Query psy3276
Match_columns 62
No_of_seqs 30 out of 32
Neff 2.4
Searched_HMMs 46136
Date Fri Aug 16 20:54:49 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3276.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3276hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13866 zf-SAP30: SAP30 zinc- 100.0 1.7E-29 3.8E-34 160.3 2.9 45 17-61 8-52 (78)
2 PF03588 Leu_Phe_trans: Leucyl 49.2 7.1 0.00015 27.3 0.5 32 28-59 30-61 (173)
3 PRK00301 aat leucyl/phenylalan 45.4 9.6 0.00021 28.1 0.7 38 22-59 54-91 (233)
4 TIGR00667 aat leucyl/phenylala 38.7 14 0.00031 26.4 0.8 32 28-59 32-63 (185)
5 PF09377 SBDS_C: SBDS protein 38.6 13 0.00029 24.0 0.5 33 28-60 12-45 (125)
6 PF11327 DUF3129: Protein of u 26.7 32 0.0007 23.9 0.9 16 20-39 168-183 (184)
7 PF14278 TetR_C_8: Transcripti 23.6 88 0.0019 16.5 2.1 20 33-52 24-43 (77)
8 KOG1520|consensus 23.0 37 0.00081 26.8 0.7 19 19-37 100-121 (376)
9 TIGR00291 RNA_SBDS rRNA metabo 21.8 58 0.0013 23.9 1.4 33 28-60 109-142 (231)
10 COG0275 Predicted S-adenosylme 21.7 41 0.0009 26.1 0.7 30 32-61 155-184 (314)
11 PF08591 RNR_inhib: Ribonucleo 20.9 42 0.0009 20.9 0.5 10 40-49 7-16 (97)
12 PF09751 Es2: Nuclear protein 20.7 65 0.0014 24.7 1.6 20 35-54 146-165 (414)
No 1
>PF13866 zf-SAP30: SAP30 zinc-finger; PDB: 2KDP_A 2LD7_A.
Probab=99.95 E-value=1.7e-29 Score=160.25 Aligned_cols=45 Identities=64% Similarity=1.079 Sum_probs=27.6
Q ss_pred CCceeeeeeCCCccCCCCCCchhHHHHHHHHhhhhhccccccCCC
Q psy3276 17 LQQICCLVDDGVRCPRPIGNASYSKRIQQIVTQKRLKLHLDNFRE 61 (62)
Q Consensus 17 ~gq~CCLiddgeRC~r~AGnASySKRIQKtV~QkklKL~~D~~~~ 61 (62)
.+|+|||+||||||.||||||||||||||||+||+|||++|++|-
T Consensus 8 ~~q~CcL~edGerC~rpAgnas~SKRiqktv~Qk~lKL~~d~sa~ 52 (78)
T PF13866_consen 8 ADQICCLVEDGERCGRPAGNASYSKRIQKTVAQKKLKLNIDKSAR 52 (78)
T ss_dssp -SSB--EEETTB---SB--S----HHHHHHHHHH--SEEE-TT-S
T ss_pred CCceEEEecCCccccCcccChhHHHHHHHHHHHhccceeeccccc
Confidence 459999999999999999999999999999999999999999873
No 2
>PF03588 Leu_Phe_trans: Leucyl/phenylalanyl-tRNA protein transferase; InterPro: IPR004616 Leucyl/phenylalanyl-tRNA--protein transferase 2.3.2.6 from EC transfers a Leu or Phe to the amino end of certain proteins to enable degradation. The N-terminal residue controls the biological half-life of many proteins via the N-end rule pathway.; GO: 0008914 leucyltransferase activity, 0030163 protein catabolic process; PDB: 2Z3L_A 2Z3O_A 2Z3P_A 2DPT_B 2Z3M_B 2Z3N_B 2DPS_B 2Z3K_B 2CXA_A.
Probab=49.21 E-value=7.1 Score=27.33 Aligned_cols=32 Identities=16% Similarity=0.304 Sum_probs=20.7
Q ss_pred CccCCCCCCchhHHHHHHHHhhhhhccccccC
Q psy3276 28 VRCPRPIGNASYSKRIQQIVTQKRLKLHLDNF 59 (62)
Q Consensus 28 eRC~r~AGnASySKRIQKtV~QkklKL~~D~~ 59 (62)
.||.-+-..--.||+++|.+.+.+.++.+|..
