Query psy17822
Match_columns 91
No_of_seqs 120 out of 602
Neff 6.2
Searched_HMMs 46136
Date Fri Aug 16 23:55:13 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17822.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17822hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0930|consensus 99.7 3.5E-18 7.6E-23 129.5 5.6 69 1-69 74-151 (395)
2 PLN03076 ARF guanine nucleotid 99.7 1.1E-16 2.3E-21 141.2 5.4 76 1-82 629-704 (1780)
3 smart00222 Sec7 Sec7 domain. D 99.6 4.4E-16 9.6E-21 110.4 5.2 76 1-82 15-91 (187)
4 KOG0931|consensus 99.6 2.4E-16 5.3E-21 125.1 3.5 52 1-52 210-262 (627)
5 cd00171 Sec7 Sec7 domain; Doma 99.6 8.8E-16 1.9E-20 108.9 5.2 76 1-82 14-90 (185)
6 KOG0928|consensus 99.6 6.3E-16 1.4E-20 132.7 4.9 74 1-82 527-602 (1386)
7 PF01369 Sec7: Sec7 domain; I 99.6 3.7E-15 8.1E-20 105.7 4.4 75 2-82 18-94 (190)
8 KOG0929|consensus 99.3 3.7E-12 8E-17 111.1 3.8 52 1-52 527-578 (1514)
9 KOG0930|consensus 98.9 1.1E-09 2.4E-14 83.6 2.1 41 50-90 84-124 (395)
10 COG5307 SEC7 domain proteins [ 98.6 2.1E-08 4.5E-13 86.1 2.6 76 1-82 280-357 (1024)
11 PLN03076 ARF guanine nucleotid 97.7 1.8E-05 3.9E-10 71.4 2.4 37 53-89 642-678 (1780)
12 KOG0929|consensus 97.6 5.5E-05 1.2E-09 67.3 3.3 56 35-90 519-577 (1514)
13 cd00171 Sec7 Sec7 domain; Doma 97.5 5.7E-05 1.2E-09 53.6 2.2 34 56-89 31-64 (185)
14 smart00222 Sec7 Sec7 domain. D 97.5 7.1E-05 1.5E-09 53.1 2.3 37 53-89 28-65 (187)
15 PF01369 Sec7: Sec7 domain; I 97.3 0.00014 3.1E-09 51.5 1.9 34 56-89 35-68 (190)
16 KOG0928|consensus 95.7 0.0044 9.5E-08 55.1 1.2 32 57-88 546-577 (1386)
17 KOG0931|consensus 95.5 0.011 2.3E-07 48.2 2.7 39 47-85 217-255 (627)
18 KOG0932|consensus 94.1 0.04 8.7E-07 46.0 2.7 57 20-82 307-363 (774)
19 COG5307 SEC7 domain proteins [ 84.7 0.58 1.3E-05 41.3 1.8 34 56-89 297-331 (1024)
20 PF08299 Bac_DnaA_C: Bacterial 74.5 2.2 4.7E-05 25.6 1.5 30 20-49 32-62 (70)
21 smart00760 Bac_DnaA_C Bacteria 72.3 3.3 7.1E-05 23.8 1.9 28 19-46 31-59 (60)
22 cd06571 Bac_DnaA_C C-terminal 67.8 4.3 9.4E-05 25.2 1.9 33 19-51 30-63 (90)
23 PF10557 Cullin_Nedd8: Cullin 53.1 2.5 5.4E-05 25.1 -1.1 17 4-20 48-64 (68)
24 PF10929 DUF2811: Protein of u 52.3 11 0.00023 22.4 1.5 42 37-82 13-54 (57)
25 PF03880 DbpA: DbpA RNA bindin 48.6 14 0.00031 22.0 1.8 22 19-40 14-35 (74)
26 PF10982 DUF2789: Protein of u 42.9 21 0.00046 22.1 1.9 32 3-35 4-35 (74)
27 PRK06030 hypothetical protein; 42.5 23 0.00049 23.8 2.1 32 19-51 55-87 (124)
28 PF03562 MltA: MltA specific i 41.8 50 0.0011 23.1 3.9 34 8-45 115-151 (158)
29 TIGR00362 DnaA chromosomal rep 39.6 26 0.00056 27.1 2.4 29 19-47 376-405 (405)
30 PF03752 ALF: Short repeats of 39.5 20 0.00043 19.5 1.2 15 56-70 25-39 (43)
31 TIGR01764 excise DNA binding d 36.8 52 0.0011 16.8 2.7 45 19-67 3-48 (49)
32 PF12363 DUF3647: Phage protei 36.6 24 0.00053 23.0 1.5 39 5-44 36-79 (113)
33 PF07308 DUF1456: Protein of u 36.2 92 0.002 18.7 3.9 43 21-67 17-60 (68)
34 PHA02591 hypothetical protein; 35.0 43 0.00094 21.2 2.4 27 18-45 46-72 (83)
35 PRK14087 dnaA chromosomal repl 33.8 34 0.00074 27.3 2.2 33 19-51 387-420 (450)
36 TIGR03514 GldB_lipo gliding mo 33.2 35 0.00077 26.2 2.2 38 8-45 233-279 (312)
37 TIGR03674 fen_arch flap struct 32.9 2.3E+02 0.005 21.8 6.7 75 3-82 246-321 (338)
38 PF08069 Ribosomal_S13_N: Ribo 31.9 29 0.00063 20.6 1.2 28 18-45 28-57 (60)
39 PF09639 YjcQ: YjcQ protein; 30.7 26 0.00056 21.8 0.9 13 5-17 62-74 (88)
40 COG2241 CobL Precorrin-6B meth 30.5 40 0.00086 24.6 1.9 29 19-47 152-181 (210)
41 PF09322 DUF1979: Domain of un 29.8 37 0.00081 20.0 1.4 36 21-74 23-58 (58)
42 PRK00149 dnaA chromosomal repl 28.3 50 0.0011 26.0 2.3 33 19-51 388-421 (450)
43 KOG3820|consensus 28.2 40 0.00088 27.4 1.8 35 12-46 222-259 (461)
44 PF07319 DnaI_N: Primosomal pr 27.8 47 0.001 20.8 1.7 20 21-40 32-52 (94)
45 PF00325 Crp: Bacterial regula 27.2 26 0.00056 18.2 0.4 14 33-46 3-16 (32)
46 PRK15245 type III effector pho 27.1 14 0.00031 27.5 -0.9 44 26-70 86-129 (241)
47 KOG0932|consensus 26.9 46 0.001 28.4 2.0 50 20-75 322-371 (774)
48 PF06242 DUF1013: Protein of u 26.1 66 0.0014 22.3 2.3 29 18-46 69-97 (140)
49 PRK12422 chromosomal replicati 25.7 57 0.0012 26.1 2.2 32 19-51 383-415 (445)
50 TIGR01729 taurine_ABC_bnd taur 23.1 70 0.0015 23.2 2.1 23 7-29 274-296 (300)
51 PF08535 KorB: KorB domain; I 22.3 79 0.0017 19.4 2.0 12 59-70 30-41 (93)
52 cd04445 DEP_PLEK1 DEP (Disheve 21.1 56 0.0012 21.4 1.1 34 1-34 10-48 (99)
53 TIGR01550 DOC_P1 death-on-curi 21.0 2.4E+02 0.0052 18.4 4.2 36 7-42 80-119 (121)
54 PF13412 HTH_24: Winged helix- 20.9 1.1E+02 0.0024 16.1 2.2 25 21-45 6-30 (48)
55 KOG0193|consensus 20.1 17 0.00038 30.9 -1.7 35 4-41 498-532 (678)
No 1
>KOG0930|consensus
Probab=99.73 E-value=3.5e-18 Score=129.48 Aligned_cols=69 Identities=59% Similarity=0.933 Sum_probs=62.0
Q ss_pred CChhhHHHHHHHCCCCCCChHHHHHHHhhCCCCChhhhhhhccccccchhhc-----cccCCc----hhhHHHHhhhC
Q psy17822 1 MDPKKGIEWLIQNNLLEPTEMGVAQFLYKGEGLNKTAIGDYLGERHDFNEKN-----NLLEPT----EMGVAQFLYKG 69 (91)
Q Consensus 1 ~~PkkGi~~l~~~g~l~~~p~~ia~Fl~~~~~L~k~~iGeyLg~~~~fn~~~-----~l~~~~----~~~Ir~FL~~~ 69 (91)
|+|+|||+||+++.++..||++||.||+..+||+|++||+|||++++||+++ ++.++. ..++|+||+|-
T Consensus 74 mDP~Kgiq~l~e~~ll~~dpq~iA~flykGEGLnKtaIG~yLGer~~~nl~vL~aFv~~Hef~dlnlVqALRQfLwSF 151 (395)
T KOG0930|consen 74 MDPKKGIQFLIENDLLQNDPEDIARFLYKGEGLNKTAIGDYLGERDEFNLQVLHAFVDLHEFTDLNLVQALRQFLWSF 151 (395)
T ss_pred CChHHHhHHHHHcccccCCHHHHHHHHHhcCCcchhhHhhhhccCchhHHHHHHHHHHHHHhccchHHHHHHHHHHHh
Confidence 7999999999999999999999999999999999999999999999999986 333332 46899999875
No 2
>PLN03076 ARF guanine nucleotide exchange factor (ARF-GEF); Provisional
Probab=99.65 E-value=1.1e-16 Score=141.24 Aligned_cols=76 Identities=43% Similarity=0.668 Sum_probs=69.6
Q ss_pred CChhhHHHHHHHCCCCCCChHHHHHHHhhCCCCChhhhhhhccccccchhhccccCCchhhHHHHhhhCcCCchhhhhhh
Q psy17822 1 MDPKKGIEWLIQNNLLEPTEMGVAQFLYKGEGLNKTAIGDYLGERHDFNEKNNLLEPTEMGVAQFLYKGEGLNKTAIGDY 80 (91)
Q Consensus 1 ~~PkkGi~~l~~~g~l~~~p~~ia~Fl~~~~~L~k~~iGeyLg~~~~fn~~~~l~~~~~~~Ir~FL~~~~~ld~~~ig~y 80 (91)
+|||+||+||+++|+|+++|++||+||+++++|||++||||||+++++|+++ ..+++..|.+++..+|. |+|.|
T Consensus 629 ~~Pk~Gi~~L~~~~~i~~~p~~iA~FL~~~~~Ldk~~iGeyLg~~~~~~~~v-----l~~yv~~fdF~g~~~d~-ALR~f 702 (1780)
T PLN03076 629 RKPKKGIEFLINANKVGESPEEIAAFLKDASGLNKTLIGDYLGEREDLSLKV-----MHAYVDSFDFQGMEFDE-AIRAF 702 (1780)
T ss_pred cCHHHHHHHHHHcCCCCCCHHHHHHHHHhCCCCCHHHHHHHHcCCChHHHHH-----HHHHHHhCCcCCCCHHH-HHHHH
Confidence 5899999999999999999999999999999999999999999999999885 56778888888888885 88888
Q ss_pred cc
Q psy17822 81 LG 82 (91)
Q Consensus 81 Lg 82 (91)
|.
