Query 013042
Match_columns 451
No_of_seqs 60 out of 62
Neff 2.9
Searched_HMMs 29240
Date Mon Mar 25 03:07:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013042.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/013042hhsearch_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 41.5 2.6 9.1E-05 39.7 -2.2 29 379-407 42-70 (208)
2 1zrj_A E1B-55KDA-associated pr 29.5 9.5 0.00032 28.6 -0.4 29 365-393 16-48 (50)
3 2gex_A SNOL; alpha+beta barrel 28.7 1.1E+02 0.0038 24.7 5.9 72 365-442 46-121 (152)
4 3r4d_B Spike glycoprotein; imm 25.5 66 0.0023 31.3 4.5 68 324-432 82-149 (288)
5 3zqp_A Terminase small subunit 25.0 15 0.00052 33.3 0.0 29 313-341 25-53 (164)
6 2hpu_A NOSL protein; alpha bet 23.7 27 0.00091 31.6 1.3 103 278-388 15-140 (175)
7 3uaf_A TTR-52; beta barrel/san 23.2 41 0.0014 28.8 2.3 27 259-293 3-29 (117)
8 3f8l_A HTH-type transcriptiona 22.3 1.6E+02 0.0054 25.8 6.0 62 336-412 26-97 (201)
9 2gey_A ACLR protein; alpha+bet 18.8 2.5E+02 0.0084 22.9 6.1 73 365-443 45-120 (158)
10 1h1j_S THO1 protein; SAP domai 18.6 66 0.0023 24.1 2.3 16 365-380 11-26 (51)
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=41.47 E-value=2.6 Score=39.75 Aligned_cols=29 Identities=28% Similarity=0.436 Sum_probs=25.3
Q ss_pred CCceeEEeeeeeeeCCeEEEEEEEEecCc
Q 013042 379 DDRIMRLKEGYIKEGSTVSVMGVVQRNDN 407 (451)
Q Consensus 379 d~r~mRlkEGyIkEGstVSVmGvvqr~~~ 407 (451)
.+|.+|++|-|-+.|++++|-|++-.|+.
T Consensus 42 ~~r~~rl~~~y~~~g~R~sV~avil~~~~ 70 (208)
T 3bho_A 42 AARFQRMREEFDKIGMRRTVEGVLIVHEH 70 (208)
T ss_dssp HHHHHHHHHHHHHHCSEEEEEEEEEEEET
T ss_pred HHHHHHHHHHHHhhCCceEEEEEEEEcCC
Confidence 46899999999999999999999876553
No 2
>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=29.45 E-value=9.5 Score=28.63 Aligned_cols=29 Identities=21% Similarity=0.188 Sum_probs=20.7
Q ss_pred HHHHHHHHhcCCCCCC----ceeEEeeeeeeeC
Q 013042 365 PEFIRWLAERNLSSDD----RIMRLKEGYIKEG 393 (451)
Q Consensus 365 ~~f~~WL~erNLSsd~----r~mRlkEGyIkEG 393 (451)
.+|+.+|.+|||+..+ -+=||+|-+-+||
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 6899999999999987 3345555444444
No 3
>2gex_A SNOL; alpha+beta barrel, oxidoreductase; 2.50A {Streptomyces nogalater} SCOP: d.17.4.9
Probab=28.71 E-value=1.1e+02 Score=24.67 Aligned_cols=72 Identities=18% Similarity=0.171 Sum_probs=43.1
Q ss_pred HHHHHHHHhcCCCCCCceeEEeeeeeeeCCeEEEEEEEEe-cCceeEEeCCCCc--ccccceeeeeccccccc-ceEEEe
Q 013042 365 PEFIRWLAERNLSSDDRIMRLKEGYIKEGSTVSVMGVVQR-NDNVLMIVPPPEP--ITTGCQWAKCIVPASLD-GIVLRC 440 (451)
Q Consensus 365 ~~f~~WL~erNLSsd~r~mRlkEGyIkEGstVSVmGvvqr-~~~~lmIvpP~e~--vsTGcqw~kcllP~~~e-Glvl~~ 440 (451)
..|+.|++.-.-.-.+..+.+++ ++.+|++|.|-..+.- +...++=+||.+. .-.+|.+.++ -| |.|...