T Consensus 30 pR~vl~~~~~hiskslrk~lr~~~~~v~~n~~ 61 (173)
T PF03588_consen 30 PRAVLPPDDFHISKSLRKFLRKGRFTVTINTA 61 (173)
T ss_dssp SEEEE-GGG----HHHHHHHHT-SEEEEESS-
T ss_pred CcEEEeccccccCHHHHHHhCCCCeEEEECCC
Confidence 45655666778899999999999999998864
No 3
>PRK00301 aat leucyl/phenylalanyl-tRNA--protein transferase; Reviewed
Probab=45.38 E-value=9.6 Score=28.13 Aligned_cols=38 Identities=11% Similarity=0.181 Sum_probs=31.5
Q ss_pred eeeeCCCccCCCCCCchhHHHHHHHHhhhhhccccccC
Q psy3276 22 CLVDDGVRCPRPIGNASYSKRIQQIVTQKRLKLHLDNF 59 (62)
Q Consensus 22 CLiddgeRC~r~AGnASySKRIQKtV~QkklKL~~D~~ 59 (62)
+-..=..||.-+-+.-..||+++|++.+.+..+.+|..
T Consensus 54 ~WwsP~pR~Vl~~~~~hisrsl~k~lr~~~f~itin~a 91 (233)
T PRK00301 54 LWWSPDPRAVLPPDEFHISRSLRKTLRKSPFRVTVDTA 91 (233)
T ss_pred eEEcCCCCEEecccccccCHHHHHHHcCCCeEEEEccc
Confidence 34445678888888899999999999999999999864
No 4
>TIGR00667 aat leucyl/phenylalanyl-tRNA--protein transferase. The N-terminal residue controls the biological half-life of many proteins via the N-end rule pathway. This enzyme transfers a Leu or Phe to the amino end of certain proteins to enable degradation.
Probab=38.74 E-value=14 Score=26.45 Aligned_cols=32 Identities=3% Similarity=0.076 Sum_probs=25.9
Q ss_pred CccCCCCCCchhHHHHHHHHhhhhhccccccC
Q psy3276 28 VRCPRPIGNASYSKRIQQIVTQKRLKLHLDNF 59 (62)
Q Consensus 28 eRC~r~AGnASySKRIQKtV~QkklKL~~D~~ 59 (62)
.||.-+...-..||+++|++.+.+.++.+|..
T Consensus 32 pR~vl~p~~~hvsrsL~k~lr~~~f~vtin~~ 63 (185)
T TIGR00667 32 PRAVLWPESLHIARSMKRFLKRSPYRVSVNYA 63 (185)
T ss_pred CCeEecccccccCHHHHHHHcCCCeEEEEcCc
Confidence 45555666778899999999988899998864
No 5
>PF09377 SBDS_C: SBDS protein C-terminal domain; InterPro: IPR018978 This entry represents the C-terminal domain of proteins that are highly conserved in species ranging from archaea to vertebrates and plants []. The family contains several Shwachman-Bodian-Diamond syndrome (SBDS, OMIM 260400) proteins from both mouse and humans. Shwachman-Diamond syndrome is an autosomal recessive disorder with clinical features that include pancreatic exocrine insufficiency, haematological dysfunction and skeletal abnormalities. It is characterised by bone marrow failure and leukemia predisposition. Members of this family play a role in RNA metabolism [, ]. In yeast Sdo1 is involved in the biogenesis of the 60S ribosomal subunit and translational activation of ribosomes. Together with the EF-2-like GTPase RIA1 (EfI1), it triggers the GTP-dependent release of TIF6 from 60S pre-ribosomes in the cytoplasm, thereby activating ribosomes for translation competence by allowing 80S ribosome assembly and facilitating TIF6 recycling to the nucleus, where it is required for 60S rRNA processing and nuclear export. This data links defective late 60S subunit maturation to an inherited bone marrow failure syndrome associated with leukemia predisposition []. A number of uncharacterised hydrophilic proteins of about 30 kDa share regions of similarity. These include, Mouse protein 22A3. Saccharomyces cerevisiae chromosome XII hypothetical protein YLR022c. Caenorhabditis elegans hypothetical protein W06E11.4. Methanocaldococcus jannaschii (Methanococcus jannaschii) hypothetical protein MJ0592. ; GO: 0042254 ribosome biogenesis; PDB: 2KDO_A 2L9N_A 2WBM_B 1P9Q_C 1T95_A.
