Query psy1340
Match_columns 51
No_of_seqs 9 out of 11
Neff 1.7
Searched_HMMs 46136
Date Fri Aug 16 18:29:37 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1340.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/1340hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3514|consensus 91.3 0.28 6.1E-06 42.7 3.9 46 2-49 239-285 (1591)
2 cd00110 LamG Laminin G domain; 88.9 0.68 1.5E-05 26.2 3.1 31 15-49 2-32 (151)
3 KOG3516|consensus 85.5 0.97 2.1E-05 39.0 3.4 40 7-49 173-212 (1306)
4 cd07279 PX_SNX20_21_like The p 80.8 1.8 4E-05 25.6 2.4 24 6-29 2-25 (112)
5 PF07067 DUF1340: Protein of u 80.4 0.56 1.2E-05 34.1 0.1 25 25-49 191-215 (236)
6 KOG3514|consensus 60.7 18 0.00039 32.2 4.7 45 1-49 652-696 (1591)
7 PF03091 CutA1: CutA1 divalent 58.0 11 0.00023 23.0 2.2 23 26-49 38-60 (102)
8 PRK10645 divalent-cation toler 54.9 12 0.00027 23.4 2.2 23 26-49 48-70 (112)
9 PF13532 2OG-FeII_Oxy_2: 2OG-F 43.8 17 0.00037 22.0 1.6 9 38-46 186-194 (194)
10 PF14508 GH97_N: Glycosyl-hydr 38.3 49 0.0011 22.4 3.2 22 8-29 77-102 (259)
11 TIGR00218 manA mannose-6-phosp 37.3 37 0.00081 23.2 2.5 24 12-35 174-197 (302)
12 PRK10693 response regulator of 34.6 25 0.00055 23.6 1.4 21 26-46 281-301 (303)
13 PF03531 SSrecog: Structure-sp 33.4 77 0.0017 22.1 3.6 29 12-47 157-185 (222)
14 smart00632 Aamy_C Aamy_C domai 31.7 76 0.0017 17.6 2.9 25 3-27 40-68 (81)
15 PF12701 LSM14: Scd6-like Sm d 31.6 23 0.00051 21.7 0.8 17 2-18 21-38 (96)
16 PF08750 CNP1: CNP1-like famil 30.9 24 0.00052 23.0 0.8 10 1-10 68-77 (139)
17 KOG0337|consensus 30.5 15 0.00033 29.4 -0.2 22 21-42 163-193 (529)
18 PF15106 TMEM156: TMEM156 prot 30.3 27 0.00059 25.3 1.0 14 8-21 210-223 (226)
19 PF05641 Agenet: Agenet domain 30.0 1E+02 0.0022 16.8 3.3 19 3-21 14-32 (68)
20 cd06898 PX_SNX10 The phosphoin 30.0 47 0.001 20.0 1.9 21 8-28 3-24 (113)
21 PF06327 DUF1053: Domain of Un 29.1 28 0.00061 20.1 0.8 12 38-49 77-88 (101)
22 PF13759 2OG-FeII_Oxy_5: Putat 28.3 44 0.00095 19.0 1.5 11 35-45 90-100 (101)
23 cd06872 PX_SNX19_like_plant Th 28.0 82 0.0018 18.9 2.7 25 6-30 2-26 (107)
24 cd03334 Fab1_TCP TCP-1 like do 27.7 42 0.00091 22.7 1.5 17 6-22 214-230 (261)
25 cd08686 C2_ABR C2 domain in th 27.6 1.2E+02 0.0026 19.1 3.5 34 13-46 50-91 (118)
26 PF04265 TPK_B1_binding: Thiam 27.3 39 0.00084 18.4 1.1 22 2-23 11-35 (68)
27 PHA00446 hypothetical protein 25.5 33 0.00071 22.0 0.7 11 26-36 32-42 (89)
28 PF11113 Phage_head_chap: Head 24.5 1.6E+02 0.0034 17.2 3.6 30 15-49 7-37 (56)
29 cd01180 IPT_plexin_repeat1 Fir 23.3 50 0.0011 18.9 1.1 12 12-23 16-27 (94)
30 cd07285 PX_SNX9 The phosphoino 22.8 71 0.0015 20.4 1.8 25 7-31 3-29 (126)
31 PF13511 DUF4124: Domain of un 21.2 45 0.00099 17.3 0.6 8 26-33 14-21 (60)
32 COG5165 POB3 Nucleosome-bindin 21.2 46 0.001 26.6 0.9 28 13-47 232-259 (508)
33 KOG4116|consensus 20.9 56 0.0012 20.9 1.1 18 23-40 63-80 (90)
No 1
>KOG3514|consensus
Probab=91.26 E-value=0.28 Score=42.73 Aligned_cols=46 Identities=20% Similarity=0.468 Sum_probs=39.5
Q ss_pred Cccceecee-eeeEEEEecceeeEEEEeecccccccccceeEEEEEecc
Q psy1340 2 YEGELCDIY-TATILTLRGASYVSYRVYDWKDRVHSSQNRISVQFKLQN 49 (51)
Q Consensus 2 YEge~Cd~y-taT~ltLRG~sYVsyrvydwkdrvhs~~nRiSl~Fkt~~ 49 (51)
|.|+.|++- ..-+.|.+|..|++|-+- .+-+.|+..-|+|.|||.|
T Consensus 239 ~dgq~cekeK~~~eaTF~G~ef~~YDls--~npI~s~~d~itl~FrT~q 285 (1591)
T KOG3514|consen 239 HDGQNCEKEKNDGEATFGGDEFVGYDLS--QNPIRSKKDNITLTFRTVQ 285 (1591)
T ss_pred cCccccccccCcceEEecCceEEEeecc--CCcccccccceEEEEEEec
Confidence 678889885 457899999999999875 3688999999999999986
No 2
>cd00110 LamG Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of purposes including signal transduction via cell-surface steroid receptors, adhesion, migration and differentiation through mediation of cell adhesion molecules.
