Query psy11123
Match_columns 285
No_of_seqs 153 out of 395
Neff 4.4
Searched_HMMs 29240
Date Fri Aug 16 18:36:37 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11123.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/11123hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3rls_A YAF9, protein AF-9 homo 100.0 7.9E-39 2.7E-43 279.8 13.7 133 126-266 4-152 (175)
2 3qrl_A Transcription initiatio 100.0 1.8E-29 6.2E-34 213.9 9.7 101 127-233 9-113 (140)
3 3nmd_A CGMP dependent protein 51.3 31 0.0011 25.9 5.5 28 35-62 42-69 (72)
4 3q8t_A Beclin-1; autophagy, AT 30.9 71 0.0024 24.6 4.8 34 28-61 62-95 (96)
5 3gpv_A Transcriptional regulat 29.1 96 0.0033 25.1 5.6 45 19-63 75-125 (148)
6 3gp4_A Transcriptional regulat 28.1 1.2E+02 0.004 24.5 5.9 29 35-63 83-111 (142)
7 1zxa_A CGMP-dependent protein 27.4 68 0.0023 23.7 3.9 24 40-63 32-55 (67)
8 1q08_A Zn(II)-responsive regul 26.4 1.4E+02 0.0046 21.9 5.6 66 19-86 18-90 (99)
9 3f1i_S STAM-1, signal transduc 26.1 71 0.0024 24.3 3.9 36 23-59 39-74 (77)
10 4gpr_A Ubiquitin-conjugating e 21.7 1.4E+02 0.0048 24.1 5.3 33 148-182 31-63 (151)
11 2l5g_B Putative uncharacterize 20.9 1.5E+02 0.0053 20.1 4.3 33 15-52 3-35 (42)
12 3rcz_B SUMO-conjugating enzyme 20.8 1.6E+02 0.0055 24.3 5.5 32 149-182 43-74 (163)
13 2gjd_A Ubiquitin-conjugating e 20.1 1.7E+02 0.0059 23.7 5.6 33 148-182 36-68 (157)
14 2h2y_A Ubiquitin-conjugating e 20.1 1.7E+02 0.0057 23.3 5.4 33 148-182 47-79 (136)
No 1
>3rls_A YAF9, protein AF-9 homolog; yeats domain, histone, transcription; 1.70A {Saccharomyces cerevisiae} PDB: 3fk3_A
Probab=100.00 E-value=7.9e-39 Score=279.77 Aligned_cols=133 Identities=27% Similarity=0.483 Sum_probs=110.3
Q ss_pred CceeeeEEECccccccCCC----CCCCCceeEEEEEEcCCCCCccccceeeeEEEEeCCCCCCCceeEeecCCeEEEeee
Q psy11123 126 TQRNFRFYVGTMCKALGSP----ACGQSTHKWTVYVRNCESNPESIVRHIAHVKFMLHESYAPNNVVIVRKAPFKITREG 201 (285)
Q Consensus 126 ~~r~~~IViGn~a~~l~~~----~~~~~THkWtVYVR~~~~e~edls~~IkKVtF~LHpSF~pnp~rvV~~PPFeVtE~G 201 (285)
.+..++|||||+|+++++. .++++||+|+||||+++++ ++++||+||+|+||||| +||+|+|++|||+|+|+|
T Consensus 4 v~i~kpIv~Gn~a~~l~~~~~~~~~~~~TH~WtVyVr~~~~e--dis~~v~KV~F~LHpSF-~np~Rvv~~PPFevtE~G 80 (175)
T 3rls_A 4 LSVSRPIIYGNTAKKMGSVKPPNAPAEHTHLWTIFVRGPQNE--DISYFIKKVVFKLHDTY-PNPVRSIEAPPFELTETG 80 (175)
T ss_dssp CCEEEEEEEEEEEEECCSCCCTTCCTTCCEEEEEEEECGGGC--CCTTTEEEEEEECCTTS-SSCEEEECSSSEEEEEEE
T ss_pred eEEEeCEEEcceeEECCccccCCCCCCCcEEEEEEEECCCCC--ChhheEEEEEEEcCCCC-CCCcEEEeCCCCEEEEeE
Confidence 3578999999999999873 4578999999999999876 89999999999999999 799999999999999999
Q ss_pred eeeEEEEEEEEEecCCCCcceEEEEEEeeCCCCCCC-------cccc-----cccceEEEeeccccceeeeecCccc
Q psy11123 202 WGEFPMKITIGFVDRENNRNVELVHPVNFLHVKSII-------PIIS-----LETPIDVVLSLSETVLEYLMDADMM 266 (285)
Q Consensus 202 WGEF~I~I~I~Fk~~~~~k~v~i~H~L~L~~~~tg~-------~t~g-----~et~v~v~l~~~e~~~e~~~~~~~~ 266 (285)
||||+|.|+|||++.+++++++|.|+|+|++..... +..+ ...+| .|+.|||++|+++..
