Query 044732
Match_columns 250
No_of_seqs 172 out of 1093
Neff 7.6
Searched_HMMs 29240
Date Mon Mar 25 10:34:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044732.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/044732hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1vs3_A TRNA pseudouridine synt 100.0 5E-55 1.7E-59 378.8 18.6 188 1-241 61-248 (249)
2 1dj0_A Pseudouridine synthase 100.0 7.7E-55 2.6E-59 380.4 19.5 186 1-241 63-248 (264)
3 3pf6_A Hypothetical protein PP 19.6 62 0.0021 20.4 2.0 25 109-133 17-42 (62)
4 2dwv_A Salvador homolog 1 prot 15.4 71 0.0024 19.5 1.6 18 34-51 12-29 (49)
5 2yy3_A Elongation factor 1-bet 13.4 2.5E+02 0.0086 19.5 4.2 35 8-42 16-50 (91)
6 1zrv_A Spinigerin; helical pep 11.8 1E+02 0.0035 15.9 1.2 11 185-195 10-20 (26)
7 2yse_A Membrane-associated gua 10.8 1.1E+02 0.0036 19.7 1.4 17 35-51 13-29 (60)
8 3pt8_B Hemoglobin III; oxygen 10.3 2.6E+02 0.0088 20.5 3.8 37 181-217 57-93 (152)
9 2jv4_A Peptidyl-prolyl CIS/tra 9.8 3.5E+02 0.012 16.7 3.6 23 35-57 7-30 (54)
10 2h7b_A Core-binding factor, ML 9.5 3.3E+02 0.011 19.5 3.7 27 189-218 29-55 (105)
No 1
>1vs3_A TRNA pseudouridine synthase A; TRUA, tRNA modification, structural NPPSFA, national project on protein structural and function analyses; 2.25A {Thermus thermophilus}
Probab=100.00 E-value=5e-55 Score=378.85 Aligned_cols=188 Identities=22% Similarity=0.357 Sum_probs=162.4
Q ss_pred CeEEecCCCCCChhHHHHHHHhhCCCCeEEEEEEecCCCCcccccCCceeEEEEeecCCCCCCccccchhhhhhcccccc
Q 044732 1 MIILDTWRKDVKPSDIEDAINSAAPGKIRVISVSQVSRVFHPNFSAKWRRYLYIFPLNDGENREQSIDSEVEVENFHTSN 80 (250)
Q Consensus 1 ~~~f~~~~~~~~~~~l~~~lN~~LP~dIrV~~~~~V~~~FhAR~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (250)
||||++ +..++++.|..+||+.||+||+|+++.+|+++|||||+|++|+|+|+|+++. .++| |...
T Consensus 61 v~~f~~-~~~~~~~~~~~~lN~~LP~dI~V~~~~~v~~~FhARf~a~~R~Y~Y~i~~~~--~~~~------~~~~----- 126 (249)
T 1vs3_A 61 PFHVDV-ESAIPVEKVPEALNRLLPEDLKVVGAREVAPDFHARKDALWRAYRYRILVRP--HPSP------LLRH----- 126 (249)
T ss_dssp EEEEEE-CSCCCGGGHHHHHHHHSCTTEEEEEEEEECTTCCTTTTCSEEEEEEEEEECS--SCCT------TTTT-----
T ss_pred EEEEEE-CCCCCHHHHHHHHHhcCCcCEEEEEEEECCCCCCcccccccEEEEEEEccCC--CCCh------hhCC-----
Confidence 699999 6789999999999999999999999999999999999999999999999876 4332 2233
Q ss_pred ccCccCCCccccccccccccCCCCccccCCCCCCHHHHHHHHHhccccccccccccccccccccCCCCceeEEEeeeeec
Q 044732 81 NVGKQSNGCYENIENLLINDEGGFGSHEKPRNFTICRVNLLLQRLEGKLLSYKTFARDTKASRNIGPPTECFIYHARATE 160 (250)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~di~~m~~a~~~f~GtH~dF~~F~~~~~~~~~~~~~~~r~i~~~~~~v 160 (250)
++|+.+.++|+++|++||+.|+||| ||+|||+.. . +++.|+|.++....
