Query psy2291
Match_columns 96
No_of_seqs 102 out of 140
Neff 3.9
Searched_HMMs 29240
Date Fri Aug 16 20:57:34 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2291.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/2291hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1ydl_A TFIIH, general transcri 100.0 3.1E-34 1.1E-38 191.0 7.7 70 24-95 10-79 (79)
2 3dgp_B RNA polymerase II trans 100.0 5.2E-33 1.8E-37 181.9 6.7 67 24-95 1-67 (71)
3 1ydl_A TFIIH, general transcri 89.0 0.088 3E-06 34.5 0.3 25 10-34 21-45 (79)
4 2q22_A Uncharacterized protein 65.4 3.1 0.00011 29.5 2.0 19 17-35 101-119 (139)
5 2guk_A Hypothetical protein PG 43.7 31 0.0011 24.0 4.1 67 12-82 12-83 (120)
6 2ve7_A Kinetochore protein HEC 33.2 8.5 0.00029 29.6 -0.1 40 10-52 255-297 (315)
7 3j21_5 50S ribosomal protein L 30.0 38 0.0013 21.6 2.6 23 50-72 15-38 (83)
8 1f46_A Cell division protein Z 28.4 29 0.001 23.7 2.0 28 61-88 112-139 (140)
9 3h0g_E DNA-directed RNA polyme 21.9 17 0.00057 27.2 -0.3 55 8-69 82-137 (210)
10 2joy_A 50S ribosomal protein L 20.1 67 0.0023 20.7 2.4 22 50-71 15-37 (96)
No 1
>1ydl_A TFIIH, general transcription factor IIH, polypeptide 5; alpha-beta protein, structural genomics, PSI, protein structure initiative; 2.30A {Homo sapiens} SCOP: d.295.1.1 PDB: 2jnj_A
Probab=100.00 E-value=3.1e-34 Score=191.04 Aligned_cols=70 Identities=44% Similarity=0.879 Sum_probs=68.2
Q ss_pred ccccceeEEeecCCHHHHHHHHHhhccCCCCCCeEEEecCCceEEEccchHHHHHHHHHHHHhhcCCCCCCC
Q psy2291 24 NTLGRRFIIHCFSDKPMKQFLLHLDETNTLGRRFIIQDLDETHLFISSDVIELLMTRVDDLLDQISFPINDR 95 (96)
Q Consensus 24 ~~~~kGvLI~C~~DpaiKq~Il~Lde~~~~~~kFIIeDLDdtHLfVk~~~v~~Lk~~l~~~ld~nsy~~~~~ 95 (96)
-++.|||||+| ||||||||++||+++|+|++|||+|||||||||+|+++++||+||+++|++|+|++.||
T Consensus 10 ~~~~kGvLI~C--Dpa~Kq~Il~lde~~~~~~kFIIedLDdtHLfV~~~~v~~lk~~l~~~ld~ns~~~~~k 79 (79)
T 1ydl_A 10 HGTRKGMLIEC--DPAMKQFLLYLDESNALGKKFIIQDIDDTHVFVIAELVNVLQERVGELMDQNAFSLTQK 79 (79)
T ss_dssp CCCCCCEEEEC--CHHHHHHHHHHHHTTTTSSCCEEEECSSSEEEECTTHHHHHHHHHHHTSCCCTTTTTTC
T ss_pred cccccceEEEe--CHHHHHHHHHHhccCCcCCCEEEEEcCCceEEEcHHHHHHHHHHHHHHHHhcCCCcccC
Confidence 57899999999 99999999999999999999999999999999999999999999999999999999986
No 2
>3dgp_B RNA polymerase II transcription factor B subunit; protein-protein complex, beta-alpha-beta spilt, heterodimer, damage, DNA excision; 1.80A {Saccharomyces cerevisiae} SCOP: d.295.1.0 PDB: 3dom_B
Probab=99.98 E-value=5.2e-33 Score=181.92 Aligned_cols=67 Identities=21% Similarity=0.509 Sum_probs=60.5
Q ss_pred ccccceeEEeecCCHHHHHHHHHhhccCCCCCCeEEEecCCceEEEccchHHHHHHHHHHHHhhcCCCCCCC
Q psy2291 24 NTLGRRFIIHCFSDKPMKQFLLHLDETNTLGRRFIIQDLDETHLFISSDVIELLMTRVDDLLDQISFPINDR 95 (96)
Q Consensus 24 ~~~~kGvLI~C~~DpaiKq~Il~Lde~~~~~~kFIIeDLDdtHLfVk~~~v~~Lk~~l~~~ld~nsy~~~~~ 95 (96)
++|+|||||+| ||||||||++||++ +++|||+|||||||||+++++++||+||+++|++|+|++++.
