Query psy4624
Match_columns 160
No_of_seqs 8 out of 10
Neff 1.6
Searched_HMMs 46136
Date Fri Aug 16 21:35:47 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4624.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4624hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00568 WH1: WH1 domain; Int 99.2 4.6E-11 9.9E-16 85.4 7.7 90 40-136 16-105 (111)
2 cd00837 EVH1 EVH1 (Enabled, Va 98.9 1.1E-08 2.5E-13 72.9 7.6 95 42-140 8-102 (104)
3 smart00461 WH1 WASP homology r 98.7 1.1E-07 2.4E-12 68.5 8.5 83 52-139 20-103 (106)
4 cd01207 Ena-Vasp Enabled-VASP- 98.0 2.3E-05 5E-10 59.0 6.4 96 35-137 4-102 (111)
5 cd01206 Homer Homer type EVH1 97.8 5.6E-05 1.2E-09 58.1 6.0 92 40-137 11-102 (111)
6 KOG4590|consensus 88.2 0.41 8.9E-06 43.2 2.8 32 102-135 59-90 (409)
7 cd00835 RanBD Ran-binding doma 80.7 6.5 0.00014 28.4 5.7 81 53-137 28-116 (122)
8 PF00385 Chromo: Chromo (CHRro 77.7 2.4 5.2E-05 26.2 2.4 33 86-121 2-35 (55)
9 smart00160 RanBD Ran-binding d 77.3 5.3 0.00011 29.7 4.5 56 82-137 63-126 (130)
10 cd01205 WASP WASP-type EVH1 do 76.3 16 0.00035 27.5 6.8 79 52-136 21-99 (105)
11 PF06058 DCP1: Dcp1-like decap 64.2 29 0.00062 26.1 5.9 87 41-138 30-118 (122)
12 KOG3671|consensus 52.7 6.7 0.00015 37.4 1.1 20 120-139 117-136 (569)
13 PF00638 Ran_BP1: RanBP1 domai 51.0 35 0.00076 24.1 4.3 81 53-137 27-115 (122)
14 PF15017 AF1Q: Drug resistance 41.9 11 0.00025 27.9 0.7 11 107-117 21-31 (87)
15 cd00024 CHROMO Chromatin organ 38.8 59 0.0013 19.3 3.4 31 87-121 5-36 (55)
16 cd00836 FERM_C FERM_C domain. 38.7 33 0.00071 23.3 2.5 30 116-145 62-91 (92)
17 TIGR02266 gmx_TIGR02266 Myxoco 38.1 1.2E+02 0.0025 19.9 6.0 52 81-132 33-87 (96)
18 PHA03025 hypothetical protein; 37.0 22 0.00048 25.9 1.5 36 123-158 19-58 (68)
19 PF00329 Complex1_30kDa: Respi 32.1 10 0.00022 26.6 -0.9 70 64-133 14-89 (103)
20 KOG2214|consensus 32.0 22 0.00047 33.9 1.0 57 6-67 324-395 (543)
21 PF00041 fn3: Fibronectin type 29.8 1E+02 0.0022 18.6 3.4 34 52-85 45-78 (85)
22 PLN00115 pollen allergen group 28.9 1.1E+02 0.0024 23.4 4.2 63 37-126 11-73 (118)
23 PF04059 RRM_2: RNA recognitio 28.1 34 0.00073 25.1 1.3 17 123-139 50-66 (97)
24 TIGR02219 phage_NlpC_fam putat 23.9 58 0.0012 24.0 1.8 17 14-30 2-18 (134)
25 smart00298 CHROMO Chromatin or 23.8 1.4E+02 0.0031 17.5 3.2 30 87-121 4-34 (55)
26 TIGR01961 NuoC_fam NADH (or F4 22.6 1E+02 0.0022 22.0 2.9 68 64-133 27-101 (121)
27 KOG3389|consensus 22.3 54 0.0012 27.4 1.6 26 114-139 120-145 (178)
28 KOG3070|consensus 22.2 92 0.002 26.1 2.9 37 47-85 55-91 (235)
29 KOG3448|consensus 22.0 1.1E+02 0.0023 23.7 2.9 22 89-110 39-62 (96)
30 KOG2635|consensus 20.8 56 0.0012 31.1 1.5 68 43-113 356-431 (512)
31 PF12215 GBA2_N: beta-Glucocer 20.6 2.5E+02 0.0054 23.1 5.1 53 44-98 70-134 (299)
No 1
>PF00568 WH1: WH1 domain; InterPro: IPR000697 The EVH1 (WH1, RanBP1-WASP) domain is found in multi-domain proteins implicated in a diverse range of signalling, nuclear transport and cytoskeletal events. This domain of around 115 amino acids is present in species ranging from yeast to mammals. Many EVH1-containing proteins associate with actin-based structures and play a role in cytoskeletal organisation. EVH1 domains recognise and bind the proline-rich motif FPPPP with low-affinity, further interactions then form between flanking residues [][]. WASP family proteins contain a EVH1 (WH1) in their N-terminals which bind proline-rich sequences in the WASP interacting protein. Proteins of the RanBP1 family contain a WH1 domain in their N-terminal region, which seems to bind a different sequence motif present in the C-terminal part of RanGTP protein [,]. Tertiary structure of the WH1 domain of the Mena protein revealed structure similarities with the pleckstrin homology (PH) domain. The overall fold consists of a compact parallel beta-sandwich, closed along one edge by a long alpha-helix. A highly conserved cluster of three surface-exposed aromatic side-chains forms the recognition site for the molecules target ligands. [].; GO: 0005515 protein binding; PDB: 1I2H_A 1DDV_A 1DDW_A 1EGX_A 3SYX_A 1TJ6_B 1XOD_B 1EVH_A 1I7A_B 2JP2_A ....
Probab=99.22 E-value=4.6e-11 Score=85.41 Aligned_cols=90 Identities=24% Similarity=0.404 Sum_probs=79.1
Q ss_pred hhhhhhccCCCCccceeEeecCceeeeeeeeecCCCeEEEEEeeecccceEEEEEeecCCCcceeceeeEEEecCCCCCC
Q psy4624 40 AEVFHVSASGAGSVKWQQVSEDLVPVNITCIQDAPNCIFLITAYNSQVDKILDVKLVQPGTRIGQASECFVYWKDPNTND 119 (160)
Q Consensus 40 AEvFhvSa~~~g~vkWqqvsedLvpVnItcIqd~p~~vfHITAynsqvdkILdvqL~qp~t~i~~~S~cF~YWkd~~t~d 119 (160)
|+||+...+. ..+|..+ ..+..|..++|.+...++|..+..+..+++-.+-+.++-...+++.+|..|+++..
T Consensus 16 A~v~~~~p~~--~~~W~~~---~~~g~v~~v~d~~~~~y~I~~~~~~~~~~v~e~~l~~~~~Y~~~~~~Fh~f~~~~~-- 88 (111)
T PF00568_consen 16 AQVYQADPDT--KRQWSPV---KGTGVVCFVKDNSRRSYFIRLYDLQDGKVVWEQELYPGFVYTKARPFFHQFEDDDC-- 88 (111)
T ss_dssp EEEEEEETTT--SESEEES---SSEEEEEEEEETTTTEEEEEEEETTTTEEEEEEEESTT-EEEEESSSEEEEEETTC--
T ss_pred EEEEEEEcCC--CCcEeeC---CeEEEEEEEEECCCCEEEEEEEEccccEEEEEeEecCCCEEEeCCCcEEEEEeCCe--
Confidence 6788776544 2349987 67788899999999999999999889999999999999999999999999998864
Q ss_pred cceeeccChhchhHHhh
Q psy4624 120 TWGLNFTSPIDARQFRE 136 (160)
Q Consensus 120 TwGlNFtSp~Da~qFrE 136 (160)
.|||||.|.+||++|.+
T Consensus 89 ~~GLnF~se~eA~~F~~ 105 (111)
T PF00568_consen 89 VYGLNFASEEEADQFYK 105 (111)
T ss_dssp EEEEEESSHHHHHHHHH
T ss_pred EEEEecCCHHHHHHHHH
Confidence 99999999999999986
No 2
>cd00837 EVH1 EVH1 (Enabled, Vasp-Homology) or WASP Homology (WH1) domain. EVH1 (Enabled, Vasp-Homology) or WASP Homology (WH1) domain. The EVH1 domain binds to other proteins at proline rich sequences in either FPPPP or PPXXF motifs. It is found in the cytoskeletal reorganization proteins Enabled VASP, and WASP, and in the synaptic scaffolding protein Homer. It has a PH-like fold, despite having minimal sequence similarity to PH or PTB domains.
