Query 041854
Match_columns 144
No_of_seqs 28 out of 30
Neff 2.6
Searched_HMMs 29240
Date Mon Mar 25 19:36:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041854.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/041854hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1yd0_A Uvrabc system protein C 96.4 0.0013 4.3E-08 46.8 2.2 38 52-104 9-46 (96)
2 1yd6_A UVRC; DNA binding prote 96.4 0.0017 5.9E-08 46.2 2.8 40 52-105 9-48 (99)
3 2wsh_A Endonuclease II; GIY-YI 96.0 0.0043 1.5E-07 47.8 3.4 40 52-104 31-71 (143)
4 1mk0_A Intron-associated endon 61.4 3 0.0001 28.4 1.2 19 86-104 16-34 (97)
5 1irz_A ARR10-B; helix-turn-hel 38.2 13 0.00043 24.9 1.4 12 90-101 45-56 (64)
6 2xpn_B SPT6, chromatin structu 30.7 6.6 0.00023 22.8 -0.9 14 115-128 1-14 (26)
7 2dlw_A Docking protein 2, isof 20.8 11 0.00039 27.4 -1.4 23 97-119 58-84 (113)
8 2ns5_A Partitioning-defective 17.9 39 0.0013 23.7 0.9 13 72-84 55-67 (85)
9 3oiy_A Reverse gyrase helicase 17.4 94 0.0032 24.2 3.1 23 84-106 323-347 (414)
10 2bep_A Ubiquitin-conjugating e 17.1 66 0.0023 23.3 2.0 15 22-36 37-52 (159)
No 1
>1yd0_A Uvrabc system protein C; DNA binding protein; 1.50A {Thermotoga maritima} PDB: 1ycz_A 1yd1_A 1yd4_A 1yd3_A 1yd2_A 1yd5_A
Probab=96.45 E-value=0.0013 Score=46.83 Aligned_cols=38 Identities=32% Similarity=0.611 Sum_probs=28.9
Q ss_pred eecCCCCCCCceeeeceecccCCCCCCCCCCeEEEeccchhhHHHHHHhhCCC
Q 041854 52 VHNLPSTSGPGVYELGIVASRSRTDRIDSDDVVVVYLGQADSVRTRLQCYGRS 104 (144)
Q Consensus 52 v~NLP~~s~pGlYELGV~~~~~~~g~l~~~dVvvVYlGqaenVR~RLq~YGr~ 104 (144)
+.+||. .||+|-.= + +=-++|+|+|.|+|+|+.+|=+.
T Consensus 9 l~~lP~--~pGVY~~~-----------d--~g~vlYVGKAknLr~Rv~syf~~ 46 (96)
T 1yd0_A 9 ILLAPE--EPGVYIFK-----------N--KGVPIYIGKAKRLSNRLRSYLNP 46 (96)
T ss_dssp HHHCCS--SCEEEEEE-----------E--TTEEEEEEEESSHHHHHHGGGSC
T ss_pred HHhCCC--CCeEEEEE-----------C--CCeEEEEecCcCHHHHHHHHccC
Confidence 566776 59999761 1 12379999999999999999554
No 2
>1yd6_A UVRC; DNA binding protein; 2.00A {Bacillus caldotenax}
Probab=96.41 E-value=0.0017 Score=46.25 Aligned_cols=40 Identities=33% Similarity=0.661 Sum_probs=29.8
Q ss_pred eecCCCCCCCceeeeceecccCCCCCCCCCCeEEEeccchhhHHHHHHhhCCCC
Q 041854 52 VHNLPSTSGPGVYELGIVASRSRTDRIDSDDVVVVYLGQADSVRTRLQCYGRSG 105 (144)
Q Consensus 52 v~NLP~~s~pGlYELGV~~~~~~~g~l~~~dVvvVYlGqaenVR~RLq~YGr~G 105 (144)
+.+||. .||+|-.= +.++ -|+|+|+|.|+|+|+.+|=+..