T Consensus 703 L~ 704 (1780)
T PLN03076 703 LQ 704 (1780)
T ss_pred HH
Confidence 75
No 3
>smart00222 Sec7 Sec7 domain. Domain named after the S. cerevisiae SEC7 gene product, which is required for proper protein transport through the Golgi. The domain facilitates guanine nucleotide exchange on the small GTPases, ARFs (ADP ribosylation factors).
Probab=99.62 E-value=4.4e-16 Score=110.41 Aligned_cols=76 Identities=42% Similarity=0.654 Sum_probs=64.8
Q ss_pred CChhhHHHHHHHCCCCC-CChHHHHHHHhhCCCCChhhhhhhccccccchhhccccCCchhhHHHHhhhCcCCchhhhhh
Q psy17822 1 MDPKKGIEWLIQNNLLE-PTEMGVAQFLYKGEGLNKTAIGDYLGERHDFNEKNNLLEPTEMGVAQFLYKGEGLNKTAIGD 79 (91)
Q Consensus 1 ~~PkkGi~~l~~~g~l~-~~p~~ia~Fl~~~~~L~k~~iGeyLg~~~~fn~~~~l~~~~~~~Ir~FL~~~~~ld~~~ig~ 79 (91)
.+|++||+||+++++++ +||.+||.||+++++|+|++||+|||++.++|.++ ....+..|.+++..+|. +++.
T Consensus 15 ~~p~~gi~~l~~~~~~~~~~~~~ia~fl~~~~~l~k~~ig~~l~~~~~~~~~v-----L~~y~~~f~f~~~~i~~-ALR~ 88 (187)
T smart00222 15 DKPKKGIDSLQEKGFLAKDDPQDVADFLSKNEGLNKKAIGDYLGEHDEFNRLV-----LHAFVDLFDFSAKDLDQ-ALRE 88 (187)
T ss_pred cCHHHHHHHHHHcCCCCCCCHHHHHHHHHhCCCCCHHHHHHHHcCCChHHHHH-----HHHHHHhcCcCCCcHHH-HHHH
Confidence 48999999999999999 89999999999999999999999999988999885 45566666666666664 6666
Q ss_pred hcc
Q psy17822 80 YLG 82 (91)
Q Consensus 80 yLg 82 (91)
||.
T Consensus 89 ~l~ 91 (187)
T smart00222 89 FLE 91 (187)
T ss_pred HHH
Confidence 663
No 4
>KOG0931|consensus
Probab=99.62 E-value=2.4e-16 Score=125.12 Aligned_cols=52 Identities=38% Similarity=0.824 Sum_probs=49.3
Q ss_pred CChhhHHHHHHHCCCCCCChHHHHHHHhhCCCCChhhhhhhcccc-ccchhhc
Q psy17822 1 MDPKKGIEWLIQNNLLEPTEMGVAQFLYKGEGLNKTAIGDYLGER-HDFNEKN 52 (91)
Q Consensus 1 ~~PkkGi~~l~~~g~l~~~p~~ia~Fl~~~~~L~k~~iGeyLg~~-~~fn~~~ 52 (91)
+||.|||+||+++|||+|+|..||+||+.+.||+|.|||||||.+ .+||..|
T Consensus 210 ~kPekGvQ~Li~rGFv~dtPvgvAhfllqRkGLSrqMIGEflGn~~kqfnrdV 262 (627)
T KOG0931|consen 210 KKPEKGVQYLIERGFVPDTPVGVAHFLLQRKGLSRQMIGEFLGNRQKQFNRDV 262 (627)
T ss_pred CCcchhhhhhhhhcccCCCchHHHHHHHhhccchHHHHHHHhccccchhhhHH
Confidence 589999999999999999999999999999999999999999996 5999775
No 5
>cd00171 Sec7 Sec7 domain; Domain named after the S. cerevisiae SEC7 gene product. The Sec7 domain is the central domain of the guanine-nucleotide-exchange factors (GEFs) of the ADP-ribosylation factor family of small GTPases (ARFs) . It carries the exchange factor activity.
Probab=99.61 E-value=8.8e-16 Score=108.91 Aligned_cols=76 Identities=42% Similarity=0.725 Sum_probs=64.3
Q ss_pred CChhhHHHHHHHCCCC-CCChHHHHHHHhhCCCCChhhhhhhccccccchhhccccCCchhhHHHHhhhCcCCchhhhhh
Q psy17822 1 MDPKKGIEWLIQNNLL-EPTEMGVAQFLYKGEGLNKTAIGDYLGERHDFNEKNNLLEPTEMGVAQFLYKGEGLNKTAIGD 79 (91)
Q Consensus 1 ~~PkkGi~~l~~~g~l-~~~p~~ia~Fl~~~~~L~k~~iGeyLg~~~~fn~~~~l~~~~~~~Ir~FL~~~~~ld~~~ig~ 79 (91)
.+|++||+||++++++ .++|.+||+||+.+++|+|.+||+|||+++++|.++ ..+.+..|.+++..+|. ++|.
T Consensus 14 ~~p~~gi~~l~~~~~~~~~~~~~iA~fl~~~~~l~k~~ig~~L~~~~~~~~~v-----L~~y~~~f~f~~~~i~~-ALR~ 87 (185)
T cd00171 14 RKPKKGISFLIEKGFLEDDSPKEIAKFLYETEGLNKKAIGEYLGENNEFNSLV-----LHEFVDLFDFSGLRLDE-ALRK 87 (185)
T ss_pred cCHHHHHHHHHHCCCCCCCCHHHHHHHHHhCCCCCHHHHHHHHcCCchHHHHH-----HHHHHHhcCCCCCCHHH-HHHH
Confidence 4899999999999999 889999999999999999999999999999888775 45566666666666664 6666
Q ss_pred hcc
Q psy17822 80 YLG 82 (91)
Q Consensus 80 yLg 82 (91)
+|.
T Consensus 88 ~l~ 90 (185)
T cd00171 88 FLQ 90 (185)
T ss_pred HHH
Confidence 653
No 6
>KOG0928|consensus
Probab=99.60 E-value=6.3e-16 Score=132.69 Aligned_cols=74 Identities=31% Similarity=0.530 Sum_probs=68.3
Q ss_pred CChhhHHHHHHHCCCCCC--ChHHHHHHHhhCCCCChhhhhhhccccccchhhccccCCchhhHHHHhhhCcCCchhhhh
Q psy17822 1 MDPKKGIEWLIQNNLLEP--TEMGVAQFLYKGEGLNKTAIGDYLGERHDFNEKNNLLEPTEMGVAQFLYKGEGLNKTAIG 78 (91)
Q Consensus 1 ~~PkkGi~~l~~~g~l~~--~p~~ia~Fl~~~~~L~k~~iGeyLg~~~~fn~~~~l~~~~~~~Ir~FL~~~~~ld~~~ig 78 (91)
.||||||+||+++|+|++ ||..+|.||+++++|||++||+|||++++..+. -+++.+|.|+|.+||. |+|
T Consensus 527 e~pkKGi~fL~ek~li~~~~d~~~~~~ffr~n~rLdKk~iGdfLc~~k~~~vL-------n~Fi~tFdF~gmrlDe-ALR 598 (1386)
T KOG0928|consen 527 EDPKKGIEFLQEKGLIPSDLDPTSVAEFFRYNPRLDKKTIGDFLCDPKNVSVL-------NEFIGTFDFQGMRLDE-ALR 598 (1386)
T ss_pred cChhhHHHHHHhcCccCCCCChHHHHHHHHhCccccHHHHHHHhcCcchHHHH-------HHHHHhcCcCCCcHHH-HHH
Confidence 489999999999999995 899999999999999999999999999974444 7889999999999995 999
Q ss_pred hhcc
Q psy17822 79 DYLG 82 (91)
Q Consensus 79 ~yLg 82 (91)
-||.
T Consensus 599 l~L~ 602 (1386)
T KOG0928|consen 599 LFLE 602 (1386)
T ss_pred HHHH
Confidence 9995
No 7
>PF01369 Sec7: Sec7 domain; InterPro: IPR000904 The SEC7 domain was named after the first protein found to contain such a region []. It has been shown to be linked with guanine nucleotide exchange function [, ]. The 3D structure of the domain displays several alpha-helices []. It was found to be associated with other domains involved in guanine nucleotide exchange (e.g., CDC25, Dbl) in mammalian factors [].; GO: 0005086 ARF guanyl-nucleotide exchange factor activity, 0032012 regulation of ARF protein signal transduction, 0005622 intracellular; PDB: 3SWV_A 3L8N_A 2R09_A 2R0D_B 1RE0_B 3LTL_A 1KU1_A 1XSZ_A 1XT0_B 1R8Q_E ....
