Query psy8360
Match_columns 152
No_of_seqs 110 out of 258
Neff 3.2
Searched_HMMs 29240
Date Fri Aug 16 16:42:35 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8360.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/8360hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1qkl_A RPB6, DNA-directed RNA 100.0 1.3E-34 4.6E-39 222.9 8.1 85 67-151 43-127 (127)
2 3h0g_F DNA-directed RNA polyme 100.0 1.9E-34 6.4E-39 225.4 7.3 82 67-148 61-142 (142)
3 1twf_F ABC23, DNA-directed RNA 100.0 5.3E-34 1.8E-38 225.4 9.8 91 61-151 65-155 (155)
4 4ayb_K DNA-directed RNA polyme 100.0 6.4E-31 2.2E-35 193.8 6.4 69 78-146 24-94 (95)
5 3lu0_E DNA-directed RNA polyme 99.2 3.5E-12 1.2E-16 92.8 2.4 50 82-132 15-65 (91)
6 2a6h_E RNA polymerase omega ch 99.1 6.7E-11 2.3E-15 86.8 4.9 48 82-129 15-76 (99)
7 1of5_B MTR2, YKL186C, mRNA tra 57.0 0.95 3.2E-05 36.6 -2.2 44 13-57 140-183 (184)
8 1q42_A MTR2, mRNA transport re 39.6 3.6 0.00012 33.6 -1.4 41 13-56 159-199 (201)
9 1jlp_A PSI-conotoxin PIIIF; mu 31.7 11 0.00037 21.7 0.2 8 10-17 3-10 (26)
10 3hie_A Protein PSL1, exocyst c 23.3 63 0.0022 25.5 3.3 29 124-152 79-110 (171)
11 1as5_A Conotoxin Y-PIIIE; neur 21.7 21 0.00072 20.5 0.2 8 10-17 3-10 (26)
No 1
>1qkl_A RPB6, DNA-directed RNA polymerase II 14.4 KD polypeptide; transcription; NMR {Homo sapiens} SCOP: a.143.1.2
Probab=100.00 E-value=1.3e-34 Score=222.85 Aligned_cols=85 Identities=75% Similarity=1.130 Sum_probs=81.6
Q ss_pred cccccccccccCCCCcchhhhHHHHHHHHHHhcCCCceeeCCCCCChHHHHHHHHHcCCccEEEEEEcCCCcEEEEeccc
Q psy8360 67 SKNQIKNNNKLNIKQIRYERARVLGTRALQIAMCAPVMVELEGETDPLQIAMKELKARKIPIIIRRYLPDNSYEDWGIDE 146 (152)
Q Consensus 67 ~k~i~d~~~~t~~~lTKYElARIIG~RAlQLs~GAppLVd~~~~~dPv~IAl~EL~eGkIpiiIrR~lP~g~yEdw~l~e 146 (152)
.+.+++.+|+|+|++||||+||++|+||+||||||||||+.++.+||+.||++||++|+||++|||++|||+||+|+++|
T Consensus 43 ~~~~~~~~r~t~p~lTRYElARIiG~RAlQLs~GAppLVd~e~~~dPl~IAl~ElaeGkIpi~VrR~lPdg~yEd~~~~e 122 (127)
T 1qkl_A 43 ERPQANQKRITTPYMTKYERARVLGTRALQIAMCAPVMVELEGETDPLLIAMKELKARKIPIIIRRYLPDGSYEDWGVDE 122 (127)
