RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9135
(1107 letters)
>3qb0_A Actin-related protein 4; actin fold, ATP binding, nucleus,
structural protein; HET: ATP; 3.40A {Saccharomyces
cerevisiae}
Length = 498
Score = 110 bits (276), Expect = 2e-25
Identities = 75/533 (14%), Positives = 154/533 (28%), Gaps = 98/533 (18%)
Query: 45 VVLDIGSKYTKYGIFGSFQPKGFIKSQVKDPHTNKLRNLY----EYKDADDLYGL----- 95
VV+D GS T G GS P+ + S ++ Y L
Sbjct: 26 VVIDPGSYTTNIGYSGSDFPQSILPSVYGKYTADEGNKKIFSEQSIGIPRKDYELKPIIE 85
Query: 96 --------LIEFI-RKIFFKYFVTSPKDKR-IVVVESVLTPTVWRNTLAKVLFKHYEVLS 145
+ + + ++ E V T R +VL + + +
Sbjct: 86 NGLVIDWDTAQEQWQWALQNELYLNSNSGIPALLTEPVWNSTENRKKSLEVLLEGMQFEA 145
Query: 146 LLYVPSHLVSLCTLGVNTGLVLDIGYSEATLLPVYEGVPVLCAWKDLSLGGQSVEAHIRR 205
P+ G LV+DIG+ ++ P+ +G+ + + + +
Sbjct: 146 CYLAPTSTCVSFAAGRPNCLVVDIGHDTCSVSPIVDGMTLSKSTRRNFIA---------- 195
Query: 206 GQSVESHIRSLLIDEIKALENPDPYIVTVEDVENLSDSIIEDIKVCSCFVTTMERSAEIA 265
G+ + I+ L + P + + S + R
Sbjct: 196 GKFINHLIKKALEPK-----EIIPLFAIKQRKPEFIKKTFDYEVDKSLYDYANNR--GFF 248
Query: 266 AKNPDHKYPSGFMYPLKNGKKIPVSGHIRETAFEVLFELDLDMLNIATIILDSLLSVASS 325
+ K +S + + E
Sbjct: 249 -QECKETLCHICPTKTLEETKTELS-----STAKRSIESP-------------------- 282
Query: 326 DGREET--QYFPFRCWVNTRTPEKLCCLVGWSNICCYKLFIKNFKFHEFPAKENYVAWLG 383
E + E+L F+ +
Sbjct: 283 WNEEIVFDNETRYGF------AEEL--------------FLPKEDDIPANWPRSNSG--V 320
Query: 384 GAIFAATESYNKRAIQKDVYLNNNVIPDWCNLSVLGTDLKKSVNPYLHFPVSGHIRETAF 443
+ KR V ++ + + KS +P + + +
Sbjct: 321 VKTWRNDYVPLKRTKPSGVNKSDKKVTPTEEKEQ--EAVSKSTSPAANSADTPNETGKRP 378
Query: 444 EVLFE---LDLDMLNIATIILDSLLKTGRDMKKPLAENILLTGGTAMTPGLKYRLLQELR 500
+ + +++ +A ++ S++ + D++ LA N++LTGGT+ PGL RL+ EL
Sbjct: 379 LEEEKPPKENNELIGLADLVYSSIMSSDVDLRATLAHNVVLTGGTSSIPGLSDRLMTELN 438
Query: 501 TLIESPPYKDKLFIKNFKFHEFPAKENYVAWLGGAIFAATESYNKRAIQKDAY 553
+ P K ++ + Y +WLGG+I + ++++ + K Y
Sbjct: 439 KI--LPSLKFRILT-----TGHTIERQYQSWLGGSILTSLGTFHQLWVGKKEY 484
Score = 86.2 bits (213), Expect = 2e-17
Identities = 50/295 (16%), Positives = 101/295 (34%), Gaps = 25/295 (8%)
Query: 19 EKTGVVLDIGSKYTKYGIFGSFQPKGVVLDIGSKYTKYG--IFGSFQPKGFIKSQVKDPH 76
E + VV+D GS T G GS P+ ++ + YG K F + + P
