-tyrosine kinases preferentially expressed in myeloid lineage. The viral oncogene has an unregulated kinase activity which abrogates the need for cytokines and influences differentiation of haematopoietic progenitor cells. Fes related protein (fer). It is an ubiquitously expressed homologue of Fes. Adaptor proteins usually associated with a C-terminal SH3 domain: Schizosaccharomyces pombe CDC15 protein. It mediates cytoskeletal rearrangements required for cytokinesis. It is essential for viability. CD2 cytoplasmic domain binding protein. Mammalian Cdc42-interacting protein 4 (CIP4). It may act as a link between Cdc42 signaling and regulation of the actin cytoskeleton. Mammalian PACSIN proteins. A family of cytoplasmic phosphoproteins playing a role in vesicle formation and transport. A subfamily of Rho-GAP proteins: Mammalian RhoGAP4 proteins. They may down-regulate Rho-like GTPases in hematopoietic cells. Yeast hypothetical protein YBR260C. Caenorhabditis elegans hypothetical protein ZK669.1. ; PDB: 2EFK_A 2EFL_A 2X3W_A 2X3X_C 2X3V_C 3I2W_A 3ABH_B 3Q0K_B 3HAJ_A 3ACO_B ....
Probab=99.30 E-value=3.1e-12 Score=85.68 Aligned_cols=79 Identities=22% Similarity=0.303 Sum_probs=65.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCcchhHHHHHhhh
Q psy10068 3 IRLQLNEQLRCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQKQNELDNNVNSLGYQYEVEDLS 82 (157)
Q Consensus 3 IR~QL~EQLKcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~k~krdqw~lss~~~W~~lL~~t 82 (157)
+..++.+++.+|..+.+..+.++.+|.+||++|++||.+||++|.||+.++..+.+..... .+...+|..|++++
T Consensus 3 F~~~~~~g~~~l~~~~~~~~~~~~~l~~~~keRa~lE~~Yak~L~kl~~~~~~~~~~~~~~-----~t~~~~~~~~~~~~ 77 (91)
T PF00611_consen 3 FWSDLWDGFEVLFKRLKQGIKLLEELASFFKERASLEEEYAKSLQKLAKKFKKKMKSSQEY-----GTLKNAWDSLLEET 77 (91)
T ss_dssp TTSTTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSSS------HHHHHHHHHHHHHH
T ss_pred cccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCc-----cHHHHHHHHHHHHH
Confidence 4556788999999999999999999999999999999999999999999999887622111 33357999999887
Q ss_pred hhhc
Q psy10068 83 MKST 86 (157)
Q Consensus 83 ~~~~ 86 (157)
...+
T Consensus 78 ~~~a 81 (91)
T PF00611_consen 78 EQIA 81 (91)
T ss_dssp HHHH
T ss_pred HHHH
Confidence 6544
No 8
>cd07677 F-BAR_FCHSD2 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of FCH and double SH3 domains 2 (FCHSD2). F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. FCH and double SH3 domains 2 (FCHSD2) contains an N-terminal F-BAR domain and two SH3 domains at the C-terminus. It has been characterized only in silico, and its biological function is still unknown. 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=99.25 E-value=8.5e-12 Score=105.69 Aligned_cols=70 Identities=10% Similarity=0.017 Sum_probs=56.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHh-h-hhhccCC----------CCcchhHHHHHhhhhhhc
Q psy10068 19 ETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQ-K-QNELDNN----------VNSLGYQYEVEDLSMKST 86 (157)
Q Consensus 19 E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~-k-~krdqw~----------lss~~~W~~lL~~t~~~~ 86 (157)
..+.++|+||++|+|+|++||.|||++|+|||++|..|.... . .-.-+|| .++..||+.||++|...+
T Consensus 4 ~~e~~~LqDiqqFyreRs~IEkEYS~kL~kL~kky~~Kk~k~ss~lsvgd~p~~tpgsle~~~S~~~~W~~~L~~Te~~A 83 (260)
T cd07677 4 VEQMTKLQAKHQAECKLLEDEREFSQKIAAIESEYAQKEQKLASQYLKSDWRGMKADERADYRSMYTVWKSFLEGTMQVA 83 (260)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccccccCccCCCCcchhhhhHHHHHHHHHHHHHHHH
Confidence 357899999999999999999999999999999999996431 1 1222354 244589999999999776
Q ss_pred cC
Q psy10068 87 SG 88 (157)
Q Consensus 87 ~g 88 (157)
..
T Consensus 84 ~~ 85 (260)
T cd07677 84 QS 85 (260)
T ss_pred HH
Confidence 65
No 9
>smart00055 FCH Fes/CIP4 homology domain. Alignment extended from original report. Highly alpha-helical. Also known as the RAEYL motif or the S. pombe Cdc15 N-terminal domain.
Probab=99.21 E-value=5.7e-11 Score=80.41 Aligned_cols=76 Identities=21% Similarity=0.361 Sum_probs=60.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCcc-hhHHHHHhhhhh
Q psy10068 6 QLNEQLRCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQKQNELDNNVNSL-GYQYEVEDLSMK 84 (157)
Q Consensus 6 QL~EQLKcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~k~krdqw~lss~-~~W~~lL~~t~~ 84 (157)
++..++++|-.+++.-..++.||.+||++||+||.|||+.|.|||..... .....-...++ .+|..+++++..
T Consensus 6 ~~~~g~~~L~~~~~~~~~~~~~~~~f~~~Ra~iE~eYak~L~kL~~~~~~------~~~~~~~~~s~~~aw~~~~~e~~~ 79 (87)
T smart00055 6 ELDDGFEALLSRLKNGLRLLEDLKKFIRERAKIEEEYAKKLQKLSKKLRA------VRDTESEYGSLSKSWEVLLSETDA 79 (87)
T ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc------cCCCCCcchhHHHHHHHHHHHHHH
Confidence 35678999999999999999999999999999999999999999998321 11122233455 799999998875
Q ss_pred hcc
Q psy10068 85 STS 87 (157)
Q Consensus 85 ~~~ 87 (157)
.+.
T Consensus 80 ~a~ 82 (87)
T smart00055 80 LAK 82 (87)
T ss_pred HHH
Confidence 443
No 10
>cd07653 F-BAR_CIP4-like The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Cdc42-Interacting Protein 4 and similar proteins. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. This subfamily is composed of Cdc42-Interacting Protein 4 (CIP4), Formin Binding Protein 17 (FBP17), FormiN Binding Protein 1-Like (FNBP1L), and similar proteins. CIP4 and FNBP1L are Cdc42 effectors that bind Wiskott-Aldrich syndrome protein (WASP) and function in endocytosis. CIP4 and FBP17 bind to the Fas ligand and may be implicated in the inflammatory response. CIP4 may also play a role in phagocytosis. Members of this subfamily typically contain an N-terminal F-BAR domain and a C-terminal SH3 domain. In addition, some members such as FNBP1L contain a central Cdc42-binding HR1 domain. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged l
Probab=99.16 E-value=6e-11 Score=93.67 Aligned_cols=80 Identities=19% Similarity=0.273 Sum_probs=66.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCcchhHHHHHhhhhhh
Q psy10068 6 QLNEQLRCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQKQNELDNNVNSLGYQYEVEDLSMKS 85 (157)
Q Consensus 6 QL~EQLKcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~k~krdqw~lss~~~W~~lL~~t~~~ 85 (157)
.|-||+.+|..+++.-+.++.||.+||++||+||.+||++|.|||..|..+.+. .++...+...+|..|++++-..
T Consensus 2 ~L~d~~~~l~~~~~~g~~~~~~l~~f~keRa~iE~eYak~L~kLa~k~~~~~~~----~~~~~~s~~~aw~~i~~e~~~~ 77 (251)
T cd07653 2 ELWDQFDNLEKHTQKGIDFLERYGKFVKERAAIEQEYAKKLRKLVKKYLPKKKE----EDEYSFSSVKAFRSILNEVNDI 77 (251)
T ss_pred cchhhhHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCC----CccccccHHHHHHHHHHHHHHH
Confidence 478999999999999999999999999999999999999999999999876632 2223345568999999887655
Q ss_pred ccCc
Q psy10068 86 TSGK 89 (157)
Q Consensus 86 ~~g~ 89 (157)
+..|
T Consensus 78 a~~H 81 (251)
T cd07653 78 AGQH 81 (251)
T ss_pred HHHH
Confidence 4444
No 11
>cd07610 FCH_F-BAR The Extended FES-CIP4 Homology (FCH) or F-BAR (FCH and Bin/Amphiphysin/Rvs) domain, a dimerization module that binds and bends membranes. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. F-BAR domain containing proteins, also known as Pombe Cdc15 homology (PCH) family proteins, include Fes and Fer tyrosine kinases, PACSINs/Syndapins, FCHO, PSTPIP, CIP4-like proteins and srGAPs. Many members also contain an SH3 domain and play roles in endocytosis. 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. These tubules have diameters larger than those observed with N-BARs. The F-BAR domains of some members such as NOSTRIN and Rgd1 are important for the subcellular localization of the protein.
Probab=99.03 E-value=5e-10 Score=83.82 Aligned_cols=72 Identities=19% Similarity=0.341 Sum_probs=59.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCcchhHHHHHhhhhhhccCc
Q psy10068 11 LRCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQKQNELDNNVNSLGYQYEVEDLSMKSTSGK 89 (157)
Q Consensus 11 LKcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~k~krdqw~lss~~~W~~lL~~t~~~~~g~ 89 (157)
+.+|..+++.-..++.||.+|||+||+||.+||++|.|||..+..+... +. -+...+|..|+..+...+.-|
T Consensus 2 ~~~l~~~~~~g~~~~~e~~~f~keRa~iE~eYak~L~kLak~~~~~~~~--~~-----~t~~~~w~~~~~e~~~~a~~h 73 (191)
T cd07610 2 FELLEKRTELGLDLLKDLREFLKKRAAIEEEYAKNLQKLAKKFSKKPES--GK-----TSLGTSWNSLREETESAATVH 73 (191)
T ss_pred chHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCC--CC-----CcHHHHHHHHHHHHHHHHHHH
Confidence 5789999999999999999999999999999999999999999875421 11 234579999998887555443
No 12
>cd07657 F-BAR_Fes_Fer The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Fes (feline sarcoma) and Fer (Fes related) tyrosine kinases. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Fes (feline sarcoma), also called Fps (Fujinami poultry sarcoma), and Fer (Fes related) are cytoplasmic (or nonreceptor) tyrosine kinases that play roles in haematopoiesis, inflammation and immunity, growth factor signaling, cytoskeletal regulation, cell migration and adhesion, and the regulation of cell-cell interactions. Although Fes and Fer show redundancy in their biological functions, they show differences in their expression patterns. Fer is ubiquitously expressed while Fes is expressed predominantly in myeloid and endothelial cells. Fes and Fer contain an N-terminal F-BAR domain, an SH2 domain, and a C-terminal catalytic kinase domain. F-BAR domains form banana-shaped dimers with a posit
Probab=98.97 E-value=1.5e-09 Score=88.82 Aligned_cols=70 Identities=19% Similarity=0.198 Sum_probs=56.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCc-chhHHHHHhhhhhhcc
Q psy10068 13 CLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQKQNELDNNVNS-LGYQYEVEDLSMKSTS 87 (157)
Q Consensus 13 cLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~k~krdqw~lss-~~~W~~lL~~t~~~~~ 87 (157)
+|=.+++..+.+|+||+.|||+|++||.|||+.|.+|+..|..+ ...+..+.++ ..+|..+|+++..-+.
