Query psy11712
Match_columns 123
No_of_seqs 94 out of 105
Neff 4.9
Searched_HMMs 46136
Date Fri Aug 16 17:01:46 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11712.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/11712hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3038|consensus 100.0 1.9E-36 4.1E-41 244.5 10.7 118 1-121 87-204 (264)
2 PF07039 DUF1325: SGF29 tudor- 99.9 1.5E-25 3.2E-30 165.3 7.9 76 44-121 1-77 (130)
3 smart00743 Agenet Tudor-like d 97.4 0.001 2.2E-08 42.0 6.8 59 42-105 2-60 (61)
4 smart00333 TUDOR Tudor domain. 95.0 0.14 3E-06 31.3 6.1 54 42-103 2-55 (57)
5 PF09465 LBR_tudor: Lamin-B re 94.0 0.48 1E-05 30.8 7.0 41 40-84 3-43 (55)
6 PF05641 Agenet: Agenet domain 93.7 0.41 9E-06 31.1 6.4 58 43-102 1-64 (68)
7 PF11302 DUF3104: Protein of u 89.9 1.3 2.9E-05 30.3 5.6 45 42-86 5-57 (75)
8 cd04508 TUDOR Tudor domains ar 89.3 1.6 3.5E-05 25.6 5.1 35 46-85 1-35 (48)
9 PF15057 DUF4537: Domain of un 85.0 3.1 6.8E-05 30.2 5.6 58 40-103 53-114 (124)
10 PF07039 DUF1325: SGF29 tudor- 78.2 10 0.00023 27.8 6.3 61 39-103 68-130 (130)
11 PF15057 DUF4537: Domain of un 76.7 11 0.00024 27.4 6.0 52 46-105 1-52 (124)
12 PF00567 TUDOR: Tudor domain; 74.3 21 0.00045 23.5 6.5 56 41-103 50-105 (121)
13 PTZ00014 myosin-A; Provisional 59.1 33 0.00071 32.6 6.6 68 39-112 26-95 (821)
14 PF11717 Tudor-knot: RNA bindi 55.8 31 0.00067 21.3 4.2 30 43-77 1-30 (55)
15 cd05834 HDGF_related The PWWP 51.9 40 0.00086 22.8 4.6 57 42-105 2-61 (83)
16 cd06080 MUM1_like Mutated mela 48.0 32 0.0007 23.5 3.6 39 43-86 1-39 (80)
17 PF10377 ATG11: Autophagy-rela 46.7 31 0.00068 25.3 3.6 30 61-96 89-118 (129)
18 PF02736 Myosin_N: Myosin N-te 45.6 52 0.0011 19.4 3.9 22 61-84 11-32 (42)
19 PF09470 Telethonin: Telethoni 45.5 9.1 0.0002 29.8 0.6 29 77-105 65-95 (167)
20 COG3670 Lignostilbene-alpha,be 36.8 80 0.0017 28.6 5.2 44 59-102 436-480 (490)
21 PF07795 DUF1635: Protein of u 35.9 17 0.00037 29.4 0.8 10 100-109 155-164 (214)
22 KOG2832|consensus 32.8 42 0.00091 29.5 2.8 30 77-109 285-314 (393)
23 PF11604 CusF_Ec: Copper bindi 31.3 73 0.0016 20.7 3.2 26 41-68 41-66 (70)
24 cd05162 PWWP The PWWP domain, 28.8 1.7E+02 0.0037 19.1 4.9 55 43-104 1-64 (87)
25 KOG3038|consensus 27.9 2.7E+02 0.0058 23.4 6.5 67 33-104 190-261 (264)
26 cd05841 BS69_related The PWWP 26.2 1.1E+02 0.0025 20.9 3.6 53 43-103 7-59 (83)
27 smart00293 PWWP domain with co 26.1 1.7E+02 0.0038 18.3 4.8 52 43-101 1-62 (63)
28 KOG2339|consensus 25.4 86 0.0019 29.2 3.6 40 42-83 451-490 (624)
29 PF00018 SH3_1: SH3 domain; I 25.3 1.1E+02 0.0024 17.7 3.0 29 38-70 11-39 (48)
30 PF06003 SMN: Survival motor n 24.0 2.7E+02 0.0059 22.7 5.9 39 39-81 65-103 (264)
31 PF07238 PilZ: PilZ domain; I 24.0 1.9E+02 0.0042 18.0 4.6 38 42-80 44-81 (102)
32 COG0647 NagD Predicted sugar p 23.8 58 0.0013 26.8 2.0 51 4-54 171-222 (269)
33 cd05792 S1_eIF1AD_like S1_eIF1 23.5 1.2E+02 0.0026 20.6 3.2 22 64-86 2-23 (78)
34 PHA03356 tegument protein UL11 23.2 1.2E+02 0.0026 21.5 3.2 33 66-100 23-56 (93)
35 PLN00104 MYST -like histone ac 23.0 3.3E+02 0.0071 24.4 6.6 30 40-73 51-80 (450)
36 PF12195 End_beta_barrel: Beta 22.5 2.3E+02 0.0051 19.7 4.5 42 40-85 25-66 (83)
37 PF13234 rRNA_proc-arch: rRNA- 22.2 1.8E+02 0.0039 23.0 4.5 28 42-74 72-99 (268)
38 CHL00142 rps17 ribosomal prote 21.6 2.6E+02 0.0057 19.2 4.6 32 39-70 47-78 (84)
39 PLN02258 9-cis-epoxycarotenoid 21.4 2E+02 0.0044 26.3 5.1 27 59-85 533-559 (590)
40 PF01079 Hint: Hint module; I 21.2 2.1E+02 0.0045 22.7 4.7 55 42-103 31-89 (217)
41 PRK05610 rpsQ 30S ribosomal pr 21.1 2.7E+02 0.0059 19.0 4.7 31 40-70 51-81 (84)
42 PF09378 HAS-barrel: HAS barre 21.1 66 0.0014 20.8 1.5 28 41-73 21-48 (91)
43 cd04456 S1_IF1A_like S1_IF1A_l 20.7 1.7E+02 0.0037 19.6 3.5 22 64-86 2-23 (78)
44 PF07653 SH3_2: Variant SH3 do 20.2 1.8E+02 0.0039 17.3 3.3 26 39-68 14-40 (55)
No 1
>KOG3038|consensus
Probab=100.00 E-value=1.9e-36 Score=244.53 Aligned_cols=118 Identities=47% Similarity=0.769 Sum_probs=113.5
Q ss_pred CchHHHHHHHHhcccccceeecCCCCCCCCccccccCCCCCcCCCCCeEEEEeccCCCCCCceEEEEEeeeeCCCCceEE
Q psy11712 1 MRKSAYMKMLKSSAHTLPLWVGKPGQKPAALVGAIPADPSHIANRGDMVAALVRNVEDNEDNWILAEVVNYNASTRTYEV 80 (123)
Q Consensus 1 ~rrg~lm~~lq~~a~~lPlw~gk~~~~ppplcGaip~~~~~~~~~Gd~VAA~v~~~~~~~~~WILA~Vv~~~~~~~~YeV 80 (123)
|||+++|+++++++++||+|+|+++ ++|++||+||+++++++.+||+|||+++..+++ .+||||+|++|+++++ |||
T Consensus 87 ~~r~~~~el~k~~~~~lp~~~~~~~-~~p~~~gaip~~~~~~~~~gd~VAa~v~~~~~d-g~WIlaeVv~~~~~~~-ye~ 163 (264)
T KOG3038|consen 87 MRRGVLMELLKQKAMTLPLWIGKPG-KPPPLCGAIPAQGDYVLLKGDEVAARVKAVSED-GDWILAEVVKVSSETR-YEF 163 (264)
T ss_pred hhhhhhhhHHhhhccccccccCCCC-CCCcccccccccCCccccCCceeeeeeeeccCC-CCEEEEEEEEEecCCc-eEe
Confidence 7999999999999999999999999 999999999999999999999999999988777 6799999999988777 999
Q ss_pred eecCCCCCceeEecCCceeeCCCCCCCCCCCCCCCCCCCCC
Q psy11712 81 IDIDDVQKGPHQLSRKQIIPLPTKRANPETEPEALFPIGSV 121 (123)
Q Consensus 81 ~D~Dee~k~r~~ls~~~IIPLP~~ka~P~t~p~AlFp~g~~ 121 (123)
+|+|+|.|+...++|+++||||+|++||..+|+++||+|++
T Consensus 164 ev~D~Epk~d~~g~r~~~yklp~~~~~p~p~p~~~fpp~~~ 204 (264)
T KOG3038|consen 164 EVVDPEPKKDEVGNRGQLYKLPRWKLNPIPPPTALFPPGTI 204 (264)
T ss_pred EecCCCccccccccccceecccHhhcCCCCCCccCCCCCCE
Confidence 99999999999999999999999999999999999999985
No 2
>PF07039 DUF1325: SGF29 tudor-like domain; InterPro: IPR010750 SAGA-associated factor 29 is involved in transcriptional regulation, probably through association with histone acetyltransferase (HAT) complexes like the TFTC-HAT or STAGA complexes. It also may be involved in MYC-mediated oncogenic transformation. It is a component of the ATAC complex, which is a complex with histone acetyltransferase activity on histones H3 and H4 []. This entry represents a domain found in yeast and human SAGA-associated factor 29 proteins that is related to the tudor domain. ; PDB: 3MP6_A 3MP1_A 3MP8_A 3MET_B 3ME9_A 3MEU_B 3MEA_A 3MEV_B 3LX7_A 3MEW_A.