T ss_dssp CCTTTCCCSSCCSSCCHHHHHHHHHHHHHHHHHSCCSSSCSSSSCSSSHHHHHHHHHTCCCEEEEEEETTTEEEEESSSS
T ss_pred CcCCCccccccCCCcCHHHHHHHHHHHHHHHhcCCcceEcCCCCCCHHHHHHHHHHcCCCCeEEEEECCCCCEEEeehhh
Confidence 56789999999999999999999999999999999999999877899999999999999999999999999999999999
Q ss_pred cceec
Q psy8360 147 LKIID 151 (152)
Q Consensus 147 L~i~~ 151 (152)
|+|.|
T Consensus 123 L~i~~ 127 (127)
T 1qkl_A 123 LIITD 127 (127)
T ss_dssp SCSCC
T ss_pred eeccC
Confidence 99864
No 2
>3h0g_F DNA-directed RNA polymerases I, II, and III subunit rpabc2; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=100.00 E-value=1.9e-34 Score=225.40 Aligned_cols=82 Identities=62% Similarity=1.007 Sum_probs=79.7
Q ss_pred cccccccccccCCCCcchhhhHHHHHHHHHHhcCCCceeeCCCCCChHHHHHHHHHcCCccEEEEEEcCCCcEEEEeccc
Q psy8360 67 SKNQIKNNNKLNIKQIRYERARVLGTRALQIAMCAPVMVELEGETDPLQIAMKELKARKIPIIIRRYLPDNSYEDWGIDE 146 (152)
Q Consensus 67 ~k~i~d~~~~t~~~lTKYElARIIG~RAlQLs~GAppLVd~~~~~dPv~IAl~EL~eGkIpiiIrR~lP~g~yEdw~l~e 146 (152)
.+++++++|+|+|+|||||+|||+|+||+||+|||||||+.++++||++||++||++|+|||+|||++|||+||+|+++|
T Consensus 61 ~~~~~~~~R~T~pylTRYElARIiG~RAlQIsmGAp~LVd~~~~tdPl~IA~~EL~egkIPiiVrR~lPdgkyEdw~l~E 140 (142)
T 3h0g_F 61 GKAVAKEDRTTTPYMTKYERARILGTRALQISMNAPVLVDLEGETDPLQIAMKELAQKKIPLLVRRYLPDGSYEDWSVAE 140 (142)
T ss_dssp CCCCCTTSCCSCSSCCHHHHHHHHHHHHHHHHTCCCCCSCCCSCCCTTHHHHHHHHTTCCCCEEECCCSSSCCCEEETTT
T ss_pred cccCCcccccCCCccCHHHHHHHHHHHHHHHHCCCCceEcCCCCCCHHHHHHHHHHcCCCceEEEEECCCCCEEEeEHHH
Confidence 67899999999999999999999999999999999999999878999999999999999999999999999999999999
Q ss_pred cc
Q psy8360 147 LK 148 (152)
Q Consensus 147 L~ 148 (152)
|+
T Consensus 141 L~ 142 (142)
T 3h0g_F 141 LI 142 (142)
T ss_dssp CC
T ss_pred cC
Confidence 95
No 3
>1twf_F ABC23, DNA-directed RNA polymerases I, II, and III 23 KD polypeptide; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: a.143.1.2 PDB: 1i3q_F 1i6h_F 1k83_F* 1nik_F 1nt9_F 1pqv_F 1r5u_F 1r9s_F* 1r9t_F* 1sfo_F* 1twa_F* 1twc_F* 1i50_F* 1twg_F* 1twh_F* 1wcm_F 1y1v_F 1y1w_F 1y1y_F 1y77_F* ...