Sbjct: 22 EVSAVVIDPGSYTTNIGYSGSDFPQSIL------PSVYGKYTADEGNKKIFSEQSIGIPR 75
Query: 77 TN-KLRNLYE---YKDADDLYGLLIEFIRKIFFKYFVTSPKDKR-IVVVESVLTPTVWRN 131
+ +L+ + E D D + + ++ E V T R
Sbjct: 76 KDYELKPIIENGLVIDWDTAQEQW----QWALQNELYLNSNSGIPALLTEPVWNSTENRK 131
Query: 132 TLAKVLFKHYEVLSLLYVPSHLVSLCTLGVNTGLVLDIGYSEATLLPVYEGVPVLCAWKD 191
+VL + + + P+ G LV+DIG+ ++ P+ +G+ + + +
Sbjct: 132 KSLEVLLEGMQFEACYLAPTSTCVSFAAGRPNCLVVDIGHDTCSVSPIVDGMTLSKSTRR 191
Query: 192 LSLGGQSVEAHIRRGQSVESHIRSLLIDEIKALENPDPYIVTVED-VENLSDS--IIEDI 248
+ G+ + I++ + I I + K + V+ + + +++ ++
Sbjct: 192 NFIAGKFINHLIKKALEPKEIIPLFAIKQRKPEFIKKTFDYEVDKSLYDYANNRGFFQEC 251
Query: 249 KVCSCFVT-TMERSAEIAAKNPDHKYPSGFMYPLKNGKKIPVSGHIRETAFEVLF 302
K C + T + K ++I R E LF
Sbjct: 252 KETLCHICPTKTLEETKTELSSTAKRS----IESPWNEEIVFDNETRYGFAEELF 302
Score = 85.8 bits (212), Expect = 2e-17
Identities = 43/282 (15%), Positives = 81/282 (28%), Gaps = 38/282 (13%)
Query: 739 VVLDIGSKYTKYGIFGSFQPKGFIKSQVKDPHTNKLRNLY----EYKDADDLYGL----- 789
VV+D GS T G GS P+ + S ++ Y L
Sbjct: 26 VVIDPGSYTTNIGYSGSDFPQSILPSVYGKYTADEGNKKIFSEQSIGIPRKDYELKPIIE 85
Query: 790 --------LIEFI-RKIFFKYFVTSPKDKR-IVVVESVLTPTVWRNTLAKVLFKHYEVLS 839
+ + + ++ E V T R +VL + + +
Sbjct: 86 NGLVIDWDTAQEQWQWALQNELYLNSNSGIPALLTEPVWNSTENRKKSLEVLLEGMQFEA 145
Query: 840 LLYVPSHLVSLCTLGVNTGLVLDIGYSEATLLPVYEGVPVLCAWKDLSLGGGQSVESHIR 899
P+ G LV+DIG+ ++ P+ +G+ + + + + G+ + I+
Sbjct: 146 CYLAPTSTCVSFAAGRPNCLVVDIGHDTCSVSPIVDGMTLSKSTRRNFI-AGKFINHLIK 204
Query: 900 SLLIDE-----IKALENPDPYIVTVEDVENLSDS--------IIEDIKVCSCFVT-TMER 945
L + + +I D E ++ K C + T
Sbjct: 205 KALEPKEIIPLFAIKQRKPEFIKKTFDYEVDKSLYDYANNRGFFQECKETLCHICPTKTL 264
Query: 946 SAEIAAKNPDHKYPSGFMYPLKNGKKIPVSGHIRETAFEVLF 987
+ K ++I R E LF
Sbjct: 265 EETKTELSSTAKRS----IESPWNEEIVFDNETRYGFAEELF 302
>2fxu_A Alpha-actin-1, actin, alpha skeletal muscle; actin complexed to
bistramide A, structural protein; HET: HIC ATP BID;
1.35A {Oryctolagus cuniculus} SCOP: c.55.1.1 c.55.1.1
PDB: 1h1v_A* 1kxp_A* 1lot_B* 1m8q_7* 1ma9_B* 1mvw_1*
1nwk_A* 1o18_1* 1o19_1* 1o1a_1* 1o1b_0* 1o1c_0* 1o1d_0*
1o1e_1* 1o1f_0* 1o1g_1* 1j6z_A* 1qz6_A* 1rdw_X* 1rfq_A*
...