Probab=99.92 E-value=1.5e-25 Score=165.33 Aligned_cols=76 Identities=51% Similarity=0.795 Sum_probs=61.2
Q ss_pred CCCCeEEEEeccCCCCCCceEEEEEeeeeCCCCceEEeecCCC-CCceeEecCCceeeCCCCCCCCCCCCCCCCCCCCC
Q psy11712 44 NRGDMVAALVRNVEDNEDNWILAEVVNYNASTRTYEVIDIDDV-QKGPHQLSRKQIIPLPTKRANPETEPEALFPIGSV 121 (123)
Q Consensus 44 ~~Gd~VAA~v~~~~~~~~~WILA~Vv~~~~~~~~YeV~D~Dee-~k~r~~ls~~~IIPLP~~ka~P~t~p~AlFp~g~~ 121 (123)
++|++|||+++..+++ ++||||+|++|++++++|||+|+|++ ++++|++++++|||||+ ++++.+++.+.|++|+.
T Consensus 1 q~G~~VAak~~~~~~~-~~WIla~Vv~~~~~~~rYeV~D~d~~~~~~~~~~~~~~iIPLP~-~~~~~~~~~~~f~~g~~ 77 (130)
T PF07039_consen 1 QPGDQVAAKVKQGNEE-EEWILAEVVKYNSDGNRYEVEDPDPEEEKKRYKLSRKQIIPLPK-KAPPDTDPLAEFPKGTK 77 (130)
T ss_dssp -TT-EEEEEECTTTTT-CEEEEEEEEEEETTTTEEEEEETTTCTTTEEEEEEGGGEEEE-S-B--TTT-GGGS--TT-E
T ss_pred CCCCEEEEEcCCCCCC-CCEEEEEEEEEeCCCCEEEEecCCCCCCCceEEeCHHHEEECCC-ccCCCCCchhhCCCCCE
Confidence 5899999999954444 89999999999999999999999988 56799999999999997 99999999999999973
No 3
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=97.41 E-value=0.001 Score=42.00 Aligned_cols=59 Identities=19% Similarity=0.259 Sum_probs=48.4
Q ss_pred cCCCCCeEEEEeccCCCCCCceEEEEEeeeeCCCCceEEeecCCCCCceeEecCCceeeCCCCC
Q psy11712 42 IANRGDMVAALVRNVEDNEDNWILAEVVNYNASTRTYEVIDIDDVQKGPHQLSRKQIIPLPTKR 105 (123)
Q Consensus 42 ~~~~Gd~VAA~v~~~~~~~~~WILA~Vv~~~~~~~~YeV~D~Dee~k~r~~ls~~~IIPLP~~k 105 (123)
.++.|+.|.|+-+. + +.|.-|.|++++. .++|.|.=.++.....-+++.++|=|+|.|.
T Consensus 2 ~~~~G~~Ve~~~~~---~-~~W~~a~V~~~~~-~~~~~V~~~~~~~~~~e~v~~~~LRp~~~w~ 60 (61)
T smart00743 2 DFKKGDRVEVFSKE---E-DSWWEAVVTKVLG-DGKYLVRYLTESEPLKETVDWSDLRPHPPWV 60 (61)
T ss_pred CcCCCCEEEEEECC---C-CEEEEEEEEEECC-CCEEEEEECCCCcccEEEEeHHHcccCCCCC
Confidence 47899999999974 2 7899999999975 7789999988444456788889998888764
No 4
>smart00333 TUDOR Tudor domain. Domain of unknown function present in several RNA-binding proteins. 10 copies in the Drosophila Tudor protein. Initial proposal that the survival motor neuron gene product contain a Tudor domain are corroborated by more recent database search techniques such as PSI-BLAST (unpublished).
Probab=95.00 E-value=0.14 Score=31.28 Aligned_cols=54 Identities=28% Similarity=0.420 Sum_probs=42.2
Q ss_pred cCCCCCeEEEEeccCCCCCCceEEEEEeeeeCCCCceEEeecCCCCCceeEecCCceeeCCC
Q psy11712 42 IANRGDMVAALVRNVEDNEDNWILAEVVNYNASTRTYEVIDIDDVQKGPHQLSRKQIIPLPT 103 (123)
Q Consensus 42 ~~~~Gd~VAA~v~~~~~~~~~WILA~Vv~~~~~~~~YeV~D~Dee~k~r~~ls~~~IIPLP~ 103 (123)
..++|+.|+|+. .+ ..|--|+|++++.+ +.|.|.=+|-... -.+++..|=+||.
T Consensus 2 ~~~~G~~~~a~~-~d----~~wyra~I~~~~~~-~~~~V~f~D~G~~--~~v~~~~l~~l~~ 55 (57)
T smart00333 2 TFKVGDKVAARW-ED----GEWYRARIIKVDGE-QLYEVFFIDYGNE--EVVPPSDLRPLPE 55 (57)
T ss_pred CCCCCCEEEEEe-CC----CCEEEEEEEEECCC-CEEEEEEECCCcc--EEEeHHHeecCCC
Confidence 467899999998 42 68999999999866 8899987774432 4777888888873
No 5
>PF09465 LBR_tudor: Lamin-B receptor of TUDOR domain; InterPro: IPR019023 The Lamin-B receptor is a chromatin and lamin binding protein in the inner nuclear membrane. It is one of the integral inner nuclear envelope membrane proteins responsible for targeting nuclear membranes to chromatin, being a downstream effector of Ran, a small Ras-like nuclear GTPase which regulates NE assembly. Lamin-B receptor interacts with importin beta, a Ran-binding protein, thereby directly contributing to the fusion of membrane vesicles and the formation of the nuclear envelope []. ; PDB: 2L8D_A 2DIG_A.
Probab=93.99 E-value=0.48 Score=30.77 Aligned_cols=41 Identities=20% Similarity=0.280 Sum_probs=32.5
Q ss_pred CCcCCCCCeEEEEeccCCCCCCceEEEEEeeeeCCCCceEEeecC
Q psy11712 40 SHIANRGDMVAALVRNVEDNEDNWILAEVVNYNASTRTYEVIDID 84 (123)
Q Consensus 40 ~~~~~~Gd~VAA~v~~~~~~~~~WILA~Vv~~~~~~~~YeV~D~D 84 (123)
+.+...|+.|-++=..+ ..|.=|+|++||.++++|.|.=.|
T Consensus 3 ~~k~~~Ge~V~~rWP~s----~lYYe~kV~~~d~~~~~y~V~Y~D 43 (55)
T PF09465_consen 3 SRKFAIGEVVMVRWPGS----SLYYEGKVLSYDSKSDRYTVLYED 43 (55)
T ss_dssp SSSS-SS-EEEEE-TTT----S-EEEEEEEEEETTTTEEEEEETT
T ss_pred cccccCCCEEEEECCCC----CcEEEEEEEEecccCceEEEEEcC
Confidence 35788999999998853 689999999999999999998776
No 6
>PF05641 Agenet: Agenet domain; InterPro: IPR008395 This domain is related to the TUDOR domain IPR008191 from INTERPRO []. The function of the agenet domain is unknown. This signature matches one of the two Agenet domains in the FMR proteins [].; GO: 0003723 RNA binding; PDB: 2BKD_N 3O8V_A 3KUF_A 3H8Z_A.
Probab=93.69 E-value=0.41 Score=31.08 Aligned_cols=58 Identities=22% Similarity=0.247 Sum_probs=34.8
Q ss_pred CCCCCeEEEEeccCCCCCCceEEEEEeeeeCCCCceEEeecC---CCC--C-ceeEecCCceeeCC
Q psy11712 43 ANRGDMVAALVRNVEDNEDNWILAEVVNYNASTRTYEVIDID---DVQ--K-GPHQLSRKQIIPLP 102 (123)
Q Consensus 43 ~~~Gd~VAA~v~~~~~~~~~WILA~Vv~~~~~~~~YeV~D~D---ee~--k-~r~~ls~~~IIPLP 102 (123)
+++|++|-.+...++-. .-|.-|+|++...++ +|-|.=.| +++ + -.-+++.++|=|.|
T Consensus 1 F~~G~~VEV~s~e~g~~-gaWf~a~V~~~~~~~-~~~V~Y~~~~~~~~~~~~l~e~V~~~~iRP~p 64 (68)
T PF05641_consen 1 FKKGDEVEVSSDEDGFR-GAWFPATVLKENGDD-KYLVEYDDLPDEDGESPPLKEWVDARRIRPCP 64 (68)
T ss_dssp --TT-EEEEEE-SBTT---EEEEEEEEEEETT--EEEEEETT-SS--------EEEEEGGGEEE--
T ss_pred CCCCCEEEEEEcCCCCC-cEEEEEEEEEeCCCc-EEEEEECCcccccccccccEEEechheEECcC
Confidence 46899999998765544 789999999987543 77775432 222 2 24778889999988
No 7
>PF11302 DUF3104: Protein of unknown function (DUF3104); InterPro: IPR021453 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=89.89 E-value=1.3 Score=30.35 Aligned_cols=45 Identities=18% Similarity=0.404 Sum_probs=32.7
Q ss_pred cCCCCCeEEEEeccCC--CCCCceEEEEEeeeeC-----C-CCceEEeecCCC
Q psy11712 42 IANRGDMVAALVRNVE--DNEDNWILAEVVNYNA-----S-TRTYEVIDIDDV 86 (123)
Q Consensus 42 ~~~~Gd~VAA~v~~~~--~~~~~WILA~Vv~~~~-----~-~~~YeV~D~Dee 86 (123)
.+++||.|..+-.... ...++|=+++|+++.. + ..-|.|-|+|..