Probab=98.86 E-value=1.1e-08 Score=72.94 Aligned_cols=95 Identities=26% Similarity=0.389 Sum_probs=77.1
Q ss_pred hhhhccCCCCccceeEeecCceeeeeeeeecCCCeEEEEEeeecccceEEEEEeecCCCcceeceeeEEEecCCCCCCcc
Q psy4624 42 VFHVSASGAGSVKWQQVSEDLVPVNITCIQDAPNCIFLITAYNSQVDKILDVKLVQPGTRIGQASECFVYWKDPNTNDTW 121 (160)
Q Consensus 42 vFhvSa~~~g~vkWqqvsedLvpVnItcIqd~p~~vfHITAynsqvdkILdvqL~qp~t~i~~~S~cF~YWkd~~t~dTw 121 (160)
+-+|-....++-+|...+ .....|..++|.+...|+|..+..+..+++=-+-+-+|-...+++..|--|++. ...+
T Consensus 8 ~a~v~~~~~~~~~W~~~~--~~~g~v~~~~d~~~~~y~i~~~~~~~~~vv~~~~l~~~~~y~~~~~~Fh~w~~~--~~~~ 83 (104)
T cd00837 8 VAQVYTADPSTGKWVPAS--GGTGAVSLVKDSTRNTYRIRGVDIQDQKVIWNQEIYKGLKYTQATPFFHQWEDD--NCVY 83 (104)
T ss_pred EEEEEEECCCCCceEECC--CCeEEEEEEEECCCCEEEEEEEecCCCeEEEEEEecCCcEEeecCCeEEEEEcC--CcEE
Confidence 333333333468998866 455778889999999999999998877777666667799999999999999977 5589
Q ss_pred eeeccChhchhHHhhhccc
Q psy4624 122 GLNFTSPIDARQFRECCVS 140 (160)
Q Consensus 122 GlNFtSp~Da~qFrEcc~~ 140 (160)
||||.|++||++|.+....
T Consensus 84 GL~F~se~eA~~F~~~v~~ 102 (104)
T cd00837 84 GLNFASEEEAAQFRKKVLE 102 (104)
T ss_pred EEeeCCHHHHHHHHHHHHh
Confidence 9999999999999876443
No 3
>smart00461 WH1 WASP homology region 1. Region of the Wiskott-Aldrich syndrome protein (WASp) that contains point mutations in the majority of patients with WAS. Unknown function. Ena-like WH1 domains bind polyproline-containing peptides, and that Homer contains a WH1 domain.
Probab=98.71 E-value=1.1e-07 Score=68.46 Aligned_cols=83 Identities=25% Similarity=0.414 Sum_probs=68.9
Q ss_pred ccceeEeecC-ceeeeeeeeecCCCeEEEEEeeecccceEEEEEeecCCCcceeceeeEEEecCCCCCCcceeeccChhc
Q psy4624 52 SVKWQQVSED-LVPVNITCIQDAPNCIFLITAYNSQVDKILDVKLVQPGTRIGQASECFVYWKDPNTNDTWGLNFTSPID 130 (160)
Q Consensus 52 ~vkWqqvsed-LvpVnItcIqd~p~~vfHITAynsqvdkILdvqL~qp~t~i~~~S~cF~YWkd~~t~dTwGlNFtSp~D 130 (160)
+-+|...... ++.|.+ ..+...+.|.|......+ ++|-.+-+.+|-...+++.+|-.|++ +...|||||.|++|
T Consensus 20 ~~~W~~~~~gg~~~~~~--~~~~~~~~~ri~~~~~~~-~vv~e~ely~~~~y~~~~~~Fh~f~~--~~~~~GLnF~se~E 94 (106)
T smart00461 20 TKKWVPTGEGGAANLVI--DKNQRSYFFRIVGIKGQD-KVIWNQELYKNFKYNQATPTFHQWAD--DKCVYGLNFASEEE 94 (106)
T ss_pred CCCeEECCCCCEEEEEE--EecCCeEEEEEEEecCCC-eEEEEEeccCCCEEeecCCceEEEEe--CCeEEEeecCCHHH
Confidence 3469888777 555554 445567889999998665 89999999999999999999999996 67789999999999
Q ss_pred hhHHhhhcc
Q psy4624 131 ARQFRECCV 139 (160)
Q Consensus 131 a~qFrEcc~ 139 (160)
|++|.+...
T Consensus 95 A~~F~~~v~ 103 (106)
T smart00461 95 AKKFRKKVL 103 (106)
T ss_pred HHHHHHHHH
Confidence 999987654
No 4
>cd01207 Ena-Vasp Enabled-VASP-type homology (EVH1) domain. Enabled-VASP-type homology (EVH1) domain. The EVH1 domain binds to other proteins at proline rich sequences. It is found in proteins involved in cytoskeletal reorganization such as Enabled and VASP. Ena-VASP type EVH1 domains specifically recognize FPPPP motifs in the focal adhesion proteins zyxin and vinculin, and the ActA surface protein of Listeria monocytogenes. It has a PH-like fold, despite having minimal sequence similarity to PH or PTB domains.
Probab=97.97 E-value=2.3e-05 Score=59.04 Aligned_cols=96 Identities=25% Similarity=0.370 Sum_probs=78.2
Q ss_pred hhhhhhhhhhhccCCCCccceeEeec---CceeeeeeeeecCCCeEEEEEeeecccceEEEEEeecCCCcceeceeeEEE
Q psy4624 35 LLRLWAEVFHVSASGAGSVKWQQVSE---DLVPVNITCIQDAPNCIFLITAYNSQVDKILDVKLVQPGTRIGQASECFVY 111 (160)
Q Consensus 35 llRlwAEvFhvSa~~~g~vkWqqvse---dLvpVnItcIqd~p~~vfHITAynsqvdkILdvqL~qp~t~i~~~S~cF~Y 111 (160)
+.+.-|-||..+.+. -+|--.+. .|.+|.|-. +.....|-|-+...+..++|=-+-+-++-...+++.-|-=
T Consensus 4 i~~~rA~Vm~~d~~t---k~W~P~~~~~~~ls~V~~~~--~~~~~~yrIvg~~~~~~~~v~e~~l~~~l~y~k~~p~Fh~ 78 (111)
T cd01207 4 ICQARASVMVYDDSN---KKWVPAGGGSQGFSRVQIYH--HPRNNTFRVVGRKLQDHQVVINCAIVKGLKYNQATPTFHQ 78 (111)
T ss_pred eEEEEEEeeEEcCCC---CcEEcCCCCCCCcceEEEEE--cCCCCEEEEEEeecCCCcEEEEEEecCCceeeecCCccee
Confidence 445567777777666 46998887 788888854 4557778888887777788888888899999999999999
Q ss_pred ecCCCCCCcceeeccChhchhHHhhh
Q psy4624 112 WKDPNTNDTWGLNFTSPIDARQFREC 137 (160)
Q Consensus 112 Wkd~~t~dTwGlNFtSp~Da~qFrEc 137 (160)
|+|.. .-|||||.|++||+.|.+-
T Consensus 79 w~~~~--~v~GLnF~Se~eA~~F~~~ 102 (111)
T cd01207 79 WRDAR--QVYGLNFGSKEDATMFASA 102 (111)
T ss_pred eecCC--eEEeeccCCHHHHHHHHHH
Confidence 99875 5899999999999999874
No 5
>cd01206 Homer Homer type EVH1 domain. Homer type EVH1 domain. Homer is a synaptic scaffolding protein, involved in neuronal signaling. It contains an EVH1 domain, which binds to both neurotransmitter receptors, such as the metabotropic glutamate receptor (mGluR) and to other scaffolding proteins via PPXXF motifs, in order to target them to the synaptic junction. It has a PH-like fold, despite having minimal sequence similarity to PH or PTB domains.
