Query 019409
Match_columns 341
No_of_seqs 82 out of 84
Neff 3.8
Searched_HMMs 46136
Date Fri Mar 29 09:14:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019409.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/019409hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK10236 hypothetical protein; 100.0 2.8E-55 6.1E-60 407.5 15.3 209 59-330 7-230 (237)
2 COG4735 Uncharacterized protei 100.0 1.1E-50 2.4E-55 369.1 10.6 190 111-334 18-208 (211)
3 COG4735 Uncharacterized protei 98.2 1.3E-05 2.8E-10 74.7 10.7 84 132-227 1-101 (211)
4 PF03981 Ubiq_cyt_C_chap: Ubiq 97.6 3.2E-05 7E-10 65.5 2.9 131 116-321 5-140 (141)
5 PF13099 DUF3944: Domain of un 95.7 0.009 2E-07 41.9 2.4 27 60-86 3-29 (35)
6 PF03250 Tropomodulin: Tropomo 78.1 3.1 6.8E-05 37.6 4.1 31 53-83 109-139 (147)
7 PF04583 Baculo_p74: Baculovir 65.3 1.4E+02 0.0031 29.3 13.1 18 291-308 104-121 (249)
8 PF04542 Sigma70_r2: Sigma-70 47.5 24 0.00052 25.3 3.1 33 142-177 5-37 (71)
9 PRK09535 btuC corrinoid ABC tr 46.0 38 0.00083 34.5 5.3 37 289-325 284-321 (366)
10 PF02173 pKID: pKID domain; I 43.1 16 0.00034 26.8 1.5 13 138-150 18-30 (41)
11 PF01371 Trp_repressor: Trp re 42.6 42 0.00092 27.7 4.1 23 64-86 8-30 (87)
12 PF11248 DUF3046: Protein of u 36.2 78 0.0017 25.0 4.5 45 114-158 4-62 (63)
13 TIGR02989 Sig-70_gvs1 RNA poly 33.2 55 0.0012 27.3 3.5 34 141-177 9-42 (159)
14 PF05461 ApoL: Apolipoprotein 32.0 2.5E+02 0.0054 28.1 8.4 87 136-234 28-117 (313)
15 TIGR03869 F420-0_ABCperm propo 32.0 89 0.0019 31.2 5.3 40 289-328 242-282 (325)
16 cd06406 PB1_P67 A PB1 domain i 30.6 39 0.00084 27.8 2.1 20 137-156 18-37 (80)
17 PRK09777 fecD iron-dicitrate t 30.4 98 0.0021 30.8 5.3 38 289-326 238-276 (318)
18 PRK09646 RNA polymerase sigma 25.8 4.6E+02 0.0099 23.0 9.9 28 165-204 126-153 (194)
19 smart00530 HTH_XRE Helix-turn- 25.0 1.2E+02 0.0026 19.2 3.5 40 119-158 15-54 (56)
20 PRK02983 lysS lysyl-tRNA synth 25.0 1.6E+02 0.0035 34.1 6.4 83 97-179 855-974 (1094)
21 PRK14082 hypothetical protein; 24.6 59 0.0013 26.0 2.1 16 162-177 33-48 (65)
22 PRK03784 vtamin B12-transporte 23.4 1.6E+02 0.0034 29.6 5.3 39 289-327 248-287 (331)
23 PF07176 DUF1400: Alpha/beta h 22.1 1.3E+02 0.0028 26.0 3.9 36 56-91 27-62 (127)
24 PF11470 TUG-UBL1: GLUT4 regul 21.7 58 0.0013 25.5 1.5 20 139-158 16-35 (65)
25 cd00093 HTH_XRE Helix-turn-hel 21.7 1.5E+02 0.0034 18.8 3.5 39 119-157 17-55 (58)
26 cd06134 RNaseT DEDDh 3'-5' exo 21.4 89 0.0019 28.0 2.9 33 145-177 151-188 (189)
27 COG0609 FepD ABC-type Fe3+-sid 20.9 1.2E+02 0.0027 30.2 4.1 34 287-320 248-282 (334)
28 PF02196 RBD: Raf-like Ras-bin 20.8 68 0.0015 25.0 1.8 33 127-159 7-40 (71)
29 cd02642 R3H_encore_like R3H do 20.5 1.1E+02 0.0025 23.1 2.9 43 115-157 3-48 (63)
30 PF15008 DUF4518: Domain of un 20.4 2.6E+02 0.0057 27.6 6.1 87 61-177 7-93 (262)
31 cd07679 F-BAR_PACSIN2 The F-BA 20.4 61 0.0013 31.8 1.7 23 142-164 227-249 (258)
32 PRK10441 iron-enterobactin tra 20.3 1.9E+02 0.0042 29.0 5.2 38 289-326 251-289 (335)
No 1
>PRK10236 hypothetical protein; Provisional
Probab=100.00 E-value=2.8e-55 Score=407.50 Aligned_cols=209 Identities=21% Similarity=0.280 Sum_probs=173.4
Q ss_pred CChhHHHHHHhhChHHHHHHHHHhcC-----CCCCCcchhhhc-cc---CCcchhHHhhhhhHHHHHHHHHHHHHhcccc
Q 019409 59 FDPELRSVLELATDSELYELERILFG-----PSYFSPLLKSFT-KR---ADVDYVMIEQDLEEREDFIASLESRFLFLAA 129 (341)
Q Consensus 59 ~~~ELr~~LelATdeEL~~L~~ILf~-----~~~fsPLlkS~~-~~---~~~Dy~~~~~~~~~R~~~~~~Ie~rfrflAa 129 (341)
.|++| +||..||+|||.+|++||++ .|+++.|+++.. ++ +.+||.+ ||+.||+||||||+
T Consensus 7 ~D~DL-~fL~~cs~edL~~Lv~~Lt~d~dG~~R~te~lt~~~~yk~~~~~~~~~~~----------yw~~Ia~elq~fGg 75 (237)
T PRK10236 7 NDSDL-DFLQHCSEEQLANFARLLTHNEKGKTRLSSVLMRNELFKSMEGHPEQHRR----------NWQLIAGELQHFGG 75 (237)
T ss_pred cCccH-HHHHhCCHHHHHHHHHHHhcCCCCCEeehhhhcccHHHHhhcccchhHHH----------HHHHHHHHHHHhcc
Confidence 34555 79999999999999999998 566778877744 55 6677766 99999999999999
Q ss_pred ch-hhhhcCCCccHHHHHHHHHhhcCCCCCCCCChHHHHHHHHHHHHhhhhccccCCCCCccccCCchhhhhHHHhhhhh
Q 019409 130 DA-RSTLRGWRPSYRNVLLAVRKNLNIPCSSKLSTEDLEAEIFLHLLQEYASEESGVFPGSWENSEASDAQNSLELGLSQ 208 (341)
Q Consensus 130 D~-~tvLRG~gvsYReVLldVC~kLKV~ys~~lsT~dLEaeIfl~LL~~~~~~~~~~~~~awekm~~~e~~~~L~~~L~~ 208 (341)
|+ +|+|||+||+|||||+||||||||||++++||++||+|||+|++++ +|+|||++| +++|+.++..