T Consensus 5 ~Vk~Gd~ViV~~~~~~~~~~~~dWWmg~Vi~~~ggaR~P~~~tlFQVadVDtG 57 (75)
T PF11302_consen 5 SVKPGDTVIVQDEQEVGQKQDKDWWMGQVIHCEGGARDPKVPTLFQVADVDTG 57 (75)
T ss_pred ccCCCCEEEEecCccccccCCCCcEEEEEEEEeccccCCCCCceEEEEEccCC
Confidence 4789999998866521 2236899999999863 2 223999999864
No 8
>cd04508 TUDOR Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to symmetrically dimethylated arginines of arginine-glycine (RG) rich sequences found in the C-terminal tails of Sm proteins. The SMN protein is linked to spinal muscular atrophy. Another example is the tandem tudor domains of 53BP1, which bind to histone H4 specifically dimethylated at Lys20 (H4-K20me2). 53BP1 is a key transducer of the DNA damage checkpoint signal.
Probab=89.27 E-value=1.6 Score=25.56 Aligned_cols=35 Identities=23% Similarity=0.334 Sum_probs=29.4
Q ss_pred CCeEEEEeccCCCCCCceEEEEEeeeeCCCCceEEeecCC
Q psy11712 46 GDMVAALVRNVEDNEDNWILAEVVNYNASTRTYEVIDIDD 85 (123)
Q Consensus 46 Gd~VAA~v~~~~~~~~~WILA~Vv~~~~~~~~YeV~D~De 85 (123)
|+.|+|+.+.+ ..|--|+|+++.. ++.|.|.=+|=
T Consensus 1 G~~c~a~~~~d----~~wyra~V~~~~~-~~~~~V~f~Dy 35 (48)
T cd04508 1 GDLCLAKYSDD----GKWYRAKITSILS-DGKVEVFFVDY 35 (48)
T ss_pred CCEEEEEECCC----CeEEEEEEEEECC-CCcEEEEEEcC
Confidence 78899998842 7899999999875 88899987773
No 9
>PF15057 DUF4537: Domain of unknown function (DUF4537)
Probab=85.05 E-value=3.1 Score=30.25 Aligned_cols=58 Identities=17% Similarity=0.167 Sum_probs=43.5
Q ss_pred CCcCCCCCeEEEEeccCCCCCCceEEEEEeee----eCCCCceEEeecCCCCCceeEecCCceeeCCC
Q psy11712 40 SHIANRGDMVAALVRNVEDNEDNWILAEVVNY----NASTRTYEVIDIDDVQKGPHQLSRKQIIPLPT 103 (123)
Q Consensus 40 ~~~~~~Gd~VAA~v~~~~~~~~~WILA~Vv~~----~~~~~~YeV~D~Dee~k~r~~ls~~~IIPLP~ 103 (123)
.+.+++||+|-|+.+..+ ..|+=|.|+.. -.+.+.|.|.=-|.. +.++++..++.+|.
T Consensus 53 ~~~L~~GD~VLA~~~~~~---~~Y~Pg~V~~~~~~~~~~~~~~~V~f~ng~---~~~vp~~~~~~I~~ 114 (124)
T PF15057_consen 53 RHSLQVGDKVLAPWEPDD---CRYGPGTVIAGPERRASEDKEYTVRFYNGK---TAKVPRGEVIWISP 114 (124)
T ss_pred cCcCCCCCEEEEecCcCC---CEEeCEEEEECccccccCCceEEEEEECCC---CCccchhhEEECCH
Confidence 678999999999966543 67999999973 235566766555543 46799999999883
No 10
>PF07039 DUF1325: SGF29 tudor-like domain; InterPro: IPR010750 SAGA-associated factor 29 is involved in transcriptional regulation, probably through association with histone acetyltransferase (HAT) complexes like the TFTC-HAT or STAGA complexes. It also may be involved in MYC-mediated oncogenic transformation. It is a component of the ATAC complex, which is a complex with histone acetyltransferase activity on histones H3 and H4 []. This entry represents a domain found in yeast and human SAGA-associated factor 29 proteins that is related to the tudor domain. ; PDB: 3MP6_A 3MP1_A 3MP8_A 3MET_B 3ME9_A 3MEU_B 3MEA_A 3MEV_B 3LX7_A 3MEW_A.
Probab=78.18 E-value=10 Score=27.84 Aligned_cols=61 Identities=20% Similarity=0.275 Sum_probs=39.4
Q ss_pred CCCcCCCCCeEEEEeccCCCCCCceEEEEEeeee-CCCCceEEeecCCCCCc-eeEecCCceeeCCC
Q psy11712 39 PSHIANRGDMVAALVRNVEDNEDNWILAEVVNYN-ASTRTYEVIDIDDVQKG-PHQLSRKQIIPLPT 103 (123)
Q Consensus 39 ~~~~~~~Gd~VAA~v~~~~~~~~~WILA~Vv~~~-~~~~~YeV~D~Dee~k~-r~~ls~~~IIPLP~ 103 (123)
....+.+|++|-|.-..+ ...--|+|++-. .....|.+.=.||+... ...++++.||++|+
T Consensus 68 ~~~~f~~g~~VLAlYP~T----T~FY~A~V~~~p~~~~~~y~l~Fedd~~~~~~~~V~~r~Vv~~p~ 130 (130)
T PF07039_consen 68 PLAEFPKGTKVLALYPDT----TCFYPATVVSPPKKKSGEYKLKFEDDEDADGYREVPQRYVVAFPQ 130 (130)
T ss_dssp GGGS--TT-EEEEE-TTS----SEEEEEEEEEE-SSTTS-EEEEECTTTSTTSBEEE-GGGEEE-H-
T ss_pred chhhCCCCCEEEEECCCC----ceEEEEEEEeCCCCCCCcEEEEEeCCCCcCCcEEEccceEEccCC
Confidence 345689999999998853 678899999962 45778988766554322 27899999999985
No 11
>PF15057 DUF4537: Domain of unknown function (DUF4537)
Probab=76.74 E-value=11 Score=27.39 Aligned_cols=52 Identities=17% Similarity=0.104 Sum_probs=40.6
Q ss_pred CCeEEEEeccCCCCCCceEEEEEeeeeCCCCceEEeecCCCCCceeEecCCceeeCCCCC
Q psy11712 46 GDMVAALVRNVEDNEDNWILAEVVNYNASTRTYEVIDIDDVQKGPHQLSRKQIIPLPTKR 105 (123)
Q Consensus 46 Gd~VAA~v~~~~~~~~~WILA~Vv~~~~~~~~YeV~D~Dee~k~r~~ls~~~IIPLP~~k 105 (123)
|.+|-||-..+ .-|.+|.|.+.- +.+.|.|++ +....-.++.+.||++-...
T Consensus 1 g~~VlAR~~~D----G~YY~GtV~~~~-~~~~~lV~f---~~~~~~~v~~~~iI~~~~~~ 52 (124)
T PF15057_consen 1 GQKVLARREED----GFYYPGTVKKCV-SSGQFLVEF---DDGDTQEVPISDIIALSDAM 52 (124)
T ss_pred CCeEEEeeCCC----CcEEeEEEEEcc-CCCEEEEEE---CCCCEEEeChHHeEEccCcc
Confidence 67899998854 579999999975 788999998 22345688888999887544
No 12
>PF00567 TUDOR: Tudor domain; InterPro: IPR008191 There are multiple copies of this domain in the Drosophila melanogaster tudor protein and it has been identified in several RNA-binding proteins []. Although the function of this domain is unknown, in Drosophila melanogaster the tudor protein is required during oogenesis for the formation of primordial germ cells and for normal abdominal segmentation [].; PDB: 3NTI_A 3NTK_B 3NTH_A 2DIQ_A 3FDR_A 3PNW_O 3S6W_A 3PMT_A 2WAC_A 2O4X_A ....
Probab=74.30 E-value=21 Score=23.45 Aligned_cols=56 Identities=23% Similarity=0.382 Sum_probs=39.5
Q ss_pred CcCCCCCeEEEEeccCCCCCCceEEEEEeeeeCCCCceEEeecCCCCCceeEecCCceeeCCC
Q psy11712 41 HIANRGDMVAALVRNVEDNEDNWILAEVVNYNASTRTYEVIDIDDVQKGPHQLSRKQIIPLPT 103 (123)
Q Consensus 41 ~~~~~Gd~VAA~v~~~~~~~~~WILA~Vv~~~~~~~~YeV~D~Dee~k~r~~ls~~~IIPLP~ 103 (123)
....+|..+.+.+..+ +.|--|+| ..+.+++.|+|.=+|... ..+++.++|=+||.