Length = 375
Score = 86.3 bits (214), Expect = 5e-18
Identities = 85/405 (20%), Positives = 149/405 (36%), Gaps = 66/405 (16%)
Query: 19 EKTGVVLDIGSKYTKYGIFGSFQPKGVVLDI-GSKYTKYGIFGSFQPKGFIKSQVKDPHT 77
E T +V D GS K G G P+ V I G + + G Q ++ + +
Sbjct: 4 ETTALVCDNGSGLVKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQSKRG 63
Query: 78 NKLRNLYEYKDADDLYGLLIEFI-RKIFFKYFVTSPKDKRIVVVESVLTPTVWRNTLAKV 136
L Y + +E I F+ +P++ ++ E+ L P R + ++
Sbjct: 64 I-LTLKYPIEHGIITNWDDMEKIWHHTFYNELRVAPEEHPTLLTEAPLNPKANREKMTQI 122
Query: 137 LFKHYEVLSLLYVPSHLVSLCTLGVNTGLVLDIGYSEATLLPVYEGVPVLCAWKDLSLGG 196
+F+ + V ++ ++SL G TG+VLD G +P+YEG + A L L G
Sbjct: 123 MFETFNVPAMYVAIQAVLSLYASGRTTGIVLDSGDGVTHNVPIYEGYALPHAIMRLDLAG 182
Query: 197 QSVEAHIRRGQSVESHIRSLLIDEIKALENPDPYIVTVEDVENLSDSIIEDIKVCSCFVT 256
+ + ++ K L VT + E I+ DIK C+V
Sbjct: 183 RDLTDYLM-----------------KILTERGYSFVTTAERE-----IVRDIKEKLCYVA 220
Query: 257 T-MERSAEIAAKNPDHKYPSGFMYPLKNGKKIPVSGHIRETAFEVLFE---LDLDMLNIA 312
E AA + + Y L +G+ I + G+ R E LF+ + ++ I
Sbjct: 221 LDFENEMATAASSSSLEKS----YELPDGQVITI-GNERFRCPETLFQPSFIGMESAGIH 275
Query: 313 TIILDSLLSVASSDGREETQYFPFRCWVNTRTPEKLC---CLVGWSNIC----------C 359
+S++ +C ++ R + L + G + +
Sbjct: 276 ETTYNSIM----------------KCDIDIR--KDLYANNVMSGGTTMYPGIADRMQKEI 317
Query: 360 YKLFIKNFKFHEFPAKE-NYVAWLGGAIFAATESYNKRAIQKDVY 403
L K E Y W+GG+I A+ ++ + I K Y
Sbjct: 318 TALAPSTMKIKIIAPPERKYSVWIGGSILASLSTFQQMWITKQEY 362
Score = 85.1 bits (211), Expect = 1e-17
Identities = 83/391 (21%), Positives = 145/391 (37%), Gaps = 77/391 (19%)
Query: 739 VVLDIGSKYTKYGIFGSFQPKGFIKSQVKDPHTNKLRNLYEYKD------ADDLYGLLI- 791
+V D GS K G G P+ S V P + KD A G+L
Sbjct: 8 LVCDNGSGLVKAGFAGDDAPRAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQSKRGILTL 67
Query: 792 ------------EFIRKI----FFKYFVTSPKDKRIVVVESVLTPTVWRNTLAKVLFKHY 835
+ + KI F+ +P++ ++ E+ L P R + +++F+ +
Sbjct: 68 KYPIEHGIITNWDDMEKIWHHTFYNELRVAPEEHPTLLTEAPLNPKANREKMTQIMFETF 127
Query: 836 EVLSLLYVPSHLVSLCTLGVNTGLVLDIGYSEATLLPVYEGVPVLCAWKDLSLGGGQSVE 895
V ++ ++SL G TG+VLD G +P+YEG + A L L G+ +
Sbjct: 128 NVPAMYVAIQAVLSLYASGRTTGIVLDSGDGVTHNVPIYEGYALPHAIMRLDL-AGRDLT 186
Query: 896 SHIRSLLIDEIKALENPDPYIVTVEDVENLSDSIIEDIKVCSCFVTT-MERSAEIAAKNP 954
++ +L + VT + E I+ DIK C+V E AA +
Sbjct: 187 DYLMKILTER-------GYSFVTTAERE-----IVRDIKEKLCYVALDFENEMATAASSS 234
Query: 955 DHKYPSGFMYPLKNGKKIPVSGHIRETAFEVLFE---LDLDMLNIATIILDSLLSVASSD 1011
+ Y L +G+ I + G+ R E LF+ + ++ I +S++
Sbjct: 235 SLEKS----YELPDGQVITI-GNERFRCPETLFQPSFIGMESAGIHETTYNSIM------ 283
Query: 1012 GREETQYFPFRCWVNTRTPEKLC---CLVGWSNIC----------CYKLFIKNFKFHEFP 1058