T Consensus 9 ~l~~~~~~ei~lLe~i~~F~reRa~iE~EYA~~L~~L~kq~~k~-----~~~~~~~~s~~~~sW~~iL~ete~~A~ 79 (237)
T cd07657 9 ALLKRQDAELRLLETMKKYMAKRAKSDREYASTLGSLANQGLKI-----EAGDDLQGSPISKSWKEIMDSTDQLSK 79 (237)
T ss_pred HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCcC-----CCcccCCcChHHHHHHHHHHHHHHHHH
Confidence 56678999999999999999999999999999999999887211 1344444444 5799999999986554
No 13
>cd07686 F-BAR_Fer The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Fer (Fes related) tyrosine kinase. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Fer (Fes related) is a cytoplasmic (or nonreceptor) tyrosine kinase expressed in a wide variety of tissues, and is found to reside in both the cytoplasm and the nucleus. It plays important roles in neuronal polarization and neurite development, cytoskeletal reorganization, cell migration, growth factor signaling, and the regulation of cell-cell interactions mediated by adherens junctions and focal adhesions. Fer kinase also regulates cell cycle progression in malignant cells. It contains an N-terminal F-BAR domain, an SH2 domain, and a C-terminal catalytic kinase domain. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membran
Probab=98.60 E-value=9.5e-08 Score=79.51 Aligned_cols=77 Identities=14% Similarity=0.247 Sum_probs=56.4
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCcc-hhHHHHHh
Q psy10068 2 DIRLQLNEQLRCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQKQNELDNNVNSL-GYQYEVED 80 (157)
Q Consensus 2 EIR~QL~EQLKcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~k~krdqw~lss~-~~W~~lL~ 80 (157)
|+|.|. |||-.|. +..+.+|.|+..|++.||.||.|||..|-+|+..|..+.+.. .-..+++ ..|..|++
T Consensus 2 ~l~~~~-e~l~k~q---~~ei~lLE~i~~f~~eRakiEkEYA~~L~~L~kq~~kk~~~~-----~~~~s~v~~sW~~vl~ 72 (234)
T cd07686 2 DLRNSH-EALLKLQ---DWELRLLETVKKFMALRVKSDKEYASTLQNLCNQVDKESTSQ-----LDYVSNVSKSWLHMVQ 72 (234)
T ss_pred chhhHH-HHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccc-----ccchhhHHHHHHHHHH
Confidence 456665 6665554 888899999999999999999999999999999983333211 1111222 69999999
Q ss_pred hhhhhcc
Q psy10068 81 LSMKSTS 87 (157)
Q Consensus 81 ~t~~~~~ 87 (157)
+|..-+.
T Consensus 73 qte~iA~ 79 (234)
T cd07686 73 QTEQLSK 79 (234)
T ss_pred HHHHHHH
Confidence 9974443
No 14
>cd07676 F-BAR_FBP17 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Formin Binding Protein 17. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Formin Binding Protein 17 (FBP17), also called FormiN Binding Protein 1 (FNBP1), is involved in dynamin-mediated endocytosis. It is recruited to clathrin-coated pits late in the endocytosis process and may play a role in the invagination and scission steps. FBP17 binds in vivo to tankyrase, a protein involved in telomere maintenance and mitogen activated protein kinase (MAPK) signaling. 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=98.51 E-value=3.6e-07 Score=75.62 Aligned_cols=76 Identities=20% Similarity=0.297 Sum_probs=61.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCcchhHHHHHhhhh
Q psy10068 6 QLNEQLRCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQKQNELDNNVNSLGYQYEVEDLSM 83 (157)
Q Consensus 6 QL~EQLKcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~k~krdqw~lss~~~W~~lL~~t~ 83 (157)
.|-+|.+.|...+..-+.++.||..|||.||+||.+||+.|-+||++|..+.+.....-. ..++...|.++++..-
T Consensus 2 eL~D~~~~l~k~~~~Gi~~~~~i~~f~kERa~IEkeYakkL~~L~kKy~~kk~~~~~~~~--~~t~~~aw~~~l~e~~ 77 (253)
T cd07676 2 ELWDQFDNLEKHTQWGIEVLEKYIKFVKERTEIELSYAKQLRNLSKKYQPKKNSKEEEEY--KYTSCRAFLMTLNEMN 77 (253)
T ss_pred chHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccc--cchHHHHHHHHHHHHH
Confidence 467999999999999999999999999999999999999999999999887642111111 1244568888887654
No 15
>cd07652 F-BAR_Rgd1 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Saccharomyces cerevisiae Rho GTPase activating protein Rgd1 and similar proteins. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Saccharomyces cerevisiae Rgd1 is a GTPase activating protein (GAP) with activity towards Rho3p and Rho4p, which are involved in bud growth and cytokinesis, respectively. At low pH, S. cerevisiae Rgd1 is required for cell survival and the activation of the protein kinase C pathway, which is important in cell integrity and the maintenance of cell shape. It contains an N-terminal F-BAR domain and a C-terminal Rho GAP domain. The F-BAR domain of S. cerevisiae Rgd1 binds to phosphoinositides and plays an important role in the localization of the protein to the bud tip/neck during the cell cycle. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that
Probab=98.32 E-value=2.6e-06 Score=69.30 Aligned_cols=70 Identities=21% Similarity=0.176 Sum_probs=53.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCcchhHHHHHhhhhhh
Q psy10068 12 RCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQKQNELDNNVNSLGYQYEVEDLSMKS 85 (157)
Q Consensus 12 KcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~k~krdqw~lss~~~W~~lL~~t~~~ 85 (157)
..|-.|+..-...+.|+.+||++|++||.|||++|-|||+.+..+.+.. +.-.-+-...|..++..+-.-
T Consensus 8 ~~Ll~rlK~~~~~~ke~~~FlkkRa~iEeeYak~L~KLak~~~~~~~~~----~~~~gs~~~a~~~il~~~e~l 77 (234)
T cd07652 8 STLLDRLKQSIASAKEFATFLKKRAAIEEEHARGLKKLARTTLDTYKRP----DHKQGSFSNAYHSSLEFHEKL 77 (234)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCC----CCCCCcHHHHHHHHHHHHHHH
Confidence 3566777788889999999999999999999999999999998776531 111223336999999876533
No 16
>cd07655 F-BAR_PACSIN The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Protein kinase C and Casein kinase Substrate in Neurons (PACSIN) proteins. 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. They bind both dynamin and Wiskott-Aldrich syndrome protein (WASP), and may provide direct links between the actin cytoskeletal machinery through WASP and dynamin-dependent endocytosis. Vetebrates harbor three isoforms with distinct expression patterns and specific functions. PACSINs contain 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
Probab=98.27 E-value=1.7e-06 Score=70.80 Aligned_cols=75 Identities=15% Similarity=0.090 Sum_probs=58.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCcchhHHHHHhhhhhhccCcC
Q psy10068 11 LRCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQKQNELDNNVNSLGYQYEVEDLSMKSTSGKA 90 (157)
Q Consensus 11 LKcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~k~krdqw~lss~~~W~~lL~~t~~~~~g~a 90 (157)
.+.+-.|++.=..++.||.+||+.||+||.+||+.|.|||.++..+... ... .-+....|..|++.+..-+..|.
T Consensus 7 y~~~~kr~~~G~~~~~el~~f~kERa~IE~~Yak~L~kLakk~~~~~~~----~~e-~gsl~~aw~~~~~e~e~~a~~H~ 81 (258)
T cd07655 7 YKRTVKRIEDGHKLCDDLMKMVQERAEIEKAYAKKLKEWAKKWRDLIEK----GPE-YGTLETAWKGLLSEAERLSELHL 81 (258)
T ss_pred chhhHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc----CCC-CChHHHHHHHHHHHHHHHHHHHH
Confidence 4567788999999999999999999999999999999999988765421 110 12333699999999876554443
No 17
>cd07675 F-BAR_FNBP1L The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Formin Binding Protein 1-Like. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. FormiN Binding Protein 1-Like (FNBP1L), also known as Toca-1 (Transducer of Cdc42-dependent actin assembly), forms a complex with neural Wiskott-Aldrich syndrome protein (N-WASP). The FNBP1L/N-WASP complex induces the formation of filopodia and endocytic vesicles. FNBP1L is required for Cdc42-induced actin assembly and is essential for autophagy of intracellular pathogens. It contains an N-terminal F-BAR domain, a central Cdc42-binding HR1 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.