T Consensus 50 ~~~~~~~~~~~~~~~~----~~w~Ra~I-~~~~~~~~~~V~~iD~G~--~~~v~~~~l~~l~~ 105 (121)
T PF00567_consen 50 PESNPGEGCLCVVSED----GRWYRAVI-TVDIDENQYKVFLIDYGN--TEKVSASDLRPLPP 105 (121)
T ss_dssp ST--TTEEEEEEETTT----SEEEEEEE-EEEECTTEEEEEETTTTE--EEEEEGGGEEE--H
T ss_pred cccccCCEEEEEEecC----CceeeEEE-EEecccceeEEEEEecCc--eEEEcHHHhhhhCH
Confidence 3456777788888743 68999999 445789999999999764 35577777777773
No 13
>PTZ00014 myosin-A; Provisional
Probab=59.06 E-value=33 Score=32.55 Aligned_cols=68 Identities=16% Similarity=0.133 Sum_probs=45.1
Q ss_pred CCCcCCCCCeEEEEecc--CCCCCCceEEEEEeeeeCCCCceEEeecCCCCCceeEecCCceeeCCCCCCCCCCCC
Q psy11712 39 PSHIANRGDMVAALVRN--VEDNEDNWILAEVVNYNASTRTYEVIDIDDVQKGPHQLSRKQIIPLPTKRANPETEP 112 (123)
Q Consensus 39 ~~~~~~~Gd~VAA~v~~--~~~~~~~WILA~Vv~~~~~~~~YeV~D~Dee~k~r~~ls~~~IIPLP~~ka~P~t~p 112 (123)
.+....+|++|=..... ..++++-|++|+|+. ..+.+.+.|..+|+++.+.++++..++ +++||..++
T Consensus 26 ~~~~~~~g~~vw~~~~~~~~~~~~~~~~~~~v~~-~~~~~~~~~~~~~~~~~~~~~v~~~~~-----~~~n~~~~~ 95 (821)
T PTZ00014 26 KSGNVLKGFYVWTDKAPAVKEDPDLMFAKCLVLP-GSTGEKLTLKQIDPPTNSTFEVKPEHA-----FNANSQIDP 95 (821)
T ss_pred cccccccCCeEEeeCCCCCCCCchhheeeEEEEE-ecCCCEEEEEEecCCCCcEEEeeHHHh-----hhcCCCCCc
Confidence 34456689998876322 122336799999993 246778999877755545688888877 556666544
No 14
>PF11717 Tudor-knot: RNA binding activity-knot of a chromodomain ; PDB: 2EKO_A 2RO0_A 2RNZ_A 1WGS_A 3E9G_A 3E9F_A 2K3X_A 2K3Y_A 2EFI_A 2F5K_F ....
Probab=55.80 E-value=31 Score=21.33 Aligned_cols=30 Identities=13% Similarity=0.337 Sum_probs=21.8
Q ss_pred CCCCCeEEEEeccCCCCCCceEEEEEeeeeCCCCc
Q psy11712 43 ANRGDMVAALVRNVEDNEDNWILAEVVNYNASTRT 77 (123)
Q Consensus 43 ~~~Gd~VAA~v~~~~~~~~~WILA~Vv~~~~~~~~ 77 (123)
+..|++|-++-.. ..|-.|+|++...+.+.
T Consensus 1 ~~vG~~v~~~~~~-----~~~y~A~I~~~r~~~~~ 30 (55)
T PF11717_consen 1 FEVGEKVLCKYKD-----GQWYEAKILDIREKNGE 30 (55)
T ss_dssp --TTEEEEEEETT-----TEEEEEEEEEEEECTTC
T ss_pred CCcCCEEEEEECC-----CcEEEEEEEEEEecCCC
Confidence 4679999998821 78999999998655443
No 15
>cd05834 HDGF_related The PWWP domain is an essential part of the Hepatoma Derived Growth Factor (HDGF) family of proteins, and is necessary for DNA binding by HDGF. This family of endogenous nuclear-targeted mitogens includes HRP (HDGF-related proteins 1, 2, 3, 4, or HPR1, HPR2, HPR3, HPR4, respectively) and lens epithelium-derived growth factor, LEDGF. Members of the HDGF family have been linked to human diseases, and HDGF is a prognostic factor in several types of cancer. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=51.87 E-value=40 Score=22.77 Aligned_cols=57 Identities=19% Similarity=0.187 Sum_probs=41.9
Q ss_pred cCCCCCeEEEEeccCCCCCCceEEEEEeeee---CCCCceEEeecCCCCCceeEecCCceeeCCCCC
Q psy11712 42 IANRGDMVAALVRNVEDNEDNWILAEVVNYN---ASTRTYEVIDIDDVQKGPHQLSRKQIIPLPTKR 105 (123)
Q Consensus 42 ~~~~Gd~VAA~v~~~~~~~~~WILA~Vv~~~---~~~~~YeV~D~Dee~k~r~~ls~~~IIPLP~~k 105 (123)
..++||.|=|++++ .-|==|.|++-. +..++|-|.--... .+..++.++|.|+-..+
T Consensus 2 ~f~~GdlVwaK~kG-----yp~WPa~I~~~~~~~~~~~~~~V~FfGt~--~~a~v~~~~l~pf~~~~ 61 (83)
T cd05834 2 QFKAGDLVFAKVKG-----YPAWPARVDEPEDWKPPGKKYPVYFFGTH--ETAFLKPEDLFPYTENK 61 (83)
T ss_pred CCCCCCEEEEecCC-----CCCCCEEEecccccCCCCCEEEEEEeCCC--CEeEECHHHceecccch
Confidence 46899999999985 456667777653 33678988887742 45678999999887543
No 16
>cd06080 MUM1_like Mutated melanoma-associated antigen 1 (MUM-1) is a melanoma-associated antigen (MAA). MUM-1 belongs to the mutated or aberrantly expressed type of MAAs, along with antigens such as CDK4, beta-catenin, gp100-in4, p15, and N-acetylglucosaminyltransferase V. It is highly expressed in several types of human cancers. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=48.04 E-value=32 Score=23.47 Aligned_cols=39 Identities=21% Similarity=0.222 Sum_probs=31.2
Q ss_pred CCCCCeEEEEeccCCCCCCceEEEEEeeeeCCCCceEEeecCCC
Q psy11712 43 ANRGDMVAALVRNVEDNEDNWILAEVVNYNASTRTYEVIDIDDV 86 (123)
Q Consensus 43 ~~~Gd~VAA~v~~~~~~~~~WILA~Vv~~~~~~~~YeV~D~Dee 86 (123)
+.+||.|=|++++ --|--|.|++.....++|.|.=..+.
T Consensus 1 f~~gdlVWaK~~g-----~P~WPa~I~~~~~~~~k~~V~FfG~~ 39 (80)
T cd06080 1 FEKNDLVWAKIQG-----YPWWPAVIKSISRKKQKARVNFIGDN 39 (80)
T ss_pred CCCCCEEEEeCCC-----CCCCCEEEeeecCCCCEEEEEEeCCC
Confidence 3689999999996 45778999988777888988766555
No 17
>PF10377 ATG11: Autophagy-related protein 11; InterPro: IPR019460 This family consists of proteins involved in telomere maintenance. In Schizosaccharomyces pombe (fission yeast) this protein is called Taf1 (taz1 interacting factor) and is part of the telomere cap complex. In Saccharomyces cerevisiae (baker's yeast) this protein is called ATG11 and is known to be involved in vacuolar targeting and peroxisome degradation [, ].
Probab=46.68 E-value=31 Score=25.26 Aligned_cols=30 Identities=20% Similarity=0.374 Sum_probs=17.9
Q ss_pred CceEEEEEeeeeCCCCceEEeecCCCCCceeEecCC
Q psy11712 61 DNWILAEVVNYNASTRTYEVIDIDDVQKGPHQLSRK 96 (123)
Q Consensus 61 ~~WILA~Vv~~~~~~~~YeV~D~Dee~k~r~~ls~~ 96 (123)
.+||||+|++-. |-+.+.+ ....+|.||.-
T Consensus 89 ~~w~vgrI~~~e-----~~~v~~~-~~~Npy~Lp~G 118 (129)
T PF10377_consen 89 REWIVGRIVSIE-----ECQVKDD-KDSNPYNLPVG 118 (129)
T ss_pred CCEEEEEEEEEE-----EEEeccC-CCCCCCcCCCC
Confidence 689999999953 3333222 22246776653
No 18
>PF02736 Myosin_N: Myosin N-terminal SH3-like domain; InterPro: IPR004009 This domain has an SH3-like fold. It is found at the N terminus of many but not all myosins. The function of this domain is unknown.; GO: 0003774 motor activity, 0005524 ATP binding, 0016459 myosin complex; PDB: 2EC6_A 2W4H_M 1O1E_P 1O1D_D 1O18_A 1O1C_P 1O1B_D 1O1F_A 2W4A_M 2W4G_M ....
Probab=45.60 E-value=52 Score=19.38 Aligned_cols=22 Identities=14% Similarity=0.262 Sum_probs=18.0
Q ss_pred CceEEEEEeeeeCCCCceEEeecC
Q psy11712 61 DNWILAEVVNYNASTRTYEVIDID 84 (123)
Q Consensus 61 ~~WILA~Vv~~~~~~~~YeV~D~D 84 (123)
+-||+|+|++- +.+++.|.=.|
T Consensus 11 egfv~g~I~~~--~g~~vtV~~~~ 32 (42)
T PF02736_consen 11 EGFVKGEIIEE--EGDKVTVKTED 32 (42)
T ss_dssp SSEEEEEEEEE--ESSEEEEEETT
T ss_pred ccEEEEEEEEE--cCCEEEEEECC
Confidence 68999999974 57778887776
No 19
>PF09470 Telethonin: Telethonin protein; InterPro: IPR015667 Telethonin is found at the Z-disc of sarcomeres. It is the phosphorylation target of the kinase domain of titin, and is thought to play a role in muscle development [, ]. Deletion of the C terminus of titin, including the kinase domain, has been found to impair myofibrillogenesis []. Mutations of telethonin cause limb-girdle muscular dystrophy type 2G []. Telethonin is a 167-residue protein which complexes with the large muscle protein, titin. The very N terminus of titin, composed of two immunoglobulin-like (Ig) domains, referred to as Z1 and Z2, interacts with the N-terminal region (residues 1-53) of telethonin, mediating the antiparallel assembly of two Z1Z2 domains. The C terminus of telethonin appears to induce dimerisation of this 2:1 titin/telethonin structure which thus forms a complex necessary for myofibril assembly and maintenance of the intact Z-disk of skeletal and cardiac muscles [].; PDB: 2F8V_Y 1YA5_T.