Probab=99.55 E-value=3.7e-15 Score=105.74 Aligned_cols=75 Identities=39% Similarity=0.748 Sum_probs=61.4
Q ss_pred ChhhHHHHHHHCCCC--CCChHHHHHHHhhCCCCChhhhhhhccccccchhhccccCCchhhHHHHhhhCcCCchhhhhh
Q psy17822 2 DPKKGIEWLIQNNLL--EPTEMGVAQFLYKGEGLNKTAIGDYLGERHDFNEKNNLLEPTEMGVAQFLYKGEGLNKTAIGD 79 (91)
Q Consensus 2 ~PkkGi~~l~~~g~l--~~~p~~ia~Fl~~~~~L~k~~iGeyLg~~~~fn~~~~l~~~~~~~Ir~FL~~~~~ld~~~ig~ 79 (91)
+|++||+||+++|++ +++|.+||+||+.+++|+|.+||+|||.+.++|..+ ..+.+..|.+++..|+. |++.
T Consensus 18 ~p~~gi~~l~~~~~~~~~~~~~~iA~fL~~~~~l~k~~ige~Lg~~~~~n~~v-----L~~y~~~fdf~~~~i~~-ALR~ 91 (190)
T PF01369_consen 18 NPKKGIEYLIQNGFLENEDDPKSIAKFLFQTPGLDKKKIGEYLGKDNPFNRDV-----LKEYISLFDFSGMSIDE-ALRK 91 (190)
T ss_dssp SHHHHHHHHHHTTSSTS-SSHHHHHHHHHHTTTS-HHHHHHHHTSSSHHHHHH-----HHHHHHTSS-TTS-HHH-HHHH
T ss_pred CHHHHHHHHHHCCCCCCCCCHHHHHHHHHhCCCCCHHHHHHHHhccchHHHHH-----HHHHHHHcCCcCccHHH-HHHH
Confidence 799999999999998 779999999999999999999999999998999886 45666677777777774 7776
Q ss_pred hcc
Q psy17822 80 YLG 82 (91)
Q Consensus 80 yLg 82 (91)
+|.
T Consensus 92 ~l~ 94 (190)
T PF01369_consen 92 FLS 94 (190)
T ss_dssp HCT
T ss_pred hcc
Confidence 664
No 8
>KOG0929|consensus
Probab=99.25 E-value=3.7e-12 Score=111.12 Aligned_cols=52 Identities=44% Similarity=0.740 Sum_probs=50.3
Q ss_pred CChhhHHHHHHHCCCCCCChHHHHHHHhhCCCCChhhhhhhccccccchhhc
Q psy17822 1 MDPKKGIEWLIQNNLLEPTEMGVAQFLYKGEGLNKTAIGDYLGERHDFNEKN 52 (91)
Q Consensus 1 ~~PkkGi~~l~~~g~l~~~p~~ia~Fl~~~~~L~k~~iGeyLg~~~~fn~~~ 52 (91)
.+|++||+||++++++.++|.+||.||+.+.+|+|+.+|+|||+++++|+.+
T Consensus 527 ~kpkkgi~~l~s~~~v~~sp~eiaeFL~~t~~l~kt~igdyLGe~d~~~~~V 578 (1514)
T KOG0929|consen 527 GKPKKGISFLDSKGTVGTSPLEIAEFLIGTEGLSKTILGDYLGEDDDFNKAV 578 (1514)
T ss_pred cCCccCchhhhhcCCCCCCHHHHHHHHHhccCCCHHHHHHHhcCCcchhHHH
Confidence 3799999999999999999999999999999999999999999999999986
No 9
>KOG0930|consensus
Probab=98.85 E-value=1.1e-09 Score=83.55 Aligned_cols=41 Identities=63% Similarity=1.033 Sum_probs=37.5
Q ss_pred hhccccCCchhhHHHHhhhCcCCchhhhhhhcccCcccccc
Q psy17822 50 EKNNLLEPTEMGVAQFLYKGEGLNKTAIGDYLGERHDFNEK 90 (91)
Q Consensus 50 ~~~~l~~~~~~~Ir~FL~~~~~ld~~~ig~yLg~~~~~~~~ 90 (91)
++.+++..+|++||.||..|+||+|||||+|||++++||++
T Consensus 84 ~e~~ll~~dpq~iA~flykGEGLnKtaIG~yLGer~~~nl~ 124 (395)
T KOG0930|consen 84 IENDLLQNDPEDIARFLYKGEGLNKTAIGDYLGERDEFNLQ 124 (395)
T ss_pred HHcccccCCHHHHHHHHHhcCCcchhhHhhhhccCchhHHH
Confidence 33477889999999999999999999999999999999985
No 10
>COG5307 SEC7 domain proteins [General function prediction only]
Probab=98.60 E-value=2.1e-08 Score=86.07 Aligned_cols=76 Identities=32% Similarity=0.513 Sum_probs=63.2
Q ss_pred CChhhHHHHHHHCCCCCC-ChHHHHHHHhhCCC-CChhhhhhhccccccchhhccccCCchhhHHHHhhhCcCCchhhhh
Q psy17822 1 MDPKKGIEWLIQNNLLEP-TEMGVAQFLYKGEG-LNKTAIGDYLGERHDFNEKNNLLEPTEMGVAQFLYKGEGLNKTAIG 78 (91)
Q Consensus 1 ~~PkkGi~~l~~~g~l~~-~p~~ia~Fl~~~~~-L~k~~iGeyLg~~~~fn~~~~l~~~~~~~Ir~FL~~~~~ld~~~ig 78 (91)
.+|++||..|.+.+++.. ++.++|.||..+.+ ++|+.+|+|||++++.|..+ .-+.|..|.+++..+|. |+|
T Consensus 280 ~kp~~gi~~l~~~~~i~~d~~~sia~~L~~~~~~l~k~~lg~~L~~~~~kn~~v-----L~~Fi~~fdFk~~~i~e-ALR 353 (1024)
T COG5307 280 EKPKKGIASLIDSEFIDSDSHKSIAEILEGTEGRLDKKKLGLYLGTDDDKNNAV-----LREFISLFDFKGLDIDE-ALR 353 (1024)
T ss_pred hcCcccchhhcccccCCcccchHHHHHHHhccCcccHHHHHHHhcCCchhHHHH-----HHHHHHhcCcCCCcHHH-HHH
Confidence 379999999999999997 69999999999765 99999999999998777775 45667777777777775 777
Q ss_pred hhcc
Q psy17822 79 DYLG 82 (91)
Q Consensus 79 ~yLg 82 (91)
.||+
T Consensus 354 ~lL~ 357 (1024)
T COG5307 354 KLLQ 357 (1024)
T ss_pred HHHH
Confidence 7664
No 11
>PLN03076 ARF guanine nucleotide exchange factor (ARF-GEF); Provisional
Probab=97.71 E-value=1.8e-05 Score=71.43 Aligned_cols=37 Identities=49% Similarity=0.738 Sum_probs=34.0
Q ss_pred cccCCchhhHHHHhhhCcCCchhhhhhhcccCccccc
Q psy17822 53 NLLEPTEMGVAQFLYKGEGLNKTAIGDYLGERHDFNE 89 (91)
Q Consensus 53 ~l~~~~~~~Ir~FL~~~~~ld~~~ig~yLg~~~~~~~ 89 (91)
.+++.+|++||+||+++.+|||++||+|||+++++|+
T Consensus 642 ~~i~~~p~~iA~FL~~~~~Ldk~~iGeyLg~~~~~~~ 678 (1780)
T PLN03076 642 NKVGESPEEIAAFLKDASGLNKTLIGDYLGEREDLSL 678 (1780)
T ss_pred CCCCCCHHHHHHHHHhCCCCCHHHHHHHHcCCChHHH
Confidence 5557789999999999999999999999999999875
No 12
>KOG0929|consensus
Probab=97.57 E-value=5.5e-05 Score=67.28 Aligned_cols=56 Identities=36% Similarity=0.653 Sum_probs=45.1
Q ss_pred hhhhhhhccccc---cchhhccccCCchhhHHHHhhhCcCCchhhhhhhcccCcccccc
Q psy17822 35 KTAIGDYLGERH---DFNEKNNLLEPTEMGVAQFLYKGEGLNKTAIGDYLGERHDFNEK 90 (91)
Q Consensus 35 k~~iGeyLg~~~---~fn~~~~l~~~~~~~Ir~FL~~~~~ld~~~ig~yLg~~~~~~~~ 90 (91)
.+.|-.|-+.++ ++..+.+..+.+|+++++||..+.+|+++++|+|||++|+||++
T Consensus 519 ~~~i~~fN~kpkkgi~~l~s~~~v~~sp~eiaeFL~~t~~l~kt~igdyLGe~d~~~~~ 577 (1514)
T KOG0929|consen 519 QEGIQLFNGKPKKGISFLDSKGTVGTSPLEIAEFLIGTEGLSKTILGDYLGEDDDFNKA 577 (1514)
T ss_pred HHHHHHhccCCccCchhhhhcCCCCCCHHHHHHHHHhccCCCHHHHHHHhcCCcchhHH
Confidence 445555555543 45556677788999999999999999999999999999999863
No 13
>cd00171 Sec7 Sec7 domain; Domain named after the S. cerevisiae SEC7 gene product. The Sec7 domain is the central domain of the guanine-nucleotide-exchange factors (GEFs) of the ADP-ribosylation factor family of small GTPases (ARFs) . It carries the exchange factor activity.
Probab=97.51 E-value=5.7e-05 Score=53.60 Aligned_cols=34 Identities=53% Similarity=0.988 Sum_probs=31.2
Q ss_pred CCchhhHHHHhhhCcCCchhhhhhhcccCccccc
Q psy17822 56 EPTEMGVAQFLYKGEGLNKTAIGDYLGERHDFNE 89 (91)
Q Consensus 56 ~~~~~~Ir~FL~~~~~ld~~~ig~yLg~~~~~~~ 89 (91)
+.++.+||+||+++.+||+.+||+|||.++++|.
T Consensus 31 ~~~~~~iA~fl~~~~~l~k~~ig~~L~~~~~~~~ 64 (185)
T cd00171 31 DDSPKEIAKFLYETEGLNKKAIGEYLGENNEFNS 64 (185)
T ss_pred CCCHHHHHHHHHhCCCCCHHHHHHHHcCCchHHH
Confidence 5579999999999999999999999999988774
No 14
>smart00222 Sec7 Sec7 domain. Domain named after the S. cerevisiae SEC7 gene product, which is required for proper protein transport through the Golgi. The domain facilitates guanine nucleotide exchange on the small GTPases, ARFs (ADP ribosylation factors).