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 45666665532222233345544 7889999999998874 4455555566543 2356666664 36 887765
Q ss_pred ec
Q 013042 441 ED 442 (451)
Q Consensus 441 ~d 442 (451)
.+
T Consensus 120 ~~ 121 (152)
T 2gex_A 120 WD 121 (152)
T ss_dssp EE
T ss_pred EE
Confidence 44
No 4
>3r4d_B Spike glycoprotein; immunoglobulin, beta-sandwich, mceacam1A - immunoglobulin FO spike NTD - galectin-like beta-sandwich fold; HET: NAG; 3.10A {Murine hepatitis virus}
Probab=25.54 E-value=66 Score=31.34 Aligned_cols=68 Identities=22% Similarity=0.353 Sum_probs=42.8
Q ss_pred EEeecCCceeEEEEeCCCCeeeEeeecceeEecCCCCCCCCHHHHHHHHhcCCCCCCceeEEeeeeeeeCCeEEEEEEEE
Q 013042 324 YISDFQSGLRALVKTGYGARVTPYVDDSLAIDVNPGKEELSPEFIRWLAERNLSSDDRIMRLKEGYIKEGSTVSVMGVVQ 403 (451)
Q Consensus 324 YISDfqSGlRALVKaG~GakVtp~V~es~vvd~g~~~kdlS~~f~~WL~erNLSsd~r~mRlkEGyIkEGstVSVmGvvq 403 (451)
|.+||+.|..|=||-=. +... + .+.++-..|-.--.++..-=|| |+|
T Consensus 82 fLS~FndGIFaKVKN~K-------------~~~~---~-------------~~~s~FptivIGS~FvntSYtv----Vve 128 (288)
T 3r4d_B 82 YLSQFNDGIFAKVQNLK-------------TSTP---S-------------GATAYFPTIVIGSLFGYTSYTV----VIE 128 (288)
T ss_dssp TSEECTTCEEEEEECCG-------------GGSC---T-------------TCCCCSCCEEEESSCSTTSCEE----EEE
T ss_pred chhhhccchheeeecce-------------eecC---C-------------ceeeecceEEEeceeccceEEE----EEe
Confidence 68999999999995311 1111 1 2233333333333333333333 678
Q ss_pred ecCceeEEeCCCCcccccceeeeeccccc
Q 013042 404 RNDNVLMIVPPPEPITTGCQWAKCIVPAS 432 (451)
Q Consensus 404 r~~~~lmIvpP~e~vsTGcqw~kcllP~~ 432 (451)
-+++.+|| +-||..-|.+|-.
T Consensus 129 P~ngil~~--------svCqYtmCe~P~T 149 (288)
T 3r4d_B 129 PYNGVIMA--------SVCQYTICQLPYT 149 (288)
T ss_dssp EETTEEEE--------EEECCCBBSSCCE
T ss_pred ccCCEEEE--------eeeehhhhcCCcc
Confidence 89999998 7899999999974
No 5
>3zqp_A Terminase small subunit; DNA-binding protein, DNA packaging; 3.00A {Bacillus phage SF6} PDB: 3zqq_A
Probab=24.99 E-value=15 Score=33.34 Aligned_cols=29 Identities=21% Similarity=0.395 Sum_probs=0.0
Q ss_pred ceeeeeeeeceEEeecCCceeEEEEeCCC
Q 013042 313 LRSLERRAVDFYISDFQSGLRALVKTGYG 341 (451)
Q Consensus 313 lr~~Er~~~DFYISDfqSGlRALVKaG~G 341 (451)
|+-..+.+++.||.|+-+.-.|.+||||-
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 34444778899999987888999999995
No 6
>2hpu_A NOSL protein; alpha beta topology, metal transport; NMR {Achromobacter cycloclastes} SCOP: d.357.1.1 PDB: 2hq3_A
Probab=23.74 E-value=27 Score=31.60 Aligned_cols=103 Identities=13% Similarity=0.104 Sum_probs=42.9