Probab=97.80 E-value=5.6e-05 Score=58.06 Aligned_cols=92 Identities=23% Similarity=0.434 Sum_probs=71.6
Q ss_pred hhhhhhccCCCCccceeEeecCceeeeeeeeecCCCeEEEEEeeecccceEEEEEeecCCCcceeceeeEEEecCCCCCC
Q psy4624 40 AEVFHVSASGAGSVKWQQVSEDLVPVNITCIQDAPNCIFLITAYNSQVDKILDVKLVQPGTRIGQASECFVYWKDPNTND 119 (160)
Q Consensus 40 AEvFhvSa~~~g~vkWqqvsedLvpVnItcIqd~p~~vfHITAynsqvdkILdvqL~qp~t~i~~~S~cF~YWkd~~t~d 119 (160)
|-||..+... .-+|--.++. +|+|.=.+|.-+..|-|-+.. ..++|--=-+-||---.++|.-|-=|+|+.+++
T Consensus 11 A~V~~yd~~t--Kk~WvPs~~~--~~~V~~y~~~~~ntfRIi~~~--~~~~iINc~i~~~~~y~kas~~FhQWrD~R~~t 84 (111)
T cd01206 11 AHVFQIDPKT--KKNWIPASKH--AVTVSYFYDSTRNVYRIISVG--GTKAIINSTITPNMTFTKTSQKFGQWADSRANT 84 (111)
T ss_pred eEEEEECCCC--cceeEeCCCC--ceeEEEEecCCCcEEEEEEec--CcEEEEeccccCCcceeecccccccccccccce
Confidence 4566666532 2589888875 467777888888888887754 234444445568888999999999999999999
Q ss_pred cceeeccChhchhHHhhh
Q psy4624 120 TWGLNFTSPIDARQFREC 137 (160)
Q Consensus 120 TwGlNFtSp~Da~qFrEc 137 (160)
-|||||.|.+|+.+|-|-
T Consensus 85 VyGLnF~Sk~ea~~F~~~ 102 (111)
T cd01206 85 VYGLGFSSEQQLTKFAEK 102 (111)
T ss_pred eeecccCCHHHHHHHHHH
Confidence 999999999999999763
No 6
>KOG4590|consensus
Probab=88.16 E-value=0.41 Score=43.19 Aligned_cols=32 Identities=38% Similarity=0.734 Sum_probs=26.2
Q ss_pred ceeceeeEEEecCCCCCCcceeeccChhchhHHh
Q psy4624 102 IGQASECFVYWKDPNTNDTWGLNFTSPIDARQFR 135 (160)
Q Consensus 102 i~~~S~cF~YWkd~~t~dTwGlNFtSp~Da~qFr 135 (160)
..+|--=|--|||- .+-|||||-|++||..|-
T Consensus 59 YnkatptFHqWR~a--rqvyGLnFqs~~DA~~Fa 90 (409)
T KOG4590|consen 59 YNKATPTFHQWRDA--RQVYGLTFQSEQDARAFA 90 (409)
T ss_pred eeecccchhhhhhh--hhhhcccccChhhhhhhh
Confidence 34555556679977 899999999999999995
No 7
>cd00835 RanBD Ran-binding domain. Ran-binding domain; This domain of approximately 150 residues shares structural similarity to the PH domain, but lacks detectable sequence similarity. Ran is a Ras-like nuclear small GTPase, which regulates receptor-mediated transport between the nucleus and the cytoplasm. RanGTP hydrolysis is stimulated by RanGAP together with the Ran-binding domain containing acessory proteins RanBP1 and RanBP2. These accessory proteins stabilize the active GTP-bound form of Ran . The Ran-binding domain is found in multiple copies in Nuclear pore complex proteins.
Probab=80.71 E-value=6.5 Score=28.35 Aligned_cols=81 Identities=16% Similarity=0.258 Sum_probs=48.8
Q ss_pred cceeEeecCceeeeeeeeecCCCeEEEEEeeecccceEEEEEeecCCCcceece--eeEEEec--CC----CCCCcceee
Q psy4624 53 VKWQQVSEDLVPVNITCIQDAPNCIFLITAYNSQVDKILDVKLVQPGTRIGQAS--ECFVYWK--DP----NTNDTWGLN 124 (160)
Q Consensus 53 vkWqqvsedLvpVnItcIqd~p~~vfHITAynsqvdkILdvqL~qp~t~i~~~S--~cF~YWk--d~----~t~dTwGlN 124 (160)
-.|+.-.---+=++...-....+.|+ .+.++-||+=--.+.|+-.+..++ +-++-|- |. ..-.+|.+.
T Consensus 28 ~~WkerG~G~lki~~~k~~~~~Rivm----R~d~~~kv~lN~~i~~~~~~~~~~~~~k~~~~~~~d~~~~~~~~~~~~lr 103 (122)
T cd00835 28 KEWKERGVGELKILKHKDTGKYRLLM----RRDQVLKLCLNHKLVPGMKLQPMGNSDKSIVWAAMDFSDDEPKPETFAIR 103 (122)
T ss_pred CCCeeceEEEEEEEEcCCCCcEEEEE----EeCCccEEEEeeEecCCcEEeecCCCCcEEEEEeeecCCCCCcEEEEEEE
Confidence 34554433333344332223334333 333566777666777888777776 5566563 22 345689999
Q ss_pred ccChhchhHHhhh
Q psy4624 125 FTSPIDARQFREC 137 (160)
Q Consensus 125 FtSp~Da~qFrEc 137 (160)
|.++++|++|.+-
T Consensus 104 fk~~~~a~~f~~~ 116 (122)
T cd00835 104 FKTEEIADEFKEA 116 (122)
T ss_pred ECCHHHHHHHHHH
Confidence 9999999999863
No 8
>PF00385 Chromo: Chromo (CHRromatin Organisation MOdifier) domain; InterPro: IPR023780 The CHROMO (CHRromatin Organization MOdifier) domain [, , , ] is a conserved region of around 60 amino acids, originally identified in Drosophila modifiers of variegation. These are proteins that alter the structure of chromatin to the condensed morphology of heterochromatin, a cytologically visible condition where gene expression is repressed. In one of these proteins, Polycomb, the chromo domain has been shown to be important for chromatin targeting. Proteins that contain a chromo domain appear to fall into 3 classes. The first class includes proteins having an N-terminal chromo domain followed by a region termed the chromo shadow domain, with weak but significant sequence similarity to the N-terminal chromo domain,[], eg. Drosophila and human heterochromatin protein Su(var)205 (HP1). The second class includes proteins with a single chromo domain, eg. Drosophila protein Polycomb (Pc); mammalian modifier 3; human Mi-2 autoantigen and several yeast and Caenorhabditis elegans hypothetical proteins. In the third class paired tandem chromo domains are found, eg. in mammalian DNA-binding/helicase proteins CHD-1 to CHD-4 and yeast protein CHD1. Functional dissections of chromo domain proteins suggests a mechanistic role for chromo domains in targeting chromo domain proteins to specific regions of the nucleus. The mechanism of targeting may involve protein-protein and/or protein/nucleic acid interactions. Hence, several line of evidence show that the HP1 chromo domain is a methyl-specific histone binding module, whereas the chromo domain of two protein components of the drosophila dosage compensation complex, MSL3 and MOF, contain chromo domains that bind to RNA in vitro []. The high resolution structures of HP1-family protein chromo and chromo shadow domain reveal a conserved chromo domain fold motif consisting of three beta strands packed against an alpha helix. The chromo domain fold belongs to the OB (oligonucleotide/oligosaccharide binding)-fold class found in a variety of prokaryotic and eukaryotic nucleic acid binding protein [].; PDB: 2H1E_B 3MWY_W 2DY8_A 1KNE_A 1KNA_A 1Q3L_A 2EE1_A 1AP0_A 1GUW_A 1X3P_A ....
