Query 013624
Match_columns 439
No_of_seqs 76 out of 78
Neff 3.1
Searched_HMMs 29240
Date Mon Mar 25 14:03:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013624.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/013624hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3bho_A Cleavage and polyadenyl 42.2 3.2 0.00011 39.1 -1.4 32 364-395 39-70 (208)
2 3zqp_A Terminase small subunit 28.1 12 0.00042 33.9 0.0 29 301-329 25-53 (164)
3 1zrj_A E1B-55KDA-associated pr 26.7 10 0.00035 28.4 -0.7 29 353-381 16-48 (50)
4 2hpu_A NOSL protein; alpha bet 26.6 7.7 0.00026 35.1 -1.6 101 266-376 15-140 (175)
5 3uaf_A TTR-52; beta barrel/san 24.9 36 0.0012 29.0 2.3 27 247-281 3-29 (117)
6 2gex_A SNOL; alpha+beta barrel 23.3 1.4E+02 0.0049 24.0 5.6 72 353-430 46-121 (152)
7 3ebt_A Uncharacterized NTF2-li 18.4 3.3E+02 0.011 20.8 6.7 67 353-432 53-121 (132)
8 1h1j_S THO1 protein; SAP domai 18.3 63 0.0022 24.1 2.1 16 353-368 11-26 (51)
9 2vl6_A SSO MCM N-TER, minichro 16.5 2.1E+02 0.0073 26.4 5.8 40 235-277 216-256 (268)
10 1wn9_A The hypothetical protei 15.2 1.2E+02 0.0041 27.0 3.4 60 311-383 32-99 (131)
No 1
>3bho_A Cleavage and polyadenylation specificity factor subunit 5; CPSF5, RNA processing, cleavage factor, diadenosine tetraphosphate, mRNA processing; HET: B4P; 1.80A {Homo sapiens} PDB: 3bap_A 3mdg_A 3mdi_A 2cl3_A 3n9u_A 3q2s_A 3q2t_A 2j8q_A 3p5t_A 3p6y_A
Probab=42.20 E-value=3.2 Score=39.08 Aligned_cols=32 Identities=25% Similarity=0.393 Sum_probs=26.5
Q ss_pred CCCCCceeEEeeeeeeeCCEEEEEEEEEecCc
Q 013624 364 LSSDDRLMRLKEGYIKEGSTVSVMGIVQRNDN 395 (439)
Q Consensus 364 LSsd~r~mRlkEGyIkEGstvSVmGvvkr~~~ 395 (439)
.+-.+|++|++|-|-+.|++++|-|++-.|+.
T Consensus 39 ~s~~~r~~rl~~~y~~~g~R~sV~avil~~~~ 70 (208)
T 3bho_A 39 SSVAARFQRMREEFDKIGMRRTVEGVLIVHEH 70 (208)
T ss_dssp SSHHHHHHHHHHHHHHHCSEEEEEEEEEEEET
T ss_pred ccHHHHHHHHHHHHHhhCCceEEEEEEEEcCC
Confidence 33346899999999999999999999876553
No 2
>3zqp_A Terminase small subunit; DNA-binding protein, DNA packaging; 3.00A {Bacillus phage SF6} PDB: 3zqq_A
Probab=28.05 E-value=12 Score=33.86 Aligned_cols=29 Identities=14% Similarity=0.265 Sum_probs=0.0
Q ss_pred ceeeeeeeecEEEEecCCceeEEEEeCCC
Q 013624 301 LRSLERHVVDFYISDFQSGLRALVKTGSG 329 (439)
Q Consensus 301 lr~~Er~~~DFYIsD~~SG~RALVKaG~G 329 (439)
|+-..+.+++.||.|+-+.-.|++||||-
T Consensus 25 LT~KQ~~F~~eYi~~~~Nat~Aa~kAGYs 53 (164)
T 3zqp_A 25 LSPKQERFIEEYFINDMNATKAAIAAGYS 53 (164)
T ss_dssp -----------------------------
T ss_pred CCHHHHHHHHHHHhcCCCHHHHHHHcCCC
Confidence 34444678899999987889999999995
No 3
>1zrj_A E1B-55KDA-associated protein 5 isoform C; SAP domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.140.2.1
Probab=26.72 E-value=10 Score=28.37 Aligned_cols=29 Identities=17% Similarity=0.164 Sum_probs=21.0
Q ss_pred HHHHHHhhhcCCCCCCc----eeEEeeeeeeeC
Q 013624 353 PEFIRWLGQKSLSSDDR----LMRLKEGYIKEG 381 (439)
Q Consensus 353 ~~f~~WL~erNLSsd~r----~mRlkEGyIkEG 381 (439)
.+|+.+|.+|||+..++ +=||+|-+-+||
T Consensus 16 ~eLK~eLk~RgL~~~G~Ka~Li~RL~~~~~~e~ 48 (50)
T 1zrj_A 16 NELREELQRRGLDTRGLKAELAERLQAALSGPS 48 (50)