Q ss_pred cCCCCceeEEeeeEEEecCCCCCCCCCC----------Cccccccceee-eeeeeceEEeecCC--------ceeEEEEe
Q 013042 278 FQKVPRCIYTSTSLYEYRGWGSKAANPT----------HRRFTWGLRSL-ERRAVDFYISDFQS--------GLRALVKT 338 (451)
Q Consensus 278 fqKv~RCVYtSt~LyEyrgw~sk~an~k----------h~~f~Wglr~~-Er~~~DFYISDfqS--------GlRALVKa 338 (451)
|.+..+|.|.-+.+.++.+|....-..+ ||-|.|-.... ++.+...|++|+.+ +--.+|.|
T Consensus 15 i~~~~~C~~CgM~i~~~p~~~aqI~~~~~g~~~~F~s~~cm~~~~~~~e~~~~i~aiyV~D~~t~~~~w~~p~~~~wIdA 94 (175)
T 2hpu_A 15 MTPETLGHYCQMNLLEHPGPKAQIFLEGSPAPLFFSQVRDAIAYARGPEQIAPILVIYVNDMGAAGATWDQPGDGNWIAA 94 (175)
T ss_dssp --------------------CEEEEETTCSSEEEESCHHHHHHHHTTGGGGSCEEEEEEEESCTTSSCTTCSCCCEEECG
T ss_pred CCCCceeCCCCcCcccCCCccEEEEECCCCcEEEECCHHHHHHHHhcccccCceeEEEEEcCcccccccccCCCCceEEC
Confidence 6677799999999999877765432222 34455655543 45678889999987 11233422
Q ss_pred CCCCeeeEeeecceeEec-C-CCCC--CCCHHHHHHHHhcCCCCCCceeEEeee
Q 013042 339 GYGARVTPYVDDSLAIDV-N-PGKE--ELSPEFIRWLAERNLSSDDRIMRLKEG 388 (451)
Q Consensus 339 G~GakVtp~V~es~vvd~-g-~~~k--dlS~~f~~WL~erNLSsd~r~mRlkEG 388 (451)
+-..||..+.+... + .+.- .--.+-+.|.++++ +++|+++|=
T Consensus 95 ----~~A~YVvgS~~~gpMG~~~l~pFa~k~dAe~Fa~~~G----G~Vl~f~ei 140 (175)
T 2hpu_A 95 ----DKAFYVVGSARRGGMGAPEAVPFSSRDEAAAFVLAEG----GQVLALADI 140 (175)
T ss_dssp ----GGSEEEEESSSSCSSSCCCEEEESCHHHHHHHHHHTE----EEEEEGGGC
T ss_pred ----CeeEEEeCCCCCCCCCCCcccCcCCHHHHHHHHHHcC----CEEEEHHHc
Confidence 33445554432110 0 0000 11245778888875 688888764
No 7
>3uaf_A TTR-52; beta barrel/sandwich, cell engulfment, secreted, protein BIN; 2.01A {Caenorhabditis elegans}
Probab=23.19 E-value=41 Score=28.76 Aligned_cols=27 Identities=26% Similarity=0.550 Sum_probs=19.9
Q ss_pred cEEEEEEEEEecccccccCcCCCCceeEEeeeEEE
Q 013042 259 QFVKISGVVTCGNVPLESSFQKVPRCIYTSTSLYE 293 (451)
Q Consensus 259 Q~VKItG~VtCG~vPLeSsfqKv~RCVYtSt~LyE 293 (451)
|-|-|+|++.||+.|- ++.++ -++|||
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 356776
No 8
>3f8l_A HTH-type transcriptional repressor PHNF; GNTR, HUTC, regulator, UTRA, DNA-bindin transcription regulation; 1.90A {Mycobacterium smegmatis}
Probab=22.28 E-value=1.6e+02 Score=25.75 Aligned_cols=62 Identities=18% Similarity=0.171 Sum_probs=39.3
Q ss_pred EEeCCCCeeeEeeecceeEecCCCCCCCCHHHHHHHHhcCCCCCCceeEEeeee----------eeeCCeEEEEEEEEec
Q 013042 336 VKTGYGARVTPYVDDSLAIDVNPGKEELSPEFIRWLAERNLSSDDRIMRLKEGY----------IKEGSTVSVMGVVQRN 405 (451)