Probab=97.47 E-value=7.1e-05 Score=53.06 Aligned_cols=37 Identities=57% Similarity=0.897 Sum_probs=32.4
Q ss_pred cccC-CchhhHHHHhhhCcCCchhhhhhhcccCccccc
Q psy17822 53 NLLE-PTEMGVAQFLYKGEGLNKTAIGDYLGERHDFNE 89 (91)
Q Consensus 53 ~l~~-~~~~~Ir~FL~~~~~ld~~~ig~yLg~~~~~~~ 89 (91)
.++. .+|.+|++||++..+||+.+||+|||.++++|.
T Consensus 28 ~~~~~~~~~~ia~fl~~~~~l~k~~ig~~l~~~~~~~~ 65 (187)
T smart00222 28 GFLAKDDPQDVADFLSKNEGLNKKAIGDYLGEHDEFNR 65 (187)
T ss_pred CCCCCCCHHHHHHHHHhCCCCCHHHHHHHHcCCChHHH
Confidence 3444 579999999999999999999999999988875
No 15
>PF01369 Sec7: Sec7 domain; InterPro: IPR000904 The SEC7 domain was named after the first protein found to contain such a region []. It has been shown to be linked with guanine nucleotide exchange function [, ]. The 3D structure of the domain displays several alpha-helices []. It was found to be associated with other domains involved in guanine nucleotide exchange (e.g., CDC25, Dbl) in mammalian factors [].; GO: 0005086 ARF guanyl-nucleotide exchange factor activity, 0032012 regulation of ARF protein signal transduction, 0005622 intracellular; PDB: 3SWV_A 3L8N_A 2R09_A 2R0D_B 1RE0_B 3LTL_A 1KU1_A 1XSZ_A 1XT0_B 1R8Q_E ....
Probab=97.27 E-value=0.00014 Score=51.49 Aligned_cols=34 Identities=41% Similarity=0.827 Sum_probs=29.5
Q ss_pred CCchhhHHHHhhhCcCCchhhhhhhcccCccccc
Q psy17822 56 EPTEMGVAQFLYKGEGLNKTAIGDYLGERHDFNE 89 (91)
Q Consensus 56 ~~~~~~Ir~FL~~~~~ld~~~ig~yLg~~~~~~~ 89 (91)
..+|.+|++||....+|++.++|+|||.++++|.
T Consensus 35 ~~~~~~iA~fL~~~~~l~k~~ige~Lg~~~~~n~ 68 (190)
T PF01369_consen 35 EDDPKSIAKFLFQTPGLDKKKIGEYLGKDNPFNR 68 (190)
T ss_dssp -SSHHHHHHHHHHTTTS-HHHHHHHHTSSSHHHH
T ss_pred CCCHHHHHHHHHhCCCCCHHHHHHHHhccchHHH
Confidence 4579999999999999999999999999888875
No 16
>KOG0928|consensus
Probab=95.70 E-value=0.0044 Score=55.07 Aligned_cols=32 Identities=28% Similarity=0.486 Sum_probs=29.4
Q ss_pred CchhhHHHHhhhCcCCchhhhhhhcccCcccc
Q psy17822 57 PTEMGVAQFLYKGEGLNKTAIGDYLGERHDFN 88 (91)
Q Consensus 57 ~~~~~Ir~FL~~~~~ld~~~ig~yLg~~~~~~ 88 (91)
..|..+++|+.++.||||.+||+||+.++...
T Consensus 546 ~d~~~~~~ffr~n~rLdKk~iGdfLc~~k~~~ 577 (1386)
T KOG0928|consen 546 LDPTSVAEFFRYNPRLDKKTIGDFLCDPKNVS 577 (1386)
T ss_pred CChHHHHHHHHhCccccHHHHHHHhcCcchHH
Confidence 66899999999999999999999999998743
No 17
>KOG0931|consensus
Probab=95.52 E-value=0.011 Score=48.23 Aligned_cols=39 Identities=33% Similarity=0.718 Sum_probs=33.6
Q ss_pred cchhhccccCCchhhHHHHhhhCcCCchhhhhhhcccCc
Q psy17822 47 DFNEKNNLLEPTEMGVAQFLYKGEGLNKTAIGDYLGERH 85 (91)
Q Consensus 47 ~fn~~~~l~~~~~~~Ir~FL~~~~~ld~~~ig~yLg~~~ 85 (91)
++.++..++..+|..||+||+.-.||.+.+||+|||...
T Consensus 217 Q~Li~rGFv~dtPvgvAhfllqRkGLSrqMIGEflGn~~ 255 (627)
T KOG0931|consen 217 QYLIERGFVPDTPVGVAHFLLQRKGLSRQMIGEFLGNRQ 255 (627)
T ss_pred hhhhhhcccCCCchHHHHHHHhhccchHHHHHHHhcccc
Confidence 445555777888999999999999999999999999864
No 18
>KOG0932|consensus
Probab=94.14 E-value=0.04 Score=45.98 Aligned_cols=57 Identities=26% Similarity=0.493 Sum_probs=50.0
Q ss_pred hHHHHHHHhhCCCCChhhhhhhccccccchhhccccCCchhhHHHHhhhCcCCchhhhhhhcc
Q psy17822 20 EMGVAQFLYKGEGLNKTAIGDYLGERHDFNEKNNLLEPTEMGVAQFLYKGEGLNKTAIGDYLG 82 (91)
Q Consensus 20 p~~ia~Fl~~~~~L~k~~iGeyLg~~~~fn~~~~l~~~~~~~Ir~FL~~~~~ld~~~ig~yLg 82 (91)
..-+|+=|+.-++.-|..+..+||++.+|...| ..+++.-|.|+|.+||. +++.||-
T Consensus 307 A~rlArrLY~L~gf~~sdVA~~LgknNeFS~lV-----a~eYL~fF~Fsg~tlD~-ALR~Flk 363 (774)
T KOG0932|consen 307 AARLARRLYRLEGFRKSDVARHLGKNNEFSRLV-----AEEYLSFFQFSGMTLDQ-ALREFLK 363 (774)
T ss_pred HHHHHHHHHHhhCccHHHHHHHhcccchHHHHH-----HHHHHHHhhccCccHHH-HHHHHHH
Confidence 567888999999999999999999999999886 56788888999999996 8888874
No 19
>COG5307 SEC7 domain proteins [General function prediction only]
Probab=84.68 E-value=0.58 Score=41.26 Aligned_cols=34 Identities=35% Similarity=0.559 Sum_probs=29.5
Q ss_pred CCchhhHHHHhhhCcC-CchhhhhhhcccCccccc
Q psy17822 56 EPTEMGVAQFLYKGEG-LNKTAIGDYLGERHDFNE 89 (91)
Q Consensus 56 ~~~~~~Ir~FL~~~~~-ld~~~ig~yLg~~~~~~~ 89 (91)
..++.+++.||+...+ +|+..+|+|||++++.|.
T Consensus 297 ~d~~~sia~~L~~~~~~l~k~~lg~~L~~~~~kn~ 331 (1024)
T COG5307 297 SDSHKSIAEILEGTEGRLDKKKLGLYLGTDDDKNN 331 (1024)
T ss_pred cccchHHHHHHHhccCcccHHHHHHHhcCCchhHH
Confidence 3457899999999998 999999999999987654
No 20
>PF08299 Bac_DnaA_C: Bacterial dnaA protein helix-turn-helix; InterPro: IPR013159 This entry represents the C-terminal domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; GO: 0005524 ATP binding, 0043565 sequence-specific DNA binding, 0006270 DNA-dependent DNA replication initiation, 0006275 regulation of DNA replication; PDB: 2HCB_B 3R8F_C 1L8Q_A 3PVP_B 3PVV_A 1J1V_A.
Probab=74.46 E-value=2.2 Score=25.60 Aligned_cols=30 Identities=33% Similarity=0.565 Sum_probs=22.4
Q ss_pred hHHHHHHHhhC-CCCChhhhhhhccccccch
Q psy17822 20 EMGVAQFLYKG-EGLNKTAIGDYLGERHDFN 49 (91)
Q Consensus 20 p~~ia~Fl~~~-~~L~k~~iGeyLg~~~~fn 49 (91)
|..||.||... -+++-..||.++|.+++-.
T Consensus 32 aR~va~yL~r~~~~~sl~~Ig~~fg~rdHst 62 (70)
T PF08299_consen 32 ARQVAMYLARELTGLSLSEIGRYFGGRDHST 62 (70)
T ss_dssp HHHHHHHHHHHHS---HHHHHHHCTSSTHHH
T ss_pred hHHHHHHHHHHHhCCCHHHHHHHhCCCCHHH
Confidence 78899999985 5999999999999776533
No 21
>smart00760 Bac_DnaA_C Bacterial dnaA protein helix-turn-helix domain. Could be involved in DNA-binding.
Probab=72.33 E-value=3.3 Score=23.85 Aligned_cols=28 Identities=25% Similarity=0.424 Sum_probs=24.0
Q ss_pred ChHHHHHHHhhC-CCCChhhhhhhccccc
Q psy17822 19 TEMGVAQFLYKG-EGLNKTAIGDYLGERH 46 (91)
Q Consensus 19 ~p~~ia~Fl~~~-~~L~k~~iGeyLg~~~ 46 (91)
.|..||-||... -+++-+.||.++|.++
T Consensus 31 ~aR~iamyla~~~~~~sl~~Ig~~fg~rd 59 (60)
T smart00760 31 LARQIAMYLARELTDLSLPEIGKIFGGRD 59 (60)
T ss_pred HHHHHHHHHHHHHHCCCHHHHHHHhCCCC
Confidence 488999999874 6999999999999765
No 22
>cd06571 Bac_DnaA_C C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple copies of DnaA, which is an ATPase, bind to 9-mers at the origin and form an initial complex in which the DNA strands are being separated in an ATP-dependent step.