T Consensus 9 l~~lP~--~pGVY~~~-----------d~~g-~vlYVGKAknLr~Rv~syf~~~ 48 (99)
T 1yd6_A 9 LAVLPE--QPGCYLMK-----------DKHG-TVIYVGKAKSLKERVRSYFTGT 48 (99)
T ss_dssp HHTCCS--SCEEEEEE-----------CSSC-CEEEEEEESCHHHHHHGGGSSC
T ss_pred HHhCCC--CCeEEEEE-----------cCCC-CEEEEecCcCHHHHHHHHcccC
Confidence 567776 58999761 1122 3799999999999999996543
No 3
>2wsh_A Endonuclease II; GIY-YIG, hydrolase; 1.90A {Enterobacteria phage T4}
Probab=96.04 E-value=0.0043 Score=47.82 Aligned_cols=40 Identities=20% Similarity=0.545 Sum_probs=31.1
Q ss_pred eecCCCCCC-CceeeeceecccCCCCCCCCCCeEEEeccchhhHHHHHHhhCCC
Q 041854 52 VHNLPSTSG-PGVYELGIVASRSRTDRIDSDDVVVVYLGQADSVRTRLQCYGRS 104 (144)
Q Consensus 52 v~NLP~~s~-pGlYELGV~~~~~~~g~l~~~dVvvVYlGqaenVR~RLq~YGr~ 104 (144)
+..||...+ ||+|-.= . +=-|+|+|+|.|+|+|+.+|-+.
T Consensus 31 l~~lp~~pG~~GVY~~~-~------------~g~ViYVGKAknLkkRv~sYf~~ 71 (143)
T 2wsh_A 31 IKQLSIPNKYNVIYAIA-I------------NDELVYIGKTKNLRKRINYYRTA 71 (143)
T ss_dssp BCCCCCCCCCSEEEEEE-E------------TTEEEEEEEESCHHHHHHHHHHH
T ss_pred cccCcCCCCCceEEEEE-c------------CCeEEEEEecccHhHHHHHhcCC
Confidence 667888655 7799553 1 33579999999999999999665
No 4
>1mk0_A Intron-associated endonuclease 1; alpha/beta fold, catalytic domain, DNA-binding surface, hydrolase; HET: CIT; 1.60A {Enterobacteria phage T4} SCOP: d.226.1.1 PDB: 1ln0_A
Probab=61.44 E-value=3 Score=28.36 Aligned_cols=19 Identities=26% Similarity=0.403 Sum_probs=16.8
Q ss_pred EeccchhhHHHHHHhhCCC
Q 041854 86 VYLGQADSVRTRLQCYGRS 104 (144)
Q Consensus 86 VYlGqaenVR~RLq~YGr~ 104 (144)
+|+|++.|+..|+.+|=..
T Consensus 16 ~YIGst~~l~~R~~~~~~~ 34 (97)
T 1mk0_A 16 VYVGSAKDFEKRWKRHFKD 34 (97)
T ss_dssp EEEEEESSHHHHHHHHHHH
T ss_pred EEEEecCCHHHHHHHHHHH
Confidence 8999999999999998543
No 5
>1irz_A ARR10-B; helix-turn-helix, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: a.4.1.11
Probab=38.24 E-value=13 Score=24.94 Aligned_cols=12 Identities=25% Similarity=0.470 Sum_probs=10.6
Q ss_pred chhhHHHHHHhh
Q 041854 90 QADSVRTRLQCY 101 (144)
Q Consensus 90 qaenVR~RLq~Y 101 (144)
-.++|+++||.|
T Consensus 45 T~~~VkSHLQKY 56 (64)
T 1irz_A 45 TRENVASHLQKF 56 (64)
T ss_dssp CHHHHHHHHHHH
T ss_pred CHHHHHHHHHHH
Confidence 368999999998
No 6
>2xpn_B SPT6, chromatin structure modulator; transcription, elongation, histone chaperone, RNA polymerase mRNA export; 1.95A {Encephalitozoon cuniculi} PDB: 2xpo_B
Probab=30.66 E-value=6.6 Score=22.81 Aligned_cols=14 Identities=36% Similarity=0.532 Sum_probs=11.6
Q ss_pred CCCchHHHhhccce
Q 041854 115 GSGCFDDIFSRRHA 128 (144)
Q Consensus 115 g~~LF~eiFs~g~s 128 (144)
|++||-|||.-|-.