Probab=38.60 E-value=13 Score=24.02 Aligned_cols=33 Identities=18% Similarity=0.436 Sum_probs=22.9
Q ss_pred CccCCCCCCchhH-HHHHHHHhhhhhccccccCC
Q psy3276 28 VRCPRPIGNASYS-KRIQQIVTQKRLKLHLDNFR 60 (62)
Q Consensus 28 eRC~r~AGnASyS-KRIQKtV~QkklKL~~D~~~ 60 (62)
+.|.+|.-|.-|+ .||.+.+.+-++.+++++++
T Consensus 12 ~~~VnP~T~rP~p~~~IE~Am~e~~~~v~p~ksa 45 (125)
T PF09377_consen 12 EKCVNPRTNRPYPPTRIEKAMKEAHFSVDPNKSA 45 (125)
T ss_dssp HHEEBTTTTBTT-HHHHHHHHHHTTS-SSTTS-H
T ss_pred HhccCCCCCCCCCHHHHHHHHHhCCcccCCCCCH
Confidence 4688998888886 79999997755555555543
No 6
>PF11327 DUF3129: Protein of unknown function (DUF3129); InterPro: IPR021476 This eukaryotic family of proteins has no known function.
Probab=26.72 E-value=32 Score=23.93 Aligned_cols=16 Identities=38% Similarity=1.032 Sum_probs=13.2
Q ss_pred eeeeeeCCCccCCCCCCchh
Q psy3276 20 ICCLVDDGVRCPRPIGNASY 39 (62)
Q Consensus 20 ~CCLiddgeRC~r~AGnASy 39 (62)
-=||| ||.++|.|.-|
T Consensus 168 nvCiv----Rc~N~A~~GPF 183 (184)
T PF11327_consen 168 NVCIV----RCRNPAGAGPF 183 (184)
T ss_pred cEEEE----EeccCCcCCCC
Confidence 35888 99999999766
No 7
>PF14278 TetR_C_8: Transcriptional regulator C-terminal region
Probab=23.56 E-value=88 Score=16.50 Aligned_cols=20 Identities=15% Similarity=0.542 Sum_probs=15.7
Q ss_pred CCCCchhHHHHHHHHhhhhh
Q psy3276 33 PIGNASYSKRIQQIVTQKRL 52 (62)
Q Consensus 33 ~AGnASySKRIQKtV~Qkkl 52 (62)
+.|..+|..|+++.+.+.-.
T Consensus 24 ~~~~~~f~~~l~~~~~~~~~ 43 (77)
T PF14278_consen 24 PNGDPNFQERLKELIKEWIT 43 (77)
T ss_pred CCCCHHHHHHHHHHHHHHHH
Confidence 45889999999998876533
No 8
>KOG1520|consensus
Probab=22.96 E-value=37 Score=26.81 Aligned_cols=19 Identities=32% Similarity=0.796 Sum_probs=16.3
Q ss_pred ceee---eeeCCCccCCCCCCc
Q psy3276 19 QICC---LVDDGVRCPRPIGNA 37 (62)
Q Consensus 19 q~CC---LiddgeRC~r~AGnA 37 (62)
..|| -+++..+|.||.|=|
T Consensus 100 ~~~~~~~~~~~e~~CGRPLGl~ 121 (376)
T KOG1520|consen 100 SQCCDPGSFETEPLCGRPLGIR 121 (376)
T ss_pred cccCCCcceecccccCCcceEE
Confidence 4488 899999999999954
No 9
>TIGR00291 RNA_SBDS rRNA metabolism protein, SBDS family. This protein family, possibly universal in both archaea and eukaryotes, appears to be involved in (ribosomal) RNA metabolism. Mutations in the human ortholog are associated with Shwachman-Bodian-Diamond syndrome.