Probab=67.76 E-value=4.3 Score=25.18 Aligned_cols=33 Identities=24% Similarity=0.343 Sum_probs=26.9
Q ss_pred ChHHHHHHHhhC-CCCChhhhhhhccccccchhh
Q psy17822 19 TEMGVAQFLYKG-EGLNKTAIGDYLGERHDFNEK 51 (91)
Q Consensus 19 ~p~~ia~Fl~~~-~~L~k~~iGeyLg~~~~fn~~ 51 (91)
.|..||-||... -+++-..||.++|.+++-.+.
T Consensus 30 ~aR~ia~yl~~~~~~~s~~~Ig~~fg~r~hStV~ 63 (90)
T cd06571 30 LARQIAMYLARELTGLSLPEIGRAFGGRDHSTVL 63 (90)
T ss_pred hHHHHHHHHHHHHhCCCHHHHHHHhCCCCHhHHH
Confidence 489999999986 499999999999976654443
No 23
>PF10557 Cullin_Nedd8: Cullin protein neddylation domain; InterPro: IPR019559 This is the neddylation site of cullin proteins, which are a family of structurally related proteins containing an evolutionarily conserved cullin domain. With the exception of APC2, each member of the cullin family is modified by Nedd8 and several cullins function in Ubiquitin-dependent proteolysis, a process in which the 26S proteasome recognises and subsequently degrades a target protein tagged with K48-linked poly-ubiquitin chains. Cullins are molecular scaffolds responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis. Nedd8/Rub1 is a small ubiquitin-like protein, which was originally found to be conjugated to Cdc53, a cullin component of the SCF (Skp1-Cdc53/CUL1-F-box protein) E3 Ub ligase complex in Saccharomyces cerevisiae (Baker's yeast), and Nedd8 modification has now emerged as a regulatory pathway of fundamental importance for cell cycle control and for embryogenesis in metazoans. The only identified Nedd8 substrates are cullins. Neddylation results in covalent conjugation of a Nedd8 moiety onto a conserved cullin lysine residue []. ; GO: 0031625 ubiquitin protein ligase binding, 0006511 ubiquitin-dependent protein catabolic process, 0031461 cullin-RING ubiquitin ligase complex; PDB: 3RTR_G 3TDU_D 1LDJ_A 3TDZ_D 1LDK_B 1U6G_A 3O6B_J 3O2P_E 4A0K_A 2HYE_C ....
Probab=53.10 E-value=2.5 Score=25.09 Aligned_cols=17 Identities=47% Similarity=0.593 Sum_probs=14.4
Q ss_pred hhHHHHHHHCCCCCCCh
Q psy17822 4 KKGIEWLIQNNLLEPTE 20 (91)
Q Consensus 4 kkGi~~l~~~g~l~~~p 20 (91)
|+.|++|+++++|..++
T Consensus 48 k~~Ie~LIekeyi~Rd~ 64 (68)
T PF10557_consen 48 KKRIESLIEKEYIERDE 64 (68)
T ss_dssp HHHHHHHHHTTSEEEES
T ss_pred HHHHHHHHHhhhhhcCC
Confidence 68899999999997653
No 24
>PF10929 DUF2811: Protein of unknown function (DUF2811); InterPro: IPR021231 This is a bacterial family of uncharacterised proteins.
Probab=52.29 E-value=11 Score=22.37 Aligned_cols=42 Identities=17% Similarity=0.348 Sum_probs=26.1
Q ss_pred hhhhhccccccchhhccccCCchhhHHHHhhhCcCCchhhhhhhcc
Q psy17822 37 AIGDYLGERHDFNEKNNLLEPTEMGVAQFLYKGEGLNKTAIGDYLG 82 (91)
Q Consensus 37 ~iGeyLg~~~~fn~~~~l~~~~~~~Ir~FL~~~~~ld~~~ig~yLg 82 (91)
++..||..+++..... ....||+.||.+...=|+.+-+-||+
T Consensus 13 ~m~~fie~hP~WDQ~R----l~~aALa~FL~QnG~~~r~~~r~Yl~ 54 (57)
T PF10929_consen 13 AMKDFIETHPNWDQYR----LFQAALAGFLLQNGCQDRAVTRVYLE 54 (57)
T ss_pred HHHHHHHcCCCchHHH----HHHHHHHHHHHHcCchhHHHHHHHHH
Confidence 3455555554333221 23578888888887677777777775
No 25
>PF03880 DbpA: DbpA RNA binding domain ; InterPro: IPR005580 This RNA binding domain is found at the C terminus of a number of DEAD helicase proteins [].; PDB: 2G0C_A 3MOJ_B.
Probab=48.59 E-value=14 Score=21.96 Aligned_cols=22 Identities=18% Similarity=0.302 Sum_probs=18.7
Q ss_pred ChHHHHHHHhhCCCCChhhhhh
Q psy17822 19 TEMGVAQFLYKGEGLNKTAIGD 40 (91)
Q Consensus 19 ~p~~ia~Fl~~~~~L~k~~iGe 40 (91)
+|.+|..+|.+..++++..||.
T Consensus 14 ~~~~iv~~i~~~~gi~~~~IG~ 35 (74)
T PF03880_consen 14 TPRDIVGAICNEAGIPGRDIGR 35 (74)
T ss_dssp -HHHHHHHHHTCTTB-GGGEEE
T ss_pred CHHHHHHHHHhccCCCHHhEEE
Confidence 7999999999999999999994
No 26
>PF10982 DUF2789: Protein of unknown function (DUF2789); InterPro: IPR021250 This bacterial family of proteins has no known function. ; PDB: 2KP6_A.
Probab=42.95 E-value=21 Score=22.11 Aligned_cols=32 Identities=13% Similarity=0.226 Sum_probs=19.2
Q ss_pred hhhHHHHHHHCCCCCCChHHHHHHHhhCCCCCh
Q psy17822 3 PKKGIEWLIQNNLLEPTEMGVAQFLYKGEGLNK 35 (91)
Q Consensus 3 PkkGi~~l~~~g~l~~~p~~ia~Fl~~~~~L~k 35 (91)
|..-+.-|.++=-++++|++|..|+.++. |..
T Consensus 4 ~~h~l~~LF~QLGL~~~~~~I~~FI~~H~-L~~ 35 (74)
T PF10982_consen 4 TQHTLSNLFAQLGLDSSDEAIEAFIETHQ-LPA 35 (74)
T ss_dssp T-THHHHHHHHHTS---HHHHHHHHHHS----T
T ss_pred CCCCHHHHHHHhCCCCCHHHHHHHHHhCC-CCC
Confidence 34456666666667899999999999986 654
No 27
>PRK06030 hypothetical protein; Provisional
Probab=42.51 E-value=23 Score=23.83 Aligned_cols=32 Identities=13% Similarity=0.089 Sum_probs=25.9
Q ss_pred ChHHHHHHHhhC-CCCChhhhhhhccccccchhh
Q psy17822 19 TEMGVAQFLYKG-EGLNKTAIGDYLGERHDFNEK 51 (91)
Q Consensus 19 ~p~~ia~Fl~~~-~~L~k~~iGeyLg~~~~fn~~ 51 (91)
.|..||-||... -+++-+.||+.+| +++-.+.
T Consensus 55 ~aRqIAMYL~r~~~~~sl~~IG~~FG-RDHSTV~ 87 (124)
T PRK06030 55 RIRQIAMYVAHVSLGWPMNEVALAFG-RDRTTVG 87 (124)
T ss_pred hHHHHHHHHHHHHcCCCHHHHHHHHC-CChhHHH
Confidence 488999999974 6999999999999 6654433
No 28
>PF03562 MltA: MltA specific insert domain; InterPro: IPR005300 This group of proteins includes MltA; a membrane-bound, murein degrading transglycosylase enzyme which plays an important role in the controlled growth of the stress-bearing sacculus of Escherichia coli [, ].; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds; PDB: 2PI8_D 2AE0_X 2PIC_A 2GAE_A 2PJJ_A 3CZB_A 2G6G_A 2PNW_A 2G5D_A.
Probab=41.76 E-value=50 Score=23.11 Aligned_cols=34 Identities=12% Similarity=0.201 Sum_probs=20.2
Q ss_pred HHHHHCCCCCC---ChHHHHHHHhhCCCCChhhhhhhcccc
Q psy17822 8 EWLIQNNLLEP---TEMGVAQFLYKGEGLNKTAIGDYLGER 45 (91)
Q Consensus 8 ~~l~~~g~l~~---~p~~ia~Fl~~~~~L~k~~iGeyLg~~ 45 (91)
.+|+++|.|+. +-+.|-.||.++|. .+-++|..+
T Consensus 115 r~Li~~G~i~~~~~Smq~Ir~wl~~~P~----~~~~ll~~N 151 (158)
T PF03562_consen 115 RLLIDRGEIPREQMSMQAIRAWLRAHPE----EADELLNQN 151 (158)
T ss_dssp HHHHHTTSS-TTS-SHHHHHHHHHHTGG----GHHHHHTTS
T ss_pred HHHHHcCCcChhhCCHHHHHHHHHHCHH----HHHHHHHhC
Confidence 46777777764 45777777777632 444444443
No 29
>TIGR00362 DnaA chromosomal replication initiator protein DnaA. DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).
Probab=39.62 E-value=26 Score=27.07 Aligned_cols=29 Identities=28% Similarity=0.359 Sum_probs=23.7
Q ss_pred ChHHHHHHHhh-CCCCChhhhhhhcccccc
Q psy17822 19 TEMGVAQFLYK-GEGLNKTAIGDYLGERHD 47 (91)
Q Consensus 19 ~p~~ia~Fl~~-~~~L~k~~iGeyLg~~~~ 47 (91)
.|+.||.||.. .-+++-..||..+|.+++
T Consensus 376 ~~R~~amyl~~~~~~~s~~~ig~~fg~rdH 405 (405)
T TIGR00362 376 RPRQIAMYLAKELTDLSLPEIGRAFGGRDH 405 (405)
T ss_pred hHHHHHHHHHHHHcCCCHHHHHHHhCCCCC
Confidence 38899999987 458889999999987764
No 30
>PF03752 ALF: Short repeats of unknown function; InterPro: IPR005506 This set of repeats is found in a small family of secreted proteins of no known function, which may be involved in signal transduction.