Probab=77.68 E-value=2.4 Score=26.20 Aligned_cols=33 Identities=39% Similarity=0.892 Sum_probs=25.4
Q ss_pred ccceEEEEEeecCCCcceeceeeEEEecC-CCCCCcc
Q psy4624 86 QVDKILDVKLVQPGTRIGQASECFVYWKD-PNTNDTW 121 (160)
Q Consensus 86 qvdkILdvqL~qp~t~i~~~S~cF~YWkd-~~t~dTw 121 (160)
+++||||.|+...+.. .-+.+|=|++ |...+||
T Consensus 2 ~Ve~Il~~r~~~~~~~---~~~ylVkW~g~~~~~~tW 35 (55)
T PF00385_consen 2 EVERILDHRVVKGGNK---VYEYLVKWKGYPYSENTW 35 (55)
T ss_dssp EEEEEEEEEEETTEES---EEEEEEEETTSSGGGEEE
T ss_pred EEEEEEEEEEeCCCcc---cEEEEEEECCCCCCCCeE
Confidence 5789999998776655 6789999997 3444577
No 9
>smart00160 RanBD Ran-binding domain. Domain of apporximately 150 residues that stabilises the GTP-bound form of Ran (the Ras-like nuclear small GTPase).
Probab=77.29 E-value=5.3 Score=29.74 Aligned_cols=56 Identities=11% Similarity=0.114 Sum_probs=35.5
Q ss_pred eeecccceEEEEEeecCCCcceece-----eeEE---EecCCCCCCcceeeccChhchhHHhhh
Q psy4624 82 AYNSQVDKILDVKLVQPGTRIGQAS-----ECFV---YWKDPNTNDTWGLNFTSPIDARQFREC 137 (160)
Q Consensus 82 AynsqvdkILdvqL~qp~t~i~~~S-----~cF~---YWkd~~t~dTwGlNFtSp~Da~qFrEc 137 (160)
..+.+.-||+=-..+-|+-.+..+. ..|. |=.++....+|.++|.+++||++|.+.
T Consensus 63 mR~~~~~kv~lN~~i~~~~~~~~~~~~~~~~~~~~~d~~d~~~~~~~~~irfk~~e~a~~f~~~ 126 (130)
T smart00160 63 MRRDGVLKVCANHPIFKSMTLKPLAGSNRALKWTPEDFADDIPKLVLYAVRFKTKEEADSFKNI 126 (130)
T ss_pred EEECCCceEEeccEecCCcEEeecCCCcceEEEeeeecCCCCCceEEEEEEeCCHHHHHHHHHH
Confidence 3444556666555556666665442 2222 112344567899999999999999864
No 10
>cd01205 WASP WASP-type EVH1 domain. WASP-type EVH1 domain. Wiskott-Aldrich syndrome (WAS) is an X-linked recessive disease, characterized by eczema, immunodeficiency, and thrombocytopenia. The majority of patients with WAS, or a milder version of the disorder, X-linked thrombocytopenia (XLT), have point mutations in the EVH1 domain of WASP (Wiskott-Aldrich syndrome protein). WASP is an actin regulatory protein consisting of an N-terminal EVH1 domain, a basic region, a GTP binding domain, a proline rich region and a WH2 acidic region. Yeast members lack the GTP binding domain. WASP binds a 25 residue proline rich motif from the WASP Interacting Protein (WIP) via its N-terminal EVH1 domain.
Probab=76.29 E-value=16 Score=27.48 Aligned_cols=79 Identities=18% Similarity=0.353 Sum_probs=55.5
Q ss_pred ccceeEeecCceeeeeeeeecCCCeEEEEEeeecccceEEEEEeecCCCcceeceeeEEEecCCCCCCcceeeccChhch
Q psy4624 52 SVKWQQVSEDLVPVNITCIQDAPNCIFLITAYNSQVDKILDVKLVQPGTRIGQASECFVYWKDPNTNDTWGLNFTSPIDA 131 (160)
Q Consensus 52 ~vkWqqvsedLvpVnItcIqd~p~~vfHITAynsqvdkILdvqL~qp~t~i~~~S~cF~YWkd~~t~dTwGlNFtSp~Da 131 (160)
+.+|.-- +. =-+.-+.|.+...+.|--+.-...++|=.|=+=.+-...+.-..|-=.- ...-..||||.|-.+|
T Consensus 21 ~~~W~~~---~~-Gvl~~vkD~~~~sy~lrl~D~~~~~v~weqElY~~f~y~~~r~fFhtFe--~d~c~~GL~Fade~EA 94 (105)
T cd01205 21 PGRWTKT---LT-GAVCLVKDNVQKSYFIRLFDIKANRIIWEQELYDNFEYQQPRPFFHTFE--GDDCVVGLNFADETEA 94 (105)
T ss_pred CCeeEEE---eE-EEEEEEEECCCCEEEEEEEEccCCcEEEEEEcccCcEEccCCCcEEEEe--ccCcEEEEEECCHHHH
Confidence 4678542 22 2244567888888988888877777776666666666666666665554 3345689999999999
Q ss_pred hHHhh
Q psy4624 132 RQFRE 136 (160)
Q Consensus 132 ~qFrE 136 (160)
++|..
T Consensus 95 ~~F~k 99 (105)
T cd01205 95 AEFRK 99 (105)
T ss_pred HHHHH
Confidence 99974
No 11
>PF06058 DCP1: Dcp1-like decapping family; InterPro: IPR010334 An essential step in mRNA turnover is decapping. In yeast, two proteins have been identified that are essential for decapping, Dcp1 (this family) and Dcp2 (IPR007722 from INTERPRO). The precise role of these proteins in the decapping reaction has not been established. Evidence suggests that the Dcp1 may enhance the function of Dcp2 [].; PDB: 1Q67_A 2QKM_C 2QKL_A.