T Consensus 1 ~~A~kGvLi~C--Dpa~Kq~il~lde~---~~~FIIedLDdtHl~V~~~~v~~lk~~l~~~l~~n~~~~~~~ 67 (71)
T 3dgp_B 1 ARARKGALVQC--DPSIKALILQIDAK---MSDIVLEELDDTHLLVNPSKVEFVKHELNRLLSKNIYNPMDE 67 (71)
T ss_dssp CEEEEEEEEEC--CHHHHHHHHHHHHH---HCSSEEEEEETTEEEECGGGHHHHHHHHHHHHHSCSCC----
T ss_pred CCceeEEEEEc--CHHHHHHHHHHcCC---CCCEEEEEcCCceEEEcHHHHHHHHHHHHHHHHhcCCCCccc
Confidence 47899999999 99999999999998 349999999999999999999999999999999999999875
No 3
>1ydl_A TFIIH, general transcription factor IIH, polypeptide 5; alpha-beta protein, structural genomics, PSI, protein structure initiative; 2.30A {Homo sapiens} SCOP: d.295.1.1 PDB: 2jnj_A
Probab=88.98 E-value=0.088 Score=34.51 Aligned_cols=25 Identities=64% Similarity=0.994 Sum_probs=22.0
Q ss_pred CcchhhhheeccccccccceeEEee
Q psy2291 10 DKPMKQFLLHLDETNTLGRRFIIHC 34 (96)
Q Consensus 10 ~~~~~~~~~~l~~~~~~~kGvLI~C 34 (96)
+-+||||++||++..++.+..+|+=
T Consensus 21 Dpa~Kq~Il~lde~~~~~~kFIIed 45 (79)
T 1ydl_A 21 DPAMKQFLLYLDESNALGKKFIIQD 45 (79)
T ss_dssp CHHHHHHHHHHHHTTTTSSCCEEEE
T ss_pred CHHHHHHHHHHhccCCcCCCEEEEE
Confidence 5789999999999999988888763
No 4
>2q22_A Uncharacterized protein; YP_323524.1, structural genomics, J center for structural genomics, JCSG, protein structure INI PSI-2; HET: PG4; 2.11A {Anabaena variabilis atcc 29413} SCOP: d.365.1.1
Probab=65.36 E-value=3.1 Score=29.51 Aligned_cols=19 Identities=26% Similarity=0.370 Sum_probs=16.1
Q ss_pred heeccccccccceeEEeec
Q psy2291 17 LLHLDETNTLGRRFIIHCF 35 (96)
Q Consensus 17 ~~~l~~~~~~~kGvLI~C~ 35 (96)
..+++-+.-..|||||+|-
T Consensus 101 ~~yl~~y~G~~rGVLiscq 119 (139)
T 2q22_A 101 LCYLDSYAGHHRGVLVSCQ 119 (139)
T ss_dssp CEEEEECCSCCBEEEEEEE
T ss_pred cEEEEecCCCccEEEEecc
Confidence 3577888999999999993
No 5
>2guk_A Hypothetical protein PG1857; alpha-beta, alpha-helical bundle, structural genomics, PSI, structure initiative; 1.91A {Porphyromonas gingivalis} SCOP: d.360.1.1
Probab=43.71 E-value=31 Score=24.03 Aligned_cols=67 Identities=13% Similarity=0.177 Sum_probs=51.9
Q ss_pred chhhhheecccccccccee-EEeecCCHHHHHHHHHhhccCCCCCCeEEEec-CCceE---EEccchHHHHHHHHH
Q psy2291 12 PMKQFLLHLDETNTLGRRF-IIHCFSDKPMKQFLLHLDETNTLGRRFIIQDL-DETHL---FISSDVIELLMTRVD 82 (96)
Q Consensus 12 ~~~~~~~~l~~~~~~~kGv-LI~C~~DpaiKq~Il~Lde~~~~~~kFIIeDL-DdtHL---fVk~~~v~~Lk~~l~ 82 (96)
.||=|.=|++|+.+-.|-. |.++ +--.....+..|..+.- .|+|+.+ ...++ |=.+++++.|+.=+.