T Consensus 1 g~slFyEIFGtG~E 14 (26)
T 2xpn_B 1 GSHMFFEIFGTGEE 14 (26)
T ss_pred CCcEEEEEecCCce
Confidence 57899999988854
No 7
>2dlw_A Docking protein 2, isoform A; IRS domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=20.78 E-value=11 Score=27.36 Aligned_cols=23 Identities=26% Similarity=0.453 Sum_probs=16.8
Q ss_pred HHHhhCCCCCCCCC----CCCCCCCch
Q 041854 97 RLQCYGRSGAHLNN----NPSNGSGCF 119 (144)
Q Consensus 97 RLq~YGr~GaHL~~----~~~~g~~LF 119 (144)
-|++||+....+-. .+.+|+|+|
T Consensus 58 ~LRryG~d~~~FsfEaGRrC~tGeG~f 84 (113)
T 2dlw_A 58 FLRRFGRDKVTFSFEAGRRCVSGEGNF 84 (113)
T ss_dssp GCCCEEEETTEEEEEECSSCSSCSEEE
T ss_pred HhhhcCccCCEEEEEecCCCCCCCCEE
Confidence 38899998755433 567888887
No 8
>2ns5_A Partitioning-defective 3 homolog; cell polarity, N-terminal domain, PB1 domain, asymmetric membrane localization, signaling protein; NMR {Rattus norvegicus}
Probab=17.86 E-value=39 Score=23.74 Aligned_cols=13 Identities=23% Similarity=0.437 Sum_probs=9.5
Q ss_pred cCCCCCCCCCCeE
Q 041854 72 RSRTDRIDSDDVV 84 (144)
Q Consensus 72 ~~~~g~l~~~dVv 84 (144)
.++.|.|+|||++
T Consensus 55 ~~~ggiLD~DD~l 67 (85)
T 2ns5_A 55 HGDGGILDLDDIL 67 (85)
T ss_dssp CSSSCEECTTSCH
T ss_pred eCCCcEeCcccch
Confidence 4567789999854
No 9
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling, archaea, isomeras; 2.35A {Thermotoga maritima} PDB: 3p4y_A 3p4x_A*
Probab=17.44 E-value=94 Score=24.16 Aligned_cols=23 Identities=35% Similarity=0.525 Sum_probs=18.3
Q ss_pred EEEeccch--hhHHHHHHhhCCCCC
Q 041854 84 VVVYLGQA--DSVRTRLQCYGRSGA 106 (144)
Q Consensus 84 vvVYlGqa--enVR~RLq~YGr~Ga 106 (144)
.||..+-+ .++.+=+|+-||+|=
T Consensus 323 ~VI~~~~p~~~~~~~y~qr~GR~gR 347 (414)
T 3oiy_A 323 YVIFWGTPSGPDVYTYIQASGRSSR 347 (414)
T ss_dssp EEEEESCCTTTCHHHHHHHHGGGCC
T ss_pred EEEEECCCCCCCHHHHHHHhCcccc
Confidence 45566778 889999999999874
No 10
>2bep_A Ubiquitin-conjugating enzyme E2-25 kDa; ligase, E2 conjugating enzyme, protein degradatio structural proteomics in europe, spine; 1.8A {Bos taurus} SCOP: d.20.1.1 PDB: 2bf8_A
Probab=17.12 E-value=66 Score=23.32 Aligned_cols=15 Identities=27% Similarity=0.565 Sum_probs=10.2
Q ss_pred CCCccCceEee-cCCC
Q 041854 22 DAHFSKWKILV-GASD 36 (144)
Q Consensus 22 D~~FS~WkILi-gpsD 36 (144)
|.....|+++| ||.|
T Consensus 37 ~~~l~~w~~~i~Gp~~ 52 (159)
T 2bep_A 37 DENFTELRGEIAGPPD 52 (159)
T ss_dssp SSSSSEEEEEEECCTT
T ss_pred CCchheEEEEEECCCC
Confidence 34577899765 8854
Done!