Probab=64.17 E-value=29 Score=26.08 Aligned_cols=87 Identities=11% Similarity=0.287 Sum_probs=57.5
Q ss_pred hhhhhccCCCCccceeEe--ecCceeeeeeeeecCCCeEEEEEeeecccceEEEEEeecCCCcceeceeeEEEecCCCCC
Q psy4624 41 EVFHVSASGAGSVKWQQV--SEDLVPVNITCIQDAPNCIFLITAYNSQVDKILDVKLVQPGTRIGQASECFVYWKDPNTN 118 (160)
Q Consensus 41 EvFhvSa~~~g~vkWqqv--sedLvpVnItcIqd~p~~vfHITAynsqvdkILdvqL~qp~t~i~~~S~cF~YWkd~~t~ 118 (160)
-||+.+... -+|... --+|. |-.-+..|.+.|.|--.++..+-+++ +.|+.++....+ |+++|...+
T Consensus 30 ~vY~f~~~~---~~W~K~~iEG~LF---v~~r~~~p~~~~~vlNR~~~~n~~~~---i~~~~~~e~~~~-~l~~r~~~~- 98 (122)
T PF06058_consen 30 VVYKFDHET---NEWEKTDIEGTLF---VYKRSSSPRYGLIVLNRRSTENFVEP---ITPDLDFELQDP-YLIYRNDNQ- 98 (122)
T ss_dssp EEEEEETTT---TEEEEEEEEEEEE---EEEEETTS-ECEEEEESSSS--EEEE---E-SGGGEEEETT-EEEEEETTT-
T ss_pred EEEeecCCC---CcEeecCcEeeEE---EEEeecccceEEEEecCCCCCceeee---cCCCcEEEEeCC-EEEEEcCCc-
Confidence 355555444 678764 23333 33456799999999888776655555 355667764444 889996655
Q ss_pred CcceeeccChhchhHHhhhc
Q psy4624 119 DTWGLNFTSPIDARQFRECC 138 (160)
Q Consensus 119 dTwGlNFtSp~Da~qFrEcc 138 (160)
.-+|+=|-+++|++...++-
T Consensus 99 ~I~GiWf~~~~d~~ri~~~l 118 (122)
T PF06058_consen 99 EIYGIWFYDDEDRQRIYNLL 118 (122)
T ss_dssp EEEEEEESSHHHHHHHHHHH
T ss_pred eEEEEEEEeHHHHHHHHHHH
Confidence 67999999999999987763
No 12
>KOG3671|consensus
Probab=52.68 E-value=6.7 Score=37.40 Aligned_cols=20 Identities=40% Similarity=0.569 Sum_probs=16.8
Q ss_pred cceeeccChhchhHHhhhcc
Q psy4624 120 TWGLNFTSPIDARQFRECCV 139 (160)
Q Consensus 120 TwGlNFtSp~Da~qFrEcc~ 139 (160)
-=||||.|-++|++|++.-.
T Consensus 117 ~aGLnF~~E~EA~~F~k~V~ 136 (569)
T KOG3671|consen 117 QAGLNFASEEEAQKFRKKVQ 136 (569)
T ss_pred eeeecccCHHHHHHHHHHHH
Confidence 34999999999999987543
No 13
>PF00638 Ran_BP1: RanBP1 domain; InterPro: IPR000156 Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran Binding Protein 1 (RanBP1) has guanine nucleotide dissociation inhibitory activity, specific for the GTP form of Ran and also functions to stimulate Ran GTPase activating protein(GAP)-mediated GTP hydrolysis by Ran. RanBP1 contributes to maintaining the gradient of RanGTP across the nuclear envelope high (GDI activity) or the cytoplasmic levels of RanGTP low (GAP cofactor) []. All RanBP1 proteins contain an approx 150 amino acid residue Ran binding domain. Ran BP1 binds directly to RanGTP with high affinity. There are four sites of contact between Ran and the Ran binding domain. One of these involves binding of the C-terminal segment of Ran to a groove on the Ran binding domain that is analogous to the surface utilised in the EVH1-peptide interaction []. Nup358 contains four Ran binding domains. The structure of the first of these is known [].; GO: 0046907 intracellular transport; PDB: 2Y8F_A 2Y8G_B 2CRF_A 1XKE_A 1RRP_D 2EC1_A 3M1I_B 1K5D_E 3OAN_A 3N7C_A ....
Probab=51.01 E-value=35 Score=24.06 Aligned_cols=81 Identities=16% Similarity=0.291 Sum_probs=42.4
Q ss_pred cceeEeecCceeeeeeeeecCCCeEEEEEeeecccceEEEEEeecCCCccee--ceeeEEEe------cCCCCCCcceee
Q psy4624 53 VKWQQVSEDLVPVNITCIQDAPNCIFLITAYNSQVDKILDVKLVQPGTRIGQ--ASECFVYW------KDPNTNDTWGLN 124 (160)
Q Consensus 53 vkWqqvsedLvpVnItcIqd~p~~vfHITAynsqvdkILdvqL~qp~t~i~~--~S~cF~YW------kd~~t~dTwGlN 124 (160)
.+|+..----+-++...-..+ .=|-.++.++.||+-=-.+-|+..++. .+.-..-| .+.-.-.+|-+-
T Consensus 27 ~~W~erG~G~l~i~~~k~~~~----~RlvmR~d~~~kv~lN~~i~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ir 102 (122)
T PF00638_consen 27 KEWKERGVGTLKILKHKETGK----YRLVMRRDGTGKVLLNHPIFKGMKLKPMKGSEKSLVWTAIDYADEEGKPETYLIR 102 (122)
T ss_dssp TEEEEEEEEEEEEEEETTSCE----EEEEEEETTTTEEEEEEE--TTC-EEESTTTTTEEEEEEEECTTSSSEEEEEEEE
T ss_pred CCccccceeEEEEEEccCCcc----eEEEEEEcccCceeEEEEecCCceecccccCCcEEEEEeccccCCCCceEEEEEE
Confidence 456555444333333221122 233445556778776666666666642 22222333 222345689999
Q ss_pred ccChhchhHHhhh
Q psy4624 125 FTSPIDARQFREC 137 (160)
Q Consensus 125 FtSp~Da~qFrEc 137 (160)
|.++++|++|.+-
T Consensus 103 f~~~e~a~~f~~~ 115 (122)
T PF00638_consen 103 FKSAEDADEFKKK 115 (122)
T ss_dssp -SSHHHHHHHHHH
T ss_pred ECCHHHHHHHHHH
Confidence 9999999999763
No 14
>PF15017 AF1Q: Drug resistance and apoptosis regulator
Probab=41.90 E-value=11 Score=27.88 Aligned_cols=11 Identities=27% Similarity=1.171 Sum_probs=8.8
Q ss_pred eeEEEecCCCC
Q psy4624 107 ECFVYWKDPNT 117 (160)
Q Consensus 107 ~cF~YWkd~~t 117 (160)
.-|.|||+|--
T Consensus 21 ~sF~fWR~PlP 31 (87)
T PF15017_consen 21 NSFLFWRNPLP 31 (87)
T ss_pred cceeeccCCCC
Confidence 46999999854
No 15
>cd00024 CHROMO Chromatin organization modifier (chromo) domain is a conserved region of around 50 amino acids found in a variety of chromosomal proteins, which appear to play a role in the functional organization of the eukaryotic nucleus. Experimental evidence implicates the chromo domain in the binding activity of these proteins to methylated histone tails and maybe RNA. May occur as single instance, in a tandem arrangement or followd by a related "chromo shadow" domain.
Probab=38.76 E-value=59 Score=19.31 Aligned_cols=31 Identities=42% Similarity=0.741 Sum_probs=22.3
Q ss_pred cceEEEEEeecCCCcceeceeeEEEecCCC-CCCcc
Q psy4624 87 VDKILDVKLVQPGTRIGQASECFVYWKDPN-TNDTW 121 (160)
Q Consensus 87 vdkILdvqL~qp~t~i~~~S~cF~YWkd~~-t~dTw 121 (160)
+++||+.|.... +..-+.+|-|++-. ..+||
T Consensus 5 ve~Il~~r~~~~----~~~~~y~VkW~g~~~~~~tW 36 (55)
T cd00024 5 VEKILDHRKKKD----GGEYEYLVKWKGYSYSEDTW 36 (55)
T ss_pred EeeeeeeeecCC----CCcEEEEEEECCCCCccCcc
Confidence 579999997764 34458899999643 45666
No 16
>cd00836 FERM_C FERM_C domain. The FERM_C domain is the third structural domain within the FERM domain. The FERM domain is found in the cytoskeletal-associated proteins such as ezrin, moesin, radixin, 4.1R, and merlin. These proteins provide a link between the membrane and cytoskeleton and are involved in signal transduction pathways. The FERM_C domain is also found in protein tyrosine phosphatases (PTPs), the tyrosine kinases FAKand JAK, in addition to other proteins involved in signaling. This domain is structuraly similar to the PH and PTB domains and consequently is capable of binding to both peptides and phospholipids at different sites.