Probab=98.25 E-value=2.6e-06 Score=71.73 Aligned_cols=73 Identities=18% Similarity=0.266 Sum_probs=59.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhcc-CCCCcchhHHHHHhhh
Q psy10068 6 QLNEQLRCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQKQNELD-NNVNSLGYQYEVEDLS 82 (157)
Q Consensus 6 QL~EQLKcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~k~krdq-w~lss~~~W~~lL~~t 82 (157)
.|-+|.+.+...+..-+.+|.+++.|+|.|+.||.|||+.|-+|++.|.-|-+ +.+. +..++.-.|..+|++-
T Consensus 2 eL~Dqf~~~~k~~~~Gi~~l~~~~~F~keRa~IE~eYakkL~~L~Kky~~KK~----~~~e~p~~t~~~s~~~~L~~~ 75 (252)
T cd07675 2 ELWDQFDNLDKHTQWGIDFLERYAKFVKERLEIEQNYAKQLRNLVKKYCPKRS----SKDEEPRFTSCLSFYNILNEL 75 (252)
T ss_pred chHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccC----CCCCCccccHHHHHHHHHHHH
Confidence 46799999999999999999999999999999999999999999998876543 2233 2455555676666653
No 18
>cd07648 F-BAR_FCHO The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of FCH domain Only proteins. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Proteins in this group have been named FCH domain Only (FCHO) proteins. Vertebrates have two members, FCHO1 and FCHO2. These proteins contain an F-BAR domain and a C-terminal domain of unknown function named SAFF which is also present in 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=98.23 E-value=2.3e-06 Score=68.97 Aligned_cols=68 Identities=25% Similarity=0.322 Sum_probs=53.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCcc-hhHHHHHhhhhhhccCc
Q psy10068 12 RCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQKQNELDNNVNSL-GYQYEVEDLSMKSTSGK 89 (157)
Q Consensus 12 KcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~k~krdqw~lss~-~~W~~lL~~t~~~~~g~ 89 (157)
..|-.|+..=..++.||.+||+.||.||.+||++|.|||+++.... ...++ .+|..|...+-.-+.-|
T Consensus 8 ~~L~~r~k~g~~~~~el~~f~keRa~IEe~Yak~L~kLakk~~~~~----------~~gt~~~~w~~i~~~~e~~a~~H 76 (261)
T cd07648 8 DVLYHNMKHGQIAVKELADFLRERATIEETYSKALNKLAKQASNSS----------QLGTFAPLWLVLRVSTEKLSELH 76 (261)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC----------CcCcHHHHHHHHHHHHHHHHHHH
Confidence 3567788888899999999999999999999999999999765422 12233 59999998876555444
No 19
>cd07651 F-BAR_PombeCdc15_like The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Schizosaccharomyces pombe Cdc15, and similar proteins. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. This subfamily is composed of Schizosaccharomyces pombe Cdc15 and Imp2, and similar proteins. These proteins contain an N-terminal F-BAR domain and a C-terminal SH3 domain. S. pombe Cdc15 and Imp2 play both distinct and overlapping roles in the maintenance and strengthening of the contractile ring at the division site, which is required in cell division. Cdc15 is a component of the actomyosin ring and is required in normal cytokinesis. Imp2 colocalizes with the medial ring during septation and is required for normal septation. 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
Probab=98.18 E-value=3.3e-06 Score=67.42 Aligned_cols=70 Identities=17% Similarity=0.257 Sum_probs=55.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCcchhHHHHHhhhhhhccCc
Q psy10068 11 LRCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQKQNELDNNVNSLGYQYEVEDLSMKSTSGK 89 (157)
Q Consensus 11 LKcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~k~krdqw~lss~~~W~~lL~~t~~~~~g~ 89 (157)
+..|-.|+..=...+.||.+||+.||+||.+||+.|.|||..+... .+ .-+.-.+|..|++.+-..+.-|
T Consensus 7 ~~~l~~r~~~g~~~~~el~~f~keRa~iE~eYak~L~kLakk~~~~-------~~--~gsl~~a~~~i~~e~e~~a~~H 76 (236)
T cd07651 7 FDVIQTRIKDSLRTLEELRSFYKERASIEEEYAKRLEKLSRKSLGG-------SE--EGGLKNSLDTLRLETESMAKSH 76 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccCC-------CC--cchHHHHHHHHHHHHHHHHHHH
Confidence 4567788899999999999999999999999999999999887631 11 1223358999999887554444
No 20
>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=98.03 E-value=2.5e-05 Score=63.64 Aligned_cols=71 Identities=23% Similarity=0.181 Sum_probs=54.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCcchhHHHHHhhhhhhccCc
Q psy10068 12 RCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQKQNELDNNVNSLGYQYEVEDLSMKSTSGK 89 (157)
Q Consensus 12 KcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~k~krdqw~lss~~~W~~lL~~t~~~~~g~ 89 (157)
..|-.++..=..++.||.+||+.||+||.+||+.|-|||.++....... +-+....|..|.+.+-..+.-|
T Consensus 8 ~~l~~~~~~G~~~ckel~~f~kERa~IE~~YAK~L~kLa~k~~k~~~~~-------~Gtl~~aw~~~~~e~e~~a~~H 78 (239)
T cd07658 8 EELRRYVKQGGDFCKELATVLQERAELELNYAKGLSKLSGKLSKASKSV-------SGTLSSAWTCVAEEMESEADIH 78 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccC-------CCcHHHHHHHHHHHHHHHHHHH
Confidence 4567788888899999999999999999999999999999884333211 2233369999988876554444
No 21
>cd07647 F-BAR_PSTPIP The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Proline-Serine-Threonine Phosphatase-Interacting Proteins. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Vetebrates contain two Proline-Serine-Threonine Phosphatase-Interacting Proteins (PSTPIPs), PSTPIP1 and PSTPIP2. PSTPIPs are mainly expressed in hematopoietic cells and are involved in the regulation of cell adhesion and motility. Mutations in PSTPIPs have been shown to cause autoinflammatory disorders. PSTPIP1 contains an N-terminal F-BAR domain, PEST motifs, and a C-terminal SH3 domain, while PSTPIP2 contains only the N-terminal F-BAR 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.
Probab=98.01 E-value=1.9e-05 Score=63.68 Aligned_cols=69 Identities=22% Similarity=0.240 Sum_probs=52.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCcchhHHHHHhhhhhhccCc
Q psy10068 12 RCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQKQNELDNNVNSLGYQYEVEDLSMKSTSGK 89 (157)
Q Consensus 12 KcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~k~krdqw~lss~~~W~~lL~~t~~~~~g~ 89 (157)
..|-.|+..=...+.||.+||+.||+||.+||+.|-|||.... .. + ..-+...+|..|++.+-.-+.-|
T Consensus 8 ~~l~~r~~~g~~~~~el~~f~keRa~iE~eYak~L~kLak~~~-------~~-~-e~gsl~~aw~~i~~e~e~~a~~H 76 (239)
T cd07647 8 DTLLQRLKEGKKMCKELEDFLKQRAKAEEDYGKALLKLSKSAG-------PG-D-EIGTLKSSWDSLRKETENVANAH 76 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC-------CC-C-ccchHHHHHHHHHHHHHHHHHHH
Confidence 4577788888999999999999999999999999999996631 11 1 12233469999999887555444
No 22
>cd07680 F-BAR_PACSIN1 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Protein kinase C and Casein kinase Substrate in Neurons 1 (PACSIN1). 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 1 or Syndapin I is expressed specifically in the brain and is localized in neurites and synaptic boutons. It binds the brain-specific proteins dynamin I, synaptojanin, synapsin I, and neural Wiskott-Aldrich syndrome protein (nWASP), and functions as a link between the cytoskeletal machinery and synaptic vesicle endocytosis. PACSIN 1 interacts with huntingtin and may be implicated in the neuropatholog
Probab=97.90 E-value=4.4e-05 Score=64.27 Aligned_cols=75 Identities=12% Similarity=0.091 Sum_probs=57.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhccCCC-CcchhHHHHHhhhhhhccCc
Q psy10068 11 LRCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQKQNELDNNV-NSLGYQYEVEDLSMKSTSGK 89 (157)
Q Consensus 11 LKcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~k~krdqw~l-ss~~~W~~lL~~t~~~~~g~ 89 (157)
.+.+-.|++.=..++.||.+|++.||+||.+||+.|-+||+++..... +.... +.-..|..|++++-.-+.-|
T Consensus 7 y~~~~kr~~~g~~~~~dl~~f~kERA~IE~~Yak~L~~Lakk~~~~~~------~~~~~Gtl~~aw~~i~~etE~ia~~H 80 (258)
T cd07680 7 YKRTVKRIDDGHRLCNDLMNCVQERAKIEKAYGQQLTDWAKRWRQLIE------KGPQYGSLERAWGAIMTEADKVSELH 80 (258)
T ss_pred hHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc------cCCCcchHHHHHHHHHHHHHHHHHHH
Confidence 356778888889999999999999999999999999999998763311 11112 22358999999987655555
Q ss_pred CC
Q psy10068 90 AS 91 (157)
Q Consensus 90 as 91 (157)
..
T Consensus 81 ~~ 82 (258)
T cd07680 81 QE 82 (258)
T ss_pred HH
Confidence 43
No 23
>cd07672 F-BAR_PSTPIP2 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Proline-Serine-Threonine Phosphatase-Interacting Protein 2. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Proline-Serine-Threonine Phosphatase-Interacting Protein 2 (PSTPIP2), also known as Macrophage Actin-associated tYrosine Phosphorylated protein (MAYP), is mostly expressed in hematopoietic cells but is also expressed in the brain. It is involved in regulating cell adhesion and motility. Mutations in the gene encoding murine PSTPIP2 can cause autoinflammatory disorders such as chronic multifocal osteomyelitis and macrophage autoinflammatory disease. PSTPIP2 contains an N-terminal F-BAR domain and lacks the PEST motifs and SH3 domain that are found in PSTPIP1. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They ca
Probab=97.61 E-value=0.00015 Score=59.80 Aligned_cols=70 Identities=14% Similarity=0.158 Sum_probs=52.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCcchhHHHHHhhhhhhccCc
Q psy10068 12 RCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQKQNELDNNVNSLGYQYEVEDLSMKSTSGK 89 (157)
Q Consensus 12 KcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~k~krdqw~lss~~~W~~lL~~t~~~~~g~ 89 (157)
..|-.|+..=..++.||.+||+.||+||.+||+.|.|||++... +.-+ .-+.-..|..|...+-.-+.-|
T Consensus 8 ~~l~~r~~~g~~~~~el~~f~kERA~IE~~YaK~L~kLskk~~~------g~~E--~GTl~~sw~~~~~E~e~~a~~H 77 (240)
T cd07672 8 DCIIQHLNDGRKNCKEFEDFLKERASIEEKYGKELLNLSKKKPC------GQTE--INTLKRSLDVFKQQIDNVGQSH 77 (240)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC------CCcc--cchHHHHHHHHHHHHHHHHHHH
Confidence 45677888889999999999999999999999999999986532 1111 1133368999888776544444
No 24
>cd07674 F-BAR_FCHO1 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of FCH domain Only 1 protein. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. FCH domain Only 1 (FCHO1) may be involved in clathrin-coated vesicle formation. It contains an N-terminal F-BAR domain and a C-terminal domain of unknown function named SAFF which is also present in FCHO2 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=97.54 E-value=0.00032 Score=57.50 Aligned_cols=67 Identities=25% Similarity=0.243 Sum_probs=49.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCcc-hhHHHHHhhhhhhccCc
Q psy10068 13 CLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQKQNELDNNVNSL-GYQYEVEDLSMKSTSGK 89 (157)
Q Consensus 13 cLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~k~krdqw~lss~-~~W~~lL~~t~~~~~g~ 89 (157)
+|-.|+-.=.....||.+||+.||.||-+||++|-|||+... ...-..++ .+|..+.+.+-.-+.-|
T Consensus 9 ~l~~r~k~g~~~~kel~~flkeRa~IEe~Yak~L~klak~~~----------~~~e~Gtl~~~w~~~~~~~E~~a~~H 76 (261)
T cd07674 9 VLYHNMKHGQISTKELADFVRERAAIEETYSKSMSKLSKMAS----------NGSPLGTFAPMWEVFRVSSDKLALCH 76 (261)
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc----------CCCccchHHHHHHHHHHHHHHHHHHH
Confidence 455666677788999999999999999999999999994211 12222233 58999988776554444
No 25
>cd07649 F-BAR_GAS7 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Growth Arrest Specific protein 7. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Growth Arrest Specific protein 7 (GAS7) is mainly expressed in the brain and is required for neurite outgrowth. It may also play a role in the protection and migration of embryonic stem cells. Treatment-related acute myeloid leukemia (AML) has been reported resulting from mixed-lineage leukemia (MLL)-GAS7 translocations as a complication of primary cancer treatment. GAS7 contains an N-terminal SH3 domain, followed by a WW domain, and a central F-BAR 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.