T ss_dssp HHHHHHHHHTTCCCCSCHHHHHHHHHHHHCCCC
T ss_pred HHHHHHHHHcCCCCCCcHHHHHHHHHHHHhccc
Confidence 68999999999999873 445555444444
No 4
>2hpu_A NOSL protein; alpha beta topology, metal transport; NMR {Achromobacter cycloclastes} SCOP: d.357.1.1 PDB: 2hq3_A
Probab=26.65 E-value=7.7 Score=35.07 Aligned_cols=101 Identities=12% Similarity=0.081 Sum_probs=41.1
Q ss_pred cCCCCceEEEeeeeeeeecCCCCCCCC----------CCccccccceee-eeeeecEEEEecCC--------ceeEEEEe
Q 013624 266 FRRVPRCVYTSTSLYEYRAWGSKPANP----------KHRHFTWGLRSL-ERHVVDFYISDFQS--------GLRALVKT 326 (439)
Q Consensus 266 ~~k~~rCVYtst~LyE~rgw~~k~an~----------kh~~f~W~lr~~-Er~~~DFYIsD~~S--------G~RALVKa 326 (439)
|.+..+|.|.-+.+.++.+|....-.. -||-|.|-.... ++.+...|++|+.+ +--.+|.
T Consensus 15 i~~~~~C~~CgM~i~~~p~~~aqI~~~~~g~~~~F~s~~cm~~~~~~~e~~~~i~aiyV~D~~t~~~~w~~p~~~~wId- 93 (175)
T 2hpu_A 15 MTPETLGHYCQMNLLEHPGPKAQIFLEGSPAPLFFSQVRDAIAYARGPEQIAPILVIYVNDMGAAGATWDQPGDGNWIA- 93 (175)
T ss_dssp --------------------CEEEEETTCSSEEEESCHHHHHHHHTTGGGGSCEEEEEEEESCTTSSCTTCSCCCEEEC-
T ss_pred CCCCceeCCCCcCcccCCCccEEEEECCCCcEEEECCHHHHHHHHhcccccCceeEEEEEcCcccccccccCCCCceEE-
Confidence 667779999999999987776443222 233445544432 45678889999987 1123332
Q ss_pred CCCCeeeeeeecceEE------ecCCCCCCCCHHHHHHhhhcCCCCCCceeEEeee
Q 013624 327 GSGARVTPFVDDSVVI------DIKPENKDLSPEFIRWLGQKSLSSDDRLMRLKEG 376 (439)
Q Consensus 327 G~GakVtp~V~e~~vv------~~~~~~kdlS~~f~~WL~erNLSsd~r~mRlkEG 376 (439)
++-..||+.+.+. ++-+| .--.+-+.|.++++ +++++++|=
T Consensus 94 ---A~~A~YVvgS~~~gpMG~~~l~pF--a~k~dAe~Fa~~~G----G~Vl~f~ei 140 (175)
T 2hpu_A 94 ---ADKAFYVVGSARRGGMGAPEAVPF--SSRDEAAAFVLAEG----GQVLALADI 140 (175)
T ss_dssp ---GGGSEEEEESSSSCSSSCCCEEEE--SCHHHHHHHHHHTE----EEEEEGGGC
T ss_pred ---CCeeEEEeCCCCCCCCCCCcccCc--CCHHHHHHHHHHcC----CEEEEHHHc
Confidence 2334455443321 11111 11245677888875 678777653
No 5
>3uaf_A TTR-52; beta barrel/sandwich, cell engulfment, secreted, protein BIN; 2.01A {Caenorhabditis elegans}
Probab=24.94 E-value=36 Score=29.01 Aligned_cols=27 Identities=26% Similarity=0.582 Sum_probs=19.6
Q ss_pred cEEEEEEEEEeccccccCCcCCCCceEEEeeeeee
Q 013624 247 QFVKVTGVVTCGNVPLESSFRRVPRCVYTSTSLYE 281 (439)
Q Consensus 247 q~VKItG~VtcG~~PL~ss~~k~~rCVYtst~LyE 281 (439)
|-|-|+|++.|++.|- ++.++ -++|+|
T Consensus 3 qsV~V~G~L~C~~~Pa--~~~~V------~V~L~d 29 (117)
T 3uaf_A 3 SCLMATGVLKCPTDPE--AVKKV------HIDLWD 29 (117)
T ss_dssp EEEEEEEEEECTTCGG--GGSSC------EEEEEE
T ss_pred EEEEEEEEEEeCCccC--CCCCE------EEEEEe
Confidence 6799999999999972 33344 356676
No 6
>2gex_A SNOL; alpha+beta barrel, oxidoreductase; 2.50A {Streptomyces nogalater} SCOP: d.17.4.9
Probab=23.31 E-value=1.4e+02 Score=24.02 Aligned_cols=72 Identities=18% Similarity=0.184 Sum_probs=42.1
Q ss_pred HHHHHHhhhcCCCCCCceeEEeeeeeeeCCEEEEEEEEEe-cCceeeEeCCCCc--ccccceeeeeccccccc-eeEEEe
Q 013624 353 PEFIRWLGQKSLSSDDRLMRLKEGYIKEGSTVSVMGIVQR-NDNVLMIVPPPEP--IATGWQWTKCIFPASLE-GIILRC 428 (439)
Q Consensus 353 ~~f~~WL~erNLSsd~r~mRlkEGyIkEGstvSVmGvvkr-~~~~~mi~~p~e~--~stgcq~~~~~lp~~~e-glvl~~ 428 (439)
..|+.|++.-.-.-.+..+++++ ++.+|++|.|-..+.. +....+=+||.+. .-.+|.+.++ -| |.|...