Probab=38.71 E-value=33 Score=23.33 Aligned_cols=30 Identities=17% Similarity=0.289 Sum_probs=26.3
Q ss_pred CCCCcceeeccChhchhHHhhhcccceeee
Q psy4624 116 NTNDTWGLNFTSPIDARQFRECCVSTITFY 145 (160)
Q Consensus 116 ~t~dTwGlNFtSp~Da~qFrEcc~~~~~~~ 145 (160)
....+.+..+.|+.-||++-.||....+||
T Consensus 62 ~~~~~~~f~~~s~~~~k~lwk~~ve~H~Ff 91 (92)
T cd00836 62 GQEITLSFQTPSHRACKYLWKLCVEQHAFF 91 (92)
T ss_pred CceeeEEEECCCHHHHHHHHHHHHhhhhhc
Confidence 356788899999999999999999988876
No 17
>TIGR02266 gmx_TIGR02266 Myxococcus xanthus paralogous domain TIGR02266. This domain is related to Type IV pilus assembly protein PilZ (Pfam model pfam07238). It is found in at least 12 copies in Myxococcus xanthus DK 1622.
Probab=38.10 E-value=1.2e+02 Score=19.92 Aligned_cols=52 Identities=21% Similarity=0.296 Sum_probs=31.2
Q ss_pred EeeecccceEEEEEeecCCCcceeceeeEEEecCCCCCC---cceeeccChhchh
Q psy4624 81 TAYNSQVDKILDVKLVQPGTRIGQASECFVYWKDPNTND---TWGLNFTSPIDAR 132 (160)
Q Consensus 81 TAynsqvdkILdvqL~qp~t~i~~~S~cF~YWkd~~t~d---TwGlNFtSp~Da~ 132 (160)
|......+..+.++|.=|+....-.-.+=|-|..+.... .+|+.|+...+..
T Consensus 33 ~~~~~~~g~~v~l~l~l~~~~~~i~~~g~Vv~~~~~~~~~~~~~Gv~F~~~~~~~ 87 (96)
T TIGR02266 33 TRKPLAVGTRVELKLTLPGGERPVELKGVVAWVRPAADGGPPGMGVRFEDLDAES 87 (96)
T ss_pred cCCCcCCCCEEEEEEEcCCCCeEEEEEEEEEEeCCCCCCCCCeeEEEeccCCHHH
Confidence 333445556667777666643222235667788764433 6899999876643
No 18
>PHA03025 hypothetical protein; Provisional
Probab=36.95 E-value=22 Score=25.87 Aligned_cols=36 Identities=19% Similarity=0.309 Sum_probs=27.3
Q ss_pred eeccChhchhHHhhhcccc----eeeeeehhhhHHHHhhc
Q psy4624 123 LNFTSPIDARQFRECCVST----ITFYILFKFTRSLLRNK 158 (160)
Q Consensus 123 lNFtSp~Da~qFrEcc~~~----~~~~~~fkf~r~~~~~~ 158 (160)
|-|+.-|.+|+.+|-|.+. |+.|..--...+.+|||
T Consensus 19 l~~~~k~nakkl~ei~e~~knnmi~i~l~t~i~kntiqnk 58 (68)
T PHA03025 19 LKDIGKENAKKLAEICEKIKNNMIIIKLETTIRKNTIQNK 58 (68)
T ss_pred eeehhhhhHHHHHHHHHhhhCcEEEEEEEEEeehhhhccc
Confidence 5688899999999999875 55555555566677776
No 19
>PF00329 Complex1_30kDa: Respiratory-chain NADH dehydrogenase, 30 Kd subunit; InterPro: IPR001268 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. The 30 kDa subunit from NADH:ubiquinone oxidoreductase is found in both eukaryotes and prokaryotes. In mammals and in Neurospora crassa, it is nuclear-encoded as a precursor form with a transit peptide, while in Paramecium (protein P1), in the Dictyostelium discoideum (Slime mold) it is mitochondrial-encoded and it is chloroplast-encoded in various higher plants. It is also present in bacteria.; GO: 0008137 NADH dehydrogenase (ubiquinone) activity, 0055114 oxidation-reduction process; PDB: 2YBB_5 3IAS_E 2FUG_E 3I9V_5 3M9S_E 3IAM_5 3MCR_A.
Probab=32.14 E-value=10 Score=26.63 Aligned_cols=70 Identities=19% Similarity=0.329 Sum_probs=39.8
Q ss_pred eeeeeeeecCC----CeEEEEEeeecccceEEEEEeecCCCcceeceeeE--EEecCCCCCCcceeeccChhchhH
Q psy4624 64 PVNITCIQDAP----NCIFLITAYNSQVDKILDVKLVQPGTRIGQASECF--VYWKDPNTNDTWGLNFTSPIDARQ 133 (160)
Q Consensus 64 pVnItcIqd~p----~~vfHITAynsqvdkILdvqL~qp~t~i~~~S~cF--~YWkd~~t~dTwGlNFtSp~Da~q 133 (160)
-++|+|+.... ..+.|.........-++.+.+-..+..|-+.+.-| +-|-.-..-|-||++|..--|.+.
T Consensus 14 l~~i~~~D~~~~~~~~v~y~~~~~~~~~~~~v~~~v~~~~~~ipSit~i~p~A~~~ERE~~DmfGI~f~GhPd~rr 89 (103)
T PF00329_consen 14 LVTITAVDYPEEGRFEVVYHFASDGDGTLVRVKVKVPRENPEIPSITPIFPAADWYEREIYDMFGIRFEGHPDLRR 89 (103)
T ss_dssp EEEEEEEE-TTSTSEEEEEEEEETTTTEEEEEEEEE-TTS-EEE--TTT-TTHHHHHHHHHHHCHHECCT-CCGS-
T ss_pred EEEEEEEECCCCCeEEEEEEEEECCCCcEEEEEEEeccCCCcccceeEEEcCceecCcHHHhhcCCEeCCCCCCcc
Confidence 46777776665 34444444433333456666666788888877766 345555677889999998777654
No 20
>KOG2214|consensus
Probab=31.98 E-value=22 Score=33.89 Aligned_cols=57 Identities=28% Similarity=0.390 Sum_probs=41.2
Q ss_pred CCccch------hhhhhhhccCCCccccc----ccCCcchh-----hhhhhhhhhccCCCCccceeEeecCceeeee
Q psy4624 6 SACSCA------PLMRKAYRYEDSPWQTS----KRRDGHLL-----RLWAEVFHVSASGAGSVKWQQVSEDLVPVNI 67 (160)
Q Consensus 6 sscsc~------pl~rk~yr~ed~pwq~~----~rrdghll-----RlwAEvFhvSa~~~g~vkWqqvsedLvpVnI 67 (160)
.||||+ |||-|-+--|-.||-.. +.+||.+- -=|.|.|+|--.=.+ |+-+.|.|+=.