Probab=97.47 E-value=0.00029 Score=57.97 Aligned_cols=68 Identities=19% Similarity=0.248 Sum_probs=49.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCcc-hhHHHHHhhhhhhccCc
Q psy10068 12 RCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQKQNELDNNVNSL-GYQYEVEDLSMKSTSGK 89 (157)
Q Consensus 12 KcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~k~krdqw~lss~-~~W~~lL~~t~~~~~g~ 89 (157)
.+|-.++-.=.....||.+||+.||+||-+||+.|.|||.... + .-...++ .+|..|.+.+-.-+.-|
T Consensus 8 ~vl~~~~k~g~~~~~el~~fl~ERa~IEe~Yak~L~klak~~~---~-------~~e~Gtl~~sw~~~~~e~E~~a~~H 76 (233)
T cd07649 8 EILLQKQLKGKQMQKEMAEFIRERIKIEEEYAKNLSKLSQSSL---A-------AQEEGTLGEAWAQVKKSLADEAEVH 76 (233)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc---C-------CCCCChHHHHHHHHHHHHHHHHHHH
Confidence 4556666677788999999999999999999999999996332 0 1122233 58998888776544444
No 26
>cd07673 F-BAR_FCHO2 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of FCH domain Only 2 protein. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. The specific function of FCH domain Only 2 (FCHO2) is still unknown. It contains an N-terminal F-BAR domain and a C-terminal domain of unknown function named SAFF which is also present in FCHO1 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=97.41 E-value=0.0004 Score=57.82 Aligned_cols=61 Identities=26% Similarity=0.311 Sum_probs=44.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCcc-hhHHHHHhhhh
Q psy10068 13 CLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQKQNELDNNVNSL-GYQYEVEDLSM 83 (157)
Q Consensus 13 cLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~k~krdqw~lss~-~~W~~lL~~t~ 83 (157)
.|=.|+-.-.....||.+||+.||.||-+||++|-|||+.... .....++ .+|..|...+-
T Consensus 16 ~L~~r~k~g~~~~kel~~f~keRa~iEe~Yak~L~kLak~~~~----------~~~~Gt~~~~~~~~~~e~e 77 (269)
T cd07673 16 VLYHNMKHGQISTKELSDFIRERATIEEAYSRSMTKLAKSASN----------YSQLGTFAPVWDVFKTSTE 77 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc----------CCCcChHHHHHHHHHHHHH
Confidence 4555666667788999999999999999999999999996631 1112222 47888866554
No 27
>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=97.28 E-value=0.00079 Score=54.61 Aligned_cols=46 Identities=33% Similarity=0.485 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q psy10068 9 EQLRCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQ 54 (157)
Q Consensus 9 EQLKcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~ 54 (157)
+-.-+|-.|+-.=..+..||.+||+-||+||.+||+.|-|||.+..
T Consensus 5 ~a~~~l~~Rl~~~~~~~~el~~~~kERa~IE~~Yak~L~kLakk~~ 50 (228)
T cd07650 5 EATEILRIRLSQIKLVNTELADWLQERRRLERQYVQGLRKLARRNE 50 (228)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 4456778888888889999999999999999999999999998764
No 28
>cd07671 F-BAR_PSTPIP1 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Proline-Serine-Threonine Phosphatase-Interacting Protein 1. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Proline-Serine-Threonine Phosphatase-Interacting Protein 1 (PSTPIP1), also known as CD2 Binding Protein 1 (CD2BP1), is mainly expressed in hematopoietic cells. It is a binding partner of the cell surface receptor CD2 and PTP-PEST, a tyrosine phosphatase which functions in cell motility and Rac1 regulation. It also plays a role in the activation of the Wiskott-Aldrich syndrome protein (WASP), which couples actin rearrangement and T cell activation. Mutations in the gene encoding PSTPIP1 cause the autoinflammatory disorder known as PAPA (pyogenic sterile arthritis, pyoderma gangrenosum, and acne) syndrome. PSTPIP1 contains an N-terminal F-BAR domain, PEST motifs, and a C-terminal SH3 domain. F-BAR
Probab=97.23 E-value=0.00078 Score=55.65 Aligned_cols=69 Identities=14% Similarity=0.124 Sum_probs=51.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCcchhHHHHHhhhhhhccCc
Q psy10068 12 RCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQKQNELDNNVNSLGYQYEVEDLSMKSTSGK 89 (157)
Q Consensus 12 KcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~k~krdqw~lss~~~W~~lL~~t~~~~~g~ 89 (157)
+.|=.|+.-=..+..||.+||+.||+||.+||+.|.|||.+....+ + .-+....|..|.+.+-..+.-|
T Consensus 8 ~~l~~r~~~g~~~c~el~~f~keRa~iE~~Yak~L~kl~kk~~~~~-------e--~gTl~~a~~~~~~e~e~~a~~H 76 (242)
T cd07671 8 EILLQRLLDGRKMCKDVEELLKQRAQAEERYGKELVQIARKAGGQT-------E--INTLKASFDQLKQQIENIGNSH 76 (242)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCcc-------c--chHHHHHHHHHHHHHHHHHHHH
Confidence 4556677777788999999999999999999999999999765311 1 1233368999987776443333
No 29
>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=97.04 E-value=0.0015 Score=55.36 Aligned_cols=72 Identities=17% Similarity=0.130 Sum_probs=51.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhccCCC-CcchhHHHHHhhhhhhccCc
Q psy10068 12 RCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQKQNELDNNV-NSLGYQYEVEDLSMKSTSGK 89 (157)
Q Consensus 12 KcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~k~krdqw~l-ss~~~W~~lL~~t~~~~~g~ 89 (157)
+.+=.|++.=..+..||.+||+.||+||.+||+.|-+||++...-+-.. -.. +--..|.+|.+.+-.-+..|
T Consensus 8 ~~~vkR~~dG~~~C~el~~f~~eRA~IE~~YAk~L~~lakk~~~~~e~g------~eyGTL~~sw~~~~~e~E~ia~~H 80 (258)
T cd07681 8 RRTVKRIEDGYRLCNDLVSCFQERAKIEKGYAQQLSDWARKWRGIVEKG------PQYGTLEKAWHAFLTAAERLSEIH 80 (258)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHhhhcc------cccChHHHHHHHHHHHHHHHHHHH
Confidence 3455677777888999999999999999999999999998865433210 011 11247888887776544444
No 30
>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=96.87 E-value=0.0047 Score=52.84 Aligned_cols=73 Identities=12% Similarity=0.099 Sum_probs=53.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCcchhHHHHHhhhhhhccCc
Q psy10068 12 RCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQKQNELDNNVNSLGYQYEVEDLSMKSTSGK 89 (157)
Q Consensus 12 KcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~k~krdqw~lss~~~W~~lL~~t~~~~~g~ 89 (157)
+.+-.|++-=..+..||.+||+-||+||-.||+.|-++|++....+.. ..+ .-+--..|.+|.+.+-.-+.-|
T Consensus 8 ~~~vkR~~DG~~~C~dl~~~~~ERA~IE~~Yak~L~~~akkw~~~ie~----gpe-yGTl~~aw~~~~~Eae~~s~~H 80 (258)
T cd07679 8 KRTVKRIDDGHRLCNDLMNCLHERARIEKVYAQQLTEWAKRWRQLVEK----GPQ-YGTVEKAWCALMSEAEKVSELH 80 (258)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc----CCc-cchHHHHHHHHHHHHHHHHHHH
Confidence 455677888889999999999999999999999999999887665531 111 0122258999988876544443
No 31
>KOG3565|consensus
Probab=93.82 E-value=0.13 Score=48.82 Aligned_cols=49 Identities=14% Similarity=0.424 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q psy10068 6 QLNEQLRCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQ 54 (157)
Q Consensus 6 QL~EQLKcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~ 54 (157)
.+.++++.+++-+-....+|.++.+|++-||.+|.+|+..|..|+.+|.