T Consensus 81 WGeF~i~I~i~F~~~~~ek~i~i~H~L~L~~~~~~~~~~~~~~~~~~~~~~~~~~~V-----~se~ydEivF~ePte 152 (175)
T 3rls_A 81 WGEFDINIKVYFVEEANEKVLNFYHRLRLHPYANPVPNSDNGNEQNTTDHNSKDAEV-----SSVYFDEIVFNEPNE 152 (175)
T ss_dssp SSCCEEEEEEEECGGGCCCCEEEEEECCCCC-----------------------CCE-----EEEEEEEEEESSCCH
T ss_pred EeeEEEEEEEEEeCCCCCccEEEEEEEEecCCCCccccccccccccccccccCCCce-----EEEEeccEEEeCCCH
Confidence 999999999999998877889999999999765321 1100 12222 577999999999853
No 2
>3qrl_A Transcription initiation factor TFIID subunit 14; yeats domain, IG fold, nucleus, nuclear protein; HET: PGE; 1.70A {Saccharomyces cerevisiae} PDB: 2l7e_A
Probab=99.96 E-value=1.8e-29 Score=213.85 Aligned_cols=101 Identities=22% Similarity=0.479 Sum_probs=85.6
Q ss_pred ceeeeEEECccccccCCC--CCCCCceeEE--EEEEcCCCCCccccceeeeEEEEeCCCCCCCceeEeecCCeEEEeeee
Q psy11123 127 QRNFRFYVGTMCKALGSP--ACGQSTHKWT--VYVRNCESNPESIVRHIAHVKFMLHESYAPNNVVIVRKAPFKITREGW 202 (285)
Q Consensus 127 ~r~~~IViGn~a~~l~~~--~~~~~THkWt--VYVR~~~~e~edls~~IkKVtF~LHpSF~pnp~rvV~~PPFeVtE~GW 202 (285)
.|..+|+.+.. .++.. ..+.++|+|+ |||||.++++ ..++||+||+|+||||| +||+|++++|||+|+|+||
T Consensus 9 krtvr~~T~Q~--~~~~~~~~eg~~~h~WtieV~vr~~~g~e-i~~~~i~kV~f~LH~sF-~np~r~v~~pPF~v~e~GW 84 (140)
T 3qrl_A 9 KRTIRIKTQQH--ILPEVPPVENFPVRQWSIEIVLLDDEGKE-IPATIFDKVIYHLHPTF-ANPNRTFTDPPFRIEEQGW 84 (140)
T ss_dssp EEEEEEEEEEE--ECTTSCCBTTBCCEEEEEEEEEECTTSCE-ECCTTEEEEEEECCTTS-SSCEEEECSTTCCEEEEES
T ss_pred EEEEEEEEeee--eCCCCCCCCCCcccEeeEEEEEeCCCCCc-CchheEEEEEEEeCCCC-CCCeEEEcCCCcEEEEEEe
Confidence 45567777776 44443 3356789999 8999999883 44689999999999999 5999999999999999999
Q ss_pred eeEEEEEEEEEecCCCCcceEEEEEEeeCCC
Q psy11123 203 GEFPMKITIGFVDRENNRNVELVHPVNFLHV 233 (285)
Q Consensus 203 GEF~I~I~I~Fk~~~~~k~v~i~H~L~L~~~ 233 (285)
|||+|.|+|||++.++ +++|.|+|+|++.