Probab=100.00 E-value=5.3e-34 Score=225.45 Aligned_cols=91 Identities=56% Similarity=0.886 Sum_probs=81.5
Q ss_pred hhhhcccccccccccccCCCCcchhhhHHHHHHHHHHhcCCCceeeCCCCCChHHHHHHHHHcCCccEEEEEEcCCCcEE
Q psy8360 61 HYMKVKSKNQIKNNNKLNIKQIRYERARVLGTRALQIAMCAPVMVELEGETDPLQIAMKELKARKIPIIIRRYLPDNSYE 140 (152)
Q Consensus 61 ~~~~~~~k~i~d~~~~t~~~lTKYElARIIG~RAlQLs~GAppLVd~~~~~dPv~IAl~EL~eGkIpiiIrR~lP~g~yE 140 (152)
...+.+.++|++.+|+|+|+|||||+|||+|+||+||+|||||||++++.+||+.||++||++|+||++|||++|||+||
T Consensus 65 ~~~~~~~~~~~~~~r~t~p~lTRYElARIiG~RAlQLsmGAppLVd~e~~~dPl~IAl~ElaeGkIPl~IrR~lPdG~yE 144 (155)
T 1twf_F 65 RRKTLKEKAIPKDQRATTPYMTKYERARILGTRALQISMNAPVFVDLEGETDPLRIAMKELAEKKIPLVIRRYLPDGSFE 144 (155)
T ss_dssp -------CCCCSSSCCSCSBCCHHHHHHHHHHHHHHHHTTCCCSSCCSSCCSHHHHHHHHHHTTCCCEEEEEECTTSCEE
T ss_pred cccccccccCCcccccCCCCcCHHHHHHHHHHHHHHHhcCCCcEEecCCCCCHHHHHHHHHHcCCCCeEEEEECCCCCEE
Confidence 44567778999999999999999999999999999999999999999877899999999999999999999999999999
Q ss_pred EEeccccceec
Q psy8360 141 DWGIDELKIID 151 (152)
Q Consensus 141 dw~l~eL~i~~ 151 (152)
+|+++||++.+
T Consensus 145 d~~v~eL~~~~ 155 (155)
T 1twf_F 145 DWSVEELIVDL 155 (155)
T ss_dssp EEETTTSBCCC
T ss_pred EeeHHHhccCC
Confidence 99999999864
No 4
>4ayb_K DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2y0s_I 4b1o_K 4b1p_I 2waq_K 2wb1_I 2pmz_K 3hkz_K
Probab=99.96 E-value=6.4e-31 Score=193.83 Aligned_cols=69 Identities=41% Similarity=0.611 Sum_probs=65.0
Q ss_pred CCCCcchhhhHHHHHHHHHHhcCCCceeeCC--CCCChHHHHHHHHHcCCccEEEEEEcCCCcEEEEeccc
Q psy8360 78 NIKQIRYERARVLGTRALQIAMCAPVMVELE--GETDPLQIAMKELKARKIPIIIRRYLPDNSYEDWGIDE 146 (152)
Q Consensus 78 ~~~lTKYElARIIG~RAlQLs~GAppLVd~~--~~~dPv~IAl~EL~eGkIpiiIrR~lP~g~yEdw~l~e 146 (152)
.+.|||||+|||+|+||+||++||||+|+++ ..+||++||.+||.+|+|||+|||++|||+||+|+|+|
T Consensus 24 ~~kLTKYEkaRIiG~RA~Qis~GA~~~I~~~~~~~~Dp~~IA~~EL~~~kiP~iIrR~lPnG~~E~~~l~e 94 (95)
T 4ayb_K 24 QNKLTRYEIARVISARALQLAMGAPALIDINNISSTDVISIAEEEFKRGVLPITIRRRLPNGKIILLSLRK 94 (95)
T ss_dssp TSSCCHHHHHHHHHHHHHHHHTCCCCSSCTTTSCSSCTHHHHHHHHHTTCCCEEEEEECTTSCEEEECCCC
T ss_pred cccccHHHHHHHHHHHHHHHHCCCCceEeCCCCCCCCHHHHHHHHHHcCCCCEEEEEeCCCCCEEEEEecc
Confidence 3459999999999999999999999999986 36899999999999999999999999999999999987
No 5
>3lu0_E DNA-directed RNA polymerase subunit omega; E. coli RNA polymerase, nucleotidyltransferase, transcription, transferase; 11.20A {Escherichia coli} PDB: 3iyd_E*
Probab=99.21 E-value=3.5e-12 Score=92.77 Aligned_cols=50 Identities=24% Similarity=0.242 Sum_probs=46.2
Q ss_pred cchhhhHHHHHHHHHHhc-CCCceeeCCCCCChHHHHHHHHHcCCccEEEEE
Q psy8360 82 IRYERARVLGTRALQIAM-CAPVMVELEGETDPLQIAMKELKARKIPIIIRR 132 (152)
Q Consensus 82 TKYElARIIG~RAlQLs~-GAppLVd~~~~~dPv~IAl~EL~eGkIpiiIrR 132 (152)
+||+++.++++||+||+. |++|+|+.+ +.||+.||++||++|+|.+.+-.