T Consensus 76 nt~~n~lRG~Gv~YreIL~DVc~~LKV~y~~~~st~~iE~~il~kll~~-----------a~~kms~eE-~~~L~~~l~~ 143 (237)
T PRK10236 76 DSIANKLRGHGKLYRAILLDVSKRLKLKADKEMSTFEIEQQLLEQFLRN-----------TWKKMDEEH-KQEFLHAVDA 143 (237)
T ss_pred hHHHHHHhcCCccHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHHH-----------HHHHCCHHH-HHHHHHHHhh
Confidence 99 6799999999999999999999999999999999999999999999 999999999 9999998652
Q ss_pred ----hhHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHhHHHHHHHHHhhhhHHHHhHHHHHHHHHHhhhhhhhhhhH
Q 019409 209 ----WKVQALAAFNAGAVELKSMMLKLMRNLSGKFFLEAANYQIKKEVLKKGGQLAAINLESRAALLAAKQGFAGAATKY 284 (341)
Q Consensus 209 ----l~~~~~a~lk~g~~~~~ssvlkl~~~ls~qlal~~A~Yqvak~~l~~Gg~~aa~~l~~~~al~aA~rGla~aAary 284 (341)
.+. ...+ .-..+.+.++.+++++||++.++|| .++++++ |||++
T Consensus 144 ~l~~~~~-~~~~----ll~~~~~~~~~~gf~~y~l~~iv~~-~i~~~~l--------------------G~gL~------ 191 (237)
T PRK10236 144 RVNELEE-LLPL----LMKDKLLAKGVSHLLSSQLTRILRT-HAAMSVL--------------------GHGLL------ 191 (237)
T ss_pred hccCccc-chHH----HHHHHHHHHhhcchHHHHHHHHHHH-HHHHHHh--------------------hhhHH------
Confidence 110 0000 1111244567899999999999999 5777777 77775
Q ss_pred HHHHHHHHhhhHHHHHHHHH-HHHhhhhcccchhHHHHHHHHHHHHH
Q 019409 285 LGLRNMVALLGPVLWGTFLA-DVVIQMLGTDYARILRAIYAFAQIRI 330 (341)
Q Consensus 285 ~~~Rs~~~llGPi~W~w~la-DLa~~aiGtaYrrtIPAViaiAqIRl 330 (341)
|+++ |+|||||+.+.+ ||+ |||||||||||++||.+|.
T Consensus 192 ---r~~~-l~GPIGw~itg~wdla----gpAyRVTIPaviqIA~Lrq 230 (237)
T PRK10236 192 ---RGAG-LGGPVGAALNGVKAVS----GSAYRVTIPAVLQIACLRR 230 (237)
T ss_pred ---HHhh-ccCchhHHhhhhHHhc----CCeeeeecchHHHHHHHHH
Confidence 5565 999999992222 777 9999999999999999986
No 2
>COG4735 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=100.00 E-value=1.1e-50 Score=369.07 Aligned_cols=190 Identities=24% Similarity=0.380 Sum_probs=175.8
Q ss_pred hHHHHHHHHHHHHHhccccch-hhhhcCCCccHHHHHHHHHhhcCCCCCCCCChHHHHHHHHHHHHhhhhccccCCCCCc
Q 019409 111 EEREDFIASLESRFLFLAADA-RSTLRGWRPSYRNVLLAVRKNLNIPCSSKLSTEDLEAEIFLHLLQEYASEESGVFPGS 189 (341)
Q Consensus 111 ~~R~~~~~~Ie~rfrflAaD~-~tvLRG~gvsYReVLldVC~kLKV~ys~~lsT~dLEaeIfl~LL~~~~~~~~~~~~~a 189 (341)
.+...|++.|.++++..+.|+ ++.|||.|+.||+||+|+|||||++|+++++|.+||++++++++++ +
T Consensus 18 ~~~~ky~k~ia~elq~~gg~s~anflr~~G~lyk~il~d~~~~Lk~k~~k~~~tt~Iee~ll~~il~~-----------~ 86 (211)
T COG4735 18 IQVCKYLKRIAEELQTTGGLSAANFLRDLGQLYKKILCDEKDKLKVKVQKELGTTEIEEPLLLQILRN-----------P 86 (211)
T ss_pred HHHHHHHHhhHHHHHHhccHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHhhccccccchhHHHHHHh-----------H
Confidence 445559999999999888888 8999999999999999999999999999999999999999999999 9
Q ss_pred cccCCchhhhhHHHhhhhhhhHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHhHHHHHHHHHhhhhHHHHhHHHHHH
Q 019409 190 WENSEASDAQNSLELGLSQWKVQALAAFNAGAVELKSMMLKLMRNLSGKFFLEAANYQIKKEVLKKGGQLAAINLESRAA 269 (341)
Q Consensus 190 wekm~~~e~~~~L~~~L~~l~~~~~a~lk~g~~~~~ssvlkl~~~ls~qlal~~A~Yqvak~~l~~Gg~~aa~~l~~~~a 269 (341)
|+||+.++ .+++++.+.... +.+ +..|+.+++|.|++||.+.++|+..+|.+++|++|
T Consensus 87 l~km~~~~-~~e~~~~l~~~~--------------------v~~-i~e~~~vl~a~~l~ak~~~~~~S~qla~~l~~~~a 144 (211)
T COG4735 87 LEKMLKGG-KAEAVDSLDAPN--------------------VLE-IEEQLQVLIADYLVAKKALGKGSYQLAVILQNAVA 144 (211)
T ss_pred HHHHhHHH-HHHHHHHhcchh--------------------HHH-HHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHH
Confidence 99999999 777777665111 233 77899999999999999999999999999999999
Q ss_pred HHHHhhhhhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHHHhhcc
Q 019409 270 LLAAKQGFAGAATKYLGLRNMVALLGPVLWGTFLADVVIQMLGTDYARILRAIYAFAQIRITRTY 334 (341)
Q Consensus 270 l~aA~rGla~aAary~~~Rs~~~llGPi~W~w~laDLa~~aiGtaYrrtIPAViaiAqIRltRt~ 334 (341)
+|++||||++.|+ |+++||+++|+|||||+||.+|++||++||||||||||||++||||++|..
T Consensus 145 ~q~lg~Gl~~ga~-~~~~rtl~~l~GPvgw~l~ga~~~~~~~g~~YrvtIPai~~lA~lRl~~~~ 208 (211)
T COG4735 145 LQTLGQGLLRGAA-YGLVRTLFSLGGPVGWALFGADLGWRAIGTNYRVTIPAIFQLAQLRLTRAA 208 (211)
T ss_pred HHHHhhhhhhhhh-hhHHHHHHHhcchHHHHHHHHHHHHHhhcccccccHHHHHHHHHHHHHHHH
Confidence 9999999999887 999999999999999999999999999999999999999999999999864
No 3
>COG4735 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=98.20 E-value=1.3e-05 Score=74.69 Aligned_cols=84 Identities=23% Similarity=0.270 Sum_probs=68.4
Q ss_pred hhhhcCC--CccHHHHHHHHHhhcCCCCCCCCChHHHHHHHHHHHHhhhhccccCCCCCccccCCchhhhhHHHhhhh--
Q 019409 132 RSTLRGW--RPSYRNVLLAVRKNLNIPCSSKLSTEDLEAEIFLHLLQEYASEESGVFPGSWENSEASDAQNSLELGLS-- 207 (341)
Q Consensus 132 ~tvLRG~--gvsYReVLldVC~kLKV~ys~~lsT~dLEaeIfl~LL~~~~~~~~~~~~~awekm~~~e~~~~L~~~L~-- 207 (341)
+|++||+ ..+||+-++||||++|++|..-..|-++|.+.|+|.+++ .|+|.+.++ .+.|.....