T Consensus 46 ~~~~~~~~~~~~~~~~~~~~i~~-~~~~gd~v~~~~~~~gt~~g~~~G~~~tG~~~~~~~~~~~~~-----~d~GkI~e~ 119 (152)
T 2gex_A 46 EEVVRRMNSAVEAFPDLRLDVRS-IVGEGDRVMLRITCSATHQGVFMGIAPTGRKVRWTYLEELRF-----SEAGKVVEH 119 (152)
T ss_dssp HHHHHHHHHHHHHCTTCEEEEEE-EEEETTEEEEEEEEEEECCSCBTTBCCCCCEEEEEEEEEEEE-----CTTSCEEEE
T ss_pred HHHHHHHHHHHHhCCCcEEEEEE-EEEeCCEEEEEEEEEEEecCCcCCcCCCCCEEEEEEEEEEEE-----ecCCEEEEE
Confidence 45666665432222233345544 7889999999988874 4444554555443 2356666664 36 887665
Q ss_pred ec
Q 013624 429 ED 430 (439)
Q Consensus 429 ~d 430 (439)
.+
T Consensus 120 ~~ 121 (152)
T 2gex_A 120 WD 121 (152)
T ss_dssp EE
T ss_pred EE
Confidence 44
No 7
>3ebt_A Uncharacterized NTF2-like protein; structural genomics, joint center for structural genomics, J protein structure initiative; 1.30A {Burkholderia pseudomallei K96243} SCOP: d.17.4.9
Probab=18.36 E-value=3.3e+02 Score=20.83 Aligned_cols=67 Identities=13% Similarity=0.146 Sum_probs=39.0
Q ss_pred HHHHHHhhhcCCCCCCceeEEeeeeeeeCCEEEEEEEEEecCceeeEeCCCC-cc-cccceeeeeccccccceeEEEeec
Q 013624 353 PEFIRWLGQKSLSSDDRLMRLKEGYIKEGSTVSVMGIVQRNDNVLMIVPPPE-PI-ATGWQWTKCIFPASLEGIILRCED 430 (439)
Q Consensus 353 ~~f~~WL~erNLSsd~r~mRlkEGyIkEGstvSVmGvvkr~~~~~mi~~p~e-~~-stgcq~~~~~lp~~~eglvl~~~d 430 (439)
.+++.|++...-.-.+..++. +-++.+|++|.|.+.... + +|.+ ++ ..+|.+.++ -||.|.+..+
T Consensus 53 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~gd~v~v~~~~~~------~-~~~G~~~~~~~~~v~~~-----~dGkI~~~~~ 119 (132)
T 3ebt_A 53 DEVIAFIRHVPTHIAEMRLAP-DEFIESGERIVVLGTRRV------T-AVNGRSATLKFVHVWRF-----ENGRAVTFED 119 (132)
T ss_dssp HHHHHHHHHGGGTEEEEEEEE-EEEEEETTEEEEEEEEEE------E-ETTSCEEEEEEEEEEEE-----ETTEEEEEEE
T ss_pred HHHHHHHHHHHhhCCceEEEE-eEEEEeCCEEEEEEEEEE------E-eCCCCEEeeeEEEEEEE-----ECCEEEEEEE
Confidence 467777765433223322333 357889999999876541 2 3322 33 245666554 3888887766
Q ss_pred CC
Q 013624 431 TS 432 (439)
Q Consensus 431 ~~ 432 (439)
.-
T Consensus 120 y~ 121 (132)
T 3ebt_A 120 HF 121 (132)
T ss_dssp EC
T ss_pred Ee
Confidence 54
No 8
>1h1j_S THO1 protein; SAP domain, DNA binding; NMR {Saccharomyces cerevisiae} SCOP: a.140.2.1 PDB: 2wqg_A
Probab=18.25 E-value=63 Score=24.12 Aligned_cols=16 Identities=19% Similarity=0.256 Sum_probs=14.9
Q ss_pred HHHHHHhhhcCCCCCC
Q 013624 353 PEFIRWLGQKSLSSDD 368 (439)
Q Consensus 353 ~~f~~WL~erNLSsd~ 368 (439)