+C ++ R + L + G + + L K
Sbjct: 284 ----------KCDIDIR--KDLYANNVMSGGTTMYPGIADRMQKEITALAPSTMKIKIIA 331
Query: 1059 AKE-NYVAWLGGAIFAATESYNKRAIQKDVY 1088
E Y W+GG+I A+ ++ + I K Y
Sbjct: 332 PPERKYSVWIGGSILASLSTFQQMWITKQEY 362
Score = 72.0 bits (177), Expect = 2e-13
Identities = 33/129 (25%), Positives = 58/129 (44%), Gaps = 28/129 (21%)
Query: 436 GHIRETAFEVLFE---LDLDMLNIATIILDSLLKTGRDMKKPLAENILLTGGTAMTPGLK 492
G+ R E LF+ + ++ I +S++K D++K L N +++GGT M PG+
Sbjct: 251 GNERFRCPETLFQPSFIGMESAGIHETTYNSIMKCDIDIRKDLYANNVMSGGTTMYPGIA 310
Query: 493 YRLLQELRTL--------IESPPYKDKLFIKNFKFHEFPAKENYVAWLGGAIFAATESYN 544
R+ +E+ L I +PP + Y W+GG+I A+ ++
Sbjct: 311 DRMQKEITALAPSTMKIKIIAPPER-----------------KYSVWIGGSILASLSTFQ 353
Query: 545 KRAIQKDAY 553
+ I K Y
Sbjct: 354 QMWITKQEY 362
>1k8k_B ARP2, actin-like protein 2; beta-propeller, structural protein; 2.00A
{Bos taurus} SCOP: c.55.1.1 PDB: 1tyq_B* 1u2v_B* 2p9i_B*
2p9l_B 2p9n_B* 2p9p_B* 2p9s_B* 2p9u_B* 3dxk_B* 3dxm_B*
3rse_B 2p9k_B*
Length = 394
Score = 85.6 bits (212), Expect = 1e-17
Identities = 79/382 (20%), Positives = 150/382 (39%), Gaps = 65/382 (17%)
Query: 739 VVLDIGSKYTKYGIFGSFQPKGFIKSQV---KDPHTNKLRNLYEYKD------ADDLYGL 789
VV D G+ + K G GS P+ + V T K+ N+ E KD A +L +
Sbjct: 9 VVCDNGTGFVKCGYAGSNFPEHIFPALVGRPIIRSTTKVGNI-EIKDLMVGDEASELRSM 67
Query: 790 L----------------IEFI-RKIFFK-YFVTSPKDKRIVVVESVLTPTVWRNTLAKVL 831
L ++ + F ++ +I++ E + PT R + +V+
Sbjct: 68 LEVNYPMENGIVRNWDDMKHLWDYTFGPEKLNIDTRNCKILLTEPPMNPTKNREKIVEVM 127
Query: 832 FKHYEVLSLLYVPSHLVSLCTLGVNTGLVLDIGYSEATLLPVYEGVPVLCAWKDLSLGGG 891
F+ Y+ + +++L G+ TG+V+D G + PVYEG + + L + G
Sbjct: 128 FETYQFSGVYVAIQAVLTLYAQGLLTGVVVDSGDGVTHICPVYEGFSLPHLTRRLDI-AG 186
Query: 892 QSVESHIRSLLIDEIKALENPDPYIVTVEDVENLSDSIIEDIKVCSCFVTT-MERSAEIA 950
+ + ++ LL+ D E + IK C+V +E+ ++A
Sbjct: 187 RDITRYLIKLLLLR-------GYAFNHSADFE-----TVRMIKEKLCYVGYNIEQEQKLA 234
Query: 951 AKNPDHKYPSGFMYPLKNGKKIPVSGHIRETAFEVLFE---LDLDMLNIATIILDSLLSV 1007
+ Y L +G+ I V G R A E LF+ ++++ + +A ++ +++ +
Sbjct: 235 LETTVLVES----YTLPDGRIIKV-GGERFEAPEALFQPHLINVEGVGVAELLFNTIQA- 288
Query: 1008 ASSDGREE----------TQYFPFRCWVNTRTPEKLCCLVGWSNICCYKLFIKNFKFHEF 1057
A D R E + +P + +R +L L + + FK
Sbjct: 289 ADIDTRSEFYKHIVLSGGSTMYPG---LPSRLERELKQLYLERVLKGDVEKLSKFKIRIE 345
Query: 1058 PAKE-NYVAWLGGAIFAATESY 1078
++ +LGGA+ A
Sbjct: 346 DPPRRKHMVFLGGAVLADIMKD 367
Score = 84.0 bits (208), Expect = 4e-17
Identities = 80/391 (20%), Positives = 150/391 (38%), Gaps = 74/391 (18%)
Query: 45 VVLDIGSKYTKYGIFGSFQPKGFIKSQV---KDPHTNKLRNLYEYKD------ADDLYGL 95
VV D G+ + K G GS P+ + V T K+ N+ E KD A +L +
