Query gi|254780948|ref|YP_003065361.1| DNA repair protein RecO [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 240
No_of_seqs 191 out of 1615
Neff 8.4
Searched_HMMs 23785
Date Tue May 31 22:53:21 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780948.hhm -d /home/congqian_1/database/pdb/pdb70.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1u5k_A Hypothetical protein; O 100.0 3.9E-37 1.6E-41 245.0 14.2 213 2-217 5-226 (244)
2 3feh_A Centaurin-alpha-1; stru 82.0 1.7 7.1E-05 21.2 4.5 30 146-176 32-61 (386)
3 2olm_A Nucleoporin-like protei 81.3 2.1 8.9E-05 20.6 4.8 88 136-227 13-105 (140)
4 2p57_A GTPase-activating prote 79.4 1.3 5.4E-05 22.0 3.2 82 138-223 27-111 (144)
5 2iqj_A Stromal membrane-associ 78.8 3 0.00012 19.7 5.2 64 145-212 24-89 (134)
6 3o47_A ADP-ribosylation factor 78.6 1.1 4.5E-05 22.4 2.6 82 137-222 26-109 (329)
7 3dwd_A ADP-ribosylation factor 76.3 1.3 5.6E-05 21.8 2.5 79 138-220 28-108 (147)
8 2b0o_E UPLC1; arfgap, structur 75.2 0.79 3.3E-05 23.2 1.1 40 138-178 32-71 (301)
9 2crr_A Stromal membrane-associ 73.5 3.7 0.00016 19.2 4.2 86 145-234 26-119 (141)
10 2owa_A Arfgap-like finger doma 70.8 1 4.3E-05 22.6 0.8 93 137-234 25-125 (138)
11 3k1f_M Transcription initiatio 69.1 1.8 7.7E-05 21.0 1.9 35 150-184 23-57 (197)
12 3k7a_M Transcription initiatio 64.7 1.6 6.8E-05 21.3 0.9 12 198-209 294-305 (345)
13 2crw_A ARF GAP 3, ADP-ribosyla 62.7 1.9 7.9E-05 20.9 0.9 43 137-180 18-60 (149)
14 1dl6_A Transcription factor II 36.9 9.1 0.00038 16.8 1.0 37 146-184 9-45 (58)
15 2vut_I AREA, nitrogen regulato 32.9 5.3 0.00022 18.2 -0.8 38 150-187 3-40 (43)
16 1pft_A TFIIB, PFTFIIBN; N-term 32.6 13 0.00056 15.8 1.2 34 149-184 6-39 (50)
17 1gnf_A Transcription factor GA 26.9 7.9 0.00033 17.2 -0.7 38 147-184 3-40 (46)
18 2fiy_A Protein FDHE homolog; F 26.0 20 0.00084 14.7 1.2 16 149-164 183-198 (309)
19 4gat_A Nitrogen regulatory pro 25.2 15 0.00064 15.4 0.5 45 146-190 7-51 (66)
20 3dfx_A Trans-acting T-cell-spe 22.3 13 0.00056 15.8 -0.3 43 149-191 8-50 (63)
No 1
>1u5k_A Hypothetical protein; OBD-fold, Zn-binding, recombination,replication; 2.00A {Deinococcus radiodurans R1} SCOP: b.40.4.13 g.45.1.2 PDB: 1w3s_A 2v1c_C
Probab=100.00 E-value=3.9e-37 Score=245.02 Aligned_cols=213 Identities=15% Similarity=0.150 Sum_probs=170.6
Q ss_pred CEEEEEEEEEECCCCCHHHHHHHCCCCCCEEEEEEECCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCHHHHHCCCCHHH
Q ss_conf 50001699830358802447542272128699999667675532000344314799821577765431012210142221
Q gi|254780948|r 2 YWQDDAIILGVRSYGEKNIILEVMTRQYGRHLGFVRNGQSHRMQPILQAGNLVRVNWRSRLAQNLGEFRFEVLESHCAKL 81 (240)
Q Consensus 2 ~~~d~giVL~~~~~~E~~~Iv~~~T~~~G~~~~i~rG~~~~k~~~~lq~~~~~~~~~~~k~~~~l~~~~~e~~~~~~~~~ 81 (240)
.|+++||||++++|||+|+||++||++ |+++++|||+||+|.++.+||++.+++.|..+....+...+...+.++.+..
T Consensus 5 ~~~~egiVL~~~~~~E~d~iv~l~T~~-G~i~~~akG~rksk~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~ 83 (244)
T 1u5k_A 5 TANRSGIVIRRRVTPAGDIIVTLLTPQ-GKLKAIARGGVKGPLSSSLNLFHHVGVQVYQGPHNDLASVKQAVLEGALPTL 83 (244)
T ss_dssp EEEEEEEEEEEEECTTSCEEEEEEETT-EEEEEEETTCTTSTTTTTSCTTCEEEEEEECCCC-CCEEEEEEEEEECCGGG
T ss_pred CCCCCEEEEECEECCCCCEEEEEECCC-CCEEEEECCCCCCCCCCCCCCCCCCCHHHEECCCCCEEEEEEECCCCHHHHH
T ss_conf 457727999642438746899999788-8189998067678876643776310022122278872788740224444554
Q ss_pred CCCCHHHHHHHHHHHH-HHHHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHCCCCCHHHHCCCCCCCCC
Q ss_conf 0440589999999999-996213566767899999999961223430137999999999983767661221023555662
Q gi|254780948|r 82 LSSSLFLYGLQSIVPL-FRFLPEREPCLELYDMLNIFLNCHKIPSVIGKIFVQIELMLLKNIGFGLDLTKCVVTGVTQDL 160 (240)
Q Consensus 82 ~~~~~~l~~~~~~~~l-~~~l~e~e~~~~lf~~l~~~L~~l~~~~~~~~~~~~fEl~LL~~lGf~p~L~~C~~cg~~~~l 160 (240)
.|..++.++.+++++ .+++++++|++.+|+++..+|+.++....+...++.||+++|+.+||+|++++|++||..+ .