T Consensus 127 ------------------------~~~~~~~~ldi~~m~~aa~~l~G~H-DF~~F~~~~----~--~~~vR~I~~~~v~~ 175 (249)
T 1vs3_A 127 ------------------------RALWVRRPLDLEAMEEALSLLLGRH-NFLGFAKEE----T--RPGERELLEARLQV 175 (249)
T ss_dssp ------------------------TSEEECSCCCHHHHHHHHHHHSEEE-EGGGGCSSC----C--SCCEEEEEEEEEEE
T ss_pred ------------------------eeEEeCCCCCHHHHHHHHHHhcCce-eHHheecCC----C--CCCCcEEEEEEEEe
Confidence 3566677899999999999999999 999999742 1 56777777654321
Q ss_pred cccCCCcccCCCCceEEEEEEEcchHHHHhHHHHHHHHHHHHhCCCCHHHHHHHHHccCcCCCCCCCCCCCeeeeeecCC
Q 044732 161 AILPCPVNDHGEGRKVMCVELVANRFLRKMVRVLVATLVREAAAGADEDALLKLMDATCRRATAPPAPPEGLCLVDVGYT 240 (250)
Q Consensus 161 r~i~~~~~~~~~~~~~i~~~i~G~sFL~~qVR~mVG~lv~vg~g~~~~~~i~~~L~~~~r~~~~~~APa~GL~L~~V~Y~ 240 (250)
. ...+ ++++.|+|+|+||||||||+|||+|++||+|++++++|+++|++++|..++++|||+||||++|.|+
T Consensus 176 --~-----~~~~-~~~i~~~i~g~~FL~~mVR~mvG~l~~vg~g~~~~~~i~~~L~~~~r~~~~~~APa~GL~L~~v~Y~ 247 (249)
T 1vs3_A 176 --A-----EGEA-GLEVRLYFRGKSFLRGQVRGMVGTLLEVGLGKRPPESLKAILKTADRRLAGPTAPAHGLYFVEAAYP 247 (249)
T ss_dssp --E-----ECSS-SEEEEEEEEESCCCTTHHHHHHHHHHHHHHSSSCGGGHHHHHHHCCGGGSCCCCCGGGEEEEEEECC
T ss_pred --c-----cccC-CCEEEEEEEEChHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHhCCCcccCcCccCCCCcEEeeeeCC
Confidence 0 0023 3799999999999999999999999999999999999999999999989999999999999999996
Q ss_pred C
Q 044732 241 N 241 (250)
Q Consensus 241 ~ 241 (250)
+
T Consensus 248 ~ 248 (249)
T 1vs3_A 248 E 248 (249)
T ss_dssp C
T ss_pred C
Confidence 4
No 2
>1dj0_A Pseudouridine synthase I; alpha/beta fold, RNA-binding motif, RNA-modifying enzyme, lyase; 1.50A {Escherichia coli} SCOP: d.265.1.1 PDB: 2nqp_A 2nr0_A 2nre_A
Probab=100.00 E-value=7.7e-55 Score=380.43 Aligned_cols=186 Identities=27% Similarity=0.335 Sum_probs=162.3
Q ss_pred CeEEecCCCCCChhHHHHHHHhhCCCCeEEEEEEecCCCCcccccCCceeEEEEeecCCCCCCccccchhhhhhcccccc
Q 044732 1 MIILDTWRKDVKPSDIEDAINSAAPGKIRVISVSQVSRVFHPNFSAKWRRYLYIFPLNDGENREQSIDSEVEVENFHTSN 80 (250)
Q Consensus 1 ~~~f~~~~~~~~~~~l~~~lN~~LP~dIrV~~~~~V~~~FhAR~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (250)
||||++ +..++++.|..+||+.||+||+|+++++|+++|||||+|++|+|+|+|+++. .++| |...