T Consensus 1 lt~~l~~~~~~k~r~g~~~~~ky~k~ia~elq~~gg~s~anflr~~G~-----------lyk~il~d~-~~~Lk~k~~k~ 68 (211)
T COG4735 1 LTVLLGRSEQFKYREGLIQVCKYLKRIAEELQTTGGLSAANFLRDLGQ-----------LYKKILCDE-KDKLKVKVQKE 68 (211)
T ss_pred CchhhccchhhHHHhhHHHHHHHHHhhHHHHHHhccHHHHHHHHHHHH-----------HHHHcCHHH-HHHHHHHHHHh
Confidence 4678886 999999999999999999999999999999999999999 999999888 555544421
Q ss_pred --------hhhHHHHH-----HHhhhHHHHHHH
Q 019409 208 --------QWKVQALA-----AFNAGAVELKSM 227 (341)
Q Consensus 208 --------~l~~~~~a-----~lk~g~~~~~ss 227 (341)
+++.+++. ..++|.++++++
T Consensus 69 ~~tt~Iee~ll~~il~~~l~km~~~~~~e~~~~ 101 (211)
T COG4735 69 LGTTEIEEPLLLQILRNPLEKMLKGGKAEAVDS 101 (211)
T ss_pred hccccccchhHHHHHHhHHHHHhHHHHHHHHHH
Confidence 24444422 678888888775
No 4
>PF03981 Ubiq_cyt_C_chap: Ubiquinol-cytochrome C chaperone ; InterPro: IPR021150 Saccharomyces cerevisiae ubiquinol-cytochrome C chaperone is required for assembly of coenzyme QF-2-cytochrome C reductase. It appears to be found in a number of different organisms including Homo sapiens, Caenorhabditis elegans and Rhizobium meliloti. This entry also contains bacterial proteins belonging to the UPF0174 family.
Probab=97.65 E-value=3.2e-05 Score=65.47 Aligned_cols=131 Identities=17% Similarity=0.172 Sum_probs=80.4
Q ss_pred HHHHHHHHHhccccch-hhhhcCCCccHHHHHHHHHhhcCCCCCCCCChHHHHHHHHHHHHhhhhccccCCCCCccccCC
Q 019409 116 FIASLESRFLFLAADA-RSTLRGWRPSYRNVLLAVRKNLNIPCSSKLSTEDLEAEIFLHLLQEYASEESGVFPGSWENSE 194 (341)
Q Consensus 116 ~~~~Ie~rfrflAaD~-~tvLRG~gvsYReVLldVC~kLKV~ys~~lsT~dLEaeIfl~LL~~~~~~~~~~~~~awekm~ 194 (341)
+.+.+++||+++.... +.+.| ||..+ .+..++|++||.++.++ ++++|.
T Consensus 5 ~~dt~~~~f~~~~lh~~l~~~R----------------Lk~~~---~~~~~~~q~l~~~~~~d-----------~~~~l~ 54 (141)
T PF03981_consen 5 VPDTFAGRFQMLGLHVWLVLRR----------------LKAEG---KEGKELEQALFDKFFED-----------MDERLR 54 (141)
T ss_pred CccCHHHHHHHHHHHHHHHHHH----------------Hcccc---ccHHHHHHHHHHHHHHH-----------HHHHHH
Confidence 5688999999999888 55555 78777 44699999999999999 999998
Q ss_pred chhhhhHHHhhhhhhhHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHhHHHHHHHHHhhhhHHHHhHHHHHHHHHHh
Q 019409 195 ASDAQNSLELGLSQWKVQALAAFNAGAVELKSMMLKLMRNLSGKFFLEAANYQIKKEVLKKGGQLAAINLESRAALLAAK 274 (341)
Q Consensus 195 ~~e~~~~L~~~L~~l~~~~~a~lk~g~~~~~ssvlkl~~~ls~qlal~~A~Yqvak~~l~~Gg~~aa~~l~~~~al~aA~ 274 (341)
+.+ .+++..+ +++ +.+..++--.+..|.- .+..+.. .|..-+.....+
T Consensus 55 ~~g-v~d~~~~-----k~~-------------------k~l~~~~~g~~~ayd~---al~~~~~----~La~al~rnv~~ 102 (141)
T PF03981_consen 55 EMG-VGDLSVG-----KRM-------------------KKLQEQFYGRLLAYDE---ALGSDDA----ALAAALWRNVFG 102 (141)
T ss_pred Hhc-Ccchhhh-----HHH-------------------HHHHHHHHHHHHHHHH---HhccCHH----HHHHHHHHHHHh
Confidence 777 4433331 110 1111122222223321 1111000 010111111111
Q ss_pred hhhhhhhhhHHHHHHHHHhhhHHHHH----HHHHHHHhhhhcccchhHHHH
Q 019409 275 QGFAGAATKYLGLRNMVALLGPVLWG----TFLADVVIQMLGTDYARILRA 321 (341)
Q Consensus 275 rGla~aAary~~~Rs~~~llGPi~W~----w~laDLa~~aiGtaYrrtIPA 321 (341)
.. ..|....+.||+.|+ |.+.|+. +++|++++|.
T Consensus 103 ~~---------~~~~~~~~~~l~~yv~~~~~~l~~~~----~~~~~~g~~~ 140 (141)
T PF03981_consen 103 GR---------EERDPAQLAGLAGYVRRQLWHLDDLP----DPAYLVGIPR 140 (141)
T ss_pred Cc---------cccCHHHHHHHHHHHHHHHHHHHCCC----HHHHHhCCCC
Confidence 10 357788999999999 9999999 9999999874
No 5
>PF13099 DUF3944: Domain of unknown function (DUF3944)
Probab=95.65 E-value=0.009 Score=41.94 Aligned_cols=27 Identities=19% Similarity=0.117 Sum_probs=24.1
Q ss_pred ChhHHHHHHhhChHHHHHHHHHhcCCC
Q 019409 60 DPELRSVLELATDSELYELERILFGPS 86 (341)
Q Consensus 60 ~~ELr~~LelATdeEL~~L~~ILf~~~ 86 (341)
-|+..+||..|++|||++|++||++-+
T Consensus 3 ~D~DLeFL~~cs~edL~~L~~~Lt~dk 29 (35)
T PF13099_consen 3 YDSDLEFLAECSNEDLKDLVDILTHDK 29 (35)
T ss_pred cCcchHHHHHCCHHHHHHHHHHHhcCC
Confidence 367789999999999999999999855
No 6
>PF03250 Tropomodulin: Tropomodulin; InterPro: IPR004934 Actin filaments have an intrinsic polarity, each with a fast-growing (barbed) end and a slow-growing (pointed) end. To regulate the dynamics at these ends, capping proteins have evolved that specifically bind to either the barbed or the pointed ends of the filament, where they block the association and dissociation of monomers. Pointed ends, for which actin monomers have significantly lower association and dissociation rate-constants than for barbed, are capped by either the Arp2/3 complex or tropomodulins []. Tropomodulin is a novel tropomyosin regulatory protein that binds to the end of erythrocyte tropomyosin and blocks head-to-tail association of tropomyosin along actin filaments []. Limited proteolysis shows this protein is composed of two domains. The unstructured tropomyosin-binding region at the N terminus has an actin pointed-end-capping activity that is dramatically up-regulated by tropomyosin coating of the actin filament[]. The second region is found near the C terminus. This tropomyosin-independent capping-domain caps pure actin. ; GO: 0005523 tropomyosin binding, 0005856 cytoskeleton
Probab=78.13 E-value=3.1 Score=37.62 Aligned_cols=31 Identities=45% Similarity=0.549 Sum_probs=27.0
Q ss_pred cCCCCCCChhHHHHHHhhChHHHHHHHHHhc
Q 019409 53 SKGQGAFDPELRSVLELATDSELYELERILF 83 (341)
Q Consensus 53 ~~~~~~~~~ELr~~LelATdeEL~~L~~ILf 83 (341)
....-..++|+.++|.-|||+||.+|..||=
T Consensus 109 ~ee~v~ldpeleeaL~~Atd~El~dlAaILG 139 (147)
T PF03250_consen 109 KEEQVTLDPELEEALSNATDAELCDLAAILG 139 (147)
T ss_pred cccccccCHHHHHHHhcCcHHHHHHHHHHHh
Confidence 3345678899999999999999999999984
No 7
>PF04583 Baculo_p74: Baculoviridae p74 conserved region; InterPro: IPR007663 Baculoviruses are distinct from other virus families in that there are two viral phenotypes: budded virus (BV) and occlusion-derived virus (ODV). BVs disseminate viral infection throughout the tissues of the host and ODVs transmit baculovirus between insect hosts. GFP tagging experiments implicate p74 as an ODV envelope protein [, ].; GO: 0019058 viral infectious cycle
Probab=65.26 E-value=1.4e+02 Score=29.25 Aligned_cols=18 Identities=33% Similarity=0.438 Sum_probs=12.4
Q ss_pred HHhhhHHHHHHHHHHHHh
Q 019409 291 VALLGPVLWGTFLADVVI 308 (341)
Q Consensus 291 ~~llGPi~W~w~laDLa~ 308 (341)
+..+|=++-+.+++|++.