Q Consensus 336 VKaG~GakVtp~V~es~vvd~g~~~kdlS~~f~~WL~erNLSsd~r~mRlkEGy----------IkEGstVSVmGvvqr~ 405 (451)
.+-|.|.-|++. . -..|...|++.|.....+++..+.-- |++|+.|-.|=.+..-
T Consensus 26 r~qGkGTfV~~~--------------~-l~sf~e~~~~~G~~~~~~vl~~~~~~a~~~ia~~L~l~~g~~v~~i~Rlr~~ 90 (201)
T 3f8l_A 26 YFQGSGAIRQPL--------------G-MGSYTEAAKAQGLSAGRILVAWSDLTADEVLAGVLGVDVGAPVLQLERVLTT 90 (201)
T ss_dssp -------CEEEC--------------C-SSCHHHHHHHTTCCEEEEEEEEEEEECCHHHHHHHTCCTTCEEEEEEEEEEE
T ss_pred eeeCCceEECCC--------------C-cCCHHHHHHhCCCCcceEEEEEEEEeCCHHHHHhcCcCCCCeEEEEEEEEEE
Confidence 367888766663 1 13677888999988887777766532 5678899888888888
Q ss_pred CceeEEe
Q 013042 406 DNVLMIV 412 (451)
Q Consensus 406 ~~~lmIv 412 (451)
|+.-+++
T Consensus 91 dg~Pv~~ 97 (201)
T 3f8l_A 91 DGVRVGL 97 (201)
T ss_dssp TTEEEEE
T ss_pred CCEEEEE
Confidence 8876543
No 9
>2gey_A ACLR protein; alpha+beta barrel, oxidoreductase; HET: PG4; 1.80A {Streptomyces galilaeus} SCOP: d.17.4.9
Probab=18.77 E-value=2.5e+02 Score=22.91 Aligned_cols=73 Identities=16% Similarity=0.166 Sum_probs=42.3
Q ss_pred HHHHHHHHhcCCCCCCceeEEeeeeeeeCCeEEEEEEEEe-cCceeEEeCCCCc--ccccceeeeecccccccceEEEee
Q 013042 365 PEFIRWLAERNLSSDDRIMRLKEGYIKEGSTVSVMGVVQR-NDNVLMIVPPPEP--ITTGCQWAKCIVPASLDGIVLRCE 441 (451)
Q Consensus 365 ~~f~~WL~erNLSsd~r~mRlkEGyIkEGstVSVmGvvqr-~~~~lmIvpP~e~--vsTGcqw~kcllP~~~eGlvl~~~ 441 (451)
..|+.|++.---.-.+..+.+++ ++.+|++|.|-..+.- +...++=++|.+. --.||.+.++ -||.|.+..
T Consensus 45 ~~~~~~~~~~~~~~~~~~~~i~~-~~~~gd~v~~~~~~~gt~~g~~~G~~~tG~~~~~~~~~~~~~-----~dGkI~e~~ 118 (158)
T 2gey_A 45 ADMVKLMEGGLKAFPDLQLEVKS-IMAEEDRVALRITVTATHQGEFMGVQPTGQRVSWHLVEELRF-----VDGKVVEHW 118 (158)
T ss_dssp HHHHHHHHHHHHHSTTCEEEEEE-EEEETTEEEEEEEEEEECCSCBTTBCCCCCEEEEEEEEEEEE-----ETTEEEEEE
T ss_pred HHHHHHHHHHHHhCCCcEEEEEE-EEEeCCEEEEEEEEEEEecCCCCCcCCCCCEEEEEEEEEEEE-----ECCEEEEEE
Confidence 45666655422112233456655 8889999999998774 4444443444432 2256666664 288887665
Q ss_pred cC
Q 013042 442 DA 443 (451)
Q Consensus 442 d~ 443 (451)
+.
T Consensus 119 ~~ 120 (158)
T 2gey_A 119 DV 120 (158)
T ss_dssp EE
T ss_pred Ee
Confidence 43
No 10
>1h1j_S THO1 protein; SAP domain, DNA binding; NMR {Saccharomyces cerevisiae} SCOP: a.140.2.1 PDB: 2wqg_A
Probab=18.65 E-value=66 Score=24.08 Aligned_cols=16 Identities=31% Similarity=0.387 Sum_probs=14.8
Q ss_pred HHHHHHHHhcCCCCCC
Q 013042 365 PEFIRWLAERNLSSDD 380 (451)
Q Consensus 365 ~~f~~WL~erNLSsd~ 380 (451)
.+|+.+|++|||+..+
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
Done!