Probab=45.49 E-value=9.1 Score=29.84 Aligned_cols=29 Identities=21% Similarity=0.297 Sum_probs=10.7
Q ss_pred ceEEeec--CCCCCceeEecCCceeeCCCCC
Q psy11712 77 TYEVIDI--DDVQKGPHQLSRKQIIPLPTKR 105 (123)
Q Consensus 77 ~YeV~D~--Dee~k~r~~ls~~~IIPLP~~k 105 (123)
-|-|+-+ .+++-+-|.|+.++++|||.++
T Consensus 65 P~~vmrmG~lg~~~~EyqLPy~~~LPlPIFt 95 (167)
T PF09470_consen 65 PSQVMRMGTLGRGMQEYQLPYRNVLPLPIFT 95 (167)
T ss_dssp TTTEEEEEETTS-EEEEESS-----------
T ss_pred chhheeeeecccccchhcCcccccccccccc
Confidence 3555555 4555556999999999999875
No 20
>COG3670 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=36.79 E-value=80 Score=28.55 Aligned_cols=44 Identities=23% Similarity=0.363 Sum_probs=34.8
Q ss_pred CCCceEEEEEeeeeCCCCceEEeecCCCCCc-eeEecCCceeeCC
Q psy11712 59 NEDNWILAEVVNYNASTRTYEVIDIDDVQKG-PHQLSRKQIIPLP 102 (123)
Q Consensus 59 ~~~~WILA~Vv~~~~~~~~YeV~D~Dee~k~-r~~ls~~~IIPLP 102 (123)
|++-|+|+.|..-+.....--|.|++.-+.. .-++-..+.||..
T Consensus 436 EdDGwLl~~vyd~~~~~Sel~v~DA~~~~~epIa~l~Lp~~vP~g 480 (490)
T COG3670 436 EDDGWLLTLVYDGDRHASELLVFDAQRVTAEPIARLALPQRVPYG 480 (490)
T ss_pred CCCcEEEEEEEecCCCcceEEEEecccCCCCcceEEecccccccc
Confidence 3378999999998888888999999874433 4777778888865
No 21
>PF07795 DUF1635: Protein of unknown function (DUF1635); InterPro: IPR012862 The members of this family include sequences that are parts of hypothetical proteins expressed by plant species. The region in question is about 170 amino acids long.
Probab=35.92 E-value=17 Score=29.38 Aligned_cols=10 Identities=50% Similarity=0.876 Sum_probs=9.1
Q ss_pred eCCCCCCCCC
Q psy11712 100 PLPTKRANPE 109 (123)
Q Consensus 100 PLP~~ka~P~ 109 (123)
|||+|+..|-
T Consensus 155 PLP~WRnPPP 164 (214)
T PF07795_consen 155 PLPQWRNPPP 164 (214)
T ss_pred CCccccCCCC
Confidence 9999999876
No 22
>KOG2832|consensus
Probab=32.81 E-value=42 Score=29.49 Aligned_cols=30 Identities=23% Similarity=0.385 Sum_probs=23.8
Q ss_pred ceEEeecCCCCCceeEecCCceeeCCCCCCCCC
Q psy11712 77 TYEVIDIDDVQKGPHQLSRKQIIPLPTKRANPE 109 (123)
Q Consensus 77 ~YeV~D~Dee~k~r~~ls~~~IIPLP~~ka~P~ 109 (123)
+--|+|-|... |++...+.|+|+.|+-|++
T Consensus 285 kVivVd~d~~~---~~l~P~N~l~l~~W~Gn~d 314 (393)
T KOG2832|consen 285 KVIVVDFDANS---YKLQPENMLPLEPWSGNDD 314 (393)
T ss_pred eeEEEEccccc---cccCcccccccCcCCCCcc
Confidence 33566666554 7899999999999999987
No 23
>PF11604 CusF_Ec: Copper binding periplasmic protein CusF; InterPro: IPR021647 CusF is a periplasmic protein involved in copper and silver resistance in Escherichia coil. CusF forms a five-stranded beta-barrel OB fold. Cu(I) binds to H36, M47 and M49 which are conserved residues in the protein []. ; PDB: 2L55_A 2VB3_X 1ZEQ_X 2QCP_X 3E6Z_X 2VB2_X.
Probab=31.30 E-value=73 Score=20.70 Aligned_cols=26 Identities=15% Similarity=0.327 Sum_probs=16.7
Q ss_pred CcCCCCCeEEEEeccCCCCCCceEEEEE
Q psy11712 41 HIANRGDMVAALVRNVEDNEDNWILAEV 68 (123)
Q Consensus 41 ~~~~~Gd~VAA~v~~~~~~~~~WILA~V 68 (123)
..+++||+|.+.+...++ ..|.+..+
T Consensus 41 ~~l~~Gd~V~F~~~~~~~--~~~~I~~i 66 (70)
T PF11604_consen 41 AGLKPGDKVRFTFERTDD--GSYVITAI 66 (70)
T ss_dssp SS-STT-EEEEEEEEETT--CEEEEEEE
T ss_pred hcCCCCCEEEEEEEECCC--CcEEEEEE
Confidence 468999999999887542 33666554
No 24
>cd05162 PWWP The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes. The function of the PWWP domain is still not known precisely; however, based on the fact that other regions of PWWP-domain proteins are responsible for nuclear localization and DNA-binding, is likely that the PWWP domain acts as a site for protein-protein binding interactions, influencing chromatin remodeling and thereby regulating transcriptional processes. Some PWWP-domain proteins have been linked to cancer or other diseases; some are known to function as growth factors.
Probab=28.84 E-value=1.7e+02 Score=19.11 Aligned_cols=55 Identities=20% Similarity=0.219 Sum_probs=38.6
Q ss_pred CCCCCeEEEEeccCCCCCCceEEEEEeeeeCC---------CCceEEeecCCCCCceeEecCCceeeCCCC
Q psy11712 43 ANRGDMVAALVRNVEDNEDNWILAEVVNYNAS---------TRTYEVIDIDDVQKGPHQLSRKQIIPLPTK 104 (123)
Q Consensus 43 ~~~Gd~VAA~v~~~~~~~~~WILA~Vv~~~~~---------~~~YeV~D~Dee~k~r~~ls~~~IIPLP~~ 104 (123)
+.+||.|=|++++ .-|==|.|++.... .+.|-|.=.+ .....-++.++|.||-..
T Consensus 1 f~~GdlVwaK~~g-----~pwWPa~V~~~~~~~~~~~~~~~~~~~~V~Ffg--~~~~~wv~~~~l~pf~~~ 64 (87)
T cd05162 1 FRPGDLVWAKMKG-----YPWWPALVVDPPKDSKKAKKKAKEGKVLVLFFG--DKTFAWVGAERLKPFTEH 64 (87)
T ss_pred CCCCCEEEEeCCC-----CCCCCEEEccccccchhhhccCCCCEEEEEEeC--CCcEEEeCccceeeccch
Confidence 3689999999985 46778888876422 2567776665 234567888888888643
No 25
>KOG3038|consensus
Probab=27.87 E-value=2.7e+02 Score=23.35 Aligned_cols=67 Identities=22% Similarity=0.383 Sum_probs=48.4
Q ss_pred ccccCCCCCcCCCCCeEEEEeccCCCCCCceEEEEEeeeeC-CCCceEEeecCC--CCC--ceeEecCCceeeCCCC
Q psy11712 33 GAIPADPSHIANRGDMVAALVRNVEDNEDNWILAEVVNYNA-STRTYEVIDIDD--VQK--GPHQLSRKQIIPLPTK 104 (123)
Q Consensus 33 Gaip~~~~~~~~~Gd~VAA~v~~~~~~~~~WILA~Vv~~~~-~~~~YeV~D~De--e~k--~r~~ls~~~IIPLP~~ 104 (123)
.-+|+ +...+.+|..|-|+-..+ .-.--|.|++--+ -+++|-|.-.|+ +++ .--.++++.|+++|.-
T Consensus 190 ~p~p~-p~~~fpp~~~VLA~YP~T----TcFY~aiVh~tp~d~s~~y~vlffD~~ee~g~~pp~~V~~ryVva~~e~ 261 (264)
T KOG3038|consen 190 NPIPP-PTALFPPGTIVLAVYPGT----TCFYKAIVHSTPRDGSCDYYVLFFDDEEEDGVSPPTEVARRYVVAFPEG 261 (264)
T ss_pred CCCCC-CccCCCCCCEEEEEcCCc----ceeeeeEeecCCCCCCCcceeeeecCcccccCCCCceeeeEEEEecCcc
Confidence 33444 567899999999998864 5688899988533 367788876653 332 2378999999999853
No 26
>cd05841 BS69_related The PWWP domain is part of BS69 protein, a nuclear protein that specifically binds adenoviral E1A and Epstein-Barr viral EBNA2 proteins, suppressing their transactivation functions. BS69 is a multi-domain protein, containing bromo, PHD, PWWP, and MYND domains. The specific role of the PWWP domain within BS69 is not clearly identified, but BS69 functions in chromatin remodeling, consistent with other PWWP-containing proteins. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=26.23 E-value=1.1e+02 Score=20.93 Aligned_cols=53 Identities=15% Similarity=0.150 Sum_probs=37.7
Q ss_pred CCCCCeEEEEeccCCCCCCceEEEEEeeeeCCCCceEEeecCCCCCceeEecCCceeeCCC
Q psy11712 43 ANRGDMVAALVRNVEDNEDNWILAEVVNYNASTRTYEVIDIDDVQKGPHQLSRKQIIPLPT 103 (123)
Q Consensus 43 ~~~Gd~VAA~v~~~~~~~~~WILA~Vv~~~~~~~~YeV~D~Dee~k~r~~ls~~~IIPLP~ 103 (123)
.++||.|=|++++ .-|==|+|++- +++.|.|.=-... -++-.++.++|.|+-.
