Query psy13898
Match_columns 185
No_of_seqs 152 out of 355
Neff 6.1
Searched_HMMs 29240
Date Fri Aug 16 23:15:28 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy13898.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/13898hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3fsi_A RT, reverse transcripta 96.7 0.00061 2.1E-08 56.2 2.6 89 48-169 166-254 (255)
2 1rw3_A POL polyprotein; RNA an 95.6 0.0055 1.9E-07 54.4 3.0 89 48-169 170-258 (455)
3 2zd1_A Reverse transcriptase/r 93.3 0.032 1.1E-06 50.9 2.2 74 48-132 152-225 (557)
4 2zd1_B P51 RT; P51/P66, hetero 92.3 0.03 1E-06 49.7 0.5 74 48-132 150-223 (428)
5 1mu2_A HIV-2 RT; HIV-2 reverse 91.9 0.068 2.3E-06 48.7 2.4 73 48-131 150-222 (555)
6 3kyl_A Telomerase reverse tran 57.6 2.6 8.7E-05 39.1 0.5 70 42-132 305-375 (596)
7 1go4_E MAD1 (mitotic arrest de 37.8 29 0.00098 24.9 3.3 33 106-138 30-64 (100)
8 2c5m_A CTP synthase; cytidine 22.4 28 0.00096 29.5 1.1 32 152-183 120-151 (294)
9 1kny_A Kntase, kanamycin nucle 20.2 59 0.002 26.1 2.6 23 107-129 227-249 (253)
10 2al3_A TUG long isoform; TUG U 19.5 49 0.0017 23.2 1.7 23 109-133 31-53 (90)
No 1
>3fsi_A RT, reverse transcriptase domain; transferase/DNA MMLV RT, protein-DNA complex, drug-DNA complex; HET: OWL; 1.75A {Moloney murine leukemia virus} SCOP: e.8.1.2 PDB: 1d1u_A 1n4l_A* 1ztt_A 2fjv_A* 2fjw_A 2fjx_A* 2fvp_A 2fvq_A 2fvr_A 2fvs_A 2r2r_A* 2r2s_A* 2r2t_A* 2r2u_A* 1ztw_A* 1i6j_A 1qaj_A* 1d0e_A* 1nnd_A 1mml_A ...
Probab=96.74 E-value=0.00061 Score=56.17 Aligned_cols=89 Identities=17% Similarity=0.191 Sum_probs=61.8
Q ss_pred CCCcccchhhHHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhhcCCCCCCCCCCCCCchhhhhHHHHHHHHHhhhCCccCc
Q psy13898 48 AGPLTQAKFIFDDHIRCMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWVTVANEYGLKFSA 127 (185)
Q Consensus 48 ~~~~~~a~f~F~d~i~c~~akq~l~~gr~~~r~~k~~~~a~~l~i~~~~s~~~~s~~~~Lq~~l~~L~~~s~~~GL~IN~ 127 (185)
+.++-.|..+|...++.+.... ..+ ........|.||+-|. +.+ ..+....++.+-+.++++||.+|.
T Consensus 166 PfGl~~sP~~fq~~m~~il~~~-~~~----~~~~~v~~Y~DDili~---s~~----~eeh~~~l~~v~~~L~~~gl~l~~ 233 (255)
T 3fsi_A 166 PQGFKNSPTLFDEALHRDLADF-RIQ----HPDLILLQYVDDLLLA---ATS----ELDCQQGTRALLQTLGNLGYRASA 233 (255)
T ss_dssp CTTCTTHHHHHHHHHHHHTHHH-HHH----CTTCEEEEETTEEEEE---ESS----HHHHHHHHHHHHHHHHHHTCCBCT
T ss_pred CCCCCCcHHHHHHHHHHHHHHH-HHh----CcCcEEEEEcCCeEEE---eCC----HHHHHHHHHHHHHHHHHCCeEECH
Confidence 6677888888876665543111 100 0011345688988873 323 337788899999999999999999
Q ss_pred ccceeeeccccccccceEEECCeeccccceeEeecceecCCC