T Consensus 84 -~d~~~~~~a~~i~El~~~~~~~~~~~~~lf~ll~~~L~~l~~~~~~~~~~~~F~lklL~~~G~~p~l~~C~~cg~~~-~ 161 (244)
T 1u5k_A 84 -AEPERYAFAHLMAEFADALFQEGEFSEQAFDLFAASLRGVAHQPDPEWVALVMSYKLLGLAGVIPQTARCARCGAPD-P 161 (244)
T ss_dssp -GSHHHHHHHHHHHHHHHHHSCTTCCCHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHTTSSSCCCCSBCTTTCCBS-C
T ss_pred -CCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCCCCCHHCCCCCC-C
T ss_conf -28999999999999999975037973899999999999971689839999999999999706385320030389968-7
Q ss_pred EEEEECCCCHHHHCCCCCCCC--HHHHHHHHHHCC------CCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf 244301210011102475320--000123455225------678998999999989999998565
Q gi|254780948|r 161 LWVSPKSGGAVCRSVGLPYAE--KMLVLPSFLWKE------EQTIDADSLKSAFQLTDYFLNKYA 217 (240)
Q Consensus 161 ~~~s~~~g~av~~~~~~~~~~--kll~lp~fL~~~------~~~~~~~~i~~~l~lt~~fL~k~~ 217 (240)
.++++..||.||..|+....- ..+.+-..+... ....+..+..+.+++...|+..|+
T Consensus 162 ~~f~~~~Gg~vC~~c~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~yl~~Hl 226 (244)
T 1u5k_A 162 EHPDPLGGQLLCSKCAALPPYPPAVLDFLRHAVRRTVRASFEQPVPSADRPALWRALEKFVTVQV 226 (244)
T ss_dssp CEECTTTSSEECTTTCSSCCCCHHHHHHHHHTTTSCHHHHHHSCCCGGGHHHHHHHHHHHHHHHS
T ss_pred CCEEHHCCEEECCCCCCCCCCCHHHHHHHHHHHHCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf 50546209777767767898999999999999806987774155999999999999999999996
No 2
>3feh_A Centaurin-alpha-1; structural genomics consortium, GAP, GTPase activation, SGC, cytoplasm, metal-binding, nucleus, phosphoprotein, polymorphism; 1.90A {Homo sapiens} PDB: 3fm8_C
Probab=81.98 E-value=1.7 Score=21.22 Aligned_cols=30 Identities=27% Similarity=0.433 Sum_probs=9.9
Q ss_pred CCHHHHCCCCCCCCCEEEEECCCCHHHHCCC
Q ss_conf 6612210235556622443012100111024
Q gi|254780948|r 146 LDLTKCVVTGVTQDLLWVSPKSGGAVCRSVG 176 (240)
Q Consensus 146 p~L~~C~~cg~~~~l~~~s~~~g~av~~~~~ 176 (240)
|.=..|+.||.. +..|.|...|..||..|+
T Consensus 32 p~N~~C~dC~~~-~p~w~s~n~g~~~C~~C~ 61 (386)
T 3feh_A 32 PGNARCADCGAP-DPDWASYTLGVFICLSCS 61 (386)
T ss_dssp GGGSBCTTTCCB-SCCEEETTTTEEECHHHH
T ss_pred CCCCCCCCCCCC-CCCEEEEECCEEECCHHH
T ss_conf 896956899888-999899507889810011
No 3
>2olm_A Nucleoporin-like protein RIP; arfgap, GTPase-activating protein, REV-interacting protein, HIV, human immunodeficiency virus, AIDS, zinc; 1.48A {Homo sapiens} PDB: 2d9l_A
Probab=81.31 E-value=2.1 Score=20.63 Aligned_cols=88 Identities=16% Similarity=0.085 Sum_probs=51.6
Q ss_pred HHHHHHHCCCCCHHHHCCCCCCCCCEEEEECCCCHHHHCCCCCCCCHHHHHHHHHHCCC-CCCCHHHHHHHHHHHHHHHH
Q ss_conf 99999837676612210235556622443012100111024753200001234552256-78998999999989999998
Q gi|254780948|r 136 LMLLKNIGFGLDLTKCVVTGVTQDLLWVSPKSGGAVCRSVGLPYAEKMLVLPSFLWKEE-QTIDADSLKSAFQLTDYFLN 214 (240)
Q Consensus 136 l~LL~~lGf~p~L~~C~~cg~~~~l~~~s~~~g~av~~~~~~~~~~kll~lp~fL~~~~-~~~~~~~i~~~l~lt~~fL~ 214 (240)
.++|+.+==.|.=..|+.||.. +..|+|...|..||..|+.-+.. |....+...-. ...+.+++ +.++-.|.=.-
T Consensus 13 ~~~L~~l~~~p~N~~CaDC~~~-~p~was~~~GvflC~~CsgiHR~--lg~~skVkSi~lD~w~~~ev-~~m~~~GN~~a 88 (140)
T 2olm_A 13 LKMLRDMTGLPHNRKCFDCDQR-GPTYVNMTVGSFVCTSCSGSLRG--LNPPHRVKSISMTTFTQQEI-EFLQKHGNEVC 88 (140)
T ss_dssp HHHHHHHHTSGGGGSCTTTCSS-CCCEEETTTTEEECHHHHHHHTT--SSSCCCEEETTTCCCCHHHH-HHHHHCHHHHH
T ss_pred HHHHHHHHCCCCCCCCCCCCCC-CCCEEEEECCEEECHHHHHHHHC--CCCCCEEEECCCCCCCHHHH-HHHHHHCCHHH
T ss_conf 9999999649891907899999-99868831684461545678754--78865576467887999999-99999853999
Q ss_pred HHHH----HHCCCCCCH
Q ss_conf 5656----628999998
Q gi|254780948|r 215 KYAL----QHNIIHCHL 227 (240)
Q Consensus 215 k~~l----~~~~~~~P~ 227 (240)
+.++ .+...+.|.