T Consensus 15 nRY~LV~~AAKRARQL~~~G~~plv~~~-~~Kpv~iALrEIa~GkV~~~~l~ 65 (91)
T 3lu0_E 15 NRFDLVLVAARRARQMQVGGKDPLVPEE-NDKTTVIALREIEEGLINNQILD 65 (91)
T ss_dssp SHHHHHHHHHHHHHHHHHTCCCSCCSSS-CCCSSCCSHHHHHSSSCEEESSS
T ss_pred CHhHHHHHHHHHHHHHHhcCCCCccCCC-CCChHHHHHHHHHcCCCceeeCC
Confidence 799999999999999998 999999976 88999999999999999987543
No 6
>2a6h_E RNA polymerase omega chain; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: a.143.1.1 PDB: 1smy_E* 1zyr_E* 1iw7_E* 2a69_E* 2a6e_E 2a68_E* 2be5_E* 2cw0_E 3dxj_E* 2o5i_E 2o5j_E* 2ppb_E* 3aoh_E* 3aoi_E* 3eql_E* 1ynj_K* 1i6v_E* 1l9u_E 1l9z_E 1hqm_E* ...
Probab=99.10 E-value=6.7e-11 Score=86.76 Aligned_cols=48 Identities=23% Similarity=0.223 Sum_probs=41.8
Q ss_pred cchhhhHHHHHHHHHHhcCC--CceeeC---CCCC---------ChHHHHHHHHHcCCccEE
Q psy8360 82 IRYERARVLGTRALQIAMCA--PVMVEL---EGET---------DPLQIAMKELKARKIPII 129 (152)
Q Consensus 82 TKYElARIIG~RAlQLs~GA--ppLVd~---~~~~---------dPv~IAl~EL~eGkIpii 129 (152)
+||+++.++++||+||+.|+ .|+++. ..+. +|+.||++||++|+|.+.
T Consensus 15 nrY~LV~~aAKRARQI~~g~~k~~lv~~l~~~~~~~l~e~~~~~Kpv~iAL~EI~~Gki~~~ 76 (99)
T 2a6h_E 15 SKYRLTVVVAKRAQQLLRHGFKNTVLEPEERPKMQTLEGLFDDPNAETWAMKELLTGRLVFG 76 (99)
T ss_dssp SHHHHHHHHHHHHHHHHHTCTTCCSCCSSSCCCCSSSSGGGTSSCSHHHHHHHHTTTCCEEE
T ss_pred CHhHHHHHHHHHHHHHHcCCccccchhhhhhcccccccccccCCCHHHHHHHHHHcCCeeec
Confidence 79999999999999999999 999873 1133 999999999999998763
No 7
>1of5_B MTR2, YKL186C, mRNA transport regulator MTR2; nuclear protein, repeat, leucine- rich repeat, nuclear transport; 2.8A {Saccharomyces cerevisiae} SCOP: d.17.4.2
Probab=57.03 E-value=0.95 Score=36.63 Aligned_cols=44 Identities=20% Similarity=0.366 Sum_probs=31.9
Q ss_pred eccchhhhhhhhhcccCCCCCcccccccCCccchhcccCchhHHH
Q psy8360 13 TYGSWLGWAFTLLLDENAPTPSKANKWMGDLNLILGIKGERALVL 57 (152)
Q Consensus 13 ~~~~~~~~~~~~~~de~~p~~~~~~~~~~~~n~~~~~~~~~~~i~ 57 (152)
-+|+|.|--..|++||.-=.. |.+|.+.-.|-..--+.||.++.