Probab=88.95 E-value=0.68 Score=26.17 Aligned_cols=31 Identities=23% Similarity=0.417 Sum_probs=22.8
Q ss_pred EEEecceeeEEEEeecccccccccceeEEEEEecc
Q psy1340 15 LTLRGASYVSYRVYDWKDRVHSSQNRISVQFKLQN 49 (51)
Q Consensus 15 ltLRG~sYVsyrvydwkdrvhs~~nRiSl~Fkt~~ 49 (51)
+...|++|+.|... ... .....||+.|||.+
T Consensus 2 ~~F~g~~~i~~~~~--~~~--~~~~~i~~~frt~~ 32 (151)
T cd00110 2 VSFSGSSYVRLPTL--PAP--RTRLSISFSFRTTS 32 (151)
T ss_pred eEeCCCceEEecCC--CCC--cceeEEEEEEEeCC
Confidence 45678888887654 222 77888999999975
No 3
>KOG3516|consensus
Probab=85.52 E-value=0.97 Score=39.05 Aligned_cols=40 Identities=28% Similarity=0.503 Sum_probs=32.8
Q ss_pred eceeeeeEEEEecceeeEEEEeecccccccccceeEEEEEecc
Q psy1340 7 CDIYTATILTLRGASYVSYRVYDWKDRVHSSQNRISVQFKLQN 49 (51)
Q Consensus 7 Cd~ytaT~ltLRG~sYVsyrvydwkdrvhs~~nRiSl~Fkt~~ 49 (51)
|+ |.+-++-++|.|++.||.-.|. +.+.-++|||-|||-+
T Consensus 173 c~-y~s~vi~fdg~s~~~yr~~~~~--m~s~~d~is~~Fkt~~ 212 (1306)
T KOG3516|consen 173 CS-YKSPVIYFDGSSSLLYRFHRKL--MSSLKDVISLKFKTMQ 212 (1306)
T ss_pred cc-ccCceeEECCccceeeeccccc--cccccceeEEEEEeec
Confidence 44 4566889999999999988665 6677899999999965
No 4
>cd07279 PX_SNX20_21_like The phosphoinositide binding Phox Homology domain of Sorting Nexins 20 and 21. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. This subfamily consists of SNX20, SNX21, and similar proteins. SNX20 interacts with P-Selectin glycoprotein ligand-1 (PSGL-1), a surface-expressed mucin that acts as a ligand for the selectin family of adhesion proteins. It may function in the sorting and cycling of PSGL-1 into endosomes. SNX21, also cal
Probab=80.80 E-value=1.8 Score=25.60 Aligned_cols=24 Identities=21% Similarity=0.265 Sum_probs=22.0
Q ss_pred eeceeeeeEEEEecceeeEEEEee
Q psy1340 6 LCDIYTATILTLRGASYVSYRVYD 29 (51)
Q Consensus 6 ~Cd~ytaT~ltLRG~sYVsyrvyd 29 (51)
.|||-+++++.=.|.+||.|.|.-
T Consensus 2 ~~~i~~~~~~~~~~~~yv~Y~I~v 25 (112)
T cd07279 2 KFEIVSARTVKEGEKKYVVYQLAV 25 (112)
T ss_pred eEEeccCeEEcCCCeeEEEEEEEE
Confidence 499999999999999999999873
No 5
>PF07067 DUF1340: Protein of unknown function (DUF1340); InterPro: IPR009774 This family consists of several hypothetical Streptococcus thermophilus bacteriophage proteins of around 235 residues in length. The function of this family is unknown.
Probab=80.43 E-value=0.56 Score=34.14 Aligned_cols=25 Identities=20% Similarity=0.724 Sum_probs=22.6
Q ss_pred EEEeecccccccccceeEEEEEecc
Q psy1340 25 YRVYDWKDRVHSSQNRISVQFKLQN 49 (51)
Q Consensus 25 yrvydwkdrvhs~~nRiSl~Fkt~~ 49 (51)
|.-|.|-++++|+|+||-|.++|+.
T Consensus 191 fNkYEWpesLD~EVdRI~LEYRTKG 215 (236)
T PF07067_consen 191 FNKYEWPESLDSEVDRIYLEYRTKG 215 (236)
T ss_pred hccccCchhhHhhhhhheeeeeccc
Confidence 5679999999999999999999963
No 6
>KOG3514|consensus
Probab=60.67 E-value=18 Score=32.24 Aligned_cols=45 Identities=24% Similarity=0.488 Sum_probs=38.7
Q ss_pred CCccceeceeeeeEEEEecceeeEEEEeecccccccccceeEEEEEecc
Q psy1340 1 MYEGELCDIYTATILTLRGASYVSYRVYDWKDRVHSSQNRISVQFKLQN 49 (51)
Q Consensus 1 ~YEge~Cd~ytaT~ltLRG~sYVsyrvydwkdrvhs~~nRiSl~Fkt~~ 49 (51)
.|||..|+- ++|+|..-|+-|.--..= .-.|+.+.-||+.|||+.