T Consensus 89 n~~~~~~~~~~~~~~p~ 105 (140)
T 2olm_A 89 KQIWLGLFDDRSSAIPD 105 (140)
T ss_dssp HHHHTTTCCTTTSCCCC
T ss_pred HHHHHHHCCCCCCCCCC
T ss_conf 99999617834588999
No 4
>2p57_A GTPase-activating protein ZNF289; zinc finger, GAP, structural genomics, structural genomics consortium, SGC, metal binding protein; 1.80A {Homo sapiens}
Probab=79.37 E-value=1.3 Score=21.98 Aligned_cols=82 Identities=16% Similarity=0.115 Sum_probs=47.6
Q ss_pred HHHHHCCCCCHHHHCCCCCCCCCEEEEECCCCHHHHCCCCCCCCHHHHHHH-HHHCCCCC--CCHHHHHHHHHHHHHHHH
Q ss_conf 999837676612210235556622443012100111024753200001234-55225678--998999999989999998
Q gi|254780948|r 138 LLKNIGFGLDLTKCVVTGVTQDLLWVSPKSGGAVCRSVGLPYAEKMLVLPS-FLWKEEQT--IDADSLKSAFQLTDYFLN 214 (240)
Q Consensus 138 LL~~lGf~p~L~~C~~cg~~~~l~~~s~~~g~av~~~~~~~~~~kll~lp~-fL~~~~~~--~~~~~i~~~l~lt~~fL~ 214 (240)
+++.+--.|.=..|+.||..+ ..|.|...|..||..|+.-+.. |.... +...-..+ .+.+++ ..++..|.=--
T Consensus 27 ~~~~L~~~p~N~~CaDCg~~~-P~was~n~GvfiC~~CsgiHR~--lg~~iS~VkSl~lDs~w~~~ev-~~l~~gGN~~a 102 (144)
T 2p57_A 27 LFKRLRAVPTNKACFDCGAKN-PSWASITYGVFLCIDCSGVHRS--LGVHLSFIRSTELDSNWNWFQL-RCMQVGGNANA 102 (144)
T ss_dssp HHHHHHHSGGGGBCTTTCCBS-CCEEEGGGTEEECHHHHHHHHH--HCTTTCCEEESSSCCCCCHHHH-HHHHHCCHHHH
T ss_pred HHHHHHHCCCCCCCCCCCCCC-CCEEEECCCEEEHHHCHHHHCC--CCCCEEEEEECCCCCCCCHHHH-HHHHHHCHHHH
T ss_conf 999997087989347698999-9868831382452116286646--8976026775367888999999-99998672999
Q ss_pred HHHHHHCCC
Q ss_conf 565662899
Q gi|254780948|r 215 KYALQHNII 223 (240)
Q Consensus 215 k~~l~~~~~ 223 (240)
+.+++.+..