Sbjct: 9 VVCDNGTGFVKCGYAGSNFPEHIFPALVGRPIIRSTTKVGNI-EIKDLMVGDEASELRSM 67
Query: 96 L----------------IEFI-RKIFFK-YFVTSPKDKRIVVVESVLTPTVWRNTLAKVL 137
L ++ + F ++ +I++ E + PT R + +V+
Sbjct: 68 LEVNYPMENGIVRNWDDMKHLWDYTFGPEKLNIDTRNCKILLTEPPMNPTKNREKIVEVM 127
Query: 138 FKHYEVLSLLYVPSHLVSLCTLGVNTGLVLDIGYSEATLLPVYEGVPVLCAWKDLSLGGQ 197
F+ Y+ + +++L G+ TG+V+D G + PVYEG + + L + G+
Sbjct: 128 FETYQFSGVYVAIQAVLTLYAQGLLTGVVVDSGDGVTHICPVYEGFSLPHLTRRLDIAGR 187
Query: 198 SVEAHIRRGQSVESHIRSLLIDEIKALENPDPYIVTVEDVENLSDSIIEDIKVCSCFVTT 257
+ ++ IK L D E + IK C+V
Sbjct: 188 DITRYL-----------------IKLLLLRGYAFNHSADFE-----TVRMIKEKLCYVGY 225
Query: 258 -MERSAEIAAKNPDHKYPSGFMYPLKNGKKIPVSGHIRETAFEVLFE---LDLDMLNIAT 313
+E+ ++A + Y L +G+ I V G R A E LF+ ++++ + +A
Sbjct: 226 NIEQEQKLALETTVLVES----YTLPDGRIIKV-GGERFEAPEALFQPHLINVEGVGVAE 280
Query: 314 IILDSLLSVASSDGREE----------TQYFPFRCWVNTRTPEKLCCLVGWSNICCYKLF 363
++ +++ + A D R E + +P + +R +L L +
Sbjct: 281 LLFNTIQA-ADIDTRSEFYKHIVLSGGSTMYPG---LPSRLERELKQLYLERVLKGDVEK 336
Query: 364 IKNFKFHEFPAKE-NYVAWLGGAIFAATESY 393
+ FK ++ +LGGA+ A
Sbjct: 337 LSKFKIRIEDPPRRKHMVFLGGAVLADIMKD 367
Score = 70.1 bits (172), Expect = 1e-12
Identities = 30/113 (26%), Positives = 55/113 (48%), Gaps = 5/113 (4%)
Query: 436 GHIRETAFEVLFE---LDLDMLNIATIILDSLLKTGRDMKKPLAENILLTGGTAMTPGLK 492
G R A E LF+ ++++ + +A ++ +++ D + ++I+L+GG+ M PGL
Sbjct: 255 GGERFEAPEALFQPHLINVEGVGVAELLFNTIQAADIDTRSEFYKHIVLSGGSTMYPGLP 314
Query: 493 YRLLQELRTLI-ESPPYKDKLFIKNFKFHEFPAKE-NYVAWLGGAIFAATESY 543
RL +EL+ L E D + FK ++ +LGGA+ A
Sbjct: 315 SRLERELKQLYLERVLKGDVEKLSKFKIRIEDPPRRKHMVFLGGAVLADIMKD 367
>3dwl_A Actin-related protein 3; propellor, actin-binding, ATP-binding,
cytoskeleton, nucleot binding, WD repeat; HET: ATP;
3.78A {Schizosaccharomyces pombe}
Length = 427
Score = 79.5 bits (196), Expect = 2e-15
Identities = 75/439 (17%), Positives = 136/439 (30%), Gaps = 87/439 (19%)
Query: 19 EKTGVVLDIGSKYTKYGIFGSFQPKGVVL-DIGSKYTKYGIFGSFQPKGFIKSQVKDPHT 77
+++D G+ Y+K G G+ P V I ++ + K + H
Sbjct: 4 FNVPIIMDNGTGYSKLGYAGNDAPSYVFPTVIATRSAGASSGPAVSSKPSYMASKGSGHL 63
Query: 78 NKLRNLYEYK-----DADDLYGLLIEFIRKI------------------FFKYFVTSPKD 114
+ R + DA I FKY P+D
Sbjct: 64 SSKRATEDLDFFIGNDALKKASAGYSLDYPIRHGQIENWDHMERFWQQSLFKYLRCEPED 123
Query: 115 KRIVVVESVLTPTVWRNTLAKVLFKHYE----------VLSLLYVPSHLVSLCTLGVNTG 164
++ E L P R A+++F+ + VL+L S S T TG
Sbjct: 124 HYFLLTEPPLNPPENRENTAEIMFESFNCAGLYIAVQAVLALAA--SWTSSKVTDRSLTG 181
Query: 165 LVLDIGYSEATLLPVYEGVPVLCAWKDLSLGGQSVEAHIRRGQSVESHIRSLLIDEIKAL 224
V+D G ++PV EG + + K + L G+ V + L
Sbjct: 182 TVVDSGDGVTHIIPVAEGYVIGSSIKTMPLAGRDVTYFV-----------------QSLL 224