T Consensus 104 aSVvgi~Li~~ti~DlvL 121 (249)
T PF04583_consen 104 ASVVGIVLIFLTIADLVL 121 (249)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 355566666689999873
No 8
>PF04542 Sigma70_r2: Sigma-70 region 2 ; InterPro: IPR007627 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 2 of sigma-70 is the most conserved region of the entire protein. All members of this class of sigma-factor contain region 2. The high conservation is due to region 2 containing both the -10 promoter recognition helix and the primary core RNA polymerase binding determinant. The core-binding helix, interacts with the clamp domain of the largest polymerase subunit, beta prime [, ]. The aromatic residues of the recognition helix, found at the C terminus of this domain are thought to mediate strand separation, thereby allowing transcription initiation [, ].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1OR7_B 1H3L_B 2Z2S_C 2Q1Z_C 2O7G_B 1SMY_F 1IW7_P 2BE5_F 2A6E_F 2CW0_F ....
Probab=47.49 E-value=24 Score=25.33 Aligned_cols=33 Identities=24% Similarity=0.384 Sum_probs=27.5
Q ss_pred HHHHHHHHHhhcCCCCCCCCChHHHHHHHHHHHHhh
Q 019409 142 YRNVLLAVRKNLNIPCSSKLSTEDLEAEIFLHLLQE 177 (341)
Q Consensus 142 YReVLldVC~kLKV~ys~~lsT~dLEaeIfl~LL~~ 177 (341)
|...+..+|.+. ++.....+|+-+|.|+++++.
T Consensus 5 ~~~~l~~~~~~~---~~~~~~~eD~~qe~~~~l~~~ 37 (71)
T PF04542_consen 5 YYPLLYRYARRY---TGDPEDAEDLVQEAFIKLWRA 37 (71)
T ss_dssp THHHHHHHHHTC---TTCSSHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH---hCCHhhHHHHhhHHHHHHHhh
Confidence 667788888888 445568999999999999987
No 9
>PRK09535 btuC corrinoid ABC transporter permease; Reviewed
Probab=45.96 E-value=38 Score=34.51 Aligned_cols=37 Identities=19% Similarity=0.202 Sum_probs=30.8
Q ss_pred HHHHhhhHHHHH-HHHHHHHhhhhcccchhHHHHHHHH
Q 019409 289 NMVALLGPVLWG-TFLADVVIQMLGTDYARILRAIYAF 325 (341)
Q Consensus 289 s~~~llGPi~W~-w~laDLa~~aiGtaYrrtIPAViai 325 (341)
..-++.|||+|+ -...-++-+..|++||..+|....+
T Consensus 284 ~aVa~~G~IgFVGLivPHiaR~l~g~~~r~llp~S~L~ 321 (366)
T PRK09535 284 AAVAVAGVIGFVGLIVPHVMRLLVGPDHRILLPTSALA 321 (366)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHhCcCcchHHHHHHHH
Confidence 447899999999 7777888888899999999986543
No 10
>PF02173 pKID: pKID domain; InterPro: IPR003102 The nuclear factor CREB activates transcription of target genes in part through direct interactions with the KIX domain of the coactivator CBP in a phosphorylation-dependent manner. CBP and P300 bind to the pKID (phosphorylated kinase-inducible-domain) domain of CREB [].; GO: 0005515 protein binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1KDX_B.
Probab=43.14 E-value=16 Score=26.81 Aligned_cols=13 Identities=46% Similarity=0.810 Sum_probs=11.4
Q ss_pred CCccHHHHHHHHH
Q 019409 138 WRPSYRNVLLAVR 150 (341)
Q Consensus 138 ~gvsYReVLldVC 150 (341)
++||||.||-|+-
T Consensus 18 RRPSYRKIlndLs 30 (41)
T PF02173_consen 18 RRPSYRKILNDLS 30 (41)
T ss_dssp TSTHHHHHHHHHH
T ss_pred hCchHHHHHHHhc
Confidence 5999999998874
No 11
>PF01371 Trp_repressor: Trp repressor protein; InterPro: IPR000831 The Trp repressor (TrpR) binds to at least five operators in the Escherichia coli genome, repressing gene expression. The operators at which it binds vary considerably in DNA sequence and location within the promoter; when bound to the Trp operon it recognises the sequence 5'-ACTAGT-3' and acts to prevent the initiation of transcription. The TrpR controls the trpEDCBA (trpO) operon and the genes for trpR, aroH, mtr and aroL, which are involved in the biosynthesis and uptake of the amino acid tryptophan []. The repressor binds to the operators only in the presence of L-tryptophan, thereby controlling the intracellular level of its effector; the complex also regulates Trp repressor biosynthesis by binding to its own regulatory region. TrpR acts as a dimer that is composed of identical 6-helical subunits, where four of the helices form the core of the protein and intertwine with the corresponding helices from the other subunit.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3FRW_H 3KOR_A 3SSW_N 1P6Z_N 1CO0_B 1JHG_A 1WRT_S 1WRS_R 1WRP_R 1RCS_B ....
Probab=42.58 E-value=42 Score=27.71 Aligned_cols=23 Identities=26% Similarity=0.476 Sum_probs=15.1
Q ss_pred HHHHHhhChHHHHHHHHHhcCCC
Q 019409 64 RSVLELATDSELYELERILFGPS 86 (341)
Q Consensus 64 r~~LelATdeEL~~L~~ILf~~~ 86 (341)
..++.+-+.||.+++-+-|+.+.
T Consensus 8 ~~i~~l~~~ee~~~f~~dL~T~~ 30 (87)
T PF01371_consen 8 EAILSLKDEEECYDFFEDLCTPD 30 (87)
T ss_dssp HHHHCHHCHHCHHHHHHHHSSHH
T ss_pred HHHHHcCCHHHHHHHHHHhCCHH
Confidence 44566667777777777776654
No 12
>PF11248 DUF3046: Protein of unknown function (DUF3046); InterPro: IPR021408 This family of proteins with unknown function appears to be restricted to Actinobacteria.