T Consensus 103 n~~~e~~~~ 111 (144)
T 2p57_A 103 TAFFRQHGC 111 (144)
T ss_dssp HHHHHHTTC
T ss_pred HHHHHHCCC
T ss_conf 999997399
No 5
>2iqj_A Stromal membrane-associated protein 1-like; zinc, structural genomics, structural genomics consortium, SGC, protein transport; 1.90A {Homo sapiens}
Probab=78.76 E-value=3 Score=19.74 Aligned_cols=64 Identities=14% Similarity=0.056 Sum_probs=41.4
Q ss_pred CCCHHHHCCCCCCCCCEEEEECCCCHHHHCCCCCCCCHHHHHH-HHHHCCC-CCCCHHHHHHHHHHHHHH
Q ss_conf 7661221023555662244301210011102475320000123-4552256-789989999999899999
Q gi|254780948|r 145 GLDLTKCVVTGVTQDLLWVSPKSGGAVCRSVGLPYAEKMLVLP-SFLWKEE-QTIDADSLKSAFQLTDYF 212 (240)
Q Consensus 145 ~p~L~~C~~cg~~~~l~~~s~~~g~av~~~~~~~~~~kll~lp-~fL~~~~-~~~~~~~i~~~l~lt~~f 212 (240)
.|+=..||.||.. +..|+|...|-.||..|+.-+.. |... .+...-. ...+.+++.. ++-.|.-
T Consensus 24 ~~~N~~CaDCg~~-~p~w~s~~~GifvC~~CsgvHR~--lg~~iskVkSl~ld~w~~~~v~~-l~~~GN~ 89 (134)
T 2iqj_A 24 EEDNKFCADCQSK-GPRWASWNIGVFICIRCAGIHRN--LGVHISRVKSVNLDQWTQEQIQC-MQEMGNG 89 (134)
T ss_dssp SGGGGBCTTTCCB-SCCEEETTTTEEECHHHHHHHHH--HCTTTCCEEETTTSCCCHHHHHH-HHTCHHH
T ss_pred CCCCCCCCCCCCC-CCCEEEECCCEEECHHHHHHHHC--CCCCCCEEEECCCCCCCHHHHHH-HHHHCCH
T ss_conf 8680956889799-99979934897885647998842--68887767537867799999999-9998049
No 6
>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}
Probab=78.59 E-value=1.1 Score=22.41 Aligned_cols=82 Identities=17% Similarity=0.127 Sum_probs=41.3
Q ss_pred HHHHHHCCCCCHHHHCCCCCCCCCEEEEECCCCHHHHCCCCCCCCHHHHHH-HHHHCCCC-CCCHHHHHHHHHHHHHHHH
Q ss_conf 999983767661221023555662244301210011102475320000123-45522567-8998999999989999998
Q gi|254780948|r 137 MLLKNIGFGLDLTKCVVTGVTQDLLWVSPKSGGAVCRSVGLPYAEKMLVLP-SFLWKEEQ-TIDADSLKSAFQLTDYFLN 214 (240)
Q Consensus 137 ~LL~~lGf~p~L~~C~~cg~~~~l~~~s~~~g~av~~~~~~~~~~kll~lp-~fL~~~~~-~~~~~~i~~~l~lt~~fL~ 214 (240)
++|+.+==.|+=..|+.||..+ ..|.|...|..+|..|++-+. -|... .+...-.. ..+.+++ ..++..|.---
T Consensus 26 ~~~~~l~~~~~N~~C~dC~~~~-~~w~s~~~g~~~C~~C~g~hr--~lg~~~s~v~s~~~d~~~~~~~-~~~~~~gn~~~ 101 (329)
T 3o47_A 26 KVLKEVRVQDENNVCFECGAFN-PQWVSVTYGIWICLECSGRHR--GLGVHLSFVRSVTMDKWKDIEL-EKMKAGGNAKF 101 (329)
T ss_dssp HHHHHHHHSTTTTBCTTTCCBS-CCEEEGGGTEEECHHHHHHHH--HHCTTTCCEEESSSCCCCHHHH-HHHHHCCHHHH
T ss_pred HHHHHHHCCCCCCCCCCCCCCC-CCEEEECCCEEECHHHHHHHC--CCCCCCCEEEECCCCCCCHHHH-HHHHHCCCHHH
T ss_conf 9999996498929548898889-997994658798645427860--6899875446788898999999-99998387888
Q ss_pred HHHHHHCC
Q ss_conf 56566289
Q gi|254780948|r 215 KYALQHNI 222 (240)
Q Consensus 215 k~~l~~~~ 222 (240)
+.+++.+.
T Consensus 102 ~~~~~~~~ 109 (329)
T 3o47_A 102 REFLESQE 109 (329)
T ss_dssp HHHHHTCS
T ss_pred HHHHHHCC
T ss_conf 89998658
No 7
>3dwd_A ADP-ribosylation factor GTPase-activating protein 1; GAP, structural genomics consortium (SGC), alternative splicing, cytoplasm, ER-golgi transport; 2.40A {Homo sapiens}
Probab=76.34 E-value=1.3 Score=21.84 Aligned_cols=79 Identities=18% Similarity=0.160 Sum_probs=47.7
Q ss_pred HHHHHCCCCCHHHHCCCCCCCCCEEEEECCCCHHHHCCCCCCCCHHHHHH-HHHHCCC-CCCCHHHHHHHHHHHHHHHHH
Q ss_conf 99983767661221023555662244301210011102475320000123-4552256-789989999999899999985
Q gi|254780948|r 138 LLKNIGFGLDLTKCVVTGVTQDLLWVSPKSGGAVCRSVGLPYAEKMLVLP-SFLWKEE-QTIDADSLKSAFQLTDYFLNK 215 (240)
Q Consensus 138 LL~~lGf~p~L~~C~~cg~~~~l~~~s~~~g~av~~~~~~~~~~kll~lp-~fL~~~~-~~~~~~~i~~~l~lt~~fL~k 215 (240)
+|+.+==.|+=..|+.||.. +..|.|...|..||..|+.-+. -|... .+...-. ...+.+++ +.++..|.---+
T Consensus 28 ~l~~l~~~~~N~~CaDCg~~-~p~was~~~GvflC~~CsgvHR--~lG~hiS~VkSl~lD~w~~~~v-~~m~~~GN~~an 103 (147)
T 3dwd_A 28 VLKEVRVQDENNVCFECGAF-NPQWVSVTYGIWICLECSGRHR--GLGVHLSFVRSVTMDKWKDIEL-EKMKAGGNAKFR 103 (147)
T ss_dssp HHHHHHTSTTTTBCTTTCCB-SCCEEETTTTEEECHHHHHHHH--HHCTTTCCEEESCC--CCHHHH-HHHHHCCHHHHH
T ss_pred HHHHHHCCCCCCCCCCCCCC-CCCEEEECCCEEECHHHHHHHH--CCCCCCCEEEECCCCCCCHHHH-HHHHHHCCHHHH
T ss_conf 99999739790957879698-9997982359578565668885--0698776677798888899999-999997649999
Q ss_pred HHHHH
Q ss_conf 65662
Q gi|254780948|r 216 YALQH 220 (240)
Q Consensus 216 ~~l~~ 220 (240)
.+++.