Q psy13898 128 EKSEVVVLKCEEQVEGAIVMNGTTLKQVDHFKYLGSIISEDG 169 (185)
Q Consensus 128 ~KTKvM~~~~~~~~~~~i~I~g~~le~Ve~FkYLGs~Is~d~ 169 (185)
+||++.. .+++|||-+|+.+|
T Consensus 234 ~Kc~f~~---------------------~~~~fLG~~i~~~g 254 (255)
T 3fsi_A 234 KKAQICQ---------------------KQVKYLGYLLKEGQ 254 (255)
T ss_dssp TTCEEEE---------------------SEEEETTEEEETTB
T ss_pred HHhcccC---------------------CceEEEEEEEeCCc
Confidence 9998753 35899999998765
No 2
>1rw3_A POL polyprotein; RNA and DNA dependent DNA polymerase, reverse transcriptase, transferase, replication; 3.00A {Moloney murine leukemia virus} SCOP: e.8.1.2
Probab=95.64 E-value=0.0055 Score=54.44 Aligned_cols=89 Identities=18% Similarity=0.243 Sum_probs=59.5
Q ss_pred CCCcccchhhHHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhhcCCCCCCCCCCCCCchhhhhHHHHHHHHHhhhCCccCc
Q psy13898 48 AGPLTQAKFIFDDHIRCMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWVTVANEYGLKFSA 127 (185)
Q Consensus 48 ~~~~~~a~f~F~d~i~c~~akq~l~~gr~~~r~~k~~~~a~~l~i~~~~s~~~~s~~~~Lq~~l~~L~~~s~~~GL~IN~ 127 (185)
+.++-+|+.+|...++.+.....-. .-...+..|.||+-|. +.+. .+....++.+-+.+++.||.+|+
T Consensus 170 pfGl~naP~~fq~~m~~~l~~~~~~-----~~~~~v~~YvDDili~---s~~~----~e~~~~l~~v~~~l~~~gl~l~~ 237 (455)
T 1rw3_A 170 PQGFKNSPTLFDEALHRDLADFRIQ-----HPDLILLQYVDDLLLA---ATSE----LDCQQGTRALLQTLGNLGYRASA 237 (455)
T ss_dssp CSSCTTHHHHHHHHHHHHHHHHHHT-----CTTCEEEEETTEEEEE---ESSH----HHHHHHHHHHHHHHHHHTCCBCG
T ss_pred CCCCCCcHHHHHHHHHHHHHHhhhh-----CCCceEEEEcCCEEEe---cCCH----HHHHHHHHHHHHHHHHcCCccCc
Confidence 6677888888877666553222100 0012234588988773 3333 37788889999999999999999
Q ss_pred ccceeeeccccccccceEEECCeeccccceeEeecceecCCC
Q psy13898 128 EKSEVVVLKCEEQVEGAIVMNGTTLKQVDHFKYLGSIISEDG 169 (185)
Q Consensus 128 ~KTKvM~~~~~~~~~~~i~I~g~~le~Ve~FkYLGs~Is~d~ 169 (185)
+||++.. .+++|||-+|+.+|
T Consensus 238 ~K~~f~~---------------------~~~~fLG~~i~~~g 258 (455)
T 1rw3_A 238 KKAQICQ---------------------KQVKYLGYLLKEGQ 258 (455)
T ss_dssp GGCCCSB---------------------SSCEETTEEESSSE
T ss_pred cchhhhc---------------------cceeEeeeeccCCe
Confidence 9998642 34677777776543
No 3
>2zd1_A Reverse transcriptase/ribonuclease H; P51/P66, hetero dimer, NNRTI, nonnucleoside inhibitor, AIDS, HIV, rilpivirine, diarylpyrimidine, DAPY, DNA recombination; HET: T27; 1.80A {Human immunodeficiency virus 1} PDB: 3is9_A* 3irx_A* 2ze2_A* 3bgr_A* 3qlh_A* 3klf_A* 3qo9_A* 1dlo_A 1bqm_A 2be2_A* 1s6q_A* 1s6p_A* 1s9g_A* 1suq_A* 2b5j_A* 2b6a_A* 2ban_A* 1s9e_A* 1hni_A* 1hnv_A* ...