Probab=36.21 E-value=78 Score=25.02 Aligned_cols=45 Identities=29% Similarity=0.336 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHhc-----cccch-hhhhcCC--------CccHHHHHHHHHhhcCCCCC
Q 019409 114 EDFIASLESRFLF-----LAADA-RSTLRGW--------RPSYRNVLLAVRKNLNIPCS 158 (341)
Q Consensus 114 ~~~~~~Ie~rfrf-----lAaD~-~tvLRG~--------gvsYReVLldVC~kLKV~ys 158 (341)
..||+.++.+|== ++.|- .+-|-|+ |+.=|+|=..||+.++||-+
T Consensus 4 teFw~~~~~~FG~~~~~~la~dhvL~~LGgrT~~eAL~~G~dpr~VW~AlC~~~dVP~~ 62 (63)
T PF11248_consen 4 TEFWQLMEEEFGPAYGRSLARDHVLSELGGRTAAEALEAGVDPRDVWRALCDAFDVPEE 62 (63)
T ss_pred HHHHHHHHHHhCchhHHHHHHhcchhhcCCcCHHHHHHcCCCHHHHHHHHHHHcCCCCC
Confidence 4588888888733 22232 2333332 89999999999999999954
No 13
>TIGR02989 Sig-70_gvs1 RNA polymerase sigma-70 factor, Rhodopirellula/Verrucomicrobium family. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are abundantly found in the species Rhodopirellula baltica (11), and Verrucomicrobium spinosum (16) and to a lesser extent in Gemmata obscuriglobus (2).
Probab=33.24 E-value=55 Score=27.29 Aligned_cols=34 Identities=18% Similarity=0.220 Sum_probs=27.8
Q ss_pred cHHHHHHHHHhhcCCCCCCCCChHHHHHHHHHHHHhh
Q 019409 141 SYRNVLLAVRKNLNIPCSSKLSTEDLEAEIFLHLLQE 177 (341)
Q Consensus 141 sYReVLldVC~kLKV~ys~~lsT~dLEaeIfl~LL~~ 177 (341)
.|+..|..+|.++.. +....+|+.+|.|+++++.
T Consensus 9 ~~~~~l~~~~~~~~~---~~~~aEDivQe~~l~l~~~ 42 (159)
T TIGR02989 9 RHQRSLRAFVRSLVP---DRDDADDVLQETFVTAWRK 42 (159)
T ss_pred HhHHHHHHHHHHHcC---ChhhHHHHHHHHHHHHHHH
Confidence 477888888888844 4456799999999999987
No 14
>PF05461 ApoL: Apolipoprotein L; InterPro: IPR008405 Apo L belongs to the high density lipoprotein family that plays a central role in cholesterol transport. The cholesterol content of membranes is important in cellular processes such as modulating gene transcription and signal transduction both in the adult brain and during neurodevelopment. There are six apo L genes located in close proximity to each other on chromosome 22q12 in humans. 22q12 is a confirmed high-susceptibility locus for schizophrenia and close to the region associated with velocardiofacial syndrome that includes symptoms of schizophrenia []. The various functions of apoL are still not entirely clear. Apolipoprotein L-I has been identified as a trypanolytic agent [] and displays similar phylogenetic distribution to the programmed cell death protein Bcl-2 and BH-3 domain-containing proteins, suggesting a possible role in apoptosis [].; GO: 0008289 lipid binding, 0006869 lipid transport, 0042157 lipoprotein metabolic process, 0005576 extracellular region
Probab=32.01 E-value=2.5e+02 Score=28.05 Aligned_cols=87 Identities=14% Similarity=0.143 Sum_probs=48.2
Q ss_pred cCCCccHHHHHHHHHhhcCCCCCCCCChH-HHHHHHHHHHHhhhhccccCCCCCccccCCch-hhhhHHHhhhhhhhHHH
Q 019409 136 RGWRPSYRNVLLAVRKNLNIPCSSKLSTE-DLEAEIFLHLLQEYASEESGVFPGSWENSEAS-DAQNSLELGLSQWKVQA 213 (341)
Q Consensus 136 RG~gvsYReVLldVC~kLKV~ys~~lsT~-dLEaeIfl~LL~~~~~~~~~~~~~awekm~~~-e~~~~L~~~L~~l~~~~ 213 (341)
|-+--.-|+.|.+.|..+...- +.++-. ..+.+.||+..-+ -=++|... ++..++.+.+.+.-..+
T Consensus 28 rde~d~l~~~L~~l~~~~~~~d-~~~~~~~~~~~~~FL~~Fp~-----------~k~~Le~~I~kL~~lAd~idk~Hk~~ 95 (313)
T PF05461_consen 28 RDEADALREALKELTEDMDSED-KDRSQKDQQDRERFLKEFPQ-----------LKEELEEHIRKLRALADEIDKVHKDC 95 (313)
T ss_pred hhhHHHHHHHHHHHHhhhhccc-cchhHHHHHHHHHHHHHhHH-----------HHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4555566788899999887775 444444 4568999998876 11112111 01333344443322222
Q ss_pred -HHHHhhhHHHHHHHHHHHHHh
Q 019409 214 -LAAFNAGAVELKSMMLKLMRN 234 (341)
Q Consensus 214 -~a~lk~g~~~~~ssvlkl~~~ 234 (341)
.+-+-+++..+++-++-++|.
T Consensus 96 tisnvv~ss~g~vsGilsIlGL 117 (313)
T PF05461_consen 96 TISNVVGSSTGAVSGILSILGL 117 (313)
T ss_pred HHHHHHhhhHHHHhhHHHHHhH
Confidence 234455666666666665554
No 15
>TIGR03869 F420-0_ABCperm proposed F420-0 ABC transporter, permease protein. his small clade of ABC-type transporter permease protein components is found as a three gene cassette along with a periplasmic substrate-binding protein (TIGR03868) and an ATPase (TIGR03873). The organisms containing this cassette are all Actinobacteria and all contain numerous genes requiring the coenzyme F420. This model was defined based on five such organisms, four of which are lacking all F420 biosynthetic capability save the final side-chain polyglutamate attachment step (via the gene cofE: TIGR01916). In Jonesia denitrificans DSM 20603 and marine actinobacterium PHSC20C1 this cassette is in an apparent operon with the cofE gene and, in PHSC20C1, also with an F420-dependent glucose-6-phosphate dehydrogenase (TIGR03554). Based on these observations we propose that this permease protein is a component of a F420-0 (that is, F420 lacking only the polyglutamate tail) transporter.