T Consensus 104 ~~~e~ 108 (147)
T 3dwd_A 104 EFLES 108 (147)
T ss_dssp HHHHT
T ss_pred HHHHH
T ss_conf 99996
No 8
>2b0o_E UPLC1; arfgap, structural genomics, structural genomics consortium, SGC, metal binding protein; 2.06A {Homo sapiens}
Probab=75.20 E-value=0.79 Score=23.24 Aligned_cols=40 Identities=20% Similarity=0.355 Sum_probs=16.5
Q ss_pred HHHHHCCCCCHHHHCCCCCCCCCEEEEECCCCHHHHCCCCC
Q ss_conf 99983767661221023555662244301210011102475
Q gi|254780948|r 138 LLKNIGFGLDLTKCVVTGVTQDLLWVSPKSGGAVCRSVGLP 178 (240)
Q Consensus 138 LL~~lGf~p~L~~C~~cg~~~~l~~~s~~~g~av~~~~~~~ 178 (240)
++.++--.|.=..|+.||.. +..|+|...|..||.+|+.-
T Consensus 32 ~~~~~~~~p~N~~C~dC~~~-~p~w~s~n~g~~~C~~Csg~ 71 (301)
T 2b0o_E 32 LIAEVKSRPGNSQCCDCGAA-DPTWLSTNLGVLTCIQCSGV 71 (301)
T ss_dssp HHHHHHTSTTTTBCTTTCCB-SCCEEETTTTEEECHHHHHH
T ss_pred HHHHHHCCCCCCCCCCCCCC-CCCEEEECCCEEEHHHHHHH
T ss_conf 99999719892978989899-99979926884672766898
No 9
>2crr_A Stromal membrane-associated protein SMAP1B; arfgap domain, zinc finger, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=73.51 E-value=3.7 Score=19.16 Aligned_cols=86 Identities=14% Similarity=0.073 Sum_probs=49.1
Q ss_pred CCCHHHHCCCCCCCCCEEEEECCCCHHHHCCCCCCCCHHHHHH-HHHHCCC-CCCCHHHHHHHHHHHHHHHHHHHHH---
Q ss_conf 7661221023555662244301210011102475320000123-4552256-7899899999998999999856566---
Q gi|254780948|r 145 GLDLTKCVVTGVTQDLLWVSPKSGGAVCRSVGLPYAEKMLVLP-SFLWKEE-QTIDADSLKSAFQLTDYFLNKYALQ--- 219 (240)
Q Consensus 145 ~p~L~~C~~cg~~~~l~~~s~~~g~av~~~~~~~~~~kll~lp-~fL~~~~-~~~~~~~i~~~l~lt~~fL~k~~l~--- 219 (240)
.|+=..|+.||.. +..|+|...|..||..|+.-+.. |... .....-. ...+.+++. .++-.|.-.-+.+++
T Consensus 26 ~~~N~~CaDCg~~-~p~was~n~GiflC~~CsgiHR~--lg~~iskVkSl~ld~w~~~ev~-~l~~~GN~~~n~~~e~~~ 101 (141)
T 2crr_A 26 EEDNKYCADCEAK-GPRWASWNIGVFICIRCAGIHRN--LGVHISRVKSVNLDQWTAEQIQ-CMQDMGNTKARLLYEANL 101 (141)
T ss_dssp SGGGSSCSSSCCS-SCCSEETTTTEECCHHHHHHHHH--HCTTTCCCBCSSSSCCCHHHHH-HHHHTHHHHHHHHGGGSC
T ss_pred CCCCCCCCCCCCC-CCCEEEECCCEEECHHHHHHHHC--CCCCCEEEEECCCCCCCHHHHH-HHHHHCCHHHHHHHHHHC
T ss_conf 8790965889799-99979936887874667898707--7887514430687889999999-999975799999998618
Q ss_pred HCCCCCC---HHHHHHHH
Q ss_conf 2899999---87999999
Q gi|254780948|r 220 HNIIHCH---LLRENFLG 234 (240)
Q Consensus 220 ~~~~~~P---~sR~~f~~ 234 (240)
|.....| ..+..||.