Probab=93.29 E-value=0.032 Score=50.90 Aligned_cols=74 Identities=14% Similarity=0.060 Sum_probs=48.4
Q ss_pred CCCcccchhhHHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhhcCCCCCCCCCCCCCchhhhhHHHHHHHHHhhhCCccCc
Q psy13898 48 AGPLTQAKFIFDDHIRCMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWVTVANEYGLKFSA 127 (185)
Q Consensus 48 ~~~~~~a~f~F~d~i~c~~akq~l~~gr~~~r~~k~~~~a~~l~i~~~~s~~~~s~~~~Lq~~l~~L~~~s~~~GL~IN~ 127 (185)
+.++-.|+.+|...++-+.... +.+. -...+..|-||+-|. +. ++..+....++.+-+.++++||.+|+
T Consensus 152 PfGl~nap~~fq~~m~~il~~~-~~~~----~~~~v~~Y~DDIli~---s~---~~~~eh~~~l~~v~~~l~~~gl~l~~ 220 (557)
T 2zd1_A 152 PQGWKGSPAIFQSSMTKILEPF-AAQN----PDIVIYQYMDDLYVG---SD---LEIGQHRTKIEELRQHLLRWGLTTPD 220 (557)
T ss_dssp CTTCTTHHHHHHHHHHHHHHHH-HHTC----TTEEEEEETTEEEEE---EC---SCHHHHHHHHHHHHHHHHTTTCCCCC
T ss_pred CCCCCCHHHHHHHHHHHHHHHh-hhcC----CCceEEEEecCEEEe---cC---chHHHHHHHHHHHHHHHHHcCCccCh
Confidence 6677788888876666554222 1110 011234588888773 22 12336677888899999999999999
Q ss_pred cccee
Q psy13898 128 EKSEV 132 (185)
Q Consensus 128 ~KTKv 132 (185)
+||+.
T Consensus 221 ~Kc~f 225 (557)
T 2zd1_A 221 KKHQK 225 (557)
T ss_dssp SCCSC
T ss_pred hhcCC
Confidence 99875
No 4
>2zd1_B P51 RT; P51/P66, hetero dimer, NNRTI, nonnucleoside inhibitor, AIDS, HIV, rilpivirine, diarylpyrimidine, DAPY, DNA recombination; HET: T27; 1.80A {Human immunodeficiency virus 1} SCOP: e.8.1.2 PDB: 2ykm_B* 2ykn_B* 2ze2_B* 3bgr_B* 3ig1_B* 3irx_B* 3is9_B* 3qo9_B* 3v4i_B* 3v6d_B* 3v81_B* 3klf_B* 3kk1_B* 3kjv_B* 3kk2_B* 3kk3_B* 2be2_B* 1n5y_B* 1bqm_B* 1n6q_B* ...
Probab=92.28 E-value=0.03 Score=49.67 Aligned_cols=74 Identities=14% Similarity=0.064 Sum_probs=40.5
Q ss_pred CCCcccchhhHHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhhcCCCCCCCCCCCCCchhhhhHHHHHHHHHhhhCCccCc
Q psy13898 48 AGPLTQAKFIFDDHIRCMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWVTVANEYGLKFSA 127 (185)
Q Consensus 48 ~~~~~~a~f~F~d~i~c~~akq~l~~gr~~~r~~k~~~~a~~l~i~~~~s~~~~s~~~~Lq~~l~~L~~~s~~~GL~IN~ 127 (185)
+.++-.|+.+|-..+.-+.... +.+. -......|.||+-|. +.+ +..+....++.+-+.+++.||.+|+
T Consensus 150 PfGl~nsPa~fq~~m~~il~~~-~~~~----~~~~v~vY~DDIlI~---s~~---~~~eh~~~l~~v~~~l~~~gL~l~~ 218 (428)
T 2zd1_B 150 PQGWKGSPAIFQSSMTKILEPF-KKQN----PDIVIYQYMDDLYVG---SDL---EIGQHRTKIEELRQHLLRWGLTTPD 218 (428)
T ss_dssp CTTCTHHHHHHHHHHHHHHHHH-HHHC----TTCEEEEETTEEEEE---ECS---CHHHHHHHHHHHHHHHHHHHC----
T ss_pred CCCCcchHHHHHHHHHHHHHHH-hhcC----CCceEEEEecceEEe---cCC---cHHHHHHHHHHHHHHHHHhCCccCh
Confidence 6777888888877666554222 1110 000134588988773 221 1236778888888999999999999
Q ss_pred cccee
Q psy13898 128 EKSEV 132 (185)
Q Consensus 128 ~KTKv 132 (185)
+||+.