T Consensus 652 ~~~G~~Cer-E~t~ls~nGs~~m~i~L~---~~~~tq~E~v~iRF~t~r 696 (1591)
T KOG3514|consen 652 GFEGRTCER-EATALSYNGSMSMKIVLP---HTMHTQAEDVSIRFRTQR 696 (1591)
T ss_pred cccCccccc-eeeeEEEcCeeeEEEEec---ccceeecceEEEEEEecc
Confidence 489999985 789999999998876655 778999999999999975
No 7
>PF03091 CutA1: CutA1 divalent ion tolerance protein; InterPro: IPR004323 The CutA family of proteins which exhibit ion tolerance are found in a large variety of species []. In E.Coli, two operons on the cutA locus contain genes that encode three proteins, CutA1, CutA2 and CutA3. CutA1 proteins are found in the cytoplasm while CutA2 (50kDa) and CutA3 (24kDa) are located in the inner membrane. Although the role of E. Coli CutA1 is not clear, studies on E. coli cutA locus describe some mutations that lead to an increase in copper sensitivity, thus suggesting a role in ion tolerance []. To date, the structure of CutA proteins from several species have been solved [, ]. The crystal structures of the E.Coli and rat CutA1 proteins show both these proteins to be trimeric in the crystal as well as in solution[].Trimerisation seems to supported by the formation of beta sheets between the subunit. This trimeric structure suggests the protein may be involved in signal transduction due to architectural similarities with PII signal transducer proteins []. Recent studies propose that mammalian CutA1 in the neuronal cell membrane acts as an anchor for acetylcholinesterase (AChE)1 [].; GO: 0010038 response to metal ion; PDB: 1O5J_A 1KR4_A 1VHF_A 3GSD_H 1OSC_A 3OPK_A 4E98_C 1V9B_F 1UKU_A 2E66_C ....
Probab=58.00 E-value=11 Score=23.03 Aligned_cols=23 Identities=13% Similarity=0.557 Sum_probs=18.3
Q ss_pred EEeecccccccccceeEEEEEecc
Q psy1340 26 RVYDWKDRVHSSQNRISVQFKLQN 49 (51)
Q Consensus 26 rvydwkdrvhs~~nRiSl~Fkt~~ 49 (51)
.+|-|++++++.. -+-|.|||..
T Consensus 38 S~Y~W~g~i~~~~-E~~l~~KT~~ 60 (102)
T PF03091_consen 38 SIYRWEGKIEEEE-EVLLLIKTTA 60 (102)
T ss_dssp EEEEETTEEEEEE-EEEEEEEEEG
T ss_pred eEEEECCccccce-EeeEEEEecH
Confidence 4799999999764 4778899864
No 8
>PRK10645 divalent-cation tolerance protein CutA; Provisional
Probab=54.91 E-value=12 Score=23.35 Aligned_cols=23 Identities=13% Similarity=0.456 Sum_probs=18.3
Q ss_pred EEeecccccccccceeEEEEEecc
Q psy1340 26 RVYDWKDRVHSSQNRISVQFKLQN 49 (51)
Q Consensus 26 rvydwkdrvhs~~nRiSl~Fkt~~ 49 (51)
.+|-|++.++.. +-+.|.|||..
T Consensus 48 S~Y~W~G~i~~~-~E~~l~iKT~~ 70 (112)
T PRK10645 48 SLYYWEGKLEQE-YEVQMLLKTTV 70 (112)
T ss_pred EEEEECCEEeee-eEEEEEEEeCH
Confidence 479999999765 45789999964
No 9
>PF13532 2OG-FeII_Oxy_2: 2OG-Fe(II) oxygenase superfamily; PDB: 2IUW_A 3BTZ_A 3RZL_A 3RZH_A 3S5A_A 3RZG_A 3RZJ_A 3BUC_A 3H8X_A 3H8R_A ....
Probab=43.82 E-value=17 Score=21.99 Aligned_cols=9 Identities=44% Similarity=0.803 Sum_probs=6.9
Q ss_pred cceeEEEEE
Q psy1340 38 QNRISVQFK 46 (51)
Q Consensus 38 ~nRiSl~Fk 46 (51)
.+||||.||
T Consensus 186 ~~RislTfR 194 (194)
T PF13532_consen 186 GRRISLTFR 194 (194)
T ss_dssp S-EEEEEEE
T ss_pred CCEEEEEeC
Confidence 379999997
No 10
>PF14508 GH97_N: Glycosyl-hydrolase 97 N-terminal; PDB: 3A24_A 2JKP_A 2JKE_A 2D73_B 2ZQ0_B 2JKA_A.