T Consensus 12 ~mkVf~hhIYEy~KGvR~LvL~T~-~~~~~~~~~~rL~~~~I---~Y~iq~v~~~~kiNlFFG~~~Ci~vir~~~~ 83 (120)
T 2guk_A 12 DLRVFMHHIYEFEKGVRSMVLATL-ANDDIPYAEERLRSRQI---PYFAQPTPNTERTNLFFGCKECMEAIRLFVS 83 (120)
T ss_dssp HHHHHHHHHHHHHHTSCSEEEEEE-EGGGHHHHHHHHHHTTC---CEEEECCTTSSEEEEEEECHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHhhhhHHHHHHhc-CHhhHHHHHHHHHhCCC---CEEEEEcCCCCeEEEEeCCHHHHHHHHHHcC
Confidence 4899999999998877765 5555 35566777788888877 8999999 77664 337999999887654
No 6
>2ve7_A Kinetochore protein HEC1, kinetochore protein SPC; mitosis, centromere, cell cycle, microtubule, C division, calponin homology; 2.88A {Homo sapiens} PDB: 3iz0_C*
Probab=33.24 E-value=8.5 Score=29.62 Aligned_cols=40 Identities=15% Similarity=0.255 Sum_probs=3.6
Q ss_pred CcchhhhheeccccccccceeEEeecCCHH---HHHHHHHhhccCC
Q psy2291 10 DKPMKQFLLHLDETNTLGRRFIIHCFSDKP---MKQFLLHLDETNT 52 (96)
Q Consensus 10 ~~~~~~~~~~l~~~~~~~kGvLI~C~~Dpa---iKq~Il~Lde~~~ 52 (96)
..+.|.|...|+-.. ..+-.+++| +|+ +.+++-.||+++.
T Consensus 255 ~d~~re~~f~l~~~~-~~~Y~v~~c--~P~l~~~~~l~~~lN~~~d 297 (315)
T 2ve7_A 255 KNPESPFMFSLHLNE-ARDYEVSDS--APHLEGLAEFQENVRKTNN 297 (315)
T ss_dssp -CCCCCC---------------------------------------
T ss_pred CCCCceEEEEEEecC-CCceEEEec--CCCCccHHHHHHHHhccCC
Confidence 345666555555221 467789999 999 5778888888875
No 7
>3j21_5 50S ribosomal protein L14E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=29.99 E-value=38 Score=21.57 Aligned_cols=23 Identities=13% Similarity=0.518 Sum_probs=17.7
Q ss_pred cCCCCCCeEEEe-cCCceEEEccc
Q psy2291 50 TNTLGRRFIIQD-LDETHLFISSD 72 (96)
Q Consensus 50 ~~~~~~kFIIeD-LDdtHLfVk~~ 72 (96)
-+..|+.++|-+ +|+.|++|.-.