T Consensus 11 ~~~d~~~~~~~~~q~gL~~le~~~~~~~era~~ek~y~~~l~~l~~k~~ 59 (640)
T KOG3565|consen 11 ELKDAFKATEQSTQNGLDWLERIVQFLKERADKEKEYEEKLRSLCKKFE 59 (640)
T ss_pred HHHhHHHHHHHHHhhhHHHHHHHHHHhcchhHHHHHHHHHHHHhhhHhh
Confidence 5678889999999999999999999999999999999999999999554
No 32
>cd07685 F-BAR_Fes The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Fes (feline sarcoma) tyrosine kinase. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Fes (feline sarcoma), also called Fps (Fujinami poultry sarcoma), is a cytoplasmic (or nonreceptor) tyrosine kinase whose gene was first isolated from tumor-causing retroviruses. It is expressed in myeloid, vascular endothelial, epithelial, and neuronal cells, and plays important roles in cell growth and differentiation, angiogenesis, inflammation and immunity, and cytoskeletal regulation. Fes kinase has also been implicated as a tumor suppressor in colorectal cancer. It contains an N-terminal F-BAR domain, an SH2 domain, and a C-terminal catalytic kinase 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 def
Probab=91.15 E-value=0.65 Score=39.94 Aligned_cols=86 Identities=10% Similarity=0.103 Sum_probs=59.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhh---hhccCCCCcchhHHHHHhhhhhhccCc
Q psy10068 13 CLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQKQ---NELDNNVNSLGYQYEVEDLSMKSTSGK 89 (157)
Q Consensus 13 cLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~k~---krdqw~lss~~~W~~lL~~t~~~~~g~ 89 (157)
+|-.+.+...-||+-|.-||-.||--+.|||..|-.++.- ..|.... ..-...-+++..|..|++||-.-+..+
T Consensus 9 all~~qd~ElrllE~mk~~m~~raK~d~eya~~L~~~~~q---~~k~~~~~~~~~~~~~s~i~~sW~~il~QTE~isk~~ 85 (237)
T cd07685 9 ALLRLQDSELRLMEVMKKWMSQRAKSDREYSGMLHHMSAQ---VEKLDRSQHGALSMLSSPISQSWAVLVSQTETLSQVL 85 (237)
T ss_pred HHHHhhHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHh---hccccccchhhhcccCChHHHHHHHHHHHHHHHHHHH
Confidence 4566788999999999999999999999999999877643 2221111 111112233479999999998666554
Q ss_pred CCCCCCCCCCChhhhhhhh
Q psy10068 90 ASPPEPNNNNDDEFQDGVL 108 (157)
Q Consensus 90 asp~~p~~~~~~~~~~~~~ 108 (157)
. .+.++|..|++
T Consensus 86 ~-------~~Aeeln~~~~ 97 (237)
T cd07685 86 R-------KHAEDLNAGPL 97 (237)
T ss_pred H-------HHHHHHHhHHH
Confidence 2 35567777754
No 33
>KOG2398|consensus
Probab=89.15 E-value=0.37 Score=45.61 Aligned_cols=29 Identities=45% Similarity=0.693 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q psy10068 24 VIGELQDYFRKRAEVELDYSKSLDKLARS 52 (157)
Q Consensus 24 LLqDLqEffRRRAEIE~EYSR~LEKLAer 52 (157)
...+|.+|+++|+.||-+|++.|.+|+..
T Consensus 7 ~~~~l~~F~~eRa~iE~~y~k~~~~l~~k 35 (611)
T KOG2398|consen 7 STKELADFVRERASIEEDYAKRMGKLAAK 35 (611)
T ss_pred hhhhHHHHHHHHHhhhHHHHHHHHHHhhc
Confidence 35789999999999999999999998864
No 34
>KOG2856|consensus
Probab=82.74 E-value=3.6 Score=38.49 Aligned_cols=69 Identities=13% Similarity=0.098 Sum_probs=50.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCcchhHHHHHhhhhhhccCcC
Q psy10068 17 RMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQKQNELDNNVNSLGYQYEVEDLSMKSTSGKA 90 (157)
Q Consensus 17 r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~k~krdqw~lss~~~W~~lL~~t~~~~~g~a 90 (157)
|.|-=..|+.||+.-++.||+||.-||+.|---|++.-+-+- |-.+ --++--+|..+++.+-.-|.-|-
T Consensus 22 Ri~DG~rlc~Dl~~~~qERA~IEk~YaqqL~~wakkWr~lve----kgpq-yGt~e~aW~~~~teaerlS~lH~ 90 (472)
T KOG2856|consen 22 RIEDGHRLCNDLMNCSQERARIEKAYAQQLTDWAKKWRQLVE----KGPQ-YGTVEKAWNAFMTEAERLSELHL 90 (472)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh----cCcc-cchHHHHHHHHHHHHHHHHHHHH
Confidence 445556799999999999999999999999999887765443 2221 12233589999987766555543
No 35
>PF14772 NYD-SP28: Sperm tail
Probab=69.26 E-value=27 Score=25.01 Aligned_cols=46 Identities=28% Similarity=0.460 Sum_probs=40.4
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q psy10068 2 DIRLQLNEQLRCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLA 50 (157)
Q Consensus 2 EIR~QL~EQLKcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLA 50 (157)
+++..|..|-+-.+.-.+.+-.+++.|+.-++.+ |-+|.+.|.+=+
T Consensus 55 eL~~~ie~q~~~~e~ii~~Kd~lI~~L~~eL~~~---deqy~~~lr~q~ 100 (104)
T PF14772_consen 55 ELRKEIEEQKQACERIIDRKDALIKELQQELKEA---DEQYVKALRKQA 100 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHH
Confidence 6788888888999999999999999999999988 889999887643
No 36
>cd07291 PX_SNX5 The phosphoinositide binding Phox Homology domain of Sorting Nexin 5. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. SNX5, abundantly expressed in macrophages, regulates macropinocytosis, a process that enables cells to internalize large amounts of external solutes. It may also be a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi, acting
Probab=66.03 E-value=9.8 Score=30.67 Aligned_cols=33 Identities=15% Similarity=0.318 Sum_probs=27.5
Q ss_pred HHHHHHHHHHhHHHHHHHHHH---HHHHHHHHHHhh
Q psy10068 29 QDYFRKRAEVELDYSKSLDKL---ARSLQLRHKEQK 61 (157)
Q Consensus 29 qEffRRRAEIE~EYSR~LEKL---Aerf~~R~K~~k 61 (157)
.+|.++|+++|.||---.-|- -++|.+|+..+-
T Consensus 91 eef~~~r~~~~~~~~~~~kk~~a~lE~fL~Ria~HP 126 (141)
T cd07291 91 EEFAKMKQELEAEYLAVFKKTVQVHEVFLQRLSSHP 126 (141)
T ss_pred HHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHhhCC
Confidence 589999999999998777775 678999987654
No 37
>COG4003 Uncharacterized protein conserved in archaea [Function unknown]
Probab=54.85 E-value=9 Score=29.50 Aligned_cols=22 Identities=32% Similarity=0.599 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHhHHHHHHHHH
Q psy10068 27 ELQDYFRKRAEVELDYSKSLDK 48 (157)
Q Consensus 27 DLqEffRRRAEIE~EYSR~LEK 48 (157)
++-.||-+|+||--|||+.|..
T Consensus 52 Eii~yleKrGEi~~E~A~~L~~ 73 (98)
T COG4003 52 EIINYLEKRGEITPEMAKALRV 73 (98)
T ss_pred HHHHHHHHhCCCCHHHHHHHHh
Confidence 5667999999999999999863
No 38
>PF07138 DUF1386: Protein of unknown function (DUF1386); InterPro: IPR009815 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf11; it is a family of uncharacterised viral proteins.
Probab=51.56 E-value=33 Score=31.11 Aligned_cols=95 Identities=20% Similarity=0.266 Sum_probs=59.0
Q ss_pred ChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCcchhHH---H
Q psy10068 1 MDIRLQLNEQLRCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQKQNELDNNVNSLGYQY---E 77 (157)
Q Consensus 1 ~EIR~QL~EQLKcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~k~krdqw~lss~~~W~---~ 77 (157)
+++|.|-..|+--||.=++.-..+...||.-+.| =|-.-+..+|+.||+-|-- .....+||| |
T Consensus 110 l~~R~~~g~~i~~ld~~~~i~~~~~~~Lq~~i~~--F~~f~~~~~L~~vA~vF~p------------~~~~~GWWY~KFC 175 (324)
T PF07138_consen 110 LEKRVQRGGQIFALDNFLEIHENVTDLLQTIIGR--FIHFVRCGKLEHVADVFNP------------TIDVVGWWYNKFC 175 (324)
T ss_pred HHHHhccccccccchhhhhhhHhHHHHHHHHHHH--HHHHhhhhHHHHHHHhcCC------------CCCcccchhhhHH
Confidence 3567777777777777666666666666665554 3445566667777766631 244579998 8
Q ss_pred HHhhhhhhccCcCCCCCCCCCCChhhhhhhhcccccc
Q psy10068 78 VEDLSMKSTSGKASPPEPNNNNDDEFQDGVLNLKKKS 114 (157)
Q Consensus 78 lL~~t~~~~~g~asp~~p~~~~~~~~~~~~~~~~~~~ 114 (157)
|+++..+-+.|.- | -..-+-+|+.|-...+-.
T Consensus 176 VlTYm~ri~~~~v-p----~el~~RL~~aV~K~i~~~ 207 (324)
T PF07138_consen 176 VLTYMHRIICGSV-P----AELLTRLQNAVNKFIKPN 207 (324)
T ss_pred HHHHHHHHHhCCC-c----HHHHHHHHHHHHHHhCcC
Confidence 9999887766642 2 122356666665544443
No 39
>PF00956 NAP: Nucleosome assembly protein (NAP); InterPro: IPR002164 It is thought that NAPs act as histone chaperones, shuttling both core and linker histones from their site of synthesis in the cytoplasm to the nucleus. The proteins may be involved in regulating gene expression and therefore cellular differentiation [, ]. The centrosomal protein c-Nap1, also known as Cep250, has been implicated in the cell-cycle-regulated cohesion of microtubule-organizing centres. This 281 kDa protein consists mainly of domains predicted to form coiled coil structures. The C-terminal region defines a novel histone-binding domain that is responsible for targeting CNAP1, and possibly condensin, to mitotic chromosomes []. During interphase, C-Nap1 localizes to the proximal ends of both parental centrioles, but it dissociates from these structures at the onset of mitosis. Re-association with centrioles then occurs in late telophase or at the very beginning of G1 phase, when daughter cells are still connected by post-mitotic bridges. Electron microscopic studies performed on isolated centrosomes suggest that a proteinaceous linker connects parental centrioles and C-Nap1 may be part of a linker structure that assures the cohesion of duplicated centrosomes during interphase, but that is dismantled upon centrosome separation at the onset of mitosis []. ; GO: 0006334 nucleosome assembly, 0005634 nucleus; PDB: 2E50_Q 2Z2R_A 2AYU_A 3Q66_A 3C9B_A 3Q68_B 3Q33_B 2ZD7_B 3DM7_A 3C9D_A ....