T Consensus 219 ~Kc~~ 223 (428)
T 2zd1_B 219 KKHQK 223 (428)
T ss_dssp -----
T ss_pred hHccc
Confidence 99874
No 5
>1mu2_A HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polymerase, drug design, transferase; 2.35A {Human immunodeficiency virus 2} SCOP: c.55.3.1 e.8.1.2 PDB: 1mu2_B
Probab=91.94 E-value=0.068 Score=48.72 Aligned_cols=73 Identities=11% Similarity=0.043 Sum_probs=47.2
Q ss_pred CCCcccchhhHHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhhcCCCCCCCCCCCCCchhhhhHHHHHHHHHhhhCCccCc
Q psy13898 48 AGPLTQAKFIFDDHIRCMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWVTVANEYGLKFSA 127 (185)
Q Consensus 48 ~~~~~~a~f~F~d~i~c~~akq~l~~gr~~~r~~k~~~~a~~l~i~~~~s~~~~s~~~~Lq~~l~~L~~~s~~~GL~IN~ 127 (185)
+.++-.|+.+|-..+.-+.... +.+. ....+..|-||+-|. |. ++..+....++.+-+.++++||.+|+
T Consensus 150 PfGl~napa~fq~~m~~il~~~-~~~~----~~~~v~~Y~DDIli~---s~---~~~~eh~~~l~~v~~~l~~~gl~l~~ 218 (555)
T 1mu2_A 150 PQGWKGSPAIFQHTMRQVLEPF-RKAN----KDVIIIQYMDDILIA---SD---RTDLEHDRVVLQLKELLNGLGFSTPD 218 (555)
T ss_dssp CTTCTTHHHHHHHHHHHHHHHH-HHHC----TTSEEEEETTEEEEE---EC---SCHHHHHHHHHHHHHHHHHTTCBCCS
T ss_pred CCCCCCcHHHHHHHHHHHHHHH-HhhC----CCcEEEEEecceEEe---cC---CCHHHHHHHHHHHHHHHHHcCCccCH
Confidence 6677888888876666554222 1110 011244578888773 22 12336777788888899999999999
Q ss_pred ccce
Q psy13898 128 EKSE 131 (185)
Q Consensus 128 ~KTK 131 (185)
+||.
T Consensus 219 ~K~~ 222 (555)
T 1mu2_A 219 EKFQ 222 (555)
T ss_dssp TTEE
T ss_pred HHhc
Confidence 9984
No 6
>3kyl_A Telomerase reverse transcriptase; reverse transcriptase; 2.70A {Tribolium castaneum} PDB: 3du5_A 3du6_A
Probab=57.61 E-value=2.6 Score=39.11 Aligned_cols=70 Identities=9% Similarity=0.009 Sum_probs=39.2
Q ss_pred EeccC-CCCCcccchhhHHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhhcCCCCCCCCCCCCCchhhhhHHHHHHHHHhh
Q psy13898 42 TIQKT-NAGPLTQAKFIFDDHIRCMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWVTVANE 120 (185)
Q Consensus 42 ~i~~~-~~~~~~~a~f~F~d~i~c~~akq~l~~gr~~~r~~k~~~~a~~l~i~~~~s~~~~s~~~~Lq~~l~~L~~~s~~ 120 (185)
+++|| .-+|+|..-|+ .+..-.. ...+. +...+.|+|||..+.. ++.+ +.++.++. ...
T Consensus 305 GTPQGGVISPLLANIYL--heLDkel-~~~l~------kd~~LVRYADDFVIi~---~Ske----~Aerfl~~----Lkg 364 (596)
T 3kyl_A 305 GLLQGDPLSGCLCELYM--AFMDRLY-FSNLD------KDAFIHRTVDDYFFCS---PHPH----KVYDFELL----IKG 364 (596)
T ss_dssp SSCBTCTTHHHHHHHHH--HHHHHHH-STTSC------TTSEEEECSSEEEEEE---SCHH----HHHHHHHH----HHH
T ss_pred cccCCcchhHHHHHHHH--HHHHHHH-HHhhc------cCceEEEEcCcEEEEE---CCHH----HHHHHHHH----hhC
Confidence 45554 36677777765 2222110 01111 1346899999998842 2222 44444443 445
Q ss_pred hCCccCccccee
Q psy13898 121 YGLKFSAEKSEV 132 (185)
Q Consensus 121 ~GL~IN~~KTKv 132 (185)
++ ++|++||++
T Consensus 365 ~l-eLNpEKTrI 375 (596)
T 3kyl_A 365 VY-QVNPTKTRT 375 (596)
T ss_dssp HS-CEEEEEEEE
T ss_pred cc-eECchhcee
Confidence 54 999999996
No 7
>1go4_E MAD1 (mitotic arrest deficient)-like 1; mitotic spindle checkpoint, cell cycle, mitosis, nuclear Pro; 2.05A {Homo sapiens} SCOP: h.1.22.1
Probab=37.76 E-value=29 Score=24.92 Aligned_cols=33 Identities=9% Similarity=0.180 Sum_probs=24.9
Q ss_pred hhhhHHHHHHHHHhhhCC--ccCcccceeeecccc
Q psy13898 106 TLRGQINEWVTVANEYGL--KFSAEKSEVVVLKCE 138 (185)
Q Consensus 106 ~Lq~~l~~L~~~s~~~GL--~IN~~KTKvM~~~~~ 138 (185)
.|.+..+.|+.+....-| .+|++||||+++...