Probab=38.26 E-value=49 Score=22.38 Aligned_cols=22 Identities=23% Similarity=0.532 Sum_probs=17.8
Q ss_pred ceeeeeEEEEeccee----eEEEEee
Q psy1340 8 DIYTATILTLRGASY----VSYRVYD 29 (51)
Q Consensus 8 d~ytaT~ltLRG~sY----Vsyrvyd 29 (51)
|.|...+|+|++..= |.||+||
T Consensus 77 ~~yne~~l~~~~~~~~~l~l~fRayd 102 (259)
T PF14508_consen 77 NHYNELTLSFKNKYGRRLNLEFRAYD 102 (259)
T ss_dssp EEEEEEEEEECCCCCEEEEEEEEEET
T ss_pred eeEEEEEEEEecCCCceeEEEEEEEc
Confidence 457778899999766 9999995
No 11
>TIGR00218 manA mannose-6-phosphate isomerase, class I. The names phosphomannose isomerase and mannose-6-phosphate isomerase are synonomous. This family contains two rather deeply branched groups. One group contains an experimentally determined phosphomannose isomerase of Streptococcus mutans as well as three uncharacterized paralogous proteins of Bacillus subtilis, all at more than 50 % identity to each other, plus a more distant homolog from Archaeoglobus fulgidus. The other group contains members from E. coli, budding yeast, Borrelia burgdorferi, etc.
Probab=37.28 E-value=37 Score=23.18 Aligned_cols=24 Identities=21% Similarity=0.174 Sum_probs=18.8
Q ss_pred eeEEEEecceeeEEEEeecccccc
Q psy1340 12 ATILTLRGASYVSYRVYDWKDRVH 35 (51)
Q Consensus 12 aT~ltLRG~sYVsyrvydwkdrvh 35 (51)
..++-+--+|-+.||+|||...+|
T Consensus 174 ~~~~Eiq~~SD~t~R~~d~~r~l~ 197 (302)
T TIGR00218 174 GLVLEVMQNSDNVYRAGDTDKYLD 197 (302)
T ss_pred ceEEEEEcCCCcEEEeeccCcccC
Confidence 456777788999999999975555
No 12
>PRK10693 response regulator of RpoS; Provisional
Probab=34.60 E-value=25 Score=23.56 Aligned_cols=21 Identities=14% Similarity=0.461 Sum_probs=18.6
Q ss_pred EEeecccccccccceeEEEEE
Q psy1340 26 RVYDWKDRVHSSQNRISVQFK 46 (51)
Q Consensus 26 rvydwkdrvhs~~nRiSl~Fk 46 (51)
+=-+|+=+++...++|.|||.
T Consensus 281 ~~~~~~~~~~~~~~~~~~~~~ 301 (303)
T PRK10693 281 RCDAWQCQIWGAGGRLRLMLS 301 (303)
T ss_pred cccceeEEEecCCceeEEEec
Confidence 455899999999999999995
No 13
>PF03531 SSrecog: Structure-specific recognition protein (SSRP1); InterPro: IPR000969 Human structure-specific recognition protein, SSRP1, [] binds specifically to DNA modified with the anti-cancer drug cisplatin. An 81kDa protein is predicted, containing several highly-charged domains and a stretch of 75 residues that share 47% identity with a portion of the high mobility group (HMG) protein HMG1. This HMG box probably constitutes the structure recognition element for cisplatin-modified DNA, the probable recognition motif being the local duplex unwinding and bending that occurs on formation of intra-strand cross-links []. SSRP1 is the human homologue of a recently identified mouse protein that binds to recombination signal sequences []. These sequences have been postulated to form stem-loop structures, further implicating local bends and unwinding in DNA as a recognition target for HMG-box proteins. A Drosophila melanogaster cDNA encoding an HMG-box-containing protein has also been isolated [, ]. This protein shares 50% sequence identity with human SSRP1. In vitro binding studies using Drosophila SSRP showed that the protein binds to single-stranded DNA and RNA, with highest affinity for nucleotides G and U. Comparison of the predicted amino acid sequences among SSRP family members reveals 48% identity, with structural conservation in the C terminus of the HMG box, as well as domains of highly charged residues. The most highly conserved regions lie in the poorly understood N terminus, suggesting that this portion of the protein is critical for its function []. This entry contains Pob3 Q04636 from SWISSPROT, which is a subunit of the heterodimeric yeast FACT complex (Spt16p (IPR013953 from INTERPRO)-Pob3p) []. The FACT complex facilitates RNA Polymerase II transcription elongation through nucleosomes by destabilising and then reassembling nucleosome structure [, ].; GO: 0003677 DNA binding, 0005634 nucleus; PDB: 3F5R_A 2GCL_B 2GCJ_D.
Probab=33.36 E-value=77 Score=22.11 Aligned_cols=29 Identities=34% Similarity=0.498 Sum_probs=21.0
Q ss_pred eeEEEEecceeeEEEEeecccccccccceeEEEEEe
Q psy1340 12 ATILTLRGASYVSYRVYDWKDRVHSSQNRISVQFKL 47 (51)
Q Consensus 12 aT~ltLRG~sYVsyrvydwkdrvhs~~nRiSl~Fkt 47 (51)
++-+.|||.+| .|.|+ .+++.|+=|+=|.