Probab=49.10 E-value=68 Score=26.09 Aligned_cols=53 Identities=15% Similarity=0.123 Sum_probs=26.1
Q ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhh---------hhhccCCCCcchhHHHHHhhhh
Q psy10068 30 DYFRKRAEVELDYSKSLDKLARSLQLRHKEQK---------QNELDNNVNSLGYQYEVEDLSM 83 (157)
Q Consensus 30 EffRRRAEIE~EYSR~LEKLAerf~~R~K~~k---------~krdqw~lss~~~W~~lL~~t~ 83 (157)
+|-+...+||..|.+...-|-++=..=+.... ...++ ....++.|..+|....
T Consensus 20 ~~~~e~~~le~ky~~~~~pl~~kR~~ii~g~~~~~~~~~~~~~~~~-~~gIP~FW~~vl~n~~ 81 (244)
T PF00956_consen 20 EFEEEIHELERKYNKLYKPLYEKRREIINGKREPTEIEWEERQEEK-PKGIPGFWLTVLKNHP 81 (244)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSS---HHHH-----SS-STTSTTHHHHHHHTSH
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHhccccccccccccchhhcc-ccCCCCccccccccCc
Confidence 45566666666666655554443111111100 00001 3446799998886544
No 40
>PTZ00007 (NAP-L) nucleosome assembly protein -L; Provisional
Probab=46.79 E-value=89 Score=27.99 Aligned_cols=61 Identities=11% Similarity=0.106 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhccC----------CCCcchhHHHHHhhh
Q psy10068 22 TAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQKQNELDN----------NVNSLGYQYEVEDLS 82 (157)
Q Consensus 22 ~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~k~krdqw----------~lss~~~W~~lL~~t 82 (157)
..-+..|+..-.+...||.+|.+.+-+|-..|..+.+-.-.+|..- +...++.|..||-..
T Consensus 40 ~~rv~aL~~lQ~e~~~le~ef~~ev~~LE~kY~~~~~Ply~kR~eII~G~~~~e~~~~gIP~FWl~vL~Nh 110 (337)
T PTZ00007 40 RETLKKLQLLQKEFDDLEVEYNAELRKLRSKYEDLYNPIYDKRKEALVQNGGAEIGTPGLPQFWLTAMKNN 110 (337)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHcCCcccccccCCcccHHHHHHHcC
Confidence 3345556666677888888888888888888876655433232221 224678998887643
No 41
>PF10550 Toxin_36: Conantokin-G mollusc-toxin; InterPro: IPR005918 The conantokins are a family of neuroactive peptides found in the venoms of fish-hunting cone snails. They possess a relatively high number of residues (4-5) of the non-standard amino acid gamma-carboxyglutamic acid (Gla), which is generated by the post-translational modification of glutamate (Glu) residues. Conantokins are the only naturally produced peptides known to be N-methyl-D-aspartate (NMDA) receptor antagonists and show therapeutic promise in treating conditions associated with NMDA receptor dysfunction. In animal models they have exhibited anticonvulsant and anti-Parkinsonian properties and have provided neuroprotection within therapeutically acceptable times following transient focal brain ischemia [, , , ]. Upon binding of Ca2+ to Gla, conantokin undergoes a conformational transition from a distorted curvilinear 3(10) helix to a linear alpha-helix. The binding of Ca2+ to conantokin leads to the exposure of a hydrophobic region on the opposite face of the helix []. Conantokins share relatively few sequence elements, which include include sequence identity at the first four residues, homologous positioning of the two most C-terminal Gla residues, and an Arg preceding the most C-terminal Gla []. The conantokin family is currently known to include: Conotoxin G from Conus geographus (Geography cone) (Nubecula geographus). Conantokin-L from Conus lynceus (Lynceus cone). Conantokin-R from Conus radiatus (Rayed cone). Conantokin-T from Conus tulipa (Fish-hunting cone snail) (Tulip cone). ; PDB: 1ONT_A.
Probab=44.01 E-value=23 Score=19.31 Aligned_cols=13 Identities=38% Similarity=0.414 Sum_probs=10.1
Q ss_pred hHHHHHHHHHHHH
Q psy10068 39 ELDYSKSLDKLAR 51 (157)
Q Consensus 39 E~EYSR~LEKLAe 51 (157)
|-||++.++.||+
T Consensus 2 eee~~km~~~lar 14 (15)
T PF10550_consen 2 EEEVAKMAAELAR 14 (15)
T ss_dssp HHHHHHHHHHH-H
T ss_pred hHHHHHHHHHHhc
Confidence 5689999999885
No 42
>KOG3612|consensus
Probab=39.47 E-value=45 Score=32.39 Aligned_cols=38 Identities=13% Similarity=0.183 Sum_probs=29.0
Q ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHh--hhhhccCCCC
Q psy10068 33 RKRAEVELDYSKSLDKLARSLQLRHKEQ--KQNELDNNVN 70 (157)
Q Consensus 33 RRRAEIE~EYSR~LEKLAerf~~R~K~~--k~krdqw~ls 70 (157)
+.|..+|.+.++++--+.+++...|++. ..||.||=-+
T Consensus 493 ~~r~tlE~k~~~n~~e~~kkl~~~~qr~l~etKkKQWC~n 532 (588)
T KOG3612|consen 493 EMRKTLEQKHAENIKEEIKKLAEEHQRALAETKKKQWCYN 532 (588)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3467888889999988888888887754 3588999544
No 43
>PF09868 DUF2095: Uncharacterized protein conserved in archaea (DUF2095); InterPro: IPR018662 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=32.21 E-value=36 Score=27.36 Aligned_cols=24 Identities=29% Similarity=0.491 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHH
Q psy10068 26 GELQDYFRKRAEVELDYSKSLDKL 49 (157)
Q Consensus 26 qDLqEffRRRAEIE~EYSR~LEKL 49 (157)
-++-+||.+|+||-.++|..|-..
T Consensus 81 LEVInylek~GEIt~e~A~eLr~~ 104 (128)
T PF09868_consen 81 LEVINYLEKRGEITPEEAKELRSI 104 (128)
T ss_pred HHHHHHHHHhCCCCHHHHHHHHHH
Confidence 367899999999999999988643
No 44
>cd06892 PX_SNX5_like The phosphoinositide binding Phox Homology domain of Sorting Nexins 5 and 6. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. Members of this subfamily include SNX5, SNX6, and similar proteins. They contain a Bin/Amphiphysin/Rvs (BAR) domain, which detects membrane curvature, C-terminal to the PX domain, similar to other sorting nexins including SNX1-2. The PX-BAR structural unit helps determine the specific membrane-targeting of som
Probab=30.61 E-value=56 Score=26.08 Aligned_cols=32 Identities=16% Similarity=0.283 Sum_probs=24.6
Q ss_pred HHHHHHHHHhHHHHHHHHHHH---HHHHHHHHHhh
Q psy10068 30 DYFRKRAEVELDYSKSLDKLA---RSLQLRHKEQK 61 (157)
Q Consensus 30 EffRRRAEIE~EYSR~LEKLA---erf~~R~K~~k 61 (157)
.|-++|.++|.||-.--.|-. ++|.+|+..+-
T Consensus 92 f~~~r~~~Le~~y~~~~~k~v~~~e~FL~RiA~HP 126 (141)
T cd06892 92 EFEKMKQELEAEYLAIFKKTVAMHEVFLRRLASHP 126 (141)
T ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhccCC
Confidence 566789999999977766554 79999987554
No 45
>PF13066 DUF3929: Protein of unknown function (DUF3929)
Probab=27.78 E-value=75 Score=22.87 Aligned_cols=25 Identities=20% Similarity=0.452 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q psy10068 25 IGELQDYFRKRAEVELDYSKSLDKLARSLQL 55 (157)
Q Consensus 25 LqDLqEffRRRAEIE~EYSR~LEKLAerf~~ 55 (157)
+.|+.||+-| +|.+.||+.|-|.+.
T Consensus 11 ikdikefcyr------d~~k~lervahrvmd 35 (65)
T PF13066_consen 11 IKDIKEFCYR------DQGKMLERVAHRVMD 35 (65)
T ss_pred hHHHHHHHhh------hhhHHHHHHHHHhcc
Confidence 5689999865 799999999988774
No 46
>PF04484 DUF566: Family of unknown function (DUF566) ; InterPro: IPR007573 This is a family of related proteins that is plant specific.
Probab=27.34 E-value=2.6e+02 Score=24.50 Aligned_cols=28 Identities=25% Similarity=0.307 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q psy10068 28 LQDYFRKRAEVELDYSKSLDKLARSLQL 55 (157)
Q Consensus 28 LqEffRRRAEIE~EYSR~LEKLAerf~~ 55 (157)
=-.|+-.=+.||.+|+-+|....+.+..
T Consensus 219 Q~~~Le~W~~le~~h~~sl~~~~~aL~a 246 (311)
T PF04484_consen 219 QMPYLEEWAALEREHSSSLSGATEALKA 246 (311)
T ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3356666789999999999999998875
No 47
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=26.73 E-value=1.3e+02 Score=22.08 Aligned_cols=30 Identities=17% Similarity=0.207 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy10068 10 QLRCLDLRMETQTAVIGELQDYFRKRAEVE 39 (157)
Q Consensus 10 QLKcLd~r~E~q~~LLqDLqEffRRRAEIE 39 (157)
+|+-.=.+.+.+.++|.....||++|.=++
T Consensus 82 ~L~~el~~L~~E~diLKKa~~~~~~~~~~~ 111 (121)
T PRK09413 82 ELQRLLGKKTMENELLKEAVEYGRAKKWIA 111 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhchhhhhh
Confidence 333333445556667777777777765544
No 48
>PF08627 CRT-like: CRT-like; InterPro: IPR013936 This region is found in proteins related to Plasmodium falciparum chloroquine resistance transporter (CRT).
Probab=26.54 E-value=28 Score=27.99 Aligned_cols=20 Identities=40% Similarity=0.371 Sum_probs=16.6
Q ss_pred CCCCCCChhhhhhhhccccc
Q psy10068 94 EPNNNNDDEFQDGVLNLKKK 113 (157)
Q Consensus 94 ~p~~~~~~~~~~~~~~~~~~ 113 (157)
.|-||+||||++.-.|+|..