T Consensus 324 aScs~pgif~~~~Ll~Kd~t~ei~p~~~~~~~~r~~dgsl~~d~P~srL~ElFNVnhfIvs-----Q~nphl~P~~~ 395 (543)
T KOG2214|consen 324 ASCSVPGIFESTPLLAKDLTNEIEPFIVTFSEPRFMDGSLDNDLPYSRLKELFNVNHFIVS-----QANPHLFPFLD 395 (543)
T ss_pred HhcccccccCccHHHHhhccCcEeeccCCccchhhccCcccccCcHHHHHHHhccccEEEe-----cCCccccccee
Confidence 467764 89999999999999887 78999875 458999998654432 33455666544
No 21
>PF00041 fn3: Fibronectin type III domain; InterPro: IPR003961 Fibronectins are multi-domain glycoproteins found in a soluble form in plasma, and in an insoluble form in loose connective tissue and basement membranes []. They contain multiple copies of 3 repeat regions (types I, II and III), which bind to a variety of substances including heparin, collagen, DNA, actin, fibrin and fibronectin receptors on cell surfaces. The wide variety of these substances means that fibronectins are involved in a number of important functions: e.g., wound healing; cell adhesion; blood coagulation; cell differentiation and migration; maintenance of the cellular cytoskeleton; and tumour metastasis []. The role of fibronectin in cell differentiation is demonstrated by the marked reduction in the expression of its gene when neoplastic transformation occurs. Cell attachment has been found to be mediated by the binding of the tetrapeptide RGDS to integrins on the cell surface [], although related sequences can also display cell adhesion activity. Plasma fibronectin occurs as a dimer of 2 different subunits, linked together by 2 disulphide bonds near the C terminus. The difference in the 2 chains occurs in the type III repeat region and is caused by alternative splicing of the mRNA from one gene []. The observation that, in a given protein, an individual repeat of one of the 3 types (e.g., the first FnIII repeat) shows much less similarity to its subsequent tandem repeats within that protein than to its equivalent repeat between fibronectins from other species, has suggested that the repeating structure of fibronectin arose at an early stage of evolution. It also seems to suggest that the structure is subject to high selective pressure []. The fibronectin type III repeat region is an approximately 100 amino acid domain, different tandem repeats of which contain binding sites for DNA, heparin and the cell surface []. The superfamily of sequences believed to contain FnIII repeats represents 45 different families, the majority of which are involved in cell surface binding in some manner, or are receptor protein tyrosine kinases, or cytokine receptors.; GO: 0005515 protein binding; PDB: 1UEM_A 1TDQ_A 1X5I_A 2IC2_B 2IBG_C 2IBB_A 3R8Q_A 2FNB_A 1FNH_A 2EDB_A ....
Probab=29.81 E-value=1e+02 Score=18.59 Aligned_cols=34 Identities=24% Similarity=0.179 Sum_probs=23.8
Q ss_pred ccceeEeecCceeeeeeeeecCCCeEEEEEeeec
Q psy4624 52 SVKWQQVSEDLVPVNITCIQDAPNCIFLITAYNS 85 (160)
Q Consensus 52 ~vkWqqvsedLvpVnItcIqd~p~~vfHITAyns 85 (160)
..++.++..+.--++|+-++-.=.+.|-|.|.|.
T Consensus 45 ~~~~~~~~~~~~~~~i~~L~p~t~Y~~~v~a~~~ 78 (85)
T PF00041_consen 45 DWQEVTVPGNETSYTITGLQPGTTYEFRVRAVNS 78 (85)
T ss_dssp EEEEEEEETTSSEEEEESCCTTSEEEEEEEEEET
T ss_pred eeeeeeeeeeeeeeeeccCCCCCEEEEEEEEEeC
Confidence 3566667777667777777666677777777774
No 22
>PLN00115 pollen allergen group 3; Provisional
Probab=28.93 E-value=1.1e+02 Score=23.44 Aligned_cols=63 Identities=22% Similarity=0.307 Sum_probs=41.6
Q ss_pred hhhhhhhhhccCCCCccceeEeecCceeeeeeeeecCCCeEEEEEeeecccceEEEEEeecCCCcceeceeeEEEecCCC
Q psy4624 37 RLWAEVFHVSASGAGSVKWQQVSEDLVPVNITCIQDAPNCIFLITAYNSQVDKILDVKLVQPGTRIGQASECFVYWKDPN 116 (160)
Q Consensus 37 RlwAEvFhvSa~~~g~vkWqqvsedLvpVnItcIqd~p~~vfHITAynsqvdkILdvqL~qp~t~i~~~S~cF~YWkd~~ 116 (160)
-..|-+|-|.+-+. =|-++|..=+ .|.+..-++ | +| |..|.|-|.|. ..|.|||
T Consensus 11 ~~~a~l~~~~~~g~-----------~v~F~V~~gS-np~yL~ll~--~--~d-I~~V~Ik~~g~---------~~W~~~M 64 (118)
T PLN00115 11 VALAALFAVGSCAT-----------EVTFKVGKGS-SSTSLELVT--N--VA-ISEVEIKEKGA---------KDWVDDL 64 (118)
T ss_pred HHHHHHhhhhhcCC-----------ceEEEECCCC-CcceEEEEE--e--CC-EEEEEEeecCC---------CcccCcc
Confidence 34567777766551 1334454433 588887776 3 33 88888888763 2499999
Q ss_pred CCCcceeecc
Q psy4624 117 TNDTWGLNFT 126 (160)
Q Consensus 117 t~dTwGlNFt 126 (160)
+ ..||-|++
T Consensus 65 ~-rswGavW~ 73 (118)
T PLN00115 65 K-ESSTNTWT 73 (118)
T ss_pred c-cCccceeE
Confidence 8 67999987
No 23
>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2. It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).
Probab=28.14 E-value=34 Score=25.14 Aligned_cols=17 Identities=41% Similarity=0.551 Sum_probs=14.7
Q ss_pred eeccChhchhHHhhhcc
Q psy4624 123 LNFTSPIDARQFRECCV 139 (160)
Q Consensus 123 lNFtSp~Da~qFrEcc~ 139 (160)
+||++|.++..|.+.-.
T Consensus 50 VNf~~~~~~~~F~~~f~ 66 (97)
T PF04059_consen 50 VNFTSPQAAIRFYKAFN 66 (97)
T ss_pred EEcCCHHHHHHHHHHHc
Confidence 79999999999987643
No 24
>TIGR02219 phage_NlpC_fam putative phage cell wall peptidase, NlpC/P60 family. Members of this family show sequence similarity to members of the NlpC/P60 family described by Pfam model pfam00877 and by Anantharaman and Aravind (PubMed:12620121). The NlpC/P60 family includes a number of characterized bacterial cell wall hydrolases. Members of this related family are all found in prophage regions of bacterial genomes.
Probab=23.87 E-value=58 Score=23.97 Aligned_cols=17 Identities=12% Similarity=0.380 Sum_probs=9.3
Q ss_pred hhhhhccCCCccccccc
Q psy4624 14 MRKAYRYEDSPWQTSKR 30 (160)
Q Consensus 14 ~rk~yr~ed~pwq~~~r 30 (160)
+..|.+|-.+|+.-+.+
T Consensus 2 v~~a~~~lG~pY~~Gg~ 18 (134)
T TIGR02219 2 LAEARSWIGTPYRHQAS 18 (134)
T ss_pred HHHHHHhCCCCeecCCC
Confidence 34555666666655443
No 25
>smart00298 CHROMO Chromatin organization modifier domain.
Probab=23.81 E-value=1.4e+02 Score=17.47 Aligned_cols=30 Identities=40% Similarity=0.664 Sum_probs=19.7
Q ss_pred cceEEEEEeecCCCcceeceeeEEEecCCCC-CCcc
Q psy4624 87 VDKILDVKLVQPGTRIGQASECFVYWKDPNT-NDTW 121 (160)
Q Consensus 87 vdkILdvqL~qp~t~i~~~S~cF~YWkd~~t-~dTw 121 (160)
++|||+.|..+ ....+-+|=|++-.. .+||
T Consensus 4 v~~Il~~r~~~-----~~~~~ylVkW~g~~~~~~tW 34 (55)
T smart00298 4 VEKILDHRWKK-----KGELEYLVKWKGYSYSEDTW 34 (55)
T ss_pred hheeeeeeecC-----CCcEEEEEEECCCCCccCce
Confidence 67999999732 234578899996322 2555
No 26
>TIGR01961 NuoC_fam NADH (or F420H2) dehydrogenase, subunit C. This model describes the C subunit of the NADH dehydrogenase complex I in bacteria, as well as many instances of the corresponding mitochondrial subunit (NADH dehydrogenase subunit 9) and of the F420H2 dehydrogenase in Methanosarcina. Complex I contains subunits designated A-N. This C subunit often occurs as a fusion protein with the D subunit. This model excludes the NAD(P)H and plastoquinone-dependent form of chloroplasts and
Probab=22.64 E-value=1e+02 Score=22.05 Aligned_cols=68 Identities=13% Similarity=0.354 Sum_probs=40.2
Q ss_pred eeeeeeeecCCC----eEEEEEeeecccceEEEEEeecC-CCcceeceeeE--EEecCCCCCCcceeeccChhchhH
Q psy4624 64 PVNITCIQDAPN----CIFLITAYNSQVDKILDVKLVQP-GTRIGQASECF--VYWKDPNTNDTWGLNFTSPIDARQ 133 (160)
Q Consensus 64 pVnItcIqd~p~----~vfHITAynsqvdkILdvqL~qp-~t~i~~~S~cF--~YWkd~~t~dTwGlNFtSp~Da~q 133 (160)
-++++++....+ .+.|+..+. ....+.+++.-| +..+-+.+..| +-|-.-..-|-||++|..-.|-+.