T Consensus 85 GeF~i~I~i~f~~~~~--~~~i~H~L~f~~~ 113 (140)
T 3qrl_A 85 GGFPLDISVFLLEKAG--ERKIPHDLNFLQE 113 (140)
T ss_dssp SCCCEEEEEEEGGGTE--EEEEEECCCSSSS
T ss_pred eeEEEEEEEEEecCCC--cEEEEEEEEeCCC
Confidence 9999999999998764 4899999999854
No 3
>3nmd_A CGMP dependent protein kinase; leucine zipper, coiled-coil, structural genomics, berkeley S genomics center, BSGC, dimerization; HET: MSE; 2.27A {Homo sapiens}
Probab=51.30 E-value=31 Score=25.94 Aligned_cols=28 Identities=7% Similarity=-0.033 Sum_probs=17.8
Q ss_pred HHhhhhhHHHHHHHHHHHHHHHHHhhhh
Q psy11123 35 TAFLESQAVRLSDELNETLRLFRALKRS 62 (285)
Q Consensus 35 ~~~ke~e~~~Id~rl~~~~~~l~~Lr~~ 62 (285)
|..++.+|.+-|..|.+-+.-|||+|.+
T Consensus 42 I~eLEk~L~ekd~eI~~LqseLDKfrSV 69 (72)
T 3nmd_A 42 IDELELELDQKDELIQMLQNELDKYRSV 69 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHTTTT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 5555566666666666666777777653
No 4
>3q8t_A Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90A {Rattus norvegicus}
Probab=30.86 E-value=71 Score=24.63 Aligned_cols=34 Identities=12% Similarity=0.197 Sum_probs=28.0
Q ss_pred HHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHhhh
Q psy11123 28 LREISTETAFLESQAVRLSDELNETLRLFRALKR 61 (285)
Q Consensus 28 ~~ef~~E~~~ke~e~~~Id~rl~~~~~~l~~Lr~ 61 (285)
.+.|...+-..+.++.-++.++.-|...|++||.
T Consensus 62 yn~~~~ql~e~~dE~~Sl~~q~~~~~~qLdkL~K 95 (96)
T 3q8t_A 62 YSEFKRQQLELDDELKSVENQMRYAQMQLDKLKK 95 (96)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 4567777888888888888899999999999974
No 5
>3gpv_A Transcriptional regulator, MERR family; protein structure initiative II(PSI II), NYSGXRC, structural genomics; 1.90A {Bacillus thuringiensis serovarkonkukian}
Probab=29.07 E-value=96 Score=25.07 Aligned_cols=45 Identities=9% Similarity=0.262 Sum_probs=30.1
Q ss_pred hHHHHHHHHHH------HHHHHHHhhhhhHHHHHHHHHHHHHHHHHhhhhh
Q psy11123 19 DESKVRDYLLR------EISTETAFLESQAVRLSDELNETLRLFRALKRSV 63 (285)
Q Consensus 19 ~~~ki~~ii~~------ef~~E~~~ke~e~~~Id~rl~~~~~~l~~Lr~~i 63 (285)
.+..|+.++.. ....-....+.++.+|++++.+..++++.|...+
T Consensus 75 sL~eIk~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~i 125 (148)
T 3gpv_A 75 PIQKIKQFIDWSMEGDSTILHRLKLMKQQEANVLQLIQDTEKNLKKIQQKI 125 (148)
T ss_dssp CHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566666652 1223345567788888888888888888887765
No 6
>3gp4_A Transcriptional regulator, MERR family; structural genomics, DNA-BI transcription regulator, PSI-2; 1.85A {Listeria monocytogenes str}
Probab=28.14 E-value=1.2e+02 Score=24.49 Aligned_cols=29 Identities=14% Similarity=0.299 Sum_probs=20.5
Q ss_pred HHhhhhhHHHHHHHHHHHHHHHHHhhhhh
Q psy11123 35 TAFLESQAVRLSDELNETLRLFRALKRSV 63 (285)
Q Consensus 35 ~~~ke~e~~~Id~rl~~~~~~l~~Lr~~i 63 (285)
....+.++.+|+++|.+..++++.|...+
T Consensus 83 ~~~L~~~~~~l~~~i~~L~~~~~~L~~~i 111 (142)
T 3gp4_A 83 AELLKKQRIELKNRIDVMQEALDRLDFKI 111 (142)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556677788888887777777777643
No 7
>1zxa_A CGMP-dependent protein kinase 1, alpha isozyme; parallel coiled coil dimer, transferase; NMR {Homo sapiens}
Probab=27.40 E-value=68 Score=23.71 Aligned_cols=24 Identities=13% Similarity=0.187 Sum_probs=11.0
Q ss_pred hhHHHHHHHHHHHHHHHHHhhhhh
Q psy11123 40 SQAVRLSDELNETLRLFRALKRSV 63 (285)