Probab=39.51 E-value=20 Score=19.54 Aligned_cols=15 Identities=27% Similarity=0.412 Sum_probs=10.8
Q ss_pred CCchhhHHHHhhhCc
Q psy17822 56 EPTEMGVAQFLYKGE 70 (91)
Q Consensus 56 ~~~~~~Ir~FL~~~~ 70 (91)
.-+|++|+.||.+|-
T Consensus 25 ~G~~~~l~~FL~~G~ 39 (43)
T PF03752_consen 25 AGTPEALREFLETGQ 39 (43)
T ss_pred hCCHHHHHHHHHHhH
Confidence 456788888887763
No 31
>TIGR01764 excise DNA binding domain, excisionase family. An excisionase, or Xis protein, is a small protein that binds and promotes excisive recombination; it is not enzymatically active. This model represents a number of putative excisionases and related proteins from temperate phage, plasmids, and transposons, as well as DNA binding domains of other proteins, such as a DNA modification methylase. This model identifies mostly small proteins and N-terminal regions of large proteins, but some proteins appear to have two copies. This domain appears similar, in both sequence and predicted secondary structure (PSIPRED) to the MerR family of transcriptional regulators (pfam00376).
Probab=36.81 E-value=52 Score=16.81 Aligned_cols=45 Identities=18% Similarity=0.210 Sum_probs=23.0
Q ss_pred ChHHHHHHHhhCCCCChhhhhhhccccc-cchhhccccCCchhhHHHHhh
Q psy17822 19 TEMGVAQFLYKGEGLNKTAIGDYLGERH-DFNEKNNLLEPTEMGVAQFLY 67 (91)
Q Consensus 19 ~p~~ia~Fl~~~~~L~k~~iGeyLg~~~-~fn~~~~l~~~~~~~Ir~FL~ 67 (91)
+..++|.+| +++++.|=.++.++. +.-..-...-...++|..|+.
T Consensus 3 t~~e~a~~l----gis~~ti~~~~~~g~i~~~~~g~~~~~~~~~l~~~~~ 48 (49)
T TIGR01764 3 TVEEAAEYL----GVSKDTVYRLIHEGELPAYRVGRHYRIPREDVDEYLE 48 (49)
T ss_pred CHHHHHHHH----CCCHHHHHHHHHcCCCCeEEeCCeEEEeHHHHHHHHh
Confidence 356677666 567777776665543 111001112234566666654
No 32
>PF12363 DUF3647: Phage protein ; InterPro: IPR024410 Proteins in this entry are frequently annotated as phage proteins, however there is little accompanying literature to back this up or to describe the nature of these phage proteins.
Probab=36.55 E-value=24 Score=22.97 Aligned_cols=39 Identities=23% Similarity=0.503 Sum_probs=30.6
Q ss_pred hHHHHHHHCCCCCCChHHHHHHHhh-C----CCCChhhhhhhccc
Q psy17822 5 KGIEWLIQNNLLEPTEMGVAQFLYK-G----EGLNKTAIGDYLGE 44 (91)
Q Consensus 5 kGi~~l~~~g~l~~~p~~ia~Fl~~-~----~~L~k~~iGeyLg~ 44 (91)
-|+..++ .+++..||..++.+++. + ++.+...|-+||-+
T Consensus 36 ~G~~~l~-~~l~~~d~~al~d~i~~a~~~~~~~~s~~eIe~~ie~ 79 (113)
T PF12363_consen 36 MGLSQLV-PGLLQGDPVALADIIYAATAHEKKRPSREEIEDYIED 79 (113)
T ss_pred cCHHHHH-HHHHcCCHHHHHHHHHHHhcccCCCCCHHHHHHHHHH
Confidence 3556555 57788899999999986 3 57789999999985
No 33
>PF07308 DUF1456: Protein of unknown function (DUF1456); InterPro: IPR009921 This domain occurs in several hypothetical bacterial proteins of around 150 residues in length. The function of this domain is unknown.
Probab=36.17 E-value=92 Score=18.67 Aligned_cols=43 Identities=16% Similarity=0.246 Sum_probs=28.0
Q ss_pred HHHHHHHh-hCCCCChhhhhhhccccccchhhccccCCchhhHHHHhh
Q psy17822 21 MGVAQFLY-KGEGLNKTAIGDYLGERHDFNEKNNLLEPTEMGVAQFLY 67 (91)
Q Consensus 21 ~~ia~Fl~-~~~~L~k~~iGeyLg~~~~fn~~~~l~~~~~~~Ir~FL~ 67 (91)
.++...+. ..-.+++..++.||-..++-+.. .-.+..++.||-
T Consensus 17 ~~m~~if~l~~~~vs~~el~a~lrke~~~~y~----~c~D~~L~~FL~ 60 (68)
T PF07308_consen 17 DDMIEIFALAGFEVSKAELSAWLRKEDEKGYK----ECSDQLLRNFLN 60 (68)
T ss_pred HHHHHHHHHcCCccCHHHHHHHHCCCCCcccc----ccChHHHHHHHH
Confidence 34444444 45688888888888887655433 235677888874
No 34
>PHA02591 hypothetical protein; Provisional
Probab=34.98 E-value=43 Score=21.19 Aligned_cols=27 Identities=22% Similarity=0.304 Sum_probs=22.6
Q ss_pred CChHHHHHHHhhCCCCChhhhhhhcccc
Q psy17822 18 PTEMGVAQFLYKGEGLNKTAIGDYLGER 45 (91)
Q Consensus 18 ~~p~~ia~Fl~~~~~L~k~~iGeyLg~~ 45 (91)
||-.++|+=|... |++-.+|++.||=.
T Consensus 46 dd~~~vA~eL~eq-GlSqeqIA~~LGVs 72 (83)
T PHA02591 46 DDLISVTHELARK-GFTVEKIASLLGVS 72 (83)
T ss_pred chHHHHHHHHHHc-CCCHHHHHHHhCCC
Confidence 5788999999887 99999999877743
No 35
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=33.85 E-value=34 Score=27.32 Aligned_cols=33 Identities=24% Similarity=0.229 Sum_probs=27.7
Q ss_pred ChHHHHHHHhh-CCCCChhhhhhhccccccchhh
Q psy17822 19 TEMGVAQFLYK-GEGLNKTAIGDYLGERHDFNEK 51 (91)
Q Consensus 19 ~p~~ia~Fl~~-~~~L~k~~iGeyLg~~~~fn~~ 51 (91)
-|+.||-||.. .-+.+-..||+.+|.+++--+.
T Consensus 387 ~~RqiamyL~r~~t~~sl~~IG~~FggrdHsTV~ 420 (450)
T PRK14087 387 TARHIAMYLTKEILNHTLAQIGEEFGGRDHTTVI 420 (450)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHhCCCChHHHH
Confidence 38999999997 3689999999999988865544
No 36
>TIGR03514 GldB_lipo gliding motility-associated lipoprotein GldB. RL J Bacteriol. 2000 Feb;182(4):911-8.
Probab=33.21 E-value=35 Score=26.23 Aligned_cols=38 Identities=18% Similarity=0.344 Sum_probs=28.0
Q ss_pred HHHHHCCCCCC-ChHHHHHHHhhCCCCC--------hhhhhhhcccc
Q psy17822 8 EWLIQNNLLEP-TEMGVAQFLYKGEGLN--------KTAIGDYLGER 45 (91)
Q Consensus 8 ~~l~~~g~l~~-~p~~ia~Fl~~~~~L~--------k~~iGeyLg~~ 45 (91)
+|+++++++-+ ||.-+-.|+-..|--. +.+||-|+|=+
T Consensus 233 ~~fi~~~~l~~td~~~~~~~~~~~pfs~~l~~~~e~P~~iG~wiG~q 279 (312)
T TIGR03514 233 SYFVENELLYSTDPKLVRRFIGEAPFSKYLELDNESPGRVGQWIGWQ 279 (312)
T ss_pred HHHHHhhhcccCChhHHHHhcCCCCcccccccCcCCchhhHHHHHHH
Confidence 57788777766 7888888877665533 78889888864
No 37
>TIGR03674 fen_arch flap structure-specific endonuclease. Endonuclease that cleaves the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Has 5'-endo-/exonuclease and 5'-pseudo-Y-endonuclease activities. Cleaves the junction between single and double-stranded regions of flap DNA
Probab=32.86 E-value=2.3e+02 Score=21.80 Aligned_cols=75 Identities=16% Similarity=0.227 Sum_probs=41.2
Q ss_pred hhhHHHHHHHCCCCCCChHHHHHHHhhCCCCChhhhhhhccccc-cchhhccccCCchhhHHHHhhhCcCCchhhhhhhc
Q psy17822 3 PKKGIEWLIQNNLLEPTEMGVAQFLYKGEGLNKTAIGDYLGERH-DFNEKNNLLEPTEMGVAQFLYKGEGLNKTAIGDYL 81 (91)
Q Consensus 3 PkkGi~~l~~~g~l~~~p~~ia~Fl~~~~~L~k~~iGeyLg~~~-~fn~~~~l~~~~~~~Ir~FL~~~~~ld~~~ig~yL 81 (91)
||..++.+.++|=|++ |-..+..... +-..+.++.-+++ .............+.|++|+.+..++++.-+..+|
T Consensus 246 ~ktA~kli~~~gsie~----il~~~~~~~~-~~~~~~~~f~~~~v~~~~~~~~~~pd~e~l~~fl~~e~~~~~~rv~~~~ 320 (338)
T TIGR03674 246 PKTALKLIKEHGDLEK----VLKARGEDIE-NYDEIREFFLNPPVTDDYELKWRKPDKEGIIEFLCDEHDFSEDRVERAL 320 (338)
T ss_pred HHHHHHHHHHcCCHHH----HHHhhcCCCC-CHHHHHHHhCCCCCCCCCCccCCCCCHHHHHHHHhhcCCCCHHHHHHHH
Confidence 7888888888875433 2222111100 1123444333332 11112233355678899999999988887777665
Q ss_pred c
Q psy17822 82 G 82 (91)
Q Consensus 82 g 82 (91)
.