T Consensus 63 v~~f~~-~~~~~~~~~~~~lN~~LP~dI~V~~~~~V~~~FhARf~a~~R~Y~Y~i~~~~--~~~~------~~~~----- 128 (264)
T 1dj0_A 63 VVHFET-TALRKDAAWTLGVNANLPGDIAVRWVKTVPDDFHARFSATARRYRYIIYNHR--LRPA------VLSK----- 128 (264)
T ss_dssp EEEEEE-SCCCCHHHHHHHHHHTSCTTEEEEEEEECCTTCCTTTTCCEEEEEEEEECSS--SCCC------TTTT-----
T ss_pred EEEEEE-CCCCCHHHHHHHHHhhCCcCeEEEEEEeCCCCCCcccccccEEEEEEEccCC--CCCh------hHcC-----
Confidence 799999 6789999999999999999999999999999999999999999999999876 4332 2222
Q ss_pred ccCccCCCccccccccccccCCCCccccCCCCCCHHHHHHHHHhccccccccccccccccccccCCCCceeEEEeeeeec
Q 044732 81 NVGKQSNGCYENIENLLINDEGGFGSHEKPRNFTICRVNLLLQRLEGKLLSYKTFARDTKASRNIGPPTECFIYHARATE 160 (250)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~di~~m~~a~~~f~GtH~dF~~F~~~~~~~~~~~~~~~r~i~~~~~~v 160 (250)
++|+...++|+++|++||+.|+||| ||+|||+. +.+.+++.|+|.++...
T Consensus 129 ------------------------~~~~~~~~lD~~~M~~aa~~l~G~H-DF~~F~~~----~~~~~s~vR~I~~~~v~- 178 (264)
T 1dj0_A 129 ------------------------GVTHFYEPLDAERMHRAAQCLLGEN-DFTSFRAV----QCQSRTPWRNVMHINVT- 178 (264)
T ss_dssp ------------------------SSEECCSCCCHHHHHHHHGGGCEEE-ECGGGCCT----TCCCSCCEEEEEEEEEE-
T ss_pred ------------------------ceEeeCCCCCHHHHHHHHHHhcCcc-cHHHhccC----CCCCCCcEEEEEEEEEE-
Confidence 4566778899999999999999999 99999974 22345567777665432
Q ss_pred cccCCCcccCCCCceEEEEEEEcchHHHHhHHHHHHHHHHHHhCCCCHHHHHHHHHccCcCCCCCCCCCCCeeeeeecCC
Q 044732 161 AILPCPVNDHGEGRKVMCVELVANRFLRKMVRVLVATLVREAAAGADEDALLKLMDATCRRATAPPAPPEGLCLVDVGYT 240 (250)
Q Consensus 161 r~i~~~~~~~~~~~~~i~~~i~G~sFL~~qVR~mVG~lv~vg~g~~~~~~i~~~L~~~~r~~~~~~APa~GL~L~~V~Y~ 240 (250)
+.++++.|+|+|+||||||||+|||+|++||+|++++++|.++|++++|..++++|||+||||++|.|+
T Consensus 179 -----------~~~~~i~~~i~g~~FL~~mVR~mvG~L~~vG~G~~~~~~i~~~L~~~~r~~~~~~APa~GL~L~~V~Y~ 247 (264)
T 1dj0_A 179 -----------RHGPYVVVDIKANAFVHHMVRNIVGSLMEVGAHNQPESWIAELLAAKDRTLAAATAKAEGLYLVAVDYP 247 (264)
T ss_dssp -----------EETTEEEEEEEESCCCTTHHHHHHHHHHHHHTTSSCTTHHHHHHHHCCGGGSCCCCCSTTEEEEEEECC
T ss_pred -----------ECCCEEEEEEEEchHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHhCCCcccCcCccCCCCcEEeeeccC
Confidence 123689999999999999999999999999999999999999999999999999999999999999997
Q ss_pred C
Q 044732 241 N 241 (250)
Q Consensus 241 ~ 241 (250)
+
T Consensus 248 ~ 248 (264)
T 1dj0_A 248 D 248 (264)
T ss_dssp G
T ss_pred c
Confidence 4
No 3