T Consensus 157 ~~~lrl~Gkty-DykI~------y~~I~rlflLpk~ 185 (222)
T PF03531_consen 157 PTFLRLHGKTY-DYKIQ------YSSISRLFLLPKP 185 (222)
T ss_dssp SSEEEEEESSB-EEEEE------GGGEEEEEEEE-T
T ss_pred ccccccccccc-ccccc------ccccccccccccc
Confidence 56788999998 46665 5788888776654
No 14
>smart00632 Aamy_C Aamy_C domain.
Probab=31.68 E-value=76 Score=17.65 Aligned_cols=25 Identities=16% Similarity=0.515 Sum_probs=15.1
Q ss_pred ccceeceee----eeEEEEecceeeEEEE
Q psy1340 3 EGELCDIYT----ATILTLRGASYVSYRV 27 (51)
Q Consensus 3 Ege~Cd~yt----aT~ltLRG~sYVsyrv 27 (51)
.|+.||+-+ ...++..++..++..+
T Consensus 40 ~G~Y~d~l~g~~~g~~v~V~~~G~~~~~l 68 (81)
T smart00632 40 AGTYCDVISGLCTGKSVTVGSNGIATFTL 68 (81)
T ss_pred CcceEEEecCcccCCEEEECCCCEEEEEE
Confidence 378888876 3456666444554443
No 15
>PF12701 LSM14: Scd6-like Sm domain; PDB: 2RM4_A 2FB7_A 2VC8_A 2VXF_A 2VXE_A.
Probab=31.56 E-value=23 Score=21.74 Aligned_cols=17 Identities=47% Similarity=0.698 Sum_probs=13.9
Q ss_pred Cccceeceee-eeEEEEe
Q psy1340 2 YEGELCDIYT-ATILTLR 18 (51)
Q Consensus 2 YEge~Cd~yt-aT~ltLR 18 (51)
|||..|.+.+ ..+|+|+
T Consensus 21 YeG~L~~Id~~~sTItL~ 38 (96)
T PF12701_consen 21 YEGILYSIDTEDSTITLK 38 (96)
T ss_dssp EEEEEEEEETTTTEEEEE
T ss_pred EEEEEEEEcCCCCEEEee
Confidence 8999999997 5667775
No 16
>PF08750 CNP1: CNP1-like family; InterPro: IPR014861 This group of proteins are likely to be lipoproteins. CNP1 (cryptic neisserial protein) has been expressed in Escherichia coli and shown to be localised periplasmicly [].
Probab=30.87 E-value=24 Score=22.96 Aligned_cols=10 Identities=40% Similarity=0.610 Sum_probs=7.9
Q ss_pred CCccceecee
Q psy1340 1 MYEGELCDIY 10 (51)
Q Consensus 1 ~YEge~Cd~y 10 (51)
.|||=.|+-+
T Consensus 68 syEGirC~t~ 77 (139)
T PF08750_consen 68 SYEGIRCATG 77 (139)
T ss_pred eEEeEeecCC
Confidence 3899999844
No 17
>KOG0337|consensus
Probab=30.46 E-value=15 Score=29.44 Aligned_cols=22 Identities=32% Similarity=0.691 Sum_probs=16.1
Q ss_pred eeeEEEEee---------cccccccccceeE
Q psy1340 21 SYVSYRVYD---------WKDRVHSSQNRIS 42 (51)
Q Consensus 21 sYVsyrvyd---------wkdrvhs~~nRiS 42 (51)
++|+|+|+| |.++.|+...|++
T Consensus 163 ~sveyVVfdEadrlfemgfqeql~e~l~rl~ 193 (529)
T KOG0337|consen 163 SSVEYVVFDEADRLFEMGFQEQLHEILSRLP 193 (529)
T ss_pred cceeeeeehhhhHHHhhhhHHHHHHHHHhCC
Confidence 689999998 5556677666664
No 18
>PF15106 TMEM156: TMEM156 protein family
Probab=30.25 E-value=27 Score=25.35 Aligned_cols=14 Identities=36% Similarity=0.586 Sum_probs=12.0
Q ss_pred ceeeeeEEEEecce
Q psy1340 8 DIYTATILTLRGAS 21 (51)
Q Consensus 8 d~ytaT~ltLRG~s 21 (51)
-.|.||.++|||++
T Consensus 210 hky~~ts~llrg~d 223 (226)
T PF15106_consen 210 HKYKPTSVLLRGSD 223 (226)
T ss_pred cCCCcceEEEccCC
Confidence 36899999999984
No 19
>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=29.99 E-value=1e+02 Score=16.84 Aligned_cols=19 Identities=26% Similarity=0.365 Sum_probs=14.1
Q ss_pred ccceeceeeeeEEEEecce
Q psy1340 3 EGELCDIYTATILTLRGAS 21 (51)
Q Consensus 3 Ege~Cd~ytaT~ltLRG~s 21 (51)
+|-.|--+.||++...+.+
T Consensus 14 ~g~~gaWf~a~V~~~~~~~ 32 (68)
T PF05641_consen 14 DGFRGAWFPATVLKENGDD 32 (68)
T ss_dssp BTT--EEEEEEEEEEETT-
T ss_pred CCCCcEEEEEEEEEeCCCc
Confidence 4667888999999999996
No 20
>cd06898 PX_SNX10 The phosphoinositide binding Phox Homology domain of Sorting Nexin 10. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. Some SNXs are localized in early endosome structures such as clathrin-coated pits, while others are located in late structures of the endocytic pathway. SNX10 may be involved in the regulation of endosome homeostasis. Its expression induces the formation of giant vacuoles in mammalian cells.