T Consensus 7 ~~p~dLVwAK~kG-----yp~WPAkV~~~--~~~~~~V~FFG~t-~~~a~v~~~~i~~~~~ 59 (83)
T cd05841 7 RPPHELVWAKLKG-----FPYWPAKVMRV--EDNQVDVRFFGGQ-HDRAWIPSNNIQPIST 59 (83)
T ss_pred CCCCCEEEEeCCC-----CCCCCEEEeec--CCCeEEEEEcCCC-CCeEEEehHHeeehhh
Confidence 4689999999996 55667888874 4577877543311 2467788888888753
No 27
>smart00293 PWWP domain with conserved PWWP motif. conservation of Pro-Trp-Trp-Pro residues
Probab=26.10 E-value=1.7e+02 Score=18.25 Aligned_cols=52 Identities=27% Similarity=0.348 Sum_probs=33.5
Q ss_pred CCCCCeEEEEeccCCCCCCceEEEEEeeee----------CCCCceEEeecCCCCCceeEecCCceeeC
Q psy11712 43 ANRGDMVAALVRNVEDNEDNWILAEVVNYN----------ASTRTYEVIDIDDVQKGPHQLSRKQIIPL 101 (123)
Q Consensus 43 ~~~Gd~VAA~v~~~~~~~~~WILA~Vv~~~----------~~~~~YeV~D~Dee~k~r~~ls~~~IIPL 101 (123)
.++||.|=|++++ .-|==|.|++-. +..+.|-|.=-.+.. ...++.++|.||
T Consensus 1 f~~GdlVwaK~~G-----~p~WPa~V~~~~~~~~~~~~~~~~~~~~~V~Ffg~~~--~awv~~~~l~p~ 62 (63)
T smart00293 1 FKPGDLVWAKMKG-----FPWWPALVVSPKETPDNIRKRKRFENLYPVLFFGDKD--TAWISSSKLFPL 62 (63)
T ss_pred CCCCCEEEEECCC-----CCCCCeEEcCcccCChhHhhccCCCCEEEEEEeCCCC--EEEECccceeeC
Confidence 3689999999995 456666666643 123456555554432 256888888876
No 28
>KOG2339|consensus
Probab=25.35 E-value=86 Score=29.17 Aligned_cols=40 Identities=18% Similarity=0.238 Sum_probs=24.7
Q ss_pred cCCCCCeEEEEeccCCCCCCceEEEEEeeeeCCCCceEEeec
Q psy11712 42 IANRGDMVAALVRNVEDNEDNWILAEVVNYNASTRTYEVIDI 83 (123)
Q Consensus 42 ~~~~Gd~VAA~v~~~~~~~~~WILA~Vv~~~~~~~~YeV~D~ 83 (123)
..-+||.|.-....+++..++ +.|++|+-. +-+.|-..||
T Consensus 451 rvV~GDLV~~~e~~dd~~~~~-~~~k~vt~e-e~~~Ysi~DV 490 (624)
T KOG2339|consen 451 RVVEGDLVCVGEDEDDEPFEG-SKIKVVTEE-EIAKYSIYDV 490 (624)
T ss_pred cccccceeeccCCcccccccc-ceeeEeecc-ccccceeeeE
Confidence 567899988774433333234 778887753 3346666665
No 29
>PF00018 SH3_1: SH3 domain; InterPro: IPR001452 SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues [, ]. They are found in a great variety of intracellular or membrane-associated proteins [, , ] for example, in a variety of proteins with enzymatic activity, in adaptor proteins that lack catalytic sequences and in cytoskeletal proteins, such as fodrin and yeast actin binding protein ABP-1. The SH3 domain has a characteristic fold which consists of five or six beta-strands arranged as two tightly packed anti-parallel beta sheets. The linker regions may contain short helices []. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes []. The crystal structure of the SH3 domain of the cytoskeletal protein spectrin, and the solution structures of SH3 domains of phospholipase C (PLC-y) and phosphatidylinositol 3-kinase p85 alpha-subunit, have been determined [, , ]. In spite of relatively limited sequence similarity, their overall structures are similar. The domains belong to the alpha+beta structural class, with 5 to 8 beta-strands forming 2 tightly-packed, anti-parallel beta-sheets arranged in a barrel-like structure, and intervening loops sometimes forming helices. Conserved aliphatic and aromatic residues form a hydrophobic core (A11, L23, A29, V34, W42, L52 and V59 in PLC-y []) and a hydrophobic pocket on the molecular surface (L12, F13, W53 and P55 in PLC-y). The conserved core is believed to stabilise the fold, while the pocket is thought to serve as a binding site for target proteins. Conserved carboxylic amino acids located in the loops, on the periphery of the pocket (D14 and E22), may be involved in protein-protein interactions via proline-rich regions. The N- and C-termini are packed in close proximity, indicating that they are independent structural modules.; GO: 0005515 protein binding; PDB: 1UHF_A 1W1F_A 1WA7_A 1SEM_A 1KFZ_A 2SEM_B 1K76_A 3SEM_B 1X2Q_A 2J06_B ....
Probab=25.31 E-value=1.1e+02 Score=17.73 Aligned_cols=29 Identities=17% Similarity=0.333 Sum_probs=21.1
Q ss_pred CCCCcCCCCCeEEEEeccCCCCCCceEEEEEee
Q psy11712 38 DPSHIANRGDMVAALVRNVEDNEDNWILAEVVN 70 (123)
Q Consensus 38 ~~~~~~~~Gd~VAA~v~~~~~~~~~WILA~Vv~ 70 (123)
.....++.||.+...-+.+ +.|.+++..+
T Consensus 11 ~~eLs~~~Gd~i~v~~~~~----~~Ww~~~~~~ 39 (48)
T PF00018_consen 11 PDELSFKKGDIIEVLEKSD----DGWWKVRNES 39 (48)
T ss_dssp TTBSEB-TTEEEEEEEESS----SSEEEEEETT
T ss_pred CCEEeEECCCEEEEEEecC----CCEEEEEECC
Confidence 4567789999998887753 5799988654
No 30
>PF06003 SMN: Survival motor neuron protein (SMN); InterPro: IPR010304 This family consists of several eukaryotic survival motor neuron (SMN) proteins. The Survival of Motor Neurons (SMN) protein, the product of the spinal muscular atrophy-determining gene, is part of a large macromolecular complex (SMN complex) that functions in the assembly of spliceosomal small nuclear ribonucleoproteins (snRNPs). The SMN complex functions as a specificity factor essential for the efficient assembly of Sm proteins on U snRNAs and likely protects cells from illicit, and potentially deleterious, non-specific binding of Sm proteins to RNAs.; GO: 0003723 RNA binding, 0006397 mRNA processing, 0005634 nucleus, 0005737 cytoplasm; PDB: 1MHN_A 4A4G_A 3S6N_M 4A4E_A 1G5V_A 4A4H_A 4A4F_A 2D9T_A.
Probab=24.00 E-value=2.7e+02 Score=22.67 Aligned_cols=39 Identities=18% Similarity=0.223 Sum_probs=26.0
Q ss_pred CCCcCCCCCeEEEEeccCCCCCCceEEEEEeeeeCCCCceEEe
Q psy11712 39 PSHIANRGDMVAALVRNVEDNEDNWILAEVVNYNASTRTYEVI 81 (123)
Q Consensus 39 ~~~~~~~Gd~VAA~v~~~~~~~~~WILA~Vv~~~~~~~~YeV~ 81 (123)
+....++||++-|.-..+ ..|-=|+|.+.+.+.+.+.|.
T Consensus 65 ~~~~WkvGd~C~A~~s~D----g~~Y~A~I~~i~~~~~~~~V~ 103 (264)
T PF06003_consen 65 PNKKWKVGDKCMAVYSED----GQYYPATIESIDEEDGTCVVV 103 (264)
T ss_dssp TTT---TT-EEEEE-TTT----SSEEEEEEEEEETTTTEEEEE
T ss_pred cccCCCCCCEEEEEECCC----CCEEEEEEEEEcCCCCEEEEE
Confidence 356789999999997632 689999999998776666554
No 31
>PF07238 PilZ: PilZ domain; InterPro: IPR009875 The ubiquitous bacterial second messenger cyclic-di-GMP (c-di-GMP) is associated with the regulation of biofilm formation, the control of exopolysaccharide synthesis, flagellar- and pili-based motility, gene expression, interactions of bacteria with eukaryotic hosts and multicellular behaviour in diverse bacteria. With the exception of bacterial cellulose synthases, the identities of c-di-GMP receptors and end targets of the proteins having one or more PilZ domains are mostly uncharacterised. However it was suggested that the PilZ domains present in the BcsA subunits of bacterial cellulose synthases function in c-di-GMP binding []. More recently YcgR (see IPR023787 from INTERPRO) was found to bind c-di-GMP tightly and specifically; also isolated PilZ domains from YcgR and BcsA bound c-di-GMP indicating that the PilZ domain was sufficient for binding of c-di-GMP and significantly that site-directed mutagenesis performed on YcgR implicated the most conserved residues in the PilZ domain directly in c-di-GMP binding []. It was suggested that c-di-GMP binding to PilZ brings about conformational changes in the protein that stabilise the bound ligand and probability initiates the downstream signal transduction cascade. In the case of YcgR, c-di-GMP binding regulates flagellum-based motility in a c-di-GMP-dependent manner (see IPR023787 from INTERPRO) []. The association of the PilZ domain with a variety of other domains, including likely components of bacterial multidrug secretion system, could provide clues to multiple functions of the c-di-GMP in bacterial pathogenesis and cell development. Binding and mutagenesis studies of several PilZ domain proteins have confirmed this observation and demonstrated that c-di-GMP binding depends on residues in RxxxR and D/NxSxxG sequence motifs. The crystal structure, at 1.7 A, of a PilZ domain::c-di-GMP complex from Vibrio cholerae shows c-di-GMP contacting seven of nine strongly conserved residues. Binding of c-di-GMP causes a conformational switch whereby the C- and N-terminal domains are brought into close opposition forming a new allosteric interaction surface that spans these domains and the c-di-GMP at their interface []. ; GO: 0035438 cyclic-di-GMP binding; PDB: 2RDE_B 1YLN_A 3KYG_A 3DSG_B 2GJG_A 3KYF_A 1YWU_A 2L74_A 2L1T_A 3CNR_A ....