Probab=31.97 E-value=89 Score=31.21 Aligned_cols=40 Identities=15% Similarity=0.179 Sum_probs=32.0
Q ss_pred HHHHhhhHHHHH-HHHHHHHhhhhcccchhHHHHHHHHHHH
Q 019409 289 NMVALLGPVLWG-TFLADVVIQMLGTDYARILRAIYAFAQI 328 (341)
Q Consensus 289 s~~~llGPi~W~-w~laDLa~~aiGtaYrrtIPAViaiAqI 328 (341)
...++.|||+|+ -.+.-++-+..|++|+..+|+...+..+
T Consensus 242 ~~va~vG~I~FvGLi~Phiar~l~g~~~~~ll~~s~l~Ga~ 282 (325)
T TIGR03869 242 ALVSVSGAIGFVGLILPHAVRLLTGPRHRLLLPVSALAGAV 282 (325)
T ss_pred HHHHHhhHHHHHHHHHHHHHHHHcCCCcchHHHHHHHHHHH
Confidence 446899999999 6777788777889999999988765443
No 16
>cd06406 PB1_P67 A PB1 domain is present in p67 proteins which forms a signaling complex with p40, a crucial step for activation of NADPH oxidase during phagocytosis. PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes . A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants. The p67 proteins contain
Probab=30.59 E-value=39 Score=27.77 Aligned_cols=20 Identities=25% Similarity=0.474 Sum_probs=18.8
Q ss_pred CCCccHHHHHHHHHhhcCCC
Q 019409 137 GWRPSYRNVLLAVRKNLNIP 156 (341)
Q Consensus 137 G~gvsYReVLldVC~kLKV~ 156 (341)
..+++|.++.-.|++|||++
T Consensus 18 p~~~~y~~L~~ki~~kLkl~ 37 (80)
T cd06406 18 ARGLSYATLLQKISSKLELP 37 (80)
T ss_pred CCCCCHHHHHHHHHHHhCCC
Confidence 46999999999999999998
No 17
>PRK09777 fecD iron-dicitrate transporter subunit FecD; Reviewed
Probab=30.44 E-value=98 Score=30.83 Aligned_cols=38 Identities=18% Similarity=0.245 Sum_probs=30.5
Q ss_pred HHHHhhhHHHHH-HHHHHHHhhhhcccchhHHHHHHHHH
Q 019409 289 NMVALLGPVLWG-TFLADVVIQMLGTDYARILRAIYAFA 326 (341)
Q Consensus 289 s~~~llGPi~W~-w~laDLa~~aiGtaYrrtIPAViaiA 326 (341)
..-++.|||+++ -.+.-++-+..|+++|..+|....+.
T Consensus 238 ~~vs~vG~I~FvGLi~Phiar~l~g~~~~~~l~~s~l~G 276 (318)
T PRK09777 238 TGVAACGPISFIGLVVPHLMRSLVGGRHRRLLPVSALTG 276 (318)
T ss_pred HHHHHhhHHHHHHHHHHHHHHHHhCcCcchHHHHHHHHH
Confidence 346899999999 66677888888999999999765543
No 18
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=25.80 E-value=4.6e+02 Score=23.02 Aligned_cols=28 Identities=14% Similarity=0.285 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHhhhhccccCCCCCccccCCchhhhhHHHh
Q 019409 165 DLEAEIFLHLLQEYASEESGVFPGSWENSEASDAQNSLEL 204 (341)
Q Consensus 165 dLEaeIfl~LL~~~~~~~~~~~~~awekm~~~e~~~~L~~ 204 (341)
++|.+-....|.+ ++++||+.+ ++-+..
T Consensus 126 ~~~~~~~~~~l~~-----------~l~~L~~~~-r~vl~l 153 (194)
T PRK09646 126 EVEARLERERVRD-----------CLDALTDTQ-RESVTL 153 (194)
T ss_pred HHHHHhHHHHHHH-----------HHHhCCHHH-HHHHHH
Confidence 3444444556666 677788877 665544
No 19
>smart00530 HTH_XRE Helix-turn-helix XRE-family like proteins.
Probab=25.03 E-value=1.2e+02 Score=19.17 Aligned_cols=40 Identities=15% Similarity=0.130 Sum_probs=24.2
Q ss_pred HHHHHHhccccchhhhhcCCCccHHHHHHHHHhhcCCCCC
Q 019409 119 SLESRFLFLAADARSTLRGWRPSYRNVLLAVRKNLNIPCS 158 (341)
Q Consensus 119 ~Ie~rfrflAaD~~tvLRG~gvsYReVLldVC~kLKV~ys 158 (341)
.++.++-.--+..-...+|+...-.+.+..+|+.++++..
T Consensus 15 ~la~~~~i~~~~i~~~~~~~~~~~~~~~~~i~~~~~~~~~ 54 (56)
T smart00530 15 ELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLD 54 (56)
T ss_pred HHHHHhCCCHHHHHHHHCCCCCCCHHHHHHHHHHhCCChh
Confidence 3444443333333456667644456667889999998753
No 20
>PRK02983 lysS lysyl-tRNA synthetase; Provisional
Probab=24.95 E-value=1.6e+02 Score=34.13 Aligned_cols=83 Identities=11% Similarity=0.195 Sum_probs=58.9
Q ss_pred ccCCcchhHHhh--hhhHHHHHHHHHHHHHhccccchh---------------hh-hcC--CCccHHHHHH---------
Q 019409 97 KRADVDYVMIEQ--DLEEREDFIASLESRFLFLAADAR---------------ST-LRG--WRPSYRNVLL--------- 147 (341)
Q Consensus 97 ~~~~~Dy~~~~~--~~~~R~~~~~~Ie~rfrflAaD~~---------------tv-LRG--~gvsYReVLl--------- 147 (341)
.+|++++.|.+. .--+-++.++.+|+=+++.+.... .+ +.+ .+++|.|.+.
T Consensus 855 ~rHnpEFTmLE~y~a~~dy~d~m~l~E~li~~i~~~v~~~~~~~~~~~~~~~~~i~~~~pf~rit~~eai~~~~g~~~~~ 934 (1094)
T PRK02983 855 ATHNPEFTLLEAYQAHADYDTMRDLTRELIQNAAQAAHGAPVVMRPDGDGVLEPVDISGPWPVVTVHDAVSEALGEEIDP 934 (1094)
T ss_pred CCccccccchhhhhhcCCHHHHHHHHHHHHHHHHHHHhCCcEEeeCCccccccccccCCCceEEEHHHHHHHHhCCCCCC
Confidence 578888888432 223566788888888876643221 00 222 2788888764
Q ss_pred --------HHHhhcCCCCCCCCChHHHHHHHHHHHHhhhh
Q 019409 148 --------AVRKNLNIPCSSKLSTEDLEAEIFLHLLQEYA 179 (341)
Q Consensus 148 --------dVC~kLKV~ys~~lsT~dLEaeIfl~LL~~~~ 179 (341)
++|++.++++....+..+|-.++|.++++++-
T Consensus 935 ~~~~~~l~~~~~~~~i~~~~~~~~~~l~~~l~~~~ve~~~ 974 (1094)
T PRK02983 935 DTPLAELRKLCDAAGIPYRTDWDAGAVVLELYEHLVEDRT 974 (1094)
T ss_pred CCCHHHHHHHHHHcCCCCCCCCCHhHHHHHHHHHHHHhhc
Confidence 47899999999888888999999999998754
No 21
>PRK14082 hypothetical protein; Provisional
Probab=24.63 E-value=59 Score=25.99 Aligned_cols=16 Identities=31% Similarity=0.640 Sum_probs=14.5
Q ss_pred ChHHHHHHHHHHHHhh
Q 019409 162 STEDLEAEIFLHLLQE 177 (341)
Q Consensus 162 sT~dLEaeIfl~LL~~ 177 (341)
.-||||+||=++++++
T Consensus 33 eREDLeQElk~Ki~eK 48 (65)
T PRK14082 33 EREDLEQELKIKIIEK 48 (65)
T ss_pred hHHHHHHHHHHHHHHH
Confidence 3689999999999998
No 22
>PRK03784 vtamin B12-transporter permease; Provisional
Probab=23.39 E-value=1.6e+02 Score=29.63 Aligned_cols=39 Identities=18% Similarity=0.049 Sum_probs=30.7
Q ss_pred HHHHhhhHHHHH-HHHHHHHhhhhcccchhHHHHHHHHHH
Q 019409 289 NMVALLGPVLWG-TFLADVVIQMLGTDYARILRAIYAFAQ 327 (341)
Q Consensus 289 s~~~llGPi~W~-w~laDLa~~aiGtaYrrtIPAViaiAq 327 (341)
...++.|||+++ -.+.-++-...|.+|+..+|....+..