Probab=29.98 E-value=47 Score=19.96 Aligned_cols=21 Identities=14% Similarity=0.350 Sum_probs=14.1
Q ss_pred ceeeeeEEEE-ecceeeEEEEe
Q psy1340 8 DIYTATILTL-RGASYVSYRVY 28 (51)
Q Consensus 8 d~ytaT~ltL-RG~sYVsyrvy 28 (51)
++..+++.+= .|++|++|.|-
T Consensus 3 ~V~dP~~~~~~~~~~y~~Y~I~ 24 (113)
T cd06898 3 EVRDPRTHKEDDWGSYTDYEIF 24 (113)
T ss_pred EEeCCcEecCCCCCCeEEEEEE
Confidence 4444555443 67899999886
No 21
>PF06327 DUF1053: Domain of Unknown Function (DUF1053); InterPro: IPR009398 Cyclic AMP (cAMP) is a ubiquitous signalling molecule which mediates many cellular processes by activating cAMP-dependent kinases and also inducing protein-protein interactions. This molecule is produced by the adenylate cyclase (AC) enzyme, using ATP as its substrate. Mammalian adenylate cyclase has nine closely related membrane-bound isoforms (AC1-9) showing significant sequence homology and sharing the same overall structure: two hydrophobic transmembrane domains, and two cytoplasmic domains that are responsible for the catalytic activity. These isoforms differ in both their tissue specificity and their regulation. Regulatory factors known to influence one or more of these isoforms include G proteins, protein kinases, calcium and calmodulin. For more information see [, ]. This entry represents a region of unknown function found in many of these isoforms. It is part of the N-terminal cytoplasmic domain but its presence is not necessary for catalytic activity []. ; GO: 0004016 adenylate cyclase activity, 0009190 cyclic nucleotide biosynthetic process, 0016021 integral to membrane
Probab=29.15 E-value=28 Score=20.06 Aligned_cols=12 Identities=33% Similarity=0.584 Sum_probs=9.8
Q ss_pred cceeEEEEEecc
Q psy1340 38 QNRISVQFKLQN 49 (51)
Q Consensus 38 ~nRiSl~Fkt~~ 49 (51)
++|++|.|+...
T Consensus 77 ~~~~tL~F~d~~ 88 (101)
T PF06327_consen 77 INRFTLRFKDKS 88 (101)
T ss_pred cceeeEEECChH
Confidence 689999998754
No 22
>PF13759 2OG-FeII_Oxy_5: Putative 2OG-Fe(II) oxygenase; PDB: 3BVC_B 2RG4_A.
Probab=28.25 E-value=44 Score=18.97 Aligned_cols=11 Identities=45% Similarity=0.839 Sum_probs=7.3
Q ss_pred ccccceeEEEE
Q psy1340 35 HSSQNRISVQF 45 (51)
Q Consensus 35 hs~~nRiSl~F 45 (51)
.+...||||.|
T Consensus 90 ~~~~~Risisf 100 (101)
T PF13759_consen 90 NSDEERISISF 100 (101)
T ss_dssp -SSS-EEEEEE
T ss_pred CCCCCEEEEEc
Confidence 35568999988
No 23
>cd06872 PX_SNX19_like_plant The phosphoinositide binding Phox Homology domain of uncharacterized SNX19-like plant proteins. The PX domain is a phosphoinositide (PI) binding module involved in targeting proteins to PI-enriched membranes. Members in this subfamily are uncharacterized plant proteins containing an N-terminal PXA domain, a central PX domain, and a C-terminal domain that is conserved in some sorting nexins (SNXs). This is the same domain architecture found in SNX19. SNX13 and SNX14 also contain these three domains but also contain a regulator of G protein signaling (RGS) domain in between the PXA and PX domains. SNXs make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction dom
Probab=27.95 E-value=82 Score=18.86 Aligned_cols=25 Identities=24% Similarity=0.335 Sum_probs=20.0
Q ss_pred eeceeeeeEEEEecceeeEEEEeec
Q psy1340 6 LCDIYTATILTLRGASYVSYRVYDW 30 (51)
Q Consensus 6 ~Cd~ytaT~ltLRG~sYVsyrvydw 30 (51)
+|.|..|-++---+.+|+.|.|.-.
T Consensus 2 ~~~v~~~~~~~~~~~~y~vY~I~v~ 26 (107)
T cd06872 2 SCRVLGAEIVKSGSKSFAVYSVAVT 26 (107)
T ss_pred eeEEeeeEEEecCCccEEEEEEEEE
Confidence 5788888888777888999988743
No 24
>cd03334 Fab1_TCP TCP-1 like domain of the eukaryotic phosphatidylinositol 3-phosphate (PtdIns3P) 5-kinase Fab1. Fab1p is important for vacuole size regulation, presumably by modulating PtdIns(3,5)P2 effector activity. In the human homolog p235/PIKfyve deletion of this domain leads to loss of catalytic activity. However no exact function this domain has been defined. In general, chaperonins are involved in productive folding of proteins.