Q Consensus 40 ~e~~~Id~rl~~~~~~l~~Lr~~i 63 (285)
.++..=|..|.+.|..|||++.++
T Consensus 32 ~~L~~kd~eI~eLr~~LdK~qsVl 55 (67)
T 1zxa_A 32 KRLSEKEEEIQELKRKLHKCQSVL 55 (67)
T ss_dssp HHHHHHHHHHHHHHHHHHHHC---
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 333334445555556666665544
No 8
>1q08_A Zn(II)-responsive regulator of ZNTA; MERR family transcriptional regulator; 1.90A {Escherichia coli} SCOP: a.6.1.3 PDB: 1q09_A 1q0a_A
Probab=26.42 E-value=1.4e+02 Score=21.85 Aligned_cols=66 Identities=12% Similarity=0.165 Sum_probs=40.0
Q ss_pred hHHHHHHHHHHHH-------HHHHHhhhhhHHHHHHHHHHHHHHHHHhhhhhhhhhhcccCCCCCcchhHHHhhh
Q psy11123 19 DESKVRDYLLREI-------STETAFLESQAVRLSDELNETLRLFRALKRSVVTQYYATNRSNRRVHPTIVKAEE 86 (285)
Q Consensus 19 ~~~ki~~ii~~ef-------~~E~~~ke~e~~~Id~rl~~~~~~l~~Lr~~iv~~yy~~~~~~~~~hpaikk~l~ 86 (285)
.+..|+.++...- ..=....+.++.+|++++.+..++++.|...+ .+|.........-|.+..+.+
T Consensus 18 sL~eIk~~l~~~~~~~~~~~~~~~~~L~~~~~~l~~~i~~L~~~~~~L~~~~--~~~~~~~~~~~~C~i~~~l~~ 90 (99)
T 1q08_A 18 SLESIRELLSIRIDPEHHTCQESKGIVQERLQEVEARIAELQSMQRSLQRLN--DACCGTAHSSVYCSILEALEQ 90 (99)
T ss_dssp CHHHHHHHHHHHHCGGGCBHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHCCCSSSBGGGCHHHHHHHH
T ss_pred CHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHhcCCCCCCCCcchHHhcc
Confidence 3566777775321 12245667888889999998888888888754 344332111134566665554
No 9
>3f1i_S STAM-1, signal transducing adapter molecule 1; HGS, ESCRT, ubiquitin, MVB, endosome, membrane, metal- phosphoprotein, protein transport, transport; 2.30A {Homo sapiens}
Probab=26.08 E-value=71 Score=24.27 Aligned_cols=36 Identities=17% Similarity=0.236 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHh
Q psy11123 23 VRDYLLREISTETAFLESQAVRLSDELNETLRLFRAL 59 (285)
Q Consensus 23 i~~ii~~ef~~E~~~ke~e~~~Id~rl~~~~~~l~~L 59 (285)
.-.+|..++ .++..|..++.+++.++.+|..+-++|
T Consensus 39 MgplId~kL-E~iDrkh~~Lteln~~~leaL~lY~~l 74 (77)
T 3f1i_S 39 MGPLIDEKL-EDIDRKHSELSELNVKVMEALSLYTKL 74 (77)
T ss_dssp HHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555554 468889999999999999999998887
No 10
>4gpr_A Ubiquitin-conjugating enzyme family protein; ubiquitin conjugation, EHU ehring1, thiol esterification, ligase; 1.60A {Entamoeba histolytica}
Probab=21.71 E-value=1.4e+02 Score=24.09 Aligned_cols=33 Identities=12% Similarity=0.328 Sum_probs=23.9
Q ss_pred CCceeEEEEEEcCCCCCccccceeeeEEEEeCCCC
Q psy11123 148 QSTHKWTVYVRNCESNPESIVRHIAHVKFMLHESY 182 (285)
Q Consensus 148 ~~THkWtVYVR~~~~e~edls~~IkKVtF~LHpSF 182 (285)
++...|.+.+.|+.+.+ -..=+=++.+.+-++|
T Consensus 31 ~nl~~w~~~i~Gp~~tp--yegg~f~~~i~fp~~Y 63 (151)
T 4gpr_A 31 DDIFHWTATITGPDDSP--YQGGLFFLDVHFPVDY 63 (151)
T ss_dssp SCTTEEEEEEECCSSST--TTTCEEEEEEECCTTT
T ss_pred CCceEEEEEEeCCCCCC--cCCCEEEEEEECCCCC
Confidence 35889999999988764 3334445677777887
No 11
>2l5g_B Putative uncharacterized protein NCOR2, G protein pathway suppressor 2; GPS2, SMRT, TBL1, CO-repressor, transcription regulator; NMR {Homo sapiens}
Probab=20.86 E-value=1.5e+02 Score=20.06 Aligned_cols=33 Identities=15% Similarity=0.175 Sum_probs=25.7
Q ss_pred CCchhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHH
Q psy11123 15 SPTLDESKVRDYLLREISTETAFLESQAVRLSDELNET 52 (285)
Q Consensus 15 a~~~~~~ki~~ii~~ef~~E~~~ke~e~~~Id~rl~~~ 52 (285)
..+..+|+|.- .++||...+++|..+..|+.+.