Probab=23.99 E-value=1.9e+02 Score=18.02 Aligned_cols=38 Identities=18% Similarity=0.129 Sum_probs=25.9
Q ss_pred cCCCCCeEEEEeccCCCCCCceEEEEEeeeeCCCCceEE
Q psy11712 42 IANRGDMVAALVRNVEDNEDNWILAEVVNYNASTRTYEV 80 (123)
Q Consensus 42 ~~~~Gd~VAA~v~~~~~~~~~WILA~Vv~~~~~~~~YeV 80 (123)
.+..|+.|-..+.-.+.. ...+-|+|+......+.|.+
T Consensus 44 ~~~~~~~v~l~~~~~~~~-~~~~~~~V~~~~~~~~~~~~ 81 (102)
T PF07238_consen 44 PLEPGDRVRLSFSLPGGG-FPIVTGRVVRIQKDSDGYRV 81 (102)
T ss_dssp G--TTSEEEEEEECTTTS-CEEEEEEEEEEEEESSEEEE
T ss_pred CCCCCCEEEEEEEeCCCC-eeEEEEEEEEEECCCCceEE
Confidence 889999998888765443 45599999998665555543
No 32
>COG0647 NagD Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]
Probab=23.84 E-value=58 Score=26.83 Aligned_cols=51 Identities=20% Similarity=0.249 Sum_probs=32.7
Q ss_pred HHHHHHHHhcccccceeecCCCCCCCCc-cccccCCCCCcCCCCCeEEEEec
Q psy11712 4 SAYMKMLKSSAHTLPLWVGKPGQKPAAL-VGAIPADPSHIANRGDMVAALVR 54 (123)
Q Consensus 4 g~lm~~lq~~a~~lPlw~gk~~~~pppl-cGaip~~~~~~~~~Gd~VAA~v~ 54 (123)
|.++.++.+..+.-|.|+|||...---. +-.+.......+-.||.+.-=+.
T Consensus 171 Gai~~~~~~~tg~~~~~~GKP~~~i~~~al~~~~~~~~~~~mVGD~~~TDI~ 222 (269)
T COG0647 171 GAIAALLEQATGREPTVIGKPSPAIYEAALEKLGLDRSEVLMVGDRLDTDIL 222 (269)
T ss_pred HHHHHHHHHhhCCcccccCCCCHHHHHHHHHHhCCCcccEEEEcCCchhhHH
Confidence 7899999999999999999986422111 22233333356666776544333
No 33
>cd05792 S1_eIF1AD_like S1_eIF1AD_like: eukaryotic translation initiation factor 1A domain containing protein (eIF1AD)-like, S1-like RNA-binding domain. eIF1AD is also known as MGC11102 protein. Little is known about the function of eIF1AD. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins, including translation initiation factor IF1A (also referred to as eIF1A in eukaryotes). eIF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors.
Probab=23.53 E-value=1.2e+02 Score=20.63 Aligned_cols=22 Identities=14% Similarity=0.084 Sum_probs=17.0
Q ss_pred EEEEEeeeeCCCCceEEeecCCC
Q psy11712 64 ILAEVVNYNASTRTYEVIDIDDV 86 (123)
Q Consensus 64 ILA~Vv~~~~~~~~YeV~D~Dee 86 (123)
.+|.|++- ..+|.|||++.|.+
T Consensus 2 ~i~rV~~~-~G~n~~~V~~~dG~ 23 (78)
T cd05792 2 QIVRVLGS-KGNNLHEVETPNGS 23 (78)
T ss_pred eEEEEEEc-CCCcEEEEEcCCCC
Confidence 36778874 57899999999855
No 34
>PHA03356 tegument protein UL11; Provisional
Probab=23.22 E-value=1.2e+02 Score=21.46 Aligned_cols=33 Identities=9% Similarity=0.280 Sum_probs=19.6
Q ss_pred EEEeeeeCCCCceEEeecCC-CCCceeEecCCceee
Q psy11712 66 AEVVNYNASTRTYEVIDIDD-VQKGPHQLSRKQIIP 100 (123)
Q Consensus 66 A~Vv~~~~~~~~YeV~D~De-e~k~r~~ls~~~IIP 100 (123)
++||+. ..+.|+++|+|- ++..-|+-+.=+|+-
T Consensus 23 GEvvsL--ta~~fD~vdles~~~gNFy~spelrvVT 56 (93)
T PHA03356 23 GETVSL--TAHEFDAVDLESDAGGNFYISPELRVVT 56 (93)
T ss_pred CcEEEe--eccccceEeecccCCCceEcCccceEEe
Confidence 357776 467899999983 333334444444443
No 35
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=23.00 E-value=3.3e+02 Score=24.42 Aligned_cols=30 Identities=13% Similarity=0.013 Sum_probs=24.2
Q ss_pred CCcCCCCCeEEEEeccCCCCCCceEEEEEeeeeC
Q psy11712 40 SHIANRGDMVAALVRNVEDNEDNWILAEVVNYNA 73 (123)
Q Consensus 40 ~~~~~~Gd~VAA~v~~~~~~~~~WILA~Vv~~~~ 73 (123)
..++..|++|-|+-..+ ..|-.|+|+....
T Consensus 51 ~~~~~VGekVla~~~~D----g~~~~A~VI~~R~ 80 (450)
T PLN00104 51 MLPLEVGTRVMCRWRFD----GKYHPVKVIERRR 80 (450)
T ss_pred cceeccCCEEEEEECCC----CCEEEEEEEEEec
Confidence 35689999999997642 6899999999764
No 36
>PF12195 End_beta_barrel: Beta barrel domain of bacteriophage endosialidase; InterPro: IPR024427 This entry represents the beta barrel domain of endosialidases which is nested in a beta propeller domain. This beta barrel domain is approximately 80 amino acids in length and represents one of the two sialic acid binding sites of the enzyme [].; PDB: 1V0E_B 1V0F_E 3JU4_A 3GVL_A 3GVK_B 3GVJ_A.
Probab=22.46 E-value=2.3e+02 Score=19.69 Aligned_cols=42 Identities=24% Similarity=0.265 Sum_probs=25.2
Q ss_pred CCcCCCCCeEEEEeccCCCCCCceEEEEEeeeeCCCCceEEeecCC
Q psy11712 40 SHIANRGDMVAALVRNVEDNEDNWILAEVVNYNASTRTYEVIDIDD 85 (123)
Q Consensus 40 ~~~~~~Gd~VAA~v~~~~~~~~~WILA~Vv~~~~~~~~YeV~D~De 85 (123)
++=+..||.|-+.......-..+.-+|.|+. .|+|.|.+--+
T Consensus 25 ~HGl~vGD~VnFsnsa~tGvSG~mTVatVid----~ntFTVt~~~~ 66 (83)
T PF12195_consen 25 DHGLFVGDFVNFSNSAVTGVSGNMTVATVID----ANTFTVTTSNS 66 (83)
T ss_dssp T----TT-EEEEES-SSTT--EEEEEEEEEE----TTEEEEE-S--
T ss_pred cCceeecceEEEeccccccccccEEEEEEec----CCcEEEecCCc
Confidence 4668999999999776544446899999976 67899987643
No 37
>PF13234 rRNA_proc-arch: rRNA-processing arch domain; PDB: 4A4K_E 4A4Z_A 2XGJ_B 3L9O_A.
Probab=22.23 E-value=1.8e+02 Score=23.04 Aligned_cols=28 Identities=18% Similarity=0.268 Sum_probs=21.1
Q ss_pred cCCCCCeEEEEeccCCCCCCceEEEEEeeeeCC
Q psy11712 42 IANRGDMVAALVRNVEDNEDNWILAEVVNYNAS 74 (123)
Q Consensus 42 ~~~~Gd~VAA~v~~~~~~~~~WILA~Vv~~~~~ 74 (123)
-+++|+.|..+... ..|=+|.|++|...