.+|+.+|++|||+..+
T Consensus 11 ~eLK~~Lk~RGL~~~G 26 (51)
T 1h1j_S 11 VQLKDLLTKRNLSVGG 26 (51)
T ss_dssp HHHHHHHHHTTCCCCS
T ss_pred HHHHHHHHHcCCCCCC
Confidence 5899999999999987
No 9
>2vl6_A SSO MCM N-TER, minichromosome maintenance protein MCM; helicase, hydrolase, zinc-finger, ATP-binding, DNA-BIND ssDNA binding; 2.8A {Sulfolobus solfataricus}
Probab=16.53 E-value=2.1e+02 Score=26.36 Aligned_cols=40 Identities=33% Similarity=0.527 Sum_probs=26.9
Q ss_pred Eeeec-ccccccCcEEEEEEEEEeccccccCCcCCCCceEEEee
Q 013624 235 ILDTD-LRTAKSGQFVKVTGVVTCGNVPLESSFRRVPRCVYTST 277 (439)
Q Consensus 235 ild~~-Lr~a~dGq~VKItG~VtcG~~PL~ss~~k~~rCVYtst 277 (439)
+|+.| ...++.|+.|.|||.+.+-... .+++..+|+|...
T Consensus 216 ~l~~dLvd~~~PGDrV~vtGI~~~~~~~---~~~~~~~~~~~~y 256 (268)
T 2vl6_A 216 ILEDDLVDSARPGDRVKVTGILDIKQDS---PVKRGSRAVFDIY 256 (268)
T ss_dssp EEEGGGTTSSCTTCEEEEEEEEEEECSS---TTCCSSCCEEEEE
T ss_pred EEccCccCcccCCCEEEEEEEEEEeecc---cccCCCceEEEEE
Confidence 44444 4688999999999999875543 2344556766543
No 10
>1wn9_A The hypothetical protein (TT1805); thermus thermophillus, structural genomics, riken structural genomics/proteomics initiative, RSGI; 1.58A {Thermus thermophilus} SCOP: d.319.1.1 PDB: 1wna_A
Probab=15.18 E-value=1.2e+02 Score=26.96 Aligned_cols=60 Identities=20% Similarity=0.338 Sum_probs=39.3
Q ss_pred EEEEecCC-----ceeEEEEeCCCCeeeeeeecceEEecCCCCC---CCCHHHHHHhhhcCCCCCCceeEEeeeeeeeCC
Q 013624 311 FYISDFQS-----GLRALVKTGSGARVTPFVDDSVVIDIKPENK---DLSPEFIRWLGQKSLSSDDRLMRLKEGYIKEGS 382 (439)
Q Consensus 311 FYIsD~~S-----G~RALVKaG~GakVtp~V~e~~vv~~~~~~k---dlS~~f~~WL~erNLSsd~r~mRlkEGyIkEGs 382 (439)
.||||.|. +..++|..|. ++.+.+|. .++-.. .+=.||.+||.++++ -+++|-.+-.++
T Consensus 32 ~liTDwQd~R~~ARYa~ll~~gk----~~llt~dA---FGPafg~G~~ALaELv~wl~~~G~------~~f~EaVl~p~e 98 (131)
T 1wn9_A 32 YLITDWQDKRDQARYALLLHTGK----KDLLVPDA---FGPAFPGGEEALSELVGLLLAQGA------RRFYEAVVSPGE 98 (131)
T ss_dssp EEEEECCSSGGGCCEEEEEECSS----CEEEEEEE---ESTTSTTHHHHHHHHHHHHHHTTC------CEEEEEEECGGG
T ss_pred EEEecccccchhhhhhheeecCC----cccccccc---cCCCcccHHHHHHHHHHHHHHcCC------chhhhhccCHHH
Confidence 69999986 4567776663 35565555 233333 344689999999985 357787766555
Q ss_pred E
Q 013624 383 T 383 (439)
Q Consensus 383 t 383 (439)
-
T Consensus 99 ~ 99 (131)
T 1wn9_A 99 M 99 (131)
T ss_dssp H
T ss_pred H
Confidence 3
Done!