Query: 225 ENPDPYIVTVEDVENLSDSIIEDIKVCSCFVTT-MERSAEIAAKNPDHKYPSGFMYPLKN 283
+ + +++ E IK C+V + + + PD +
Sbjct: 225 RDRNEPDSSLK--------TAERIKEECCYVCPDIVKEFSRFDREPDRYLKYASESITGH 276
Query: 284 GKKIPVSGHIRETAFEVLFELDLDMLN----IATIILDSLLSVASSDGREE--------- 330
I V G R A E+ F ++ + + ++ + + S + D R+
Sbjct: 277 STTIDV-GFERFLAPEIFFNPEIASSDFLTPLPELVDNVVQS-SPIDVRKGLYKNIVLSG 334
Query: 331 --TQY--FPFRCW--VNTRTPEKLCCLVGWSNICCYKLFIKNFKFHEFPAKENYVAWLGG 384
T + F R + E++ S + + ++ W GG
Sbjct: 335 GSTLFKNFGNRLQRDLKRIVDERIHRSEMLSGAKSGGVDVNVIS----HKRQRNAVWFGG 390
Query: 385 AIFAATESYNKRAIQKDVY 403
++ A T + K Y
Sbjct: 391 SLLAQTPEFGSYCHTKADY 409
Score = 74.5 bits (183), Expect = 6e-14
Identities = 75/426 (17%), Positives = 137/426 (32%), Gaps = 100/426 (23%)
Query: 739 VVLDIGSKYTKYGIFGSFQPKGFIKSQVKDPHTNK--------------------LRNLY 778
+++D G+ Y+K G G+ P + + L +
Sbjct: 8 IIMDNGTGYSKLGYAGNDAPSYVFPTVIATRSAGASSGPAVSSKPSYMASKGSGHLSSKR 67
Query: 779 EYKDADDLYG--------------------------LLIEFIRKIFFKYFVTSPKDKRIV 812
+D D G + F ++ FKY P+D +
Sbjct: 68 ATEDLDFFIGNDALKKASAGYSLDYPIRHGQIENWDHMERFWQQSLFKYLRCEPEDHYFL 127
Query: 813 VVESVLTPTVWRNTLAKVLFKHYE----------VLSLLYVPSHLVSLCTLGVNTGLVLD 862
+ E L P R A+++F+ + VL+L S S T TG V+D
Sbjct: 128 LTEPPLNPPENRENTAEIMFESFNCAGLYIAVQAVLALAA--SWTSSKVTDRSLTGTVVD 185
Query: 863 IGYSEATLLPVYEGVPVLCAWKDLSLGGGQSVESHIRSLLIDEIKALENPDPYIVTVEDV 922
G ++PV EG + + K + L G+ V ++SLL D + +++
Sbjct: 186 SGDGVTHIIPVAEGYVIGSSIKTMPL-AGRDVTYFVQSLLRDR-------NEPDSSLK-- 235
Query: 923 ENLSDSIIEDIKVCSCFVTT-MERSAEIAAKNPDHKYPSGFMYPLKNGKKIPVSGHIRET 981
E IK C+V + + + PD + I V G R
Sbjct: 236 ------TAERIKEECCYVCPDIVKEFSRFDREPDRYLKYASESITGHSTTIDV-GFERFL 288
Query: 982 AFEVLFELDLDMLN----IATIILDSLLSVASSDGREE-----------TQY--FPFRCW 1024
A E+ F ++ + + ++ + + S + D R+ T + F R
Sbjct: 289 APEIFFNPEIASSDFLTPLPELVDNVVQS-SPIDVRKGLYKNIVLSGGSTLFKNFGNRLQ 347
Query: 1025 --VNTRTPEKLCCLVGWSNICCYKLFIKNFKFHEFPAKENYVAWLGGAIFAATESYNKRA 1082
+ E++ S + + ++ W GG++ A T +
Sbjct: 348 RDLKRIVDERIHRSEMLSGAKSGGVDVNVIS----HKRQRNAVWFGGSLLAQTPEFGSYC 403
Query: 1083 IQKDVY 1088
K Y
Sbjct: 404 HTKADY 409
Score = 71.0 bits (174), Expect = 8e-13
Identities = 22/119 (18%), Positives = 51/119 (42%), Gaps = 9/119 (7%)
Query: 444 EVLFELDLDMLN----IATIILDSLLKTGRDMKKPLAENILLTGGTAMTPGLKYRLLQEL 499
E+ F ++ + + ++ + + + D++K L +NI+L+GG+ + RL ++L
Sbjct: 291 EIFFNPEIASSDFLTPLPELVDNVVQSSPIDVRKGLYKNIVLSGGSTLFKNFGNRLQRDL 350
Query: 500 RTLI-ESPPYKDKLFIKNFKFHEF----PAKENYVAWLGGAIFAATESYNKRAIQKDAY 553
+ ++ E + L + ++ W GG++ A T + K Y
Sbjct: 351 KRIVDERIHRSEMLSGAKSGGVDVNVISHKRQRNAVWFGGSLLAQTPEFGSYCHTKADY 409