>3pf6_A Hypothetical protein PP-LUZ7_GP033; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; HET: MSE; 1.60A {Pseudomonas phage LUZ7}
Probab=19.57 E-value=62 Score=20.39 Aligned_cols=25 Identities=8% Similarity=-0.073 Sum_probs=15.8
Q ss_pred CCCCCCHHHHHHHHHhccc-cccccc
Q 044732 109 KPRNFTICRVNLLLQRLEG-KLLSYK 133 (250)
Q Consensus 109 ~~~~~di~~m~~a~~~f~G-tH~dF~ 133 (250)
..++-.-+++.+|--.|-| +||||-
T Consensus 17 pth~s~k~aleear~l~pggshhdfm 42 (62)
T 3pf6_A 17 PTHPSTKDALEEARLLFPGGTHHDFM 42 (62)
T ss_dssp CCCSSHHHHHHHHHHHSCSSCHHHHH
T ss_pred CCCccHHHHHHHHHHhCCCCchHHHH
Confidence 3444445778887777765 776763
No 4
>2dwv_A Salvador homolog 1 protein; WW domain, dimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}
Probab=15.40 E-value=71 Score=19.53 Aligned_cols=18 Identities=11% Similarity=0.167 Sum_probs=15.0
Q ss_pred EecCCCCcccccCCceeE
Q 044732 34 SQVSRVFHPNFSAKWRRY 51 (250)
Q Consensus 34 ~~V~~~FhAR~~a~~R~Y 51 (250)
...|.++-.|++...|.|
T Consensus 12 ~~LP~GWe~~~d~~g~~Y 29 (49)
T 2dwv_A 12 EGLPPGWERVESSEFGTY 29 (49)
T ss_dssp SCCCTTEEEEEETTTEEE
T ss_pred CCCCcCcEEEECCCCCEE
Confidence 357888999999999977
No 5
>2yy3_A Elongation factor 1-beta; structural genomics, NPPSFA, national Pro protein structural and functional analyses; 2.50A {Pyrococcus horikoshii}
Probab=13.39 E-value=2.5e+02 Score=19.52 Aligned_cols=35 Identities=20% Similarity=0.331 Sum_probs=31.0
Q ss_pred CCCCChhHHHHHHHhhCCCCeEEEEEEecCCCCcc
Q 044732 8 RKDVKPSDIEDAINSAAPGKIRVISVSQVSRVFHP 42 (250)
Q Consensus 8 ~~~~~~~~l~~~lN~~LP~dIrV~~~~~V~~~FhA 42 (250)
..+.+.+.+...+-+.+|+...+-+...+|=.|=-
T Consensus 16 d~etDl~~L~~~vk~~~~~gl~w~~~k~~pIafGl 50 (91)
T 2yy3_A 16 DPDVNLDELEEKLKKVIPEKYGLAKVEREPIAFGL 50 (91)
T ss_dssp STTSCHHHHHHHHHHHSCTTCEEEEEEEEECTTSC
T ss_pred CCCCCHHHHHHHHHHhccCCcEEeeeeEEEEEcce
Confidence 44678999999999999999999999999998843
No 6
>1zrv_A Spinigerin; helical peptide in TFE, antimicrobial protein, antibiotic; NMR {Synthetic} PDB: 1zrw_A
Probab=11.79 E-value=1e+02 Score=15.90 Aligned_cols=11 Identities=27% Similarity=0.437 Sum_probs=8.2
Q ss_pred hHHHHhHHHHH
Q 044732 185 RFLRKMVRVLV 195 (250)
Q Consensus 185 sFL~~qVR~mV 195 (250)
-.|.+|.|+|-
T Consensus 10 vlllkqlrimr 20 (26)
T 1zrv_A 10 VLLLKQLRIMR 20 (26)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 35788999883
No 7