Probab=27.65 E-value=42 Score=22.66 Aligned_cols=17 Identities=24% Similarity=0.344 Sum_probs=12.2
Q ss_pred eeceeeeeEEEEeccee
Q psy1340 6 LCDIYTATILTLRGASY 22 (51)
Q Consensus 6 ~Cd~ytaT~ltLRG~sY 22 (51)
-|+...+.+|.|||++-
T Consensus 214 ~~~~~~~~TIlLRG~t~ 230 (261)
T cd03334 214 GCPKELGCTILLRGGDL 230 (261)
T ss_pred cCCCCceeEEEEECCCH
Confidence 35555567889999873
No 25
>cd08686 C2_ABR C2 domain in the Active BCR (Breakpoint cluster region) Related protein. The ABR protein is similar to the breakpoint cluster region protein. It has homology to guanine nucleotide exchange proteins and GTPase-activating proteins (GAPs). ABR is expressed primarily in the brain, but also includes non-neuronal tissues such as the heart. It has been associated with human diseases such as Miller-Dieker syndrome in which mental retardation and malformations of the heart are present. ABR contains a RhoGEF domain and a PH-like domain upstream of its C2 domain and a RhoGAP domain downstream of this domain. A few members also contain a Bcr-Abl oncoprotein oligomerization domain at the very N-terminal end. Splice variants of ABR have been identified. ABR is found in a wide variety of organisms including chimpanzee, dog, mouse, rat, fruit fly, and mosquito. The C2 domain was first identified in PKC. C2 domains fold into an 8-standed beta-sandwich that can adopt 2 structural arr
Probab=27.65 E-value=1.2e+02 Score=19.08 Aligned_cols=34 Identities=15% Similarity=0.204 Sum_probs=23.1
Q ss_pred eEEEEecceeeEEEEeecc------c--ccccccceeEEEEE
Q psy1340 13 TILTLRGASYVSYRVYDWK------D--RVHSSQNRISVQFK 46 (51)
Q Consensus 13 T~ltLRG~sYVsyrvydwk------d--rvhs~~nRiSl~Fk 46 (51)
-.+.+.++..+++-+|||. | ..|...-|-++++.
T Consensus 50 F~i~l~~s~~L~~~v~d~~~~~~~~d~~~~d~~~G~g~i~Ld 91 (118)
T cd08686 50 FEIELEGSQTLRILCYEKCYSKVKLDGEGTDAIMGKGQIQLD 91 (118)
T ss_pred EEEEeCCCCEEEEEEEEcccccccccccCcccEEEEEEEEEC
Confidence 3566779999999999994 1 34555555555553
No 26
>PF04265 TPK_B1_binding: Thiamin pyrophosphokinase, vitamin B1 binding domain; InterPro: IPR007373 Thiamin pyrophosphokinase (TPK, 2.7.6.2 from EC) catalyzes the transfer of a pyrophosphate group from ATP to vitamin B1 (thiamin) to form the coenzyme thiamin pyrophosphate (TPP). Thus, TPK is important for the formation of a coenzyme required for central metabolic functions. The structure of thiamin pyrophosphokinase suggest that the enzyme may operate by a mechanism of pyrophosphoryl transfer similar to those described for pyrophosphokinases functioning in nucleotide biosynthesis [].; GO: 0004788 thiamine diphosphokinase activity, 0009229 thiamine diphosphate biosynthetic process; PDB: 3LM8_B 1IG0_A 3CQ9_A 3L8M_B 3IHK_B 3MEL_B 2HH9_A 2F17_B 1IG3_B 2G9Z_A ....
Probab=27.31 E-value=39 Score=18.36 Aligned_cols=22 Identities=27% Similarity=0.738 Sum_probs=14.6
Q ss_pred Cccceeceee---eeEEEEecceee
Q psy1340 2 YEGELCDIYT---ATILTLRGASYV 23 (51)
Q Consensus 2 YEge~Cd~yt---aT~ltLRG~sYV 23 (51)
|||..|.+-. .+.|+++|.-|=
T Consensus 11 ~~g~~~Sl~pl~~~~~vt~~Glky~ 35 (68)
T PF04265_consen 11 YEGKYVSLFPLGEPVTVTIKGLKYP 35 (68)
T ss_dssp CCEEEEEEEESSSEEEEEEESBSSE
T ss_pred ccCCEEEEEECcCCeEEEEeCCEEE
Confidence 4566776543 244999998773
No 27
>PHA00446 hypothetical protein
Probab=25.55 E-value=33 Score=22.00 Aligned_cols=11 Identities=55% Similarity=0.975 Sum_probs=7.9
Q ss_pred EEeeccccccc
Q psy1340 26 RVYDWKDRVHS 36 (51)
Q Consensus 26 rvydwkdrvhs 36 (51)
-||.|||+-.+
T Consensus 32 mVyRWKd~ks~ 42 (89)
T PHA00446 32 MVYRWKDHKSS 42 (89)
T ss_pred EEEEecccCCc
Confidence 37999997543
No 28
>PF11113 Phage_head_chap: Head assembly gene product; InterPro: IPR021049 This head assembly protein is also refereed to as gene product 40 (Gp40). A specific gp20-gp40 membrane insertion structure constitutes the T4 prohead assembly initiation complex [].