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 79.9 bits (196), Expect = 4e-15
Identities = 91/680 (13%), Positives = 187/680 (27%), Gaps = 232/680 (34%)
Query: 44 GVVLDIGSKYTKYGIFGSFQPK-GFIKSQVKDPHTNKLRNLYEYKDA-DDLYGLLIEFIR 101
+L + + + + F+ S +K Y + D LY
Sbjct: 69 WTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYN-----DN 123
Query: 102 KIFFKYFVTSPK-------------DKRIVVVE-------SVLTPTVWRNTLAKVLFKHY 141
++F KY V+ + + V+++ + + V + Y
Sbjct: 124 QVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLS---------Y 174
Query: 142 EVLSLLYVPSHLVSL--CTLGVNTGLVLDIGYSEATLLPVYEGVPVLCAWKD----LSLG 195
+V + ++L C + VL++ LL Y+ P + D + L
Sbjct: 175 KVQCKMDFKIFWLNLKNCN---SPETVLEM---LQKLL--YQIDPNWTSRSDHSSNIKLR 226
Query: 196 GQSVEAHIRRGQSVESHIRSLLIDEIKALENPDPYIVTVEDVENLSDSIIE--DIKVCSC 253
S++A +RR + + LL+ L N V++ + ++ C
Sbjct: 227 IHSIQAELRRLLKSKPYENCLLV-----LLN-------VQNAK-----AWNAFNLS-CKI 268
Query: 254 FVTTMERSAEIAAKNPDHKYPSGFMYPLKNGKKIPVSGHIRETAFEVLFELD--LDML-N 310
+TT R ++ L HI + D +L
Sbjct: 269 LLTT--RFKQVTDF-------------LSAATT----THISLDHHSMTLTPDEVKSLLLK 309
Query: 311 IATIILDSLLSVASSDGREETQYFPFRC-WVNTRTPEKLCCLVGWSNICCYKL------F 363
L RE P R + + L W ++ C KL
Sbjct: 310 YLDCRPQDL-------PREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESS 362
Query: 364 IKNFKFHEFPAKENYVAWLGGAIFAATESYNKRAIQKDVYLNNNVIPD------WCNLSV 417
+ + E+ ++ + ++F + IP W ++
Sbjct: 363 LNVLEPAEY--RKMFDRL---SVF-----------PPSAH-----IPTILLSLIWFDV-- 399
Query: 418 LGTDLKKSVNPYLHFPVSGHIRETAFEVLFELDLDMLNIATIILDSLLKTGRDMKKPLAE 477
I+ V+ +L SL++ + K+
Sbjct: 400 --------------------IKSDVMVVVNKL----------HKYSLVE--KQPKE---- 423
Query: 478 NILLTGGTAMTPGLKYRLLQEL-------RTLIESPPYKDKLFIKNFKFHEF--PAKENY 528
T P + L +L R++++ Y K F + P + Y
Sbjct: 424 ------STISIPSIYLELKVKLENEYALHRSIVDH--YN---IPKTFDSDDLIPPYLDQY 472
Query: 529 VAWLGGAIFAATESYNKRAIQKDAYLNNNMTYMEFL-------GCTMTAFGPVIAMFLTT 581
G E + + + +L+ FL A G ++
Sbjct: 473 FYSHIGHHLKNIEHPERMTLFRMVFLD-----FRFLEQKIRHDSTAWNASGSILNTLQQL 527
Query: 582 IM-------QDPVKVIILVASAFAWLLSLLLSSIVWFVIRYQCNIIFGVVISVLCQEAFR 634
DP L+++I+ F+ + + N+I +
Sbjct: 528 KFYKPYICDNDPK-------------YERLVNAILDFLPKIEENLI---------CSKYT 565
Query: 635 YILYLILQKSRGGLQYVSDR 654
+L + L + + +
Sbjct: 566 DLLRIALMAEDEAIFEEAHK 585
Score = 61.4 bits (148), Expect = 2e-09
Identities = 95/591 (16%), Positives = 172/591 (29%), Gaps = 181/591 (30%)
Query: 608 IVWFVIRYQCNIIFGVVISVLCQEAFRYILYLI----LQKSRGGLQYVSDRNTMDNT--- 660
+ W ++ Q ++ V VL + +++++ I Q S Y+ R+ + N
Sbjct: 67 LFWTLLSKQEEMVQKFVEEVL-RINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQV 125