T Consensus 72 fL~~GRlV~v~~~~-----~~~~wgvvv~~~~~ 99 (268)
T PF13234_consen 72 FLQPGRLVVVRDGD-----RDFGWGVVVNFAKK 99 (268)
T ss_dssp HS-TTEEEEEEETT-----CEEEEEEEEEEEE-
T ss_pred hCCCCCEEEEecCC-----CccceeEEEecccc
Confidence 47899998888753 68999999999743
No 38
>CHL00142 rps17 ribosomal protein S17; Validated
Probab=21.59 E-value=2.6e+02 Score=19.21 Aligned_cols=32 Identities=25% Similarity=0.374 Sum_probs=22.4
Q ss_pred CCCcCCCCCeEEEEeccCCCCCCceEEEEEee
Q psy11712 39 PSHIANRGDMVAALVRNVEDNEDNWILAEVVN 70 (123)
Q Consensus 39 ~~~~~~~Gd~VAA~v~~~~~~~~~WILA~Vv~ 70 (123)
++..++.||.|-......=...-.|+|.+|++
T Consensus 47 e~n~~~~GD~V~I~e~RPlSKtK~~~v~~i~~ 78 (84)
T CHL00142 47 EENECNIGDQVLIEETRPLSKTKRWILKEILS 78 (84)
T ss_pred CCCCCCCCCEEEEEEcCCCCCcEEEEEEEEEE
Confidence 34468999999988553222225899999986
No 39
>PLN02258 9-cis-epoxycarotenoid dioxygenase NCED
Probab=21.41 E-value=2e+02 Score=26.27 Aligned_cols=27 Identities=22% Similarity=0.369 Sum_probs=21.6
Q ss_pred CCCceEEEEEeeeeCCCCceEEeecCC
Q psy11712 59 NEDNWILAEVVNYNASTRTYEVIDIDD 85 (123)
Q Consensus 59 ~~~~WILA~Vv~~~~~~~~YeV~D~De 85 (123)
|++-|||+.|..-+......-|+|+.+
T Consensus 533 EDDGylls~V~d~~~~~SeL~IlDA~~ 559 (590)
T PLN02258 533 EDDGYILAFVHDEEKGKSELQVVNAVN 559 (590)
T ss_pred cCCcEEEEEEEECCCCceEEEEEeCCC
Confidence 337899999988777778888999853
No 40
>PF01079 Hint: Hint module; InterPro: IPR001767 This domain identifies a group of cysteine peptidases correspond to MEROPS peptidase family C46 (clan CH). The type example is the Hedgehog protein from Drosophila melanogaster (Fruit fly). These are involved in intracellular signalling required for a variety of patterning events during development. The hedgehog family of proteins self process by a cysteine-dependent mechanism, which is a one-time autolytic cleavage. It is differentiated from a typical peptidase reaction by the fact that the newly-formed carboxyl group is esterified with cholesterol, rather than being left free. The three-dimensional structure of the autolytic domain of the hedgehog protein of D. melanogaster shows that it is formed from two divergent copies of a module that also occurs in inteins, called a Hint domain [,].; GO: 0008233 peptidase activity, 0006508 proteolysis; PDB: 3K7H_B 3K7I_B 3K7G_B 1AT0_A 3MXW_A 3M1N_B 3HO5_H 2WFR_A 2WFQ_A 2WG3_B ....
Probab=21.23 E-value=2.1e+02 Score=22.73 Aligned_cols=55 Identities=16% Similarity=0.235 Sum_probs=29.3
Q ss_pred cCCCCCeEEEEeccCCCCCCceEEEEEeeee-CC---CCceEEeecCCCCCceeEecCCceeeCCC
Q psy11712 42 IANRGDMVAALVRNVEDNEDNWILAEVVNYN-AS---TRTYEVIDIDDVQKGPHQLSRKQIIPLPT 103 (123)
Q Consensus 42 ~~~~Gd~VAA~v~~~~~~~~~WILA~Vv~~~-~~---~~~YeV~D~Dee~k~r~~ls~~~IIPLP~ 103 (123)
.+++||+|.+.-.. .+=+-.+|+.|- .+ ...|-++-. |+| +..+|+..++|..=+
T Consensus 31 ~L~iGD~Vla~d~~-----G~~~yS~V~~flhr~~~~~~~F~~i~t-e~g-~~l~LTp~HLI~v~~ 89 (217)
T PF01079_consen 31 DLKIGDRVLAVDSD-----GKLVYSPVIMFLHRDPEQRAEFVVIET-EDG-RSLTLTPNHLIFVAD 89 (217)
T ss_dssp G--TT-EEEEE-TT-----S-EEEEEEEEEEEEEEEEEEEEEEEEE-TTS--EEEE-TT-EEEEEE
T ss_pred HCCCCCEEEEecCC-----CcEEEEeEEEEeccCccccEEEEEEEc-CCC-CeEEecCCcEEEEec
Confidence 47899999996621 457778888884 22 122333222 233 679999999998754
No 41
>PRK05610 rpsQ 30S ribosomal protein S17; Reviewed
Probab=21.15 E-value=2.7e+02 Score=19.04 Aligned_cols=31 Identities=26% Similarity=0.436 Sum_probs=21.6
Q ss_pred CCcCCCCCeEEEEeccCCCCCCceEEEEEee
Q psy11712 40 SHIANRGDMVAALVRNVEDNEDNWILAEVVN 70 (123)
Q Consensus 40 ~~~~~~Gd~VAA~v~~~~~~~~~WILA~Vv~ 70 (123)
+..++.||.|-......=...-.|+|.+|+.
T Consensus 51 ~n~~k~GD~V~I~e~rPlSK~K~~~v~~i~~ 81 (84)
T PRK05610 51 NNEAKIGDVVRIMETRPLSKTKRWRLVEIVE 81 (84)
T ss_pred CCCCCCCCEEEEEEcccCCCCEEEEEEEEEe
Confidence 3468999999988543222225899999975
No 42
>PF09378 HAS-barrel: HAS barrel domain; InterPro: IPR018538 The HAS barrel is named after HerA-ATP Synthase. In ATP synthases, this domain is implicated in the assembly of the catalytic toroid and docking of accessory subunits, such as the subunit of the ATP synthase complex. Similar roles in docking of the functional partner, the NurA nuclease, and assembly of the HerA toroid complex appear likely for the HAS-barrel of the HerA family []. ; PDB: 3OAA_I.
Probab=21.11 E-value=66 Score=20.84 Aligned_cols=28 Identities=14% Similarity=0.145 Sum_probs=19.3
Q ss_pred CcCCCCCeEEEEeccCCCCCCceEEEEEeeeeC
Q psy11712 41 HIANRGDMVAALVRNVEDNEDNWILAEVVNYNA 73 (123)
Q Consensus 41 ~~~~~Gd~VAA~v~~~~~~~~~WILA~Vv~~~~ 73 (123)
...+.|+.|.+.... ..|||+.|.+...
T Consensus 21 ~~v~~GeyV~i~~~~-----~~~vlG~V~~i~~ 48 (91)
T PF09378_consen 21 KDVRVGEYVVIEYDD-----GEKVLGMVTSISR 48 (91)
T ss_dssp TT-BTTEEEEES---------TTEEEEEEEEES
T ss_pred CCCCcCeEEEEEEec-----hhhhhhhhheeEE
Confidence 367889998887762 6899999999754
No 43
>cd04456 S1_IF1A_like S1_IF1A_like: Translation initiation factor IF1A-like, S1-like RNA-binding domain. IF1A is also referred to as eIF1A in eukaryotes and aIF1A in archaea. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. IF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors. This protein family is only found in eukaryotes and archaea.
Probab=20.66 E-value=1.7e+02 Score=19.64 Aligned_cols=22 Identities=18% Similarity=0.122 Sum_probs=17.1
Q ss_pred EEEEEeeeeCCCCceEEeecCCC
Q psy11712 64 ILAEVVNYNASTRTYEVIDIDDV 86 (123)
Q Consensus 64 ILA~Vv~~~~~~~~YeV~D~Dee 86 (123)
++|.|+.- ..++.|+|...|..
T Consensus 2 ~i~~V~~~-lG~~~~~V~~~dg~ 23 (78)
T cd04456 2 QIVRVLRM-LGNNRHEVECADGQ 23 (78)
T ss_pred eEEEEEEE-CCCCEEEEEECCCC
Confidence 57888884 46899999988744
No 44
>PF07653 SH3_2: Variant SH3 domain; InterPro: IPR011511 SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues [, ]. They are found in a great variety of intracellular or membrane-associated proteins [, , ] for example, in a variety of proteins with enzymatic activity, in adaptor proteins that lack catalytic sequences and in cytoskeletal proteins, such as fodrin and yeast actin binding protein ABP-1. The SH3 domain has a characteristic fold which consists of five or six beta-strands arranged as two tightly packed anti-parallel beta sheets. The linker regions may contain short helices []. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes []. This entry represents a variant of the SH3 domain.; PDB: 1I1J_B 1K0X_A 1HJD_A 2KEA_A 1KJW_A 1JXM_A 1JXO_B 2EBP_A 2DL3_A 2EYX_A ....
Probab=20.17 E-value=1.8e+02 Score=17.30 Aligned_cols=26 Identities=27% Similarity=0.521 Sum_probs=17.8
Q ss_pred CCCcCCCCCeEEEE-eccCCCCCCceEEEEE
Q psy11712 39 PSHIANRGDMVAAL-VRNVEDNEDNWILAEV 68 (123)
Q Consensus 39 ~~~~~~~Gd~VAA~-v~~~~~~~~~WILA~V 68 (123)
....++.||.|... -+.. +.|.+++.
T Consensus 14 ~~Ls~~~Gd~i~v~~~~~~----~~ww~~~~ 40 (55)
T PF07653_consen 14 DELSFKKGDVIEVLGEKDD----DGWWLGEN 40 (55)
T ss_dssp TB-EB-TTEEEEEEEEECS----TSEEEEEE
T ss_pred CceEEecCCEEEEEEeecC----CCEEEEEE
Confidence 34778999999988 4422 68999877
Done!