T Consensus 248 ~~va~vG~I~FVGLiaPhiar~l~g~~~~~~l~~s~l~Ga 287 (331)
T PRK03784 248 VSVALAGAIGFIGLVIPHILRLCGLTDHRVLLPGCALAGA 287 (331)
T ss_pred HHHHHhhHHHHHHHHHHHHHHHHhCCCcchHHHHHHHHHH
Confidence 446899999999 667777777778999999997765443
No 23
>PF07176 DUF1400: Alpha/beta hydrolase of unknown function (DUF1400); InterPro: IPR010802 This domain is specific to cyanobacterial proteins, its function and the function of the proteins it is associated with, are uncharacterised.
Probab=22.10 E-value=1.3e+02 Score=26.02 Aligned_cols=36 Identities=28% Similarity=0.445 Sum_probs=32.6
Q ss_pred CCCCChhHHHHHHhhChHHHHHHHHHhcCCCCCCcc
Q 019409 56 QGAFDPELRSVLELATDSELYELERILFGPSYFSPL 91 (341)
Q Consensus 56 ~~~~~~ELr~~LelATdeEL~~L~~ILf~~~~fsPL 91 (341)
.|..++||+..+.+.+.++.++|-++|..+=.++|-
T Consensus 27 tG~~~~~L~~~~~ll~~~~~~~lr~~L~~~~~~~~~ 62 (127)
T PF07176_consen 27 TGEISPELAFYLNLLSPQQRQQLRELLNTPIPIDPV 62 (127)
T ss_pred cCCCCHHHHHHHHhcCHhhHHHHHHHHcCCCCCCHH
Confidence 677899999999999999999999999988767776
No 24
>PF11470 TUG-UBL1: GLUT4 regulating protein TUG; InterPro: IPR021569 TUG is a GLUT4 regulating protein and functions to retain membrane vesicles containing GLUT4 intracellularly. TUG releases the GLUT4 containing vesicles to the cellular exocytic machinery in response to insulin stimulation which allows translocation to the plasma membrane []. TUG has an N-terminal ubiquitin-like domain (UBL1) which in similar proteins appears to participate in protein-protein interactions []. The region does have a area of negative electrostatic potential and increased backbone motility which leads to suggestions of a potential protein-protein interaction site []. ; PDB: 2AL3_A.
Probab=21.71 E-value=58 Score=25.46 Aligned_cols=20 Identities=20% Similarity=0.218 Sum_probs=14.7
Q ss_pred CccHHHHHHHHHhhcCCCCC
Q 019409 139 RPSYRNVLLAVRKNLNIPCS 158 (341)
Q Consensus 139 gvsYReVLldVC~kLKV~ys 158 (341)
.-+-.|||.++|+|+|++-+
T Consensus 16 ~~~l~~VL~eac~k~~l~~~ 35 (65)
T PF11470_consen 16 NTTLNQVLEEACKKFGLDPS 35 (65)
T ss_dssp TSBHHHHHHHHHHHTT--GG
T ss_pred CCCHHHHHHHHHHHcCCCcc
Confidence 34567999999999998754
No 25
>cd00093 HTH_XRE Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.
Probab=21.68 E-value=1.5e+02 Score=18.82 Aligned_cols=39 Identities=15% Similarity=0.124 Sum_probs=25.2
Q ss_pred HHHHHHhccccchhhhhcCCCccHHHHHHHHHhhcCCCC
Q 019409 119 SLESRFLFLAADARSTLRGWRPSYRNVLLAVRKNLNIPC 157 (341)
Q Consensus 119 ~Ie~rfrflAaD~~tvLRG~gvsYReVLldVC~kLKV~y 157 (341)
.++.++..--.....++.|......+.+..+|+.++++.
T Consensus 17 ~~a~~~~~~~~~v~~~~~g~~~~~~~~~~~i~~~~~~~~ 55 (58)
T cd00093 17 ELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSL 55 (58)
T ss_pred HHHHHHCCCHHHHHHHHcCCCCCCHHHHHHHHHHhCCCh
Confidence 344444333333345667776777788888999998764
No 26
>cd06134 RNaseT DEDDh 3'-5' exonuclease domain of RNase T. RNase T is a DEDDh-type DnaQ-like 3'-5' exoribonuclease E implicated in the 3' maturation of small stable RNAs and 23srRNA, and in the end turnover of tRNA. It contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. RNase T is related to the proofreading domain of DNA polymerase III. Despite its important role, RNase T is mainly found only in gammaproteobacteria. It is speculated that it might have originated from DNA polymerase III at the time the gamma division of proteobacteria diverged from other bacteria. RNase T is a homodimer with the catalytic residues of one monomer contacting a large basic patch on the other monomer to form a functional active site.
Probab=21.41 E-value=89 Score=28.04 Aligned_cols=33 Identities=18% Similarity=0.234 Sum_probs=25.1
Q ss_pred HHHHHHhhcCCCC---CCCCChH--HHHHHHHHHHHhh
Q 019409 145 VLLAVRKNLNIPC---SSKLSTE--DLEAEIFLHLLQE 177 (341)
Q Consensus 145 VLldVC~kLKV~y---s~~lsT~--dLEaeIfl~LL~~ 177 (341)
-|-++|++++|+. ..+..-. ..-+++|++++++
T Consensus 151 ~L~~l~~~~gi~~~~~~~H~Al~DA~ata~lf~~l~~~ 188 (189)
T cd06134 151 VLAKACQAAGIEFDNKEAHSALYDTQKTAELFCKIVNR 188 (189)
T ss_pred cHHHHHHHCCCCCCCCCCcChHHHHHHHHHHHHHHHHh
Confidence 3899999999985 3444444 4567999999987
No 27
>COG0609 FepD ABC-type Fe3+-siderophore transport system, permease component [Inorganic ion transport and metabolism]
Probab=20.91 E-value=1.2e+02 Score=30.21 Aligned_cols=34 Identities=21% Similarity=0.361 Sum_probs=28.2
Q ss_pred HHHHHHhhhHHHHH-HHHHHHHhhhhcccchhHHH
Q 019409 287 LRNMVALLGPVLWG-TFLADVVIQMLGTDYARILR 320 (341)
Q Consensus 287 ~Rs~~~llGPi~W~-w~laDLa~~aiGtaYrrtIP 320 (341)
+=+..++.|||+++ -.+.-++=+.+|++||..+|
T Consensus 248 t~~aVa~~G~I~FVGLi~PHiaR~lvg~~~r~lip 282 (334)
T COG0609 248 TAAAVSLVGPIGFVGLIAPHIARLLVGNDHRYLLP 282 (334)
T ss_pred HHHHHHHhhhHHHHHHhHHHHHHHHhCCCcceeHH
Confidence 34457899999999 66677777778999999999
No 28
>PF02196 RBD: Raf-like Ras-binding domain; InterPro: IPR003116 This is the Ras-binding domain found in proteins related to Ras. It is found in association with the PE-bind and pkinase domains.; GO: 0005057 receptor signaling protein activity, 0007165 signal transduction; PDB: 1RFA_A 1C1Y_B 3KUD_B 1GUA_B 3KUC_B 2L05_A 3NY5_D 1RRB_A 1WFY_A 1WXM_A.