T Consensus 102 ~~~~~~p~~~~~~~~fIr 119 (141)
T 2crr_A 102 PENFRRPQTDQAVEFFIR 119 (141)
T ss_dssp CTTCCCCCSHHHHHHHHH
T ss_pred CCCCCCCCCHHHHHHHHH
T ss_conf 845788994179999999
No 10
>2owa_A Arfgap-like finger domain containing protein; zinc finger protein, cysteine-rich motif, GTPase activation; 2.00A {Cryptosporidium parvum iowa II}
Probab=70.75 E-value=1 Score=22.58 Aligned_cols=93 Identities=10% Similarity=0.142 Sum_probs=54.1
Q ss_pred HHHHHHCCCCCHHHHCCCCCCCCCEEEEECCCCHHHHCCCCCCCCHHHHHH-HHHHCCC-CCCCHHHHHHHHHHHHH---
Q ss_conf 999983767661221023555662244301210011102475320000123-4552256-78998999999989999---
Q gi|254780948|r 137 MLLKNIGFGLDLTKCVVTGVTQDLLWVSPKSGGAVCRSVGLPYAEKMLVLP-SFLWKEE-QTIDADSLKSAFQLTDY--- 211 (240)
Q Consensus 137 ~LL~~lGf~p~L~~C~~cg~~~~l~~~s~~~g~av~~~~~~~~~~kll~lp-~fL~~~~-~~~~~~~i~~~l~lt~~--- 211 (240)
++++.+--.|.=..|+.||..+ ..|.|...|..||..|+.-+.. |... .+...-. ...+.+++. .++..|.
T Consensus 25 ~~~~~l~~~p~N~~CaDCg~~~-p~w~s~~~GvfiC~~CsgiHR~--lG~hiS~VkSl~lD~w~~~~v~-~m~~~GN~~a 100 (138)
T 2owa_A 25 NFFQIVRNRPENRTCFDCESRN-PTWLSLSFAVFICLNCSSDHRK--MGVHISFVRSSDLDKFTPIQLV-RMDIGGNGRA 100 (138)
T ss_dssp HHHHHHHHSGGGGBCTTTCCBS-CCEEETTTTEEECHHHHHHHHT--TCTTTCCEEETTTSCCCHHHHH-HHHHCCHHHH
T ss_pred HHHHHHHCCCCCCCCCCCCCCC-CCEEEECCCCEECHHHHHHHHC--CCCCCCEEEECCCCCCCHHHHH-HHHHHCCHHH
T ss_conf 9999997499909678999989-9968821681673234778702--6888776665888878999999-9999772999
Q ss_pred --HHHHHHHHHCCCCCC-HHHHHHHH
Q ss_conf --998565662899999-87999999
Q gi|254780948|r 212 --FLNKYALQHNIIHCH-LLRENFLG 234 (240)
Q Consensus 212 --fL~k~~l~~~~~~~P-~sR~~f~~ 234 (240)
|++... .++..+.| ..+..++.
T Consensus 101 n~~~e~~~-~~~~~p~~~~~~~~~i~ 125 (138)
T 2owa_A 101 RNYFKQVL-GVNFSPKTKEYASSICG 125 (138)
T ss_dssp HHHHHHHT-CTTCCGGGCHHHHSHHH
T ss_pred HHHHHHHC-CCCCCCCCCCCCHHHHH
T ss_conf 99999627-99899973300038999
No 11
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, transcription factor, DNA-binding, DNA-directed RNA polymerase; 4.30A {Saccharomyces cerevisiae}
Probab=69.15 E-value=1.8 Score=21.01 Aligned_cols=35 Identities=23% Similarity=0.371 Sum_probs=25.1
Q ss_pred HHCCCCCCCCCEEEEECCCCHHHHCCCCCCCCHHH
Q ss_conf 21023555662244301210011102475320000
Q gi|254780948|r 150 KCVVTGVTQDLLWVSPKSGGAVCRSVGLPYAEKML 184 (240)
Q Consensus 150 ~C~~cg~~~~l~~~s~~~g~av~~~~~~~~~~kll 184 (240)
.|-.||+.+........+|-.||..||.-..++..
T Consensus 23 ~CPeCGS~~t~IVeD~s~GEiVCsdCGLVIEErII 57 (197)
T 3k1f_M 23 TCPECKVYPPKIVERFSEGDVVCALCGLVLSDKLV 57 (197)
T ss_dssp CCTTTCCSSCCEEEEGGGTEEEETTTCBBCCCCCB
T ss_pred ECCCCCCCCCEEEEECCCCCEECCCCCEEECCCCC
T ss_conf 89999998998989799896897148929245335
No 12
>3k7a_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, DNA-binding, DNA- directed RNA polymerase, isopeptide bond, magnesium; 3.80A {Saccharomyces cerevisiae}
Probab=64.70 E-value=1.6 Score=21.33 Aligned_cols=12 Identities=25% Similarity=0.354 Sum_probs=4.2
Q ss_pred CHHHHHHHHHHH
Q ss_conf 989999999899
Q gi|254780948|r 198 DADSLKSAFQLT 209 (240)
Q Consensus 198 ~~~~i~~~l~lt 209 (240)
+..+|.+...++
T Consensus 294 t~~~Ia~~~~vs 305 (345)
T 3k7a_M 294 TAAKVGQTLQVT 305 (345)
T ss_dssp ------------
T ss_pred CHHHHHHHHCCC
T ss_conf 999999885987
No 13
>2crw_A ARF GAP 3, ADP-ribosylation factor GTPase-activating protein 3; arfgap domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=62.67 E-value=1.9 Score=20.94 Aligned_cols=43 Identities=16% Similarity=0.214 Sum_probs=34.0
Q ss_pred HHHHHHCCCCCHHHHCCCCCCCCCEEEEECCCCHHHHCCCCCCC
Q ss_conf 99998376766122102355566224430121001110247532
Q gi|254780948|r 137 MLLKNIGFGLDLTKCVVTGVTQDLLWVSPKSGGAVCRSVGLPYA 180 (240)
Q Consensus 137 ~LL~~lGf~p~L~~C~~cg~~~~l~~~s~~~g~av~~~~~~~~~ 180 (240)
.+|+.+-=.|.=..|+.||.. +..|.|...|..||..|+.-+.