>2yse_A Membrane-associated guanylate kinase, WW and PDZ domain-containing protein 1; MAGI-1, WW domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=10.77 E-value=1.1e+02 Score=19.72 Aligned_cols=17 Identities=6% Similarity=0.087 Sum_probs=14.4
Q ss_pred ecCCCCcccccCCceeE
Q 044732 35 QVSRVFHPNFSAKWRRY 51 (250)
Q Consensus 35 ~V~~~FhAR~~a~~R~Y 51 (250)
..|.++-.|++...|.|
T Consensus 13 ~LP~GWE~~~d~~Gr~Y 29 (60)
T 2yse_A 13 ELPAGWEKIEDPVYGIY 29 (60)
T ss_dssp SCCSSEEEEECSSSCEE
T ss_pred CCCCCcEEEECCCCCEE
Confidence 46888999999999988
No 8
>3pt8_B Hemoglobin III; oxygen carrier, oxygen transport; HET: HEM; 1.76A {Lucina pectinata} PDB: 3pt7_B*
Probab=10.31 E-value=2.6e+02 Score=20.52 Aligned_cols=37 Identities=11% Similarity=0.158 Sum_probs=29.8
Q ss_pred EEcchHHHHhHHHHHHHHHHHHhCCCCHHHHHHHHHc
Q 044732 181 LVANRFLRKMVRVLVATLVREAAAGADEDALLKLMDA 217 (250)
Q Consensus 181 i~G~sFL~~qVR~mVG~lv~vg~g~~~~~~i~~~L~~ 217 (250)
+.|+.-+..|.+++++++..+..+--+++.+...|..
T Consensus 57 l~~n~~~~~h~~~v~~~l~~~v~~ldd~~~l~~~l~~ 93 (152)
T 3pt8_B 57 MTNHPTMKAQSLVFCNGMSSFVDNLDDHEVLVVLLQK 93 (152)
T ss_dssp HTTCHHHHHHHHHHHHHHHHHHTTTTCHHHHHHHHHH
T ss_pred HhcCHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence 3588889999999999999999888888766665543
No 9
>2jv4_A Peptidyl-prolyl CIS/trans isomerase; ppiase domain, WW domain group IV, rotamase; NMR {Emericella nidulans}
Probab=9.76 E-value=3.5e+02 Score=16.66 Aligned_cols=23 Identities=13% Similarity=0.052 Sum_probs=17.2
Q ss_pred ecCCCCcccccC-CceeEEEEeec
Q 044732 35 QVSRVFHPNFSA-KWRRYLYIFPL 57 (250)
Q Consensus 35 ~V~~~FhAR~~a-~~R~Y~Y~i~~ 57 (250)
.+|.++..|++. ..|.|=|-..+
T Consensus 7 ~LP~GW~~~~~~~~Gr~YY~N~~T 30 (54)
T 2jv4_A 7 GLPAGWEVRHSNSKNLPYYFNPAT 30 (54)
T ss_dssp CCCSSCCEEECSSSSCEEEEETTT
T ss_pred CCCCCcEEEEECCCCCEEEEECCC
Confidence 478899999986 78887665543
No 10
>2h7b_A Core-binding factor, ML1-ETO; helix bundle, transcription; NMR {Homo sapiens} SCOP: a.277.1.1 PDB: 2pp4_A 2knh_A
Probab=9.50 E-value=3.3e+02 Score=19.54 Aligned_cols=27 Identities=22% Similarity=0.268 Sum_probs=20.4
Q ss_pred HhHHHHHHHHHHHHhCCCCHHHHHHHHHcc
Q 044732 189 KMVRVLVATLVREAAAGADEDALLKLMDAT 218 (250)
Q Consensus 189 ~qVR~mVG~lv~vg~g~~~~~~i~~~L~~~ 218 (250)
.-||.+|-.|++ |+++++++..-|...
T Consensus 29 ~~Vr~LVq~Ll~---~~i~~EeFt~~Lq~~ 55 (105)
T 2h7b_A 29 ERVRTLVLGLVN---STLTIEEFHSKLQEA 55 (105)
T ss_dssp HHHHHHHHHHHT---SSCCHHHHHHHHHHH
T ss_pred HHHHHHHHHHHh---CCCCHHHHHHHHHHH
Confidence 347777766664 999999988888765
Done!