Probab=20.85 E-value=68 Score=25.01 Aligned_cols=33 Identities=15% Similarity=0.105 Sum_probs=23.2
Q ss_pred cccchhhhhcC-CCccHHHHHHHHHhhcCCCCCC
Q 019409 127 LAADARSTLRG-WRPSYRNVLLAVRKNLNIPCSS 159 (341)
Q Consensus 127 lAaD~~tvLRG-~gvsYReVLldVC~kLKV~ys~ 159 (341)
|=++..++..= .|.+.||+|..+|+|-+++++.
T Consensus 7 LP~~q~t~V~vrpg~ti~d~L~~~~~kr~L~~~~ 40 (71)
T PF02196_consen 7 LPNGQRTVVQVRPGMTIRDALSKACKKRGLNPEC 40 (71)
T ss_dssp ETTTEEEEEEE-TTSBHHHHHHHHHHTTT--CCC
T ss_pred CCCCCEEEEEEcCCCCHHHHHHHHHHHcCCCHHH
Confidence 33444555543 3999999999999999999864
No 29
>cd02642 R3H_encore_like R3H domain of encore-like and DIP1-like proteins. Drosophila encore is involved in the germline exit after four mitotic divisions, by facilitating SCF-ubiquitin-proteasome-dependent proteolysis. Maize DBF1-interactor protein 1 (DIP1) containing an R3H domain is a potential regulator of DBF1 activity in stress responses. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=20.50 E-value=1.1e+02 Score=23.14 Aligned_cols=43 Identities=23% Similarity=0.322 Sum_probs=35.1
Q ss_pred HHHHHHHHHHhccccch-hhhhc--CCCccHHHHHHHHHhhcCCCC
Q 019409 115 DFIASLESRFLFLAADA-RSTLR--GWRPSYRNVLLAVRKNLNIPC 157 (341)
Q Consensus 115 ~~~~~Ie~rfrflAaD~-~tvLR--G~gvsYReVLldVC~kLKV~y 157 (341)
.|+-.||+.|.=|..|. ...++ .-..-+|-++-+||++.+..-
T Consensus 3 ~~~l~~E~~i~~Fi~~~~~~~~~f~pm~sy~RllvH~la~~~gL~s 48 (63)
T cd02642 3 LFVLKLEKDLLAFIKDSTRQSLELPPMNSYYRLLAHRVAQYYGLDH 48 (63)
T ss_pred hHHHHHHHHHHHHHhCCCCCeeEcCCCCcHHHHHHHHHHHHhCCee
Confidence 48899999999888887 55543 458889999999999988654
No 30
>PF15008 DUF4518: Domain of unknown function (DUF4518)
Probab=20.43 E-value=2.6e+02 Score=27.57 Aligned_cols=87 Identities=21% Similarity=0.294 Sum_probs=62.7
Q ss_pred hhHHHHHHhhChHHHHHHHHHhcCCCCCCcchhhhcccCCcchhHHhhhhhHHHHHHHHHHHHHhccccchhhhhcCCCc
Q 019409 61 PELRSVLELATDSELYELERILFGPSYFSPLLKSFTKRADVDYVMIEQDLEEREDFIASLESRFLFLAADARSTLRGWRP 140 (341)
Q Consensus 61 ~ELr~~LelATdeEL~~L~~ILf~~~~fsPLlkS~~~~~~~Dy~~~~~~~~~R~~~~~~Ie~rfrflAaD~~tvLRG~gv 140 (341)
..+|++|.+-+++||..|.+..+.+. ..|- +|+.=++.|= -..-|+..+||. +.
T Consensus 7 ~G~rdlL~~l~~~~LlaL~~TVTn~~-i~~e--------------------~~~EAi~aIL----~~s~~a~~LL~r-kk 60 (262)
T PF15008_consen 7 EGCRDLLGLLDNDDLLALADTVTNRL-IKPE--------------------SRQEAIDAIL----LYSQDAEELLRR-KK 60 (262)
T ss_pred HHHHHHHhcCChHHHHHHHHHHhcCc-eecC--------------------CHHHHHHHHH----HhCcCHHHHHhc-cc
Confidence 45899999999999999999999776 3332 2332333332 234577788884 56
Q ss_pred cHHHHHHHHHhhcCCCCCCCCChHHHHHHHHHHHHhh
Q 019409 141 SYRNVLLAVRKNLNIPCSSKLSTEDLEAEIFLHLLQE 177 (341)
Q Consensus 141 sYReVLldVC~kLKV~ys~~lsT~dLEaeIfl~LL~~ 177 (341)
-+||||-..-..-+|.-++.++-.+| ..|.++-
T Consensus 61 V~RelLFkYLa~kgv~v~p~s~K~~L----I~~~l~~ 93 (262)
T PF15008_consen 61 VKRELLFKYLASKGVIVPPDSEKADL----IQRVLQY 93 (262)
T ss_pred ccHHHHHHHHHHcCCCCCCCccHHHH----HHHHHHH
Confidence 68999999999999999988876555 4455544
No 31
>cd07679 F-BAR_PACSIN2 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Protein kinase C and Casein kinase Substrate in Neurons 2 (PACSIN2). F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Protein kinase C and Casein kinase Substrate in Neurons (PACSIN) proteins, also called Synaptic dynamin-associated proteins (Syndapins), act as regulators of cytoskeletal and membrane dynamics. Vetebrates harbor three isoforms with distinct expression patterns and specific functions. PACSIN 2 or Syndapin II is expressed ubiquitously and is involved in the regulation of tubulin polymerization. It associates with Golgi membranes and forms a complex with dynamin II which is crucial in promoting vesicle formation from the trans-Golgi network. PACSIN 2 contains an N-terminal F-BAR domain and a C-terminal SH3 domain. F-BAR domains form banana-shaped dimers with a positively-charged concave su
Probab=20.43 E-value=61 Score=31.76 Aligned_cols=23 Identities=30% Similarity=0.538 Sum_probs=19.4
Q ss_pred HHHHHHHHHhhcCCCCCCCCChH
Q 019409 142 YRNVLLAVRKNLNIPCSSKLSTE 164 (341)
Q Consensus 142 YReVLldVC~kLKV~ys~~lsT~ 164 (341)
.|++|.++|++|+|.|++.++..
T Consensus 227 ~K~~l~~~~~~l~i~~~~~~~~i 249 (258)
T cd07679 227 FREVLLEVQKHLDLSNVASYKNI 249 (258)
T ss_pred HHHHHHHHHHHccchhhhhHHHH
Confidence 47899999999999999866543
No 32
>PRK10441 iron-enterobactin transporter membrane protein; Provisional
Probab=20.32 E-value=1.9e+02 Score=29.00 Aligned_cols=38 Identities=16% Similarity=0.281 Sum_probs=30.8
Q ss_pred HHHHhhhHHHHH-HHHHHHHhhhhcccchhHHHHHHHHH
Q 019409 289 NMVALLGPVLWG-TFLADVVIQMLGTDYARILRAIYAFA 326 (341)
Q Consensus 289 s~~~llGPi~W~-w~laDLa~~aiGtaYrrtIPAViaiA 326 (341)
...++.|||+++ -...-++-+..|++|+..+|....+.
T Consensus 251 ~aVa~vG~I~FVGLi~Phiar~l~g~~~~~~lp~s~l~G 289 (335)
T PRK10441 251 SATAVVGPIAFIGLMMPHMARWLVGADHRWSLPVTLLAT 289 (335)
T ss_pred HHHHHhhHHHHHHHHHHHHHHHHhCCCcchHHHHHHHHH
Confidence 447889999999 77778887788999999999765543
Done!