T Consensus 30 rLr~~~~~LE~~Le~~~l~Gd~~~~~TKVlH~~~N 64 (100)
T 1go4_E 30 RLEEEKRMLEAQLERRALQGDYDQSRTKVLHMSLN 64 (100)
T ss_dssp HHHHHHHHHHHHHHHSSCCSCCCTTTEEEEEESSC
T ss_pred HHHHHHHHHHHHHHHHhhccccCCccCeeeeecCC
Confidence 466667777777766555 789999999997653
No 8
>2c5m_A CTP synthase; cytidine 5-prime triphosphate synthetase, CTP synthetase, UTP, glutamine, amidotransferase, ligase, phosphorylation; 2.80A {Homo sapiens} PDB: 2vo1_A 3ihl_A*
Probab=22.44 E-value=28 Score=29.50 Aligned_cols=32 Identities=16% Similarity=0.262 Sum_probs=25.1
Q ss_pred ccccceeEeecceecCCCCCHHHHHHHHHhhh
Q psy13898 152 LKQVDHFKYLGSIISEDGTIDKEINRRIQQGS 183 (185)
Q Consensus 152 le~Ve~FkYLGs~Is~d~~~~~eI~~RI~~A~ 183 (185)
|++=..=.|||.+++-=--.++||++||..+.
T Consensus 120 I~KERrGdYLGkTVQVIPHiTdeIk~~I~~~a 151 (294)
T 2c5m_A 120 INKERKGDYLGKTVQVVPHITDAIQEWVMRQA 151 (294)
T ss_dssp HHHHHTSCSCSSCCCTTTHHHHHHHHHHHHHT
T ss_pred HHHHhcCCcCCceeEEcCCchHHHHHHHHHHh
Confidence 33334446999999988888999999998865
No 9
>1kny_A Kntase, kanamycin nucleotidyltransferase; antibiotic resistance, plasmid; HET: APC KAN; 2.50A {Staphylococcus aureus} SCOP: a.24.16.1 d.218.1.1 PDB: 1kan_A
Probab=20.18 E-value=59 Score=26.11 Aligned_cols=23 Identities=17% Similarity=0.085 Sum_probs=18.8
Q ss_pred hhhHHHHHHHHHhhhCCccCccc
Q psy13898 107 LRGQINEWVTVANEYGLKFSAEK 129 (185)
Q Consensus 107 Lq~~l~~L~~~s~~~GL~IN~~K 129 (185)
+++..+.+.+||++.|+.+|.+|
T Consensus 227 ~~~~~~~~~~w~~~~~~~~~~~~ 249 (253)
T 1kny_A 227 LENFWNGIQEWTERHGYIVDVSK 249 (253)
T ss_dssp HHHHHHHHHHHHHHHTCCCCCCC
T ss_pred HHHHHHHHHHHHHHcCEEeehhc
Confidence 44666778999999999998766
No 10
>2al3_A TUG long isoform; TUG UBL1 insulin, endocytosis/exocytosis complex; NMR {Mus musculus} SCOP: d.15.1.2
Probab=19.48 E-value=49 Score=23.21 Aligned_cols=23 Identities=0% Similarity=-0.009 Sum_probs=16.5
Q ss_pred hHHHHHHHHHhhhCCccCcccceee
Q psy13898 109 GQINEWVTVANEYGLKFSAEKSEVV 133 (185)
Q Consensus 109 ~~l~~L~~~s~~~GL~IN~~KTKvM 133 (185)
.+.+-|+++|+++|+ |+++-...
T Consensus 31 ~L~~VL~eaC~K~gl--~~~~~~Lk 53 (90)
T 2al3_A 31 VLLQVLEDTCRRQDF--NPSEYDLK 53 (90)
T ss_dssp BHHHHHHHHHHHTTC--CGGGCEEE
T ss_pred CHHHHHHHHHHHhCC--ChhhCeEE
Confidence 455668899999999 56655443
Done!