T Consensus 18 ~~l~~l~~~p~N~~CaDC~~~-~P~was~n~GiflC~~CsgiHR 60 (149)
T 2crw_A 18 TIFKRLRSVPTNKVCFDCGAK-NPSWASITYGVFLCIDCSGSHR 60 (149)
T ss_dssp HHHHHHHHSTTTSBCSSSCCB-SCCCEETTTTEECCHHHHHHHH
T ss_pred HHHHHHHHCCCCCCCCCCCCC-CCCEEEECCCHHHHHHHHHHHC
T ss_conf 999999708698906769889-9974884445021111017544
No 14
>1dl6_A Transcription factor II B (TFIIB); zinc ribbon, gene regulation; NMR {Homo sapiens} SCOP: g.41.3.1 PDB: 1rly_A 1ro4_A
Probab=36.88 E-value=9.1 Score=16.77 Aligned_cols=37 Identities=19% Similarity=0.372 Sum_probs=28.0
Q ss_pred CCHHHHCCCCCCCCCEEEEECCCCHHHHCCCCCCCCHHH
Q ss_conf 661221023555662244301210011102475320000
Q gi|254780948|r 146 LDLTKCVVTGVTQDLLWVSPKSGGAVCRSVGLPYAEKML 184 (240)
Q Consensus 146 p~L~~C~~cg~~~~l~~~s~~~g~av~~~~~~~~~~kll 184 (240)
++-.+|-.||+.+ ..+...+|-.||..+|.-..++++
T Consensus 9 ~~~~~Cp~Cgs~~--iv~D~~~Ge~vC~~CG~Vlee~~I 45 (58)
T 1dl6_A 9 LPRVTCPNHPDAI--LVEDYRAGDMICPECGLVVGDRVI 45 (58)
T ss_dssp CSCCSBTTBSSSC--CEECSSSCCEECTTTCCEECCSCC
T ss_pred CCCCCCCCCCCCC--EEEECCCCEEECCCCCCEECCCCC
T ss_conf 6755896987987--778888991872789989243313
No 15
>2vut_I AREA, nitrogen regulatory protein AREA; transcription regulation, protein-protein interactions, metal-binding, nitrate assimilation; HET: NAD; 2.3A {Emericella nidulans} SCOP: g.39.1.1 PDB: 2vus_I* 2vuu_I*
Probab=32.90 E-value=5.3 Score=18.22 Aligned_cols=38 Identities=24% Similarity=0.422 Sum_probs=29.4
Q ss_pred HHCCCCCCCCCEEEEECCCCHHHHCCCCCCCCHHHHHH
Q ss_conf 21023555662244301210011102475320000123
Q gi|254780948|r 150 KCVVTGVTQDLLWVSPKSGGAVCRSVGLPYAEKMLVLP 187 (240)
Q Consensus 150 ~C~~cg~~~~l~~~s~~~g~av~~~~~~~~~~kll~lp 187 (240)
.|+.||.++-..|=.-..|..+|..+|.-|..+--.-|
T Consensus 3 ~C~nCgtt~Tp~WRr~~~g~~lCNACGl~~k~~~~~RP 40 (43)
T 2vut_I 3 TCTNCFTQTTPLWRRNPEGQPLCNACGLFLKLHGVVRP 40 (43)
T ss_dssp CCSSSCCCCCSCCEECTTSCEECHHHHHHHHHHSSCCC
T ss_pred CCCCCCCCCCCCCCCCCCCCEEEHHHHHHHHHHCCCCC
T ss_conf 47888896896540399998721576789998289989
No 16
>1pft_A TFIIB, PFTFIIBN; N-terminal domain, transcription initiation factor; NMR {Pyrococcus furiosus} SCOP: g.41.3.1
Probab=32.61 E-value=13 Score=15.77 Aligned_cols=34 Identities=24% Similarity=0.507 Sum_probs=25.7
Q ss_pred HHHCCCCCCCCCEEEEECCCCHHHHCCCCCCCCHHH
Q ss_conf 221023555662244301210011102475320000
Q gi|254780948|r 149 TKCVVTGVTQDLLWVSPKSGGAVCRSVGLPYAEKML 184 (240)
Q Consensus 149 ~~C~~cg~~~~l~~~s~~~g~av~~~~~~~~~~kll 184 (240)
..|-.||+.+ ..+...+|-.||..+|.-..++..