T Consensus 27 l~~i~a~D~~~~~~~~~~y~~~~~~--~~~~~~~~~~~~~~~~ipSis~i~p~A~~~EREi~DmfGi~f~Ghpd~rr 101 (121)
T TIGR01961 27 LTDVSGVDYPKEKRFEVVYHLLSIK--KNRRIRLKVRLSEDDPVPSLTSVFPTANWYERETYDMYGIVFDGHPDLRR 101 (121)
T ss_pred EeEEEEEecCCCCeEEEEEEEEeCC--CCcEEEEEEECCCCCCCCchHHhhhcccHHHHHHHhhcCcEeCCCCCCcc
Confidence 345666533222 455554432 224555655433 33366666655 567666788999999998877654
No 27
>KOG3389|consensus
Probab=22.30 E-value=54 Score=27.43 Aligned_cols=26 Identities=35% Similarity=0.400 Sum_probs=20.0
Q ss_pred CCCCCCcceeeccChhchhHHhhhcc
Q psy4624 114 DPNTNDTWGLNFTSPIDARQFRECCV 139 (160)
Q Consensus 114 d~~t~dTwGlNFtSp~Da~qFrEcc~ 139 (160)
||-.|-.--|-|.+-|||+.|+|--+
T Consensus 120 DPlsNvgm~L~F~tkEdA~sFaEkng 145 (178)
T KOG3389|consen 120 DPLSNVGMALAFDTKEDAKSFAEKNG 145 (178)
T ss_pred CcccccceeeeeccHHHHHHHHHHcC
Confidence 45555456688999999999999654
No 28
>KOG3070|consensus
Probab=22.19 E-value=92 Score=26.10 Aligned_cols=37 Identities=19% Similarity=0.261 Sum_probs=29.8
Q ss_pred cCCCCccceeEeecCceeeeeeeeecCCCeEEEEEeeec
Q psy4624 47 ASGAGSVKWQQVSEDLVPVNITCIQDAPNCIFLITAYNS 85 (160)
Q Consensus 47 a~~~g~vkWqqvsedLvpVnItcIqd~p~~vfHITAyns 85 (160)
+...|.++|.-++.-...++.+ +-.+|..||.|+-+.
T Consensus 55 ~~~~G~~k~fnv~~G~gFi~~~--d~~~D~fvhQs~i~~ 91 (235)
T KOG3070|consen 55 ARVKGTVKWFNVGKGYGFITRD--DGPEDVFVHQSAITK 91 (235)
T ss_pred ccccCcceeEeccCCcceeccc--CCCCceeEEeeeecc
Confidence 3456889999999998888877 556778889888876
No 29
>KOG3448|consensus
Probab=21.99 E-value=1.1e+02 Score=23.68 Aligned_cols=22 Identities=23% Similarity=0.616 Sum_probs=19.4
Q ss_pred eEEEEEeecC--CCcceeceeeEE
Q psy4624 89 KILDVKLVQP--GTRIGQASECFV 110 (160)
Q Consensus 89 kILdvqL~qp--~t~i~~~S~cF~ 110 (160)
|..|+++++| -+-+..++.||+
T Consensus 39 kL~di~v~d~~kyPhm~Sv~ncfI 62 (96)
T KOG3448|consen 39 KLTDISVTDPDKYPHMLSVKNCFI 62 (96)
T ss_pred EEeeeEeeCcccCCCeeeeeeEEE
Confidence 7788999999 678899999997
No 30
>KOG2635|consensus
Probab=20.84 E-value=56 Score=31.12 Aligned_cols=68 Identities=25% Similarity=0.405 Sum_probs=40.9
Q ss_pred hhhccCCCCccceeEee--cCceeeeeeeee----cCCCeEEEEEeeecccceEEEEEeecCCC-c-ceeceeeEEEec
Q psy4624 43 FHVSASGAGSVKWQQVS--EDLVPVNITCIQ----DAPNCIFLITAYNSQVDKILDVKLVQPGT-R-IGQASECFVYWK 113 (160)
Q Consensus 43 FhvSa~~~g~vkWqqvs--edLvpVnItcIq----d~p~~vfHITAynsqvdkILdvqL~qp~t-~-i~~~S~cF~YWk 113 (160)
|-|. ++-|-.||.-+. |+++|.||+|-- +.-+...--+| ...--.-||.++=|-+ - --.+++|=.=|+
T Consensus 356 FPvn-~~VGvLkWR~~~~des~iPlTincWPSes~~g~dV~iEYe~--~~~~eL~dV~i~iPlP~~iapsv~~~Dge~~ 431 (512)
T KOG2635|consen 356 FPVN-SDVGVLKWRMVDEDESEIPLTINCWPSESGNGYDVNIEYEA--VLECELNDVIITIPLPANIAPSVGECDGEYR 431 (512)
T ss_pred CCcC-CcceEEEEeecccccccCceEEEeccccCCCCeEEEEEEee--hhcccccceEEEeecccccCCccceecceEE
Confidence 5555 555889999999 899999999962 22122233344 2233456777777622 2 234466655554
No 31
>PF12215 GBA2_N: beta-Glucocerebrosidase 2 N terminal; InterPro: IPR024462 This entry represents a domain found in beta-glucosidase 2 (also known as beta-glucocerebrosidase 2, acid beta-glucosidase, D-glucosyl-N-acylsphingosine glucohydrolase, or GCase), which is typically between 320 to 354 amino acids in length. It is found just after the extreme N terminus. This protein is located in the ER. The N-terminal is thought to be the luminal domain while the C-terminal is the cytosolic domain []. The catalytic domain of GBA-2 is unknown.
Probab=20.59 E-value=2.5e+02 Score=23.08 Aligned_cols=53 Identities=25% Similarity=0.398 Sum_probs=38.7
Q ss_pred hhccCCCCccceeEeecCceeeeeeeeecCC------------CeEEEEEeeecccceEEEEEeecC
Q psy4624 44 HVSASGAGSVKWQQVSEDLVPVNITCIQDAP------------NCIFLITAYNSQVDKILDVKLVQP 98 (160)
Q Consensus 44 hvSa~~~g~vkWqqvsedLvpVnItcIqd~p------------~~vfHITAynsqvdkILdvqL~qp 98 (160)
++.-.+.=|.-|-...+ -.||.|+|-|=+| =+||.++..| ..++-++|.|.-+
T Consensus 70 ~~~y~~lyP~a~~~y~~-~~~v~v~~~~~SP~IP~d~k~SSlP~~vf~~~v~N-~~~~~~~vsi~~s 134 (299)
T PF12215_consen 70 DAEYHGLYPRAWTEYED-DFPVKVTCEQFSPFIPHDYKDSSLPVAVFEWTVEN-TSDEPVEVSIAFS 134 (299)
T ss_pred ceEEEEECceEEEEEec-CCCcEEEEEEECCccCCChhhcCCCeEEEEEEEEc-CCCCcEEEEEEEE
Confidence 34444445666777776 8899999988765 5799999999 5557788887643
Done!