Probab=24.55 E-value=1.6e+02 Score=17.24 Aligned_cols=30 Identities=27% Similarity=0.530 Sum_probs=20.1
Q ss_pred EEE-ecceeeEEEEeecccccccccceeEEEEEecc
Q psy1340 15 LTL-RGASYVSYRVYDWKDRVHSSQNRISVQFKLQN 49 (51)
Q Consensus 15 ltL-RG~sYVsyrvydwkdrvhs~~nRiSl~Fkt~~ 49 (51)
|+| -|++++.|.- .++=..-.+++.|.|..
T Consensus 7 I~l~dG~~hiVYi~-----~~~~~~G~l~vdfsT~~ 37 (56)
T PF11113_consen 7 ITLEDGESHIVYIT-----ELHYDDGKLKVDFSTPS 37 (56)
T ss_pred EEcCCCCEEEEEEE-----EEEEcCCeEEEEEeCCC
Confidence 445 8999998853 12223567889998853
No 29
>cd01180 IPT_plexin_repeat1 First repeat of the IPT domain of Plexins and Cell Surface Receptors (PCSR) . Plexins are involved in the regulation of cell proliferation and of cellular adhesion and repulsion receptors. In general, there are three copies of the IPT domain present preceeded by SEMA (semaphorin) and PSI (plexin, semaphorin, integrin) domains.
Probab=23.32 E-value=50 Score=18.91 Aligned_cols=12 Identities=33% Similarity=0.362 Sum_probs=9.8
Q ss_pred eeEEEEecceee
Q psy1340 12 ATILTLRGASYV 23 (51)
Q Consensus 12 aT~ltLRG~sYV 23 (51)
-|.||++|.++-
T Consensus 16 GT~vTI~G~nl~ 27 (94)
T cd01180 16 GTRLTICGSNLG 27 (94)
T ss_pred CEEEEEEEEcCC
Confidence 589999997764
No 30
>cd07285 PX_SNX9 The phosphoinositide binding Phox Homology domain of Sorting Nexin 9. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. SNX9, also known as SH3PX1, is a cytosolic protein that interacts with proteins associated with clathrin-coated pits such as Cdc-42-associated tyrosine kinase 2 (ACK2). It contains an N-terminal Src Homology 3 (SH3) domain, a PX domain, and a C-terminal Bin/Amphiphysin/Rvs (BAR) domain, which detects membrane curvature. T
Probab=22.83 E-value=71 Score=20.37 Aligned_cols=25 Identities=16% Similarity=0.267 Sum_probs=15.1
Q ss_pred eceeeeeEEE-Ee-cceeeEEEEeecc
Q psy1340 7 CDIYTATILT-LR-GASYVSYRVYDWK 31 (51)
Q Consensus 7 Cd~ytaT~lt-LR-G~sYVsyrvydwk 31 (51)
|-+..+..-. +- +++||+|.|-.+-
T Consensus 3 ~~V~dp~k~~~~~g~~~Yv~Y~I~~~~ 29 (126)
T cd07285 3 CVVADPRKGSKMYGLKSYIEYQLTPTN 29 (126)
T ss_pred EEEcCcccccCCCCCcCeEEEEEEecc
Confidence 4444444433 12 4899999998663
No 31
>PF13511 DUF4124: Domain of unknown function (DUF4124)
Probab=21.23 E-value=45 Score=17.31 Aligned_cols=8 Identities=50% Similarity=1.236 Sum_probs=6.3
Q ss_pred EEeecccc
Q psy1340 26 RVYDWKDR 33 (51)
Q Consensus 26 rvydwkdr 33 (51)
.||-|+|.
T Consensus 14 ~vYk~~D~ 21 (60)
T PF13511_consen 14 EVYKWVDE 21 (60)
T ss_pred cEEEEECC
Confidence 68999874
No 32
>COG5165 POB3 Nucleosome-binding factor SPN, POB3 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]
Probab=21.22 E-value=46 Score=26.62 Aligned_cols=28 Identities=36% Similarity=0.612 Sum_probs=21.9
Q ss_pred eEEEEecceeeEEEEeecccccccccceeEEEEEe
Q psy1340 13 TILTLRGASYVSYRVYDWKDRVHSSQNRISVQFKL 47 (51)
Q Consensus 13 T~ltLRG~sYVsyrvydwkdrvhs~~nRiSl~Fkt 47 (51)
+-+.|||.+| .|.|| |++++++-++=|.
T Consensus 232 ~~lRLrGktY-dyKi~------y~sI~~l~~LpK~ 259 (508)
T COG5165 232 DYLRLRGKTY-DYKIY------YKSIKMLYVLPKI 259 (508)
T ss_pred hhhhhccccc-ceeee------eeeeeEEEEeccC
Confidence 4578999998 57777 8888888776554
No 33
>KOG4116|consensus
Probab=20.89 E-value=56 Score=20.89 Aligned_cols=18 Identities=39% Similarity=0.909 Sum_probs=14.3
Q ss_pred eEEEEeecccccccccce
Q psy1340 23 VSYRVYDWKDRVHSSQNR 40 (51)
Q Consensus 23 Vsyrvydwkdrvhs~~nR 40 (51)
|-|-+|||-.+-+.-.||
T Consensus 63 v~yliy~wg~e~ne~l~r 80 (90)
T KOG4116|consen 63 VAYLIYDWGKETNEALNR 80 (90)
T ss_pred EEEEEEecchhHhHHHhc
Confidence 479999999887766655
Done!