T Consensus 3 tk~~l~qkI~k-----VdrEI~Kte~kI~~lqkKlkeL 35 (42)
T 2l5g_B 3 SKEELIQNMDR-----VDREITMVEQQISKLKKKQQQL 35 (42)
T ss_dssp SSSHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHH
Confidence 45677888865 4789999999999998887654
No 12
>3rcz_B SUMO-conjugating enzyme UBC9; SUMO-like domain, protein:protein interaction, protein ligase complex; HET: DNA; 1.90A {Schizosaccharomyces pombe} SCOP: d.20.1.1
Probab=20.80 E-value=1.6e+02 Score=24.27 Aligned_cols=32 Identities=13% Similarity=0.242 Sum_probs=24.5
Q ss_pred CceeEEEEEEcCCCCCccccceeeeEEEEeCCCC
Q psy11123 149 STHKWTVYVRNCESNPESIVRHIAHVKFMLHESY 182 (285)
Q Consensus 149 ~THkWtVYVR~~~~e~edls~~IkKVtF~LHpSF 182 (285)
+...|.+.+.|+.+.+ -..-+=++.+.+-++|
T Consensus 43 nl~~W~~~I~Gp~~Tp--yegg~f~l~i~fp~~Y 74 (163)
T 3rcz_B 43 DLMNWKVGIPGKPKTS--WEGGLYKLTMAFPEEY 74 (163)
T ss_dssp EEEEEEEEEECCTTST--TTTCEEEEEEECCTTT
T ss_pred CccEEEEEEECCCCCC--cCCCEEEEEEECCCCC
Confidence 7899999999988764 3344555777788888
No 13
>2gjd_A Ubiquitin-conjugating enzyme E2-18 kDa; UBC9P, SMT3, crystallography, ligase; 1.75A {Saccharomyces cerevisiae} PDB: 2eke_A 3ong_B
Probab=20.13 E-value=1.7e+02 Score=23.73 Aligned_cols=33 Identities=12% Similarity=0.214 Sum_probs=24.0
Q ss_pred CCceeEEEEEEcCCCCCccccceeeeEEEEeCCCC
Q psy11123 148 QSTHKWTVYVRNCESNPESIVRHIAHVKFMLHESY 182 (285)
Q Consensus 148 ~~THkWtVYVR~~~~e~edls~~IkKVtF~LHpSF 182 (285)
.+...|.+.+.|+.+.+ -..=+=++.+.+.++|
T Consensus 36 ~nl~~w~~~I~Gp~~tp--yegg~f~~~i~fp~~Y 68 (157)
T 2gjd_A 36 MDLQKWEAGIPGKEGTN--WAGGVYPITVEYPNEY 68 (157)
T ss_dssp EEEEEEEEEEECCTTST--TTTBEEEEEEECCTTT
T ss_pred CcccEEEEEEECCCCCC--cCCeEEEEEEEcCCCC
Confidence 46899999999988764 2223445777778888
No 14
>2h2y_A Ubiquitin-conjugating enzyme; structural genomics, unknown function, structural genomics consortium, SGC; 2.80A {Plasmodium falciparum 3D7}
Probab=20.13 E-value=1.7e+02 Score=23.33 Aligned_cols=33 Identities=15% Similarity=0.367 Sum_probs=23.2
Q ss_pred CCceeEEEEEEcCCCCCccccceeeeEEEEeCCCC
Q psy11123 148 QSTHKWTVYVRNCESNPESIVRHIAHVKFMLHESY 182 (285)
Q Consensus 148 ~~THkWtVYVR~~~~e~edls~~IkKVtF~LHpSF 182 (285)
++...|.+.+.|+.+.+ -..=+=++.+.+-+.|
T Consensus 47 ~nl~~W~~~I~GP~~tp--Yegg~f~~~i~fp~~Y 79 (136)
T 2h2y_A 47 SNIRIWIVQYVGLENTI--YANEVYKIKIIFPDNY 79 (136)
T ss_dssp TCTTEEEEEEECCTTST--TTTCEEEEEEECCTTT
T ss_pred ccccccEEEEECCCCCc--eeCCEEEEEEEeCCCC
Confidence 45889999999988764 2223445666777888
Done!