Query: 661 YAMAYVSGLGYGTISAAFSLLNVLDQV-SGPGTM--GLKGESQYFGFTT--------SIF 709
+A VS + L L ++ + G+ G G T
Sbjct: 126 FAKYNVS-----RLQPYLKLRQALLELRPAKNVLIDGVLG----SGKTWVALDVCLSYKV 176
Query: 710 TCCFSLLHVFWSIVFFRGVEIKNRTLKTGVVLDIGSKYTKYGIFGSFQPKGFIKSQVKDP 769
C +FW + +KN VL++ K Y I ++ + S +K
Sbjct: 177 QCKMD-FKIFW-------LNLKNCN-SPETVLEMLQK-LLYQIDPNWTSRSDHSSNIKLR 226
Query: 770 H---TNKLRNLY---EYKDA----DDLYGLLIEFIRKIFFKYF-------VTSPKDKRIV 812
+LR L Y++ ++ K + F +T+ + K++
Sbjct: 227 IHSIQAELRRLLKSKPYENCLLVLLNVQ------NAKA-WNAFNLSCKILLTT-RFKQVT 278
Query: 813 VVESVLTPTVWRNTLAKVLFKHYEVLSLLYVPSHLVSLCTLGVNTGLVLDIGYSEATLLP 872
S T T + EV SLL LD + LP
Sbjct: 279 DFLSAATTTHISLDHHSMTLTPDEVKSLL----------------LKYLDCRPQD---LP 319
Query: 873 --VYEGVPVLCA---------------WKDLSLGG-GQSVESHIRSLLIDEIKALENPDP 914
V P + WK ++ +ES + L E + +
Sbjct: 320 REVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKM----- 374
Query: 915 YI---VTVEDV-----------ENLSDSIIEDIKVCSCFVTTM-ERSA------------ 947
+ V ++ S + + V ++ E+
Sbjct: 375 FDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVV-VNKLHKYSLVEKQPKESTISIPSIYL 433
Query: 948 EIAAKNPD----HK-----YPSGFMYPLKNGKKIPVSG----HI-----------RETAF 983
E+ K + H+ Y + + + HI R T F
Sbjct: 434 ELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLF 493
Query: 984 EVLFELDLDMLNIATIILDSLLSVASSDGREETQ----YFPFRCWVNTRTPEKLCCLVGW 1039
++F LD L I DS AS Q Y P+ C N E+L
Sbjct: 494 RMVF-LDFRFLE-QKIRHDSTAWNASGSILNTLQQLKFYKPYIC-DNDPKYERL------ 544
Query: 1040 SNICCYKLFIKNFKFHEFPAKENYVAWLG-----GAIFAATESYNKRAIQK 1085
+ F+ + + +K + + AIF + +Q+
Sbjct: 545 --VNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAH----KQVQR 589
Score = 55.6 bits (133), Expect = 1e-07
Identities = 81/583 (13%), Positives = 152/583 (26%), Gaps = 182/583 (31%)
Query: 281 LKNGKKIPVSGHIRETAFEVLFELDLDMLNIATIILDSLLSVASS---------DGREET 331
+ + V FE F + D ++ D S+ S
Sbjct: 16 YQYKDILSV--------FEDAFVDNFDCKDV----QDMPKSILSKEEIDHIIMSKDAVSG 63
Query: 332 QYFPFRCWVNTRTPEKLCCLVGWSNICCYKLFIKNFKFHEFPAKENYVAWLGGAIFAATE 391
F W E++ + F++ + NY +L I TE
Sbjct: 64 TLRLF--WTLLSKQEEM-----------VQKFVEEV------LRINY-KFLMSPI--KTE 101
Query: 392 SYNKRAIQKDVYLN-----NNVIPDWCNLSV--------LGTDLKK-SVNPY--LH-FPV 434
+ ++ +Y+ N + +V L L + +
Sbjct: 102 -QRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLG 160
Query: 435 SGH-------IRETAFEVLFE-----LDLDMLNIATIILDSLLKTGRDMKKPLAENILLT 482
SG + + L+L N +L+ L K +
Sbjct: 161 SGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSD-- 218
Query: 483 GGTAMTPGLKYRLLQELRTLIESPPYKDKLFI----------KNFKFHEFPAKENYVAWL 532
++ + + ELR