T Consensus 15 Gr~~Gk~~vIv~iiD~~~vlV~g~ 38 (83)
T 3j21_5 15 GRRAGQKVVVVDIIDKNFVLVTGA 38 (83)
T ss_dssp SSSSCCCEEEEEECSSSCEEEECC
T ss_pred cCCCCCEEEEEEEcCCCEEEEECC
Confidence 455688888887 79999999643
No 8
>1f46_A Cell division protein ZIPA; transmembrane, inner membrane, cell cycle; 1.50A {Escherichia coli} SCOP: d.129.4.1 PDB: 1f47_B 1s1j_A* 1s1s_A* 1y2g_A* 1f7w_A 1f7x_A 1y2f_A*
Probab=28.40 E-value=29 Score=23.73 Aligned_cols=28 Identities=11% Similarity=0.192 Sum_probs=25.8
Q ss_pred ecCCceEEEccchHHHHHHHHHHHHhhc
Q psy2291 61 DLDETHLFISSDVIELLMTRVDDLLDQI 88 (96)
Q Consensus 61 DLDdtHLfVk~~~v~~Lk~~l~~~ld~n 88 (96)
-+||.+-...+..++.++++|.++.++|
T Consensus 112 llDd~r~~lt~~~~~~ir~~l~~~~~~~ 139 (140)
T 1f46_A 112 VLDDQRRMMTPQKLREYQDIIREVKDAN 139 (140)
T ss_dssp EECTTSCBCCHHHHHHHHHHHHHHHHHT
T ss_pred EECCCCCCCCHHHHHHHHHHHHHHHHhc
Confidence 4799999999999999999999998877
No 9
>3h0g_E DNA-directed RNA polymerases I, II, and III subunit rpabc1; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=21.88 E-value=17 Score=27.22 Aligned_cols=55 Identities=20% Similarity=0.341 Sum_probs=35.0
Q ss_pred cCCcchhhhheeccccccccceeEEeecC-CHHHHHHHHHhhccCCCCCCeEEEecCCceEEE
Q psy2291 8 VDDKPMKQFLLHLDETNTLGRRFIIHCFS-DKPMKQFLLHLDETNTLGRRFIIQDLDETHLFI 69 (96)
Q Consensus 8 ~~~~~~~~~~~~l~~~~~~~kGvLI~C~~-DpaiKq~Il~Lde~~~~~~kFIIeDLDdtHLfV 69 (96)
+.-+++|.|.-++. .-+..+|+||.... -|+.|+.+..+. + +|.||-..++-|+|
T Consensus 82 vgvk~Ir~~~~~~~-~en~~~~IiV~q~~~t~~A~~~l~~~~---~---~~~iE~F~e~eLlv 137 (210)
T 3h0g_E 82 VGIKEMRTFVHTLG-DHNHKTGILIYANSMTPSAAKIIATVT---G---QFTIETFQESDLIV 137 (210)
T ss_dssp CCTTTTGGGTHHHH-HTTCSEEEECCSSCCCSHHHHTTTTTC---T---TCEECCCCSSSSCS
T ss_pred cChHHHHHHHHHHH-HcCCceEEEEECCCCCHHHHHHHHHhC---c---CcEEEEEeehHeeE
Confidence 44578899999984 56788999998721 234566555443 2 56777655544433
No 10
>2joy_A 50S ribosomal protein L14E; protein solution structure, structural genomics, PSI-2, protein structure initiative; NMR {Sulfolobus solfataricus} SCOP: b.34.5.7 PDB: 2kds_A
Probab=20.08 E-value=67 Score=20.69 Aligned_cols=22 Identities=18% Similarity=0.545 Sum_probs=16.0
Q ss_pred cCCCCCCeEEEe-cCCceEEEcc
Q psy2291 50 TNTLGRRFIIQD-LDETHLFISS 71 (96)
Q Consensus 50 ~~~~~~kFIIeD-LDdtHLfVk~ 71 (96)
-+..|+.++|-+ +|+.|++|.-
T Consensus 15 Gr~~Gk~~VIv~~iD~~~vLV~g 37 (96)
T 2joy_A 15 GREAGSKCVIVDIIDDNFVLVTG 37 (96)
T ss_dssp SSTTCCEEEEEEECSSSCEEEEC
T ss_pred cCCCCCEEEEEEEeCCCEEEEEC
Confidence 455677776665 5999999863
Done!