T Consensus 321 ~ 321 (338)
T TIGR03674 321 E 321 (338)
T ss_pred H
Confidence 3
No 38
>PF08069 Ribosomal_S13_N: Ribosomal S13/S15 N-terminal domain; InterPro: IPR012606 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This domain is found at the N terminus of ribosomal S13 and S15 proteins. This domain is also identified as NUC021 [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 3U5C_N 3O30_G 3IZB_O 3O2Z_G 3U5G_N 2XZN_O 2XZM_O 3IZ6_O.
Probab=31.92 E-value=29 Score=20.64 Aligned_cols=28 Identities=25% Similarity=0.396 Sum_probs=21.1
Q ss_pred CChHHHHHHHhh--CCCCChhhhhhhcccc
Q psy17822 18 PTEMGVAQFLYK--GEGLNKTAIGDYLGER 45 (91)
Q Consensus 18 ~~p~~ia~Fl~~--~~~L~k~~iGeyLg~~ 45 (91)
-+|++|-.-+.. ..|+...+||-.|.+.
T Consensus 28 ~~~~eVe~~I~klakkG~tpSqIG~iLRD~ 57 (60)
T PF08069_consen 28 YSPEEVEELIVKLAKKGLTPSQIGVILRDQ 57 (60)
T ss_dssp S-HHHHHHHHHHHCCTTHCHHHHHHHHHHS
T ss_pred CCHHHHHHHHHHHHHcCCCHHHhhhhhhhc
Confidence 467888888775 6799999999887653
No 39
>PF09639 YjcQ: YjcQ protein; InterPro: IPR018597 YjcQ is a protein of approx. 100 residues containing four alpha helices and three beta strands. It is found in bacteria and also in the Lactococcus phage Tuc2009. In bacteria it appears to be under the regulation of SigD RNA polymerase which is responsible for the expression of many genes encoding cell-surface proteins related to flagellar assembly, motility, chemotaxis and autolysis in the late exponential growth phase. The exact function of YjcQ is unknown []. However, it is thought to be the major head protein in viruses [] and is found in prophage in bacteria. ; PDB: 2HGC_A.
Probab=30.73 E-value=26 Score=21.78 Aligned_cols=13 Identities=46% Similarity=0.922 Sum_probs=9.7
Q ss_pred hHHHHHHHCCCCC
Q psy17822 5 KGIEWLIQNNLLE 17 (91)
Q Consensus 5 kGi~~l~~~g~l~ 17 (91)
+||+||.++..+.
T Consensus 62 ~Gi~YL~ENS~mk 74 (88)
T PF09639_consen 62 KGIEYLEENSMMK 74 (88)
T ss_dssp HHHHHHHHHT-S-
T ss_pred HHHHHHHHHHHHH
Confidence 7999999988764
No 40
>COG2241 CobL Precorrin-6B methylase 1 [Coenzyme metabolism]
Probab=30.47 E-value=40 Score=24.65 Aligned_cols=29 Identities=17% Similarity=0.297 Sum_probs=23.5
Q ss_pred ChHHHHHHHhhCC-CCChhhhhhhcccccc
Q psy17822 19 TEMGVAQFLYKGE-GLNKTAIGDYLGERHD 47 (91)
Q Consensus 19 ~p~~ia~Fl~~~~-~L~k~~iGeyLg~~~~ 47 (91)
.|..||.+|.+.. +=.|-.++|.||..++
T Consensus 152 ~P~~IA~~L~~~G~~~~~~~VlE~L~~~~E 181 (210)
T COG2241 152 GPAEIAKLLTENGIGDSRVTVLENLGYPDE 181 (210)
T ss_pred CHHHHHHHHHhCCCCCceEEEEcccCCCch
Confidence 4999999999983 2257799999998765
No 41
>PF09322 DUF1979: Domain of unknown function (DUF1979); InterPro: IPR015401 This N-terminal domain is functionally uncharacterised and found in various Oryza sativa (Rice) mutator-like transposases.
Probab=29.82 E-value=37 Score=19.98 Aligned_cols=36 Identities=17% Similarity=0.463 Sum_probs=23.6
Q ss_pred HHHHHHHhhCCCCChhhhhhhccccccchhhccccCCchhhHHHHhhhCcCCch
Q psy17822 21 MGVAQFLYKGEGLNKTAIGDYLGERHDFNEKNNLLEPTEMGVAQFLYKGEGLNK 74 (91)
Q Consensus 21 ~~ia~Fl~~~~~L~k~~iGeyLg~~~~fn~~~~l~~~~~~~Ir~FL~~~~~ld~ 74 (91)
.++..|+....|+||.+ +.+-.+|-.||..|-++|+
T Consensus 23 vdLs~Fi~~~rGIdrpA------------------ERs~~si~~WLmRG~rvDp 58 (58)
T PF09322_consen 23 VDLSEFIVTSRGIDRPA------------------ERSVPSIKGWLMRGFRVDP 58 (58)
T ss_pred cchhHeeeeccccCchh------------------hhccHHHHHHHHhccccCC
Confidence 45556666655666543 1245678889999988874
No 42
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=28.26 E-value=50 Score=26.01 Aligned_cols=33 Identities=24% Similarity=0.294 Sum_probs=27.5
Q ss_pred ChHHHHHHHhhC-CCCChhhhhhhccccccchhh
Q psy17822 19 TEMGVAQFLYKG-EGLNKTAIGDYLGERHDFNEK 51 (91)
Q Consensus 19 ~p~~ia~Fl~~~-~~L~k~~iGeyLg~~~~fn~~ 51 (91)
-|+.||.||... -+++-..||.++|.+++-.+.
T Consensus 388 ~aR~iamyl~~~~~~~s~~~Ig~~fg~rdhstV~ 421 (450)
T PRK00149 388 RPRQIAMYLAKELTDLSLPEIGRAFGGRDHTTVL 421 (450)
T ss_pred hHHHHHHHHHHHhcCCCHHHHHHHcCCCCHhHHH
Confidence 489999999984 599999999999988765544
No 43
>KOG3820|consensus
Probab=28.24 E-value=40 Score=27.41 Aligned_cols=35 Identities=23% Similarity=0.313 Sum_probs=28.2
Q ss_pred HCCCCCCC-h--HHHHHHHhhCCCCChhhhhhhccccc
Q psy17822 12 QNNLLEPT-E--MGVAQFLYKGEGLNKTAIGDYLGERH 46 (91)
Q Consensus 12 ~~g~l~~~-p--~~ia~Fl~~~~~L~k~~iGeyLg~~~ 46 (91)
.+|+-+|+ | +||..||+...|..-+-+.-||..++
T Consensus 222 ~cg~~ednIPQLeDVs~FLk~~TGF~lRPvAGlLSaRD 259 (461)
T KOG3820|consen 222 YCGYREDNIPQLEDVSKFLKKKTGFRLRPVAGLLSARD 259 (461)
T ss_pred hcCcCCCCcchHHHHHHHHHhccCceeecccccCcHHH
Confidence 47788775 4 99999999988999777777777765
No 44
>PF07319 DnaI_N: Primosomal protein DnaI N-terminus; InterPro: IPR009928 This entry represents the N terminus (approximately 120 residues) of bacterial primosomal DnaI proteins, although one family member appears to be of viral origin. DnaI is one of the components of the Bacillus subtilis replication restart primosome, and is required for the DnaB75-dependent loading of the DnaC helicase [].; PDB: 2K7R_A.
Probab=27.78 E-value=47 Score=20.81 Aligned_cols=20 Identities=25% Similarity=0.263 Sum_probs=15.1
Q ss_pred HHHHHHHhhC-CCCChhhhhh
Q psy17822 21 MGVAQFLYKG-EGLNKTAIGD 40 (91)
Q Consensus 21 ~~ia~Fl~~~-~~L~k~~iGe 40 (91)
.+|..||..+ +.|++.+|-.
T Consensus 32 p~V~~Fl~~h~~eLt~~~i~r 52 (94)
T PF07319_consen 32 PEVQAFLQEHQPELTQEMIER 52 (94)
T ss_dssp HHHHHHHHHSTTT--HHHHHH
T ss_pred HHHHHHHHHhHHhcCHHHHHH
Confidence 4789999997 9999998873
No 45
>PF00325 Crp: Bacterial regulatory proteins, crp family; InterPro: IPR001808 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. This family groups together a range of proteins, including anr, crp, clp, cysR, fixK, flp, fnr, fnrN, hlyX and ntcA [, ]. Within this family, the HTH motif is situated towards the C terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2OZ6_A 1CGP_B 2GZW_C 1O3T_B 3ROU_A 2CGP_A 3RDI_A 1I5Z_A 3IYD_H 3FWE_B ....
Probab=27.21 E-value=26 Score=18.20 Aligned_cols=14 Identities=36% Similarity=0.736 Sum_probs=8.2
Q ss_pred CChhhhhhhccccc
Q psy17822 33 LNKTAIGDYLGERH 46 (91)
Q Consensus 33 L~k~~iGeyLg~~~ 46 (91)
+++..||+|+|-..