T Consensus 8 ~~~~~~d~~~~~~~~~~~~~ 27 (130)
T PF08627_consen 8 SSINNGDDEFNYQDENTKSP 27 (130)
T ss_pred ccccCCccccccccccccCC
Confidence 46799999999998888744
No 49
>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs. It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].
Probab=26.19 E-value=3.4e+02 Score=26.53 Aligned_cols=45 Identities=27% Similarity=0.416 Sum_probs=31.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q psy10068 3 IRLQLNEQLRCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQ 54 (157)
Q Consensus 3 IR~QL~EQLKcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~ 54 (157)
.|..+...++.|..+.+.|..-|++|++ +|..|. ..-++||+||.
T Consensus 559 ar~ei~~rv~~Lk~~~e~Ql~~L~~l~e---~~~~l~----~~ae~LaeR~e 603 (717)
T PF10168_consen 559 AREEIQRRVKLLKQQKEQQLKELQELQE---ERKSLR----ESAEKLAERYE 603 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHH----HHHHHHHHHHH
Confidence 3667778888888888877777777766 455553 45567777765
No 50
>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=25.80 E-value=4.2e+02 Score=23.66 Aligned_cols=52 Identities=12% Similarity=0.208 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHHHHH--------------HHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhccCC
Q psy10068 17 RMETQTAVIGELQDYFR--------------KRAEVELDYSKSLDKLARSLQLRHKEQKQNELDNN 68 (157)
Q Consensus 17 r~E~q~~LLqDLqEffR--------------RRAEIE~EYSR~LEKLAerf~~R~K~~k~krdqw~ 68 (157)
......+-|.+|.+||. ||-.++.-+.+-+.++++.+..-.-.....|+.|.
T Consensus 326 ~i~~~~~~l~~L~~~Y~~F~~aY~~LL~Ev~RRr~~~~k~~~i~~~~~eeL~~l~eeE~~~Re~F~ 391 (412)
T PF04108_consen 326 SIQAYIDELEQLCEFYEGFLSAYDSLLLEVERRRAVRDKMKKIIREANEELDKLREEEQRRREAFL 391 (412)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566777788888865 45444555555555555555544444455555553
No 51
>PF07956 DUF1690: Protein of Unknown function (DUF1690) ; InterPro: IPR012471 Family of uncharacterised fungal proteins.
Probab=25.59 E-value=3.3e+02 Score=21.36 Aligned_cols=18 Identities=28% Similarity=0.291 Sum_probs=13.4
Q ss_pred cCCCCcchhHHHHHhhhh
Q psy10068 66 DNNVNSLGYQYEVEDLSM 83 (157)
Q Consensus 66 qw~lss~~~W~~lL~~t~ 83 (157)
.++-.|.+||..|..-..
T Consensus 122 ~N~~rPLnCw~EVe~FKk 139 (142)
T PF07956_consen 122 ENDGRPLNCWEEVEAFKK 139 (142)
T ss_pred HCCCCCCchHHHHHHHHH
Confidence 356678899999986543
No 52
>PF15539 CAF1-p150_C2: CAF1 complex subunit p150, region binding to CAF1-p60 at C-term
Probab=24.51 E-value=48 Score=29.78 Aligned_cols=76 Identities=21% Similarity=0.270 Sum_probs=45.9
Q ss_pred CCCcchhHHHHHhhhh--hhccCcCCCCCCCCCCChhhhhhhhccccccchhhHHHHHhhhhHhhhhhcccCCCCCCCCC
Q psy10068 68 NVNSLGYQYEVEDLSM--KSTSGKASPPEPNNNNDDEFQDGVLNLKKKSAQEFTIENIISREKHARRYENETAPSPSCED 145 (157)
Q Consensus 68 ~lss~~~W~~lL~~t~--~~~~g~asp~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 145 (157)
.|..+|.|.-+++.-. .+..|....++|. |.--+.+|.|||-...|-..+.|-.|...-.+... .--=.|
T Consensus 168 ~LpvPcQW~Y~t~~ps~~~ed~g~~p~tgp~-------q~tP~s~krksagsm~it~fmkk~~~~~q~~~~d~-dgfqad 239 (292)
T PF15539_consen 168 DLPVPCQWNYTTTVPSAPREDSGSTPITGPS-------QGTPVSLKRKSAGSMCITKFMKKRRHDEQVGAGDM-DGFQAD 239 (292)
T ss_pred cCCCccceeeeeccCCCCccccCCCCCCCCC-------CCCcccccccccCcccHHHHHHhcCcccccccccC-cccccC
Confidence 5666788877664322 1222221122221 23346899999999999999999888776655432 233456
Q ss_pred chhHHH
Q psy10068 146 TESEEE 151 (157)
Q Consensus 146 ~~~~~~ 151 (157)
||.+||
T Consensus 240 tee~ee 245 (292)
T PF15539_consen 240 TEEDEE 245 (292)
T ss_pred cccccc
Confidence 766654
No 53
>PF01388 ARID: ARID/BRIGHT DNA binding domain; InterPro: IPR001606 Members of the recently discovered ARID (AT-rich interaction domain; also known as BRIGHT domain)) family of DNA-binding proteins are found in fungi and invertebrate and vertebrate metazoans. ARID-encoding genes are involved in a variety of biological processes including embryonic development, cell lineage gene regulation and cell cycle control. Although the specific roles of this domain and of ARID-containing proteins in transcriptional regulation are yet to be elucidated, they include both positive and negative transcriptional regulation and a likely involvement in the modification of chromatin structure []. The basic structure of the ARID domain domain appears to be a series of six alpha-helices separated by beta-strands, loops, or turns, but the structured region may extend to an additional helix at either or both ends of the basic six. Based on primary sequence homology, they can be partitioned into three structural classes: Minimal ARID proteins that consist of a core domain formed by six alpha helices; ARID proteins that supplement the core domain with an N-terminal alpha-helix; and Extended-ARID proteins, which contain the core domain and additional alpha-helices at their N- and C-termini. The human SWI-SNF complex protein p270 is an ARID family member with non-sequence-specific DNA binding activity. The ARID consensus and other structural features are common to both p270 and yeast SWI1, suggesting that p270 is a human counterpart of SWI1 []. The approximately 100-residue ARID sequence is present in a series of proteins strongly implicated in the regulation of cell growth, development, and tissue-specific gene expression. Although about a dozen ARID proteins can be identified from database searches, to date, only Bright (a regulator of B-cell-specific gene expression), dead ringer (a Drosophila melanogaster gene product required for normal development), and MRF-2 (which represses expression from the Cytomegalovirus enhancer) have been analyzed directly in regard to their DNA binding properties. Each binds preferentially to AT-rich sites. In contrast, p270 shows no sequence preference in its DNA binding activity, thereby demonstrating that AT-rich binding is not an intrinsic property of ARID domains and that ARID family proteins may be involved in a wider range of DNA interactions [].; GO: 0003677 DNA binding, 0005622 intracellular; PDB: 1C20_A 1KQQ_A 2JRZ_A 2LM1_A 2YQE_A 2JXJ_A 2EH9_A 2CXY_A 2LI6_A 1KN5_A ....
Probab=24.39 E-value=57 Score=22.27 Aligned_cols=23 Identities=9% Similarity=0.303 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy10068 16 LRMETQTAVIGELQDYFRKRAEV 38 (157)
Q Consensus 16 ~r~E~q~~LLqDLqEffRRRAEI 38 (157)
..++.+..++..|.+|+.+|+.-
T Consensus 2 ~~~~~~~~F~~~L~~f~~~~g~~ 24 (92)
T PF01388_consen 2 ANTREREQFLEQLREFHESRGTP 24 (92)
T ss_dssp SSCHHHHHHHHHHHHHHHHTTSS
T ss_pred CcchHHHHHHHHHHHHHHHcCCC
Confidence 35677889999999999998653
No 54
>PF07544 Med9: RNA polymerase II transcription mediator complex subunit 9; InterPro: IPR011425 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents subunit Med9 of the Mediator complex. Subunit Med9 is part of the middle module of the Mediator complex []; this associates with the core polymerase subunits to form the RNA polymerase II holoenzyme. Med9 alternatively known as the chromosome segregation protein, CSE2 (P33308 from SWISSPROT) is required, along with CSE1 (P33307 from SWISSPROT) for accurate mitotic chromosome segregation in Saccharomyces cerevisiae (Baker's yeast) [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=24.34 E-value=1.4e+02 Score=21.15 Aligned_cols=22 Identities=14% Similarity=0.422 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy10068 9 EQLRCLDLRMETQTAVIGELQD 30 (157)
Q Consensus 9 EQLKcLd~r~E~q~~LLqDLqE 30 (157)
++++-|+.+.+.+.++|+++.+
T Consensus 59 ~~i~~Le~~i~~k~~~L~~~~~ 80 (83)
T PF07544_consen 59 EEIEELEEQIRKKREVLQKFKE 80 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4566666677777777666543
No 55
>PF14235 DUF4337: Domain of unknown function (DUF4337)
Probab=24.23 E-value=3.7e+02 Score=21.37 Aligned_cols=51 Identities=10% Similarity=0.182 Sum_probs=38.5
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhccCCCCcc
Q psy10068 21 QTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQKQNELDNNVNSL 72 (157)
Q Consensus 21 q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~k~krdqw~lss~ 72 (157)
+..+-.++.+|=+..++++.| ++.|++-|+.+..+.-...++-+.|.+...