T Consensus 140 ~wg~~fGvsl~lv~de~i~~~-d~~~~Iss~ny~~~y~P~dSl~~ 183 (184)
T 1of5_B 140 LWGPYFGISLQLIIDDRIFRN-DFNGVISGFNYNMVYKPEDSLLK 183 (184)
T ss_dssp -CCCCEEEEEEEEEEGGGGGT-CCTTCEEEEEEEEEECCC-----
T ss_pred ccccccceEEEEEEechhhcC-chhhhhhccceEEEEccccceec
Confidence 489999999999999987666 77777777777777777776653
No 8
>1q42_A MTR2, mRNA transport regulator MTR2; NTF2-fold, nuclear export, translation; 1.75A {Candida albicans} SCOP: d.17.4.2 PDB: 1q40_A
Probab=39.61 E-value=3.6 Score=33.64 Aligned_cols=41 Identities=20% Similarity=0.490 Sum_probs=28.3
Q ss_pred eccchhhhhhhhhcccCCCCCcccccccCCccchhcccCchhHH
Q psy8360 13 TYGSWLGWAFTLLLDENAPTPSKANKWMGDLNLILGIKGERALV 56 (152)
Q Consensus 13 ~~~~~~~~~~~~~~de~~p~~~~~~~~~~~~n~~~~~~~~~~~i 56 (152)
-+|||.|--..|++||.-=. .+|.+.--|-..--+-||.++
T Consensus 159 ~wg~~fGvsl~lvvde~i~~---~~~~I~sfnYr~~y~PedS~~ 199 (201)
T 1q42_A 159 IWGSWFGVDVNLVVDENVMQ---DGEIINSMDYRFTYVPNDSII 199 (201)
T ss_dssp CBCCCEEEEEEEEEESCCSS---CSSCEEEEEEEEEECCCC---
T ss_pred ccccccceEEEEEeechhcc---cCceEEeeeeEEEEcCcccee
Confidence 48999999999999998665 556655555555555566554
No 9
>1jlp_A PSI-conotoxin PIIIF; multiple disulfide bonds, amidated C-terminus; HET: HYP; NMR {Synthetic} SCOP: j.30.1.4
Probab=31.69 E-value=11 Score=21.66 Aligned_cols=8 Identities=63% Similarity=1.456 Sum_probs=6.5
Q ss_pred eeeeccch
Q psy8360 10 LCCTYGSW 17 (152)
Q Consensus 10 ~~~~~~~~ 17 (152)
.||-|||-
T Consensus 3 pcclygsc 10 (26)
T 1jlp_A 3 PCCLYGSC 10 (26)
T ss_dssp CSCSTTSC
T ss_pred Cceeeccc
Confidence 59999984
No 10
>3hie_A Protein PSL1, exocyst complex component SEC3; PH domain, dimer, domain swapping, phosphate-binding, coiled coil, exocytosis; 2.00A {Saccharomyces cerevisiae}
Probab=23.33 E-value=63 Score=25.47 Aligned_cols=29 Identities=28% Similarity=0.475 Sum_probs=21.8
Q ss_pred CCccEEEEEEcCCCcEEE---EeccccceecC
Q psy8360 124 RKIPIIIRRYLPDNSYED---WGIDELKIIDR 152 (152)
Q Consensus 124 GkIpiiIrR~lP~g~yEd---w~l~eL~i~~~ 152 (152)
|.+-+--.|.-+||+|.. |+|+||..||+
T Consensus 79 grV~lhK~K~N~ngsfsiGkTW~L~ELk~Ie~ 110 (171)
T 3hie_A 79 KLIQIHKARENSDGSFQIGRTWQLTELVRVEK 110 (171)
T ss_dssp TCEEEEEEEECTTSCEEEEEEEEGGGCCEEEE
T ss_pred ceEEEEEEEECCCCcEEeeeeeecccceeeec
Confidence 445555666777898765 99999998874
No 11
>1as5_A Conotoxin Y-PIIIE; neurotoxin, acetylcholine; HET: HYP; NMR {Conus purpurascens} SCOP: j.30.1.4 PDB: 1jlo_A*
Probab=21.69 E-value=21 Score=20.54 Aligned_cols=8 Identities=50% Similarity=1.368 Sum_probs=6.1
Q ss_pred eeeeccch
Q psy8360 10 LCCTYGSW 17 (152)
Q Consensus 10 ~~~~~~~~ 17 (152)
-||-||+-
T Consensus 3 pcclyg~c 10 (26)
T 1as5_A 3 PCCLYGKC 10 (26)
T ss_dssp CSSSTTCC
T ss_pred Cceecccc
Confidence 58999873
Done!