T Consensus 3 mtr~diA~~lG~t~ 16 (32)
T PF00325_consen 3 MTRQDIADYLGLTR 16 (32)
T ss_dssp --HHHHHHHHTS-H
T ss_pred cCHHHHHHHhCCcH
Confidence 56777888887653
No 46
>PRK15245 type III effector phosphothreonine lyase; Provisional
Probab=27.12 E-value=14 Score=27.52 Aligned_cols=44 Identities=11% Similarity=0.320 Sum_probs=27.3
Q ss_pred HHhhCCCCChhhhhhhccccccchhhccccCCchhhHHHHhhhCc
Q psy17822 26 FLYKGEGLNKTAIGDYLGERHDFNEKNNLLEPTEMGVAQFLYKGE 70 (91)
Q Consensus 26 Fl~~~~~L~k~~iGeyLg~~~~fn~~~~l~~~~~~~Ir~FL~~~~ 70 (91)
|+|.+ +-+.+.-|||+|+.=++.++...+.--=.+|-..|++.+
T Consensus 86 FIHa~-R~~~q~kGefaGDK~HiSV~~~qv~qAF~als~lLfSeD 129 (241)
T PRK15245 86 FIHAR-RESPQSKGDFAGDKFHISVARDQVPQAFQALSGLLFSED 129 (241)
T ss_pred EEEec-ccCccccccccCceEEEEecHHHHHHHHHHhhhhhcCCC
Confidence 55544 788889999999987777664332222234445555544
No 47
>KOG0932|consensus
Probab=26.93 E-value=46 Score=28.45 Aligned_cols=50 Identities=22% Similarity=0.282 Sum_probs=34.9
Q ss_pred hHHHHHHHhhCCCCChhhhhhhccccccchhhccccCCchhhHHHHhhhCcCCchh
Q psy17822 20 EMGVAQFLYKGEGLNKTAIGDYLGERHDFNEKNNLLEPTEMGVAQFLYKGEGLNKT 75 (91)
Q Consensus 20 p~~ia~Fl~~~~~L~k~~iGeyLg~~~~fn~~~~l~~~~~~~Ir~FL~~~~~ld~~ 75 (91)
-.+||..|-.+...+|-..+|||.=- +|.=. ..+.++|.||..-.=.-+|
T Consensus 322 ~sdVA~~LgknNeFS~lVa~eYL~fF-~Fsg~-----tlD~ALR~Flka~~L~GET 371 (774)
T KOG0932|consen 322 KSDVARHLGKNNEFSRLVAEEYLSFF-QFSGM-----TLDQALREFLKALELMGET 371 (774)
T ss_pred HHHHHHHhcccchHHHHHHHHHHHHh-hccCc-----cHHHHHHHHHHHhhhccch
Confidence 57899999999999999999998532 11111 1367889998765433333
No 48
>PF06242 DUF1013: Protein of unknown function (DUF1013); InterPro: IPR010421 This is a family of uncharacterised proteins found in Proteobacteria.
Probab=26.12 E-value=66 Score=22.30 Aligned_cols=29 Identities=14% Similarity=0.222 Sum_probs=25.8
Q ss_pred CChHHHHHHHhhCCCCChhhhhhhccccc
Q psy17822 18 PTEMGVAQFLYKGEGLNKTAIGDYLGERH 46 (91)
Q Consensus 18 ~~p~~ia~Fl~~~~~L~k~~iGeyLg~~~ 46 (91)
|-|.+|+=++++.|.|+=.+|...+|.-.
T Consensus 69 DrPdaI~wlvk~hPel~DaQI~kLiGTTK 97 (140)
T PF06242_consen 69 DRPDAIAWLVKNHPELSDAQIAKLIGTTK 97 (140)
T ss_pred CChHHHHHHHhcCCcccHHHHHHHhcCcH
Confidence 35999999999999999999999999754
No 49
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=25.73 E-value=57 Score=26.09 Aligned_cols=32 Identities=25% Similarity=0.277 Sum_probs=26.3
Q ss_pred ChHHHHHHHhhC-CCCChhhhhhhccccccchhh
Q psy17822 19 TEMGVAQFLYKG-EGLNKTAIGDYLGERHDFNEK 51 (91)
Q Consensus 19 ~p~~ia~Fl~~~-~~L~k~~iGeyLg~~~~fn~~ 51 (91)
-|+.||-||... -+.+-..||..+| +++-.+-
T Consensus 383 ~~Rqiamyl~r~~t~~s~~~IG~~fg-rdHsTV~ 415 (445)
T PRK12422 383 LPRQVAMYLCRQKLSLSYVKIGDVFS-RDHSTVI 415 (445)
T ss_pred cHHHHHHHHHHHhcCCCHHHHHHHhC-CChHHHH
Confidence 489999999973 5899999999999 7765544
No 50
>TIGR01729 taurine_ABC_bnd taurine ABC transporter, periplasmic binding protein. This model identifies a cluster of ABC transporter periplasmic substrate binding proteins, apparently specific for taurine. Transport systems for taurine (NH2-CH2-CH2-SO3H), sulfonates, and sulfate esters import sulfur when sulfate levels are low. The most closely related proteins outside this family are putative aliphatic sulfonate binding proteins (TIGR01728).
Probab=23.14 E-value=70 Score=23.19 Aligned_cols=23 Identities=4% Similarity=0.156 Sum_probs=16.1
Q ss_pred HHHHHHCCCCCCChHHHHHHHhh
Q psy17822 7 IEWLIQNNLLEPTEMGVAQFLYK 29 (91)
Q Consensus 7 i~~l~~~g~l~~~p~~ia~Fl~~ 29 (91)
.+||+++|+|+..|.++..|+-.
T Consensus 274 ~~~l~~~g~i~~~~~~~~~~~~~ 296 (300)
T TIGR01729 274 AKFLKEQGKVDAVLDDYSPYVTS 296 (300)
T ss_pred HHHHHHcCCcCccchhhHhhcCc
Confidence 47777888887766677766643
No 51
>PF08535 KorB: KorB domain; InterPro: IPR013741 This entry contains several KorB transcriptional repressor proteins. The korB gene is a major regulatory element in the replication and maintenance of broad host-range plasmid RK2. It negatively controls the replication gene trfA, the host-lethal determinants kilA and kilB, and the korA-korB operon []. This domain includes the DNA-binding HTH motif []. ; PDB: 1R71_C.
Probab=22.27 E-value=79 Score=19.40 Aligned_cols=12 Identities=8% Similarity=0.285 Sum_probs=5.0
Q ss_pred hhhHHHHhhhCc
Q psy17822 59 EMGVAQFLYKGE 70 (91)
Q Consensus 59 ~~~Ir~FL~~~~ 70 (91)
|+.|...+.+|.
T Consensus 30 P~~i~~~v~~g~ 41 (93)
T PF08535_consen 30 PEEIKELVRSGR 41 (93)
T ss_dssp -HHHHHHHHTTS
T ss_pred CHHHHHHHHcCC
Confidence 444444444443
No 52
>cd04445 DEP_PLEK1 DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in pleckstrin 1-like proteins. Pleckstrin 1 plays a role in cell spreading and reorganization of actin cytoskeleton in platelets and leukocytes. Its activity is highly regulated by phosphorylation, mainly by protein kinase C. Pleckstrin-like proteins contain a central DEP domain, flanked by 2 PH (pleckstrin homology) domains.
Probab=21.08 E-value=56 Score=21.37 Aligned_cols=34 Identities=26% Similarity=0.300 Sum_probs=22.5
Q ss_pred CChhhHHHHHHHCCCCCC-----ChHHHHHHHhhCCCCC
Q psy17822 1 MDPKKGIEWLIQNNLLEP-----TEMGVAQFLYKGEGLN 34 (91)
Q Consensus 1 ~~PkkGi~~l~~~g~l~~-----~p~~ia~Fl~~~~~L~ 34 (91)
++|..||+-+.....+.- +-.+|..||-.....+
T Consensus 10 qDp~~GIk~~~~~~~~tv~~hcftGsdVVdWLv~~~~v~ 48 (99)
T cd04445 10 KDPEKGIKELNLEKDKKVFNHCFTGSCVIDWLVSNQSVR 48 (99)
T ss_pred hCcccchhhhhHHHhhccccceecccHHHHHHHHhhccc
Confidence 478888887766555554 2477778887765554
No 53
>TIGR01550 DOC_P1 death-on-curing family protein. A similar region, with K replaced by G, is found in the huntingtin interacting protein (HYPE) family.
Probab=20.98 E-value=2.4e+02 Score=18.37 Aligned_cols=36 Identities=14% Similarity=0.188 Sum_probs=21.7
Q ss_pred HHHHHHCCCCC-CChHHHHHHHhh--CCC-CChhhhhhhc
Q psy17822 7 IEWLIQNNLLE-PTEMGVAQFLYK--GEG-LNKTAIGDYL 42 (91)
Q Consensus 7 i~~l~~~g~l~-~~p~~ia~Fl~~--~~~-L~k~~iGeyL 42 (91)
..||..+|.-- .+|+++..|... +.. +++..|.+||
T Consensus 80 ~~fL~~NG~~l~~~~~e~~~~~~~vA~~~~~~~e~i~~wl 119 (121)
T TIGR01550 80 LLFLELNGYEFTDSPEELIDFTVGVATGETISVESLADWL 119 (121)
T ss_pred HHHHHHCCcCCCCCHHHHHHHHHHHHCCCCCCHHHHHHHH
Confidence 45666666443 356667777665 444 6666666665
No 54
>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A ....
Probab=20.92 E-value=1.1e+02 Score=16.11 Aligned_cols=25 Identities=12% Similarity=0.317 Sum_probs=17.9
Q ss_pred HHHHHHHhhCCCCChhhhhhhcccc
Q psy17822 21 MGVAQFLYKGEGLNKTAIGDYLGER 45 (91)
Q Consensus 21 ~~ia~Fl~~~~~L~k~~iGeyLg~~ 45 (91)
..|-.+|.++++++.+.|.+-+|-.
T Consensus 6 ~~Il~~l~~~~~~t~~ela~~~~is 30 (48)
T PF13412_consen 6 RKILNYLRENPRITQKELAEKLGIS 30 (48)
T ss_dssp HHHHHHHHHCTTS-HHHHHHHHTS-
T ss_pred HHHHHHHHHcCCCCHHHHHHHhCCC
Confidence 4567788888888888888766643
No 55
>KOG0193|consensus
Probab=20.11 E-value=17 Score=30.92 Aligned_cols=35 Identities=26% Similarity=0.481 Sum_probs=28.2
Q ss_pred hhHHHHHHHCCCCCCChHHHHHHHhhCCCCChhhhhhh
Q psy17822 4 KKGIEWLIQNNLLEPTEMGVAQFLYKGEGLNKTAIGDY 41 (91)
Q Consensus 4 kkGi~~l~~~g~l~~~p~~ia~Fl~~~~~L~k~~iGey 41 (91)
-.||.||-.+++|-.|=.+=-.||++. .|..||+|
T Consensus 498 aqGM~YLHAK~IIHrDLKSnNIFl~~~---~kVkIgDF 532 (678)
T KOG0193|consen 498 AQGMDYLHAKNIIHRDLKSNNIFLHED---LKVKIGDF 532 (678)
T ss_pred HHhhhhhhhhhhhhhhccccceEEccC---CcEEEecc
Confidence 369999999999998866666688875 57788875
Done!