Probab=21.80 E-value=58 Score=23.89 Aligned_cols=33 Identities=9% Similarity=0.163 Sum_probs=25.9
Q ss_pred CccCCCCCCchh-HHHHHHHHhhhhhccccccCC
Q psy3276 28 VRCPRPIGNASY-SKRIQQIVTQKRLKLHLDNFR 60 (62)
Q Consensus 28 eRC~r~AGnASy-SKRIQKtV~QkklKL~~D~~~ 60 (62)
..|.+|.-+.-| ..||.+.+.+-++.+++.+++
T Consensus 109 ~~~VnP~T~~P~p~~rIE~Am~e~~~~idp~k~a 142 (231)
T TIGR00291 109 RNTINPQTKKPHPPTRIEKALEEAKVHIDIFKSV 142 (231)
T ss_pred HhCcCCCCCCCCCHHHHHHHHHhcCcCcCCCCCH
Confidence 469999999999 889999998866666555554
No 10
>COG0275 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]
Probab=21.73 E-value=41 Score=26.08 Aligned_cols=30 Identities=23% Similarity=0.530 Sum_probs=21.3
Q ss_pred CCCCCchhHHHHHHHHhhhhhccccccCCC
Q psy3276 32 RPIGNASYSKRIQQIVTQKRLKLHLDNFRE 61 (62)
Q Consensus 32 r~AGnASySKRIQKtV~QkklKL~~D~~~~ 61 (62)
+.-|.-.|+|||.+-|-++|-+=-+..+.|
T Consensus 155 ~~yGEEr~arrIA~aIv~~R~~~pi~tT~e 184 (314)
T COG0275 155 KEYGEERFAKRIARAIVERRKKKPIETTKE 184 (314)
T ss_pred HHhccHhhHHHHHHHHHHHhccCCCccHHH
Confidence 445888999999999888665544554443
No 11
>PF08591 RNR_inhib: Ribonucleotide reductase inhibitor; InterPro: IPR013900 This entry includes Schizosaccharomyces pombe (Fission yeast) Spd1. Spd1p inhibits fission yeast RNR activity by interacting with the Cdc22p [].
Probab=20.94 E-value=42 Score=20.95 Aligned_cols=10 Identities=20% Similarity=0.441 Sum_probs=8.1
Q ss_pred HHHHHHHHhh
Q psy3276 40 SKRIQQIVTQ 49 (62)
Q Consensus 40 SKRIQKtV~Q 49 (62)
-=||+|+|.|
T Consensus 7 GMRVRKsV~e 16 (97)
T PF08591_consen 7 GMRVRKSVPE 16 (97)
T ss_pred hhhhhhhhcc
Confidence 4599999986
No 12
>PF09751 Es2: Nuclear protein Es2; InterPro: IPR019148 This entry represents a family of proteins of approximately 500 residues with alternating regions of low complexity and conservation where the domain similarities are strong. Apart from a predicted coiled-coil domain, no other known functional domains have been characterised. May be involved in pre-mRNA splicing and has been associated with the spliceosome C complex. The protein appears to be expressed in the nucleus, particularly in the pons sub-region of the brain. It is clearly necessary for normal development of the nervous system [].
Probab=20.70 E-value=65 Score=24.65 Aligned_cols=20 Identities=25% Similarity=0.398 Sum_probs=16.2
Q ss_pred CCchhHHHHHHHHhhhhhcc
Q psy3276 35 GNASYSKRIQQIVTQKRLKL 54 (62)
Q Consensus 35 GnASySKRIQKtV~QkklKL 54 (62)
=||||++=|.|.-.+++.|.
T Consensus 146 DNaSF~eIle~~n~krreKy 165 (414)
T PF09751_consen 146 DNASFEEILEKQNQKRREKY 165 (414)
T ss_pred hHHHHHHHHHHHHHHHHHHh
Confidence 38999999988888777663
Done!