T Consensus 68 ~~~~~~~i~~Y~~~~~~~~~e-~~~l~~~A~~~e~~~d~~~~~~~~f~~a~~ 118 (157)
T PF14235_consen 68 RAAYQKKIARYKKEKARYKSE-AEELEAKAKEAEAESDHALHHHHRFDLAVA 118 (157)
T ss_pred hhhHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHhHHHHhcccchhHHHHH
Confidence 777888899999999999998 888888888877665555555555655544
No 56
>PF09457 RBD-FIP: FIP domain ; InterPro: IPR019018 The Rab11 GTPase regulates recycling of internalized plasma membrane receptors and is essential for completion of cytokinesis. A family of Rab11 interacting proteins (FIPs) that conserve a C-terminal Rab-binding domain (RBD) selectively recognise the active form of Rab11. FIPs are diverse in sequence length and composition toward their N-termini, presumably a feature that underpins their specific roles in Rab11-mediated vesicle trafficking. They have been divided into three subfamilies (classe I, II, and III)on the basis of domain architecture. Class I FIPs comprises a subfamily of three proteins (Rip11/pp75/FIP5, Rab-coupling protein (RCP), and FIP2) that possess an N- terminal C2 domain, localize to recycling endosomes, and regulate plasma membrane recycling. The class II subfamily consists of two proteins (FIP3/eferin/arfophilin and FIP4) with tandem EF hands and a proline-rich region. Class II FIPs localize to recycling endosomes, the trans-Golgi network, and have been implicated in the regulation of membrane trafficking during cytokinesis. The class III subfamily consists of a single protein, FIP1, which does not contain obvious homology domains or motifs other than the FIP-RBD [, , , ]. The FIP-RBD domain is also found in Rab6-interacting protein Erc1/Elks. Erc1 is the regulatory subunit of the IKK complex and probably recruits IkappaBalpha/NFKBIA to the complex []. It may be involved in the organisation of the cytomatrix at the nerve terminals active zone (CAZ) which regulates neurotransmitter release. It may also be involved in vesicle trafficking at the CAZ, as well as in Rab-6 regulated endosomes to Golgi transport []. The FIB-RBD domain consists of an N-terminal long alpha-helix, followed by a 90 degrees bend at a conserved proline residue, a 3(10) helix and a C-terminal short beta-strand, adopting an "L" shape. The long alpha-helix forms a parallel coiled-coil homodimer that symmetrically interacts with two Rab11 molecules on both sides, forming a quaternary Rab11-(FIP)2-Rab11 complex. The Rab11-interacting region of FIP-RBD is confined to the C-terminal 24 amino acids, which cover the C-terminal half of the long alpha-helix and the short beta-strand [, , , ]. This entry represents the FIP-RBD domain.; PDB: 2HV8_E 2D7C_D 2K6S_B 2GZD_D 2GZH_B.
Probab=23.67 E-value=2.3e+02 Score=18.94 Aligned_cols=28 Identities=21% Similarity=0.292 Sum_probs=17.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy10068 5 LQLNEQLRCLDLRMETQTAVIGELQDYF 32 (157)
Q Consensus 5 ~QL~EQLKcLd~r~E~q~~LLqDLqEff 32 (157)
.+|..-+...+.-...+-.-+.||++|+
T Consensus 3 eeL~~~l~~~e~~~~~k~~~v~eLe~Yi 30 (48)
T PF09457_consen 3 EELISLLKKQEEENARKDSRVRELEDYI 30 (48)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555555555555566677888886
No 57
>PF12668 DUF3791: Protein of unknown function (DUF3791); InterPro: IPR024269 This entry represents proteins of unknown function.
Probab=22.97 E-value=71 Score=21.21 Aligned_cols=21 Identities=14% Similarity=0.572 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q psy10068 16 LRMETQTAVIGELQDYFRKRA 36 (157)
Q Consensus 16 ~r~E~q~~LLqDLqEffRRRA 36 (157)
..+++.--++.||.+|+++|+
T Consensus 42 lHt~s~~yivedi~~~l~~~g 62 (62)
T PF12668_consen 42 LHTQSDEYIVEDIIEYLKNRG 62 (62)
T ss_pred HHHCcHHHHHHHHHHHHHhcC
Confidence 578889999999999999885
No 58
>PF05511 ATP-synt_F6: Mitochondrial ATP synthase coupling factor 6; InterPro: IPR008387 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunit F6 (or coupling factor 6) found in the F0 complex of F-ATPases in mitochondria. The F6 subunit is part of the peripheral stalk that links the F1 and F0 complexes together, and which acts as a stator to prevent certain subunits from rotating with the central rotary element. The peripheral stalk differs in subunit composition between mitochondrial, chloroplast and bacterial F-ATPases. In mitochondria, the peripheral stalk is composed of one copy each of subunits OSCP (oligomycin sensitivity conferral protein), F6, B and D []. There is no homologue of subunit F6 in bacterial or chloroplast F-ATPase, whose peripheral stalks are composed of one copy of the delta subunit (homologous to OSCP), and two copies of subunit B in bacteria, or one copy each of subunits B and B' in chloroplasts and photosynthetic bacteria. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0000276 mitochondrial proton-transporting ATP synthase complex, coupling factor F(o); PDB: 2WSS_V 2CLY_C 1VZS_A.
Probab=22.48 E-value=92 Score=23.82 Aligned_cols=35 Identities=29% Similarity=0.486 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHH-----------HHHhHHHHHHHHHHHHHHH
Q psy10068 20 TQTAVIGELQDYFRKR-----------AEVELDYSKSLDKLARSLQ 54 (157)
Q Consensus 20 ~q~~LLqDLqEffRRR-----------AEIE~EYSR~LEKLAerf~ 54 (157)
.|.-+|.-|.||-.|. .|++.||...|+||++.|-
T Consensus 37 IQklFldKIREY~~Ksks~gGklVD~~Pe~~kel~eel~kL~r~YG 82 (99)
T PF05511_consen 37 IQKLFLDKIREYNQKSKSSGGKLVDAGPEYEKELNEELEKLARQYG 82 (99)
T ss_dssp TTHHHHHHHHHHHHHHTTTSS-STT--THHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhccCCCCCCCCCHHHHHHHHHHHHHHHHHhC
Confidence 4566788899994443 4899999999999998875
No 59
>PF14942 Muted: Organelle biogenesis, Muted-like protein
Probab=22.28 E-value=1.6e+02 Score=23.27 Aligned_cols=28 Identities=11% Similarity=0.266 Sum_probs=23.4
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHHH
Q psy10068 29 QDYFRKRAEVELDYSKSLDKLARSLQLR 56 (157)
Q Consensus 29 qEffRRRAEIE~EYSR~LEKLAerf~~R 56 (157)
.+...++++|+-+|.++-+.|.+.|+.-
T Consensus 114 ~e~~~~~~~vdee~~~~~~~l~e~Y~~~ 141 (145)
T PF14942_consen 114 KEQQQKKQRVDEEFREKEERLKEQYSEM 141 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445789999999999999999998753
No 60
>PF08706 D5_N: D5 N terminal like; InterPro: IPR014818 This domain is found in D5 proteins of DNA viruses and bacteriophage P4 DNA primase.
Probab=22.16 E-value=2.8e+02 Score=19.31 Aligned_cols=28 Identities=29% Similarity=0.478 Sum_probs=20.6
Q ss_pred CChhhhhhhhccccccchhhHHHHHhhh
Q psy10068 99 NDDEFQDGVLNLKKKSAQEFTIENIISR 126 (157)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 126 (157)
+-=-|..||++|+......++-+..+..
T Consensus 99 ~~i~~~NGvldl~tg~l~~h~p~~~~t~ 126 (150)
T PF08706_consen 99 NLINFKNGVLDLRTGELRPHDPEDYITK 126 (150)
T ss_pred CEEecCCEEEECCCCeecCCCHHHeEee
Confidence 3456899999999977777666665543
No 61
>COG3418 Flagellar biosynthesis/type III secretory pathway chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]
Probab=21.28 E-value=1.4e+02 Score=24.44 Aligned_cols=43 Identities=19% Similarity=0.132 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH-----HHHHHHHH
Q psy10068 13 CLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLD-----KLARSLQL 55 (157)
Q Consensus 13 cLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LE-----KLAerf~~ 55 (157)
.|+.=+|.|..||+-|.--=+.|+.++.+|.-..+ +|+++...
T Consensus 39 ~lq~i~~qK~sLl~~L~~l~Q~R~~~~~~ani~~dye~~~~L~erwq~ 86 (146)
T COG3418 39 VLQEITEQKSSLLATLDYLDQDRAKEPNEANIFPDYESNNDLNERWQE 86 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhchhhcccCCCccchHHHHHHHHH
Confidence 57777899999999999999999999999998884 99988764
No 62
>cd07292 PX_SNX6 The phosphoinositide binding Phox Homology domain of Sorting Nexin 6. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. SNX6 forms a stable complex with SNX1 and may be a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi, acting as a mammalian equivalent of yeast Vsp17p. It interacts with the receptor serine/threonine kinases from the transfo
Probab=21.22 E-value=1.6e+02 Score=23.81 Aligned_cols=34 Identities=15% Similarity=0.316 Sum_probs=25.6
Q ss_pred HHHHHHHHHHhHHHHHHHHH---HHHHHHHHHHHhhh
Q psy10068 29 QDYFRKRAEVELDYSKSLDK---LARSLQLRHKEQKQ 62 (157)
Q Consensus 29 qEffRRRAEIE~EYSR~LEK---LAerf~~R~K~~k~ 62 (157)
.+|.+.|.|+|.||---.-| +-++|.+|+..+--
T Consensus 91 ee~~~~~~~l~~~~~~~~kk~~a~~E~Fl~Ria~HP~ 127 (141)
T cd07292 91 EEFTKMKQELEAEYLAIFKKTVAMHEVFLCRVAAHPI 127 (141)
T ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhcCCc
Confidence 47788899999999755543 45889999886643
No 63
>PF11285 DUF3086: Protein of unknown function (DUF3086); InterPro: IPR021437 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=20.01 E-value=2.8e+02 Score=24.99 Aligned_cols=51 Identities=25% Similarity=0.370 Sum_probs=39.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhh
Q psy10068 8 NEQLRCLDLRMETQTAVIGELQDYFRKRAEVELDYSKSLDKLARSLQLRHKEQK 61 (157)
Q Consensus 8 ~EQLKcLd~r~E~q~~LLqDLqEffRRRAEIE~EYSR~LEKLAerf~~R~K~~k 61 (157)
.+-|+-|+.| +.+|..++..-=|||..||.|-..+..--+.-+..|.|..+
T Consensus 3 ~~~L~eL~qr---k~~Lq~eIe~LerR~~ri~~EmrtsFaG~Sq~lA~RVqGFk 53 (283)
T PF11285_consen 3 QEALKELEQR---KQALQIEIEQLERRRERIEKEMRTSFAGQSQDLAIRVQGFK 53 (283)
T ss_pred hHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHcccccchHHHHHHHhhhH
Confidence 3456667654 67888999999999999999998888777777777776543
Done!