T Consensus 6 ~~Cp~Cgs~~--iv~D~~~Ge~vC~~CG~V~~e~~I 39 (50)
T 1pft_A 6 KVCPACESAE--LIYDPERGEIVCAKCGYVIEENII 39 (50)
T ss_dssp CSCTTTSCCC--EEEETTTTEEEESSSCCBCCCCCC
T ss_pred CCCCCCCCCC--EEEECCCCEEECCCCCCEECCCCC
T ss_conf 5385988983--788688892862789859332424
No 17
>1gnf_A Transcription factor GATA-1; zinc finger, transcription regulation; NMR {Mus musculus} SCOP: g.39.1.1 PDB: 1y0j_A
Probab=26.88 E-value=7.9 Score=17.15 Aligned_cols=38 Identities=26% Similarity=0.503 Sum_probs=28.6
Q ss_pred CHHHHCCCCCCCCCEEEEECCCCHHHHCCCCCCCCHHH
Q ss_conf 61221023555662244301210011102475320000
Q gi|254780948|r 147 DLTKCVVTGVTQDLLWVSPKSGGAVCRSVGLPYAEKML 184 (240)
Q Consensus 147 ~L~~C~~cg~~~~l~~~s~~~g~av~~~~~~~~~~kll 184 (240)
+-..|+.||.++-..|=.-..|..+|..+|.-|..+--
T Consensus 3 ~~~~C~nC~tt~Tp~WR~~~~g~~LCNACGl~~k~~~~ 40 (46)
T 1gnf_A 3 EARECVNCGATATPLWRRDRTGHYLCNACGLYHKMNGQ 40 (46)
T ss_dssp CSCCCTTTCCCCCSSCBCCTTCCCBCSHHHHHHHHTCS
T ss_pred CCCCCCCCCCCCCCCCCCCCCCCEEEHHHHHHHHHHCC
T ss_conf 88997899997883332499999413375899998488
No 18
>2fiy_A Protein FDHE homolog; FDHE protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics; 2.10A {Pseudomonas aeruginosa PAO1} SCOP: e.59.1.1
Probab=25.97 E-value=20 Score=14.68 Aligned_cols=16 Identities=19% Similarity=0.179 Sum_probs=9.7
Q ss_pred HHHCCCCCCCCCEEEE
Q ss_conf 2210235556622443
Q gi|254780948|r 149 TKCVVTGVTQDLLWVS 164 (240)
Q Consensus 149 ~~C~~cg~~~~l~~~s 164 (240)
..|=+||+.-....+.
T Consensus 183 g~CPvCGs~P~~s~l~ 198 (309)
T 2fiy_A 183 TLCPACGSPPMAGMIR 198 (309)
T ss_dssp SSCTTTCCCEEEEEEE
T ss_pred CCCCCCCCCCHHHEEE
T ss_conf 9499999803103242
No 19
>4gat_A Nitrogen regulatory protein AREA; DNA binding protein, transcription factor, zinc binding domain, complex (transcription regulation/DNA); HET: DNA; NMR {Emericella nidulans} SCOP: g.39.1.1 PDB: 5gat_A* 6gat_A* 7gat_A*
Probab=25.19 E-value=15 Score=15.38 Aligned_cols=45 Identities=24% Similarity=0.330 Sum_probs=34.2
Q ss_pred CCHHHHCCCCCCCCCEEEEECCCCHHHHCCCCCCCCHHHHHHHHH
Q ss_conf 661221023555662244301210011102475320000123455
Q gi|254780948|r 146 LDLTKCVVTGVTQDLLWVSPKSGGAVCRSVGLPYAEKMLVLPSFL 190 (240)
Q Consensus 146 p~L~~C~~cg~~~~l~~~s~~~g~av~~~~~~~~~~kll~lp~fL 190 (240)
..-..|..||.++-..|=.-..|..+|..+|.-|...-..-|.-+
T Consensus 7 ~~~~~C~nCgtt~Tp~WRr~~~G~~lCNACGl~~~~~~~~RP~~~ 51 (66)
T 4gat_A 7 NGPTTCTNCFTQTTPLWRRNPEGQPLCNACGLFLKLHGVVRPLSL 51 (66)
T ss_dssp SSSCCCTTTCCCCCSSCEEETTTEEECHHHHHHHHHHCSCCCGGG
T ss_pred CCCCCCCCCCCCCCCHHCCCCCCCCCHHHHHHHHHHCCCCCCCCC
T ss_conf 998977898897882200189998520465789997099787333
No 20
>3dfx_A Trans-acting T-cell-specific transcription factor GATA-3; activator, DNA-binding, metal-binding, nucleus; HET: DNA; 2.70A {Mus musculus} PDB: 3dfv_D* 2gat_A* 3gat_A* 1gat_A* 1gau_A*
Probab=22.28 E-value=13 Score=15.76 Aligned_cols=43 Identities=28% Similarity=0.482 Sum_probs=33.3
Q ss_pred HHHCCCCCCCCCEEEEECCCCHHHHCCCCCCCCHHHHHHHHHH
Q ss_conf 2210235556622443012100111024753200001234552
Q gi|254780948|r 149 TKCVVTGVTQDLLWVSPKSGGAVCRSVGLPYAEKMLVLPSFLW 191 (240)
Q Consensus 149 ~~C~~cg~~~~l~~~s~~~g~av~~~~~~~~~~kll~lp~fL~ 191 (240)
..|+.||.+.-..|=-...|..||..+|.-+.-.-..-|.-+.
T Consensus 8 ~~C~NC~t~~TpLWRR~~~G~~lCNACGLy~klhg~~RP~~mk 50 (63)
T 3dfx_A 8 TSCANCQTTTTTLWRRNANGDPVCNACGLYYKLHNINRPLTMK 50 (63)
T ss_dssp CCCTTTCCSCCSSCCCCTTSCCCCHHHHHHHHHHSSCCCGGGC
T ss_pred CCCCCCCCCCCCEEEECCCCCEEEEHHHHHHHHHCCCCCCCCC
T ss_conf 7456889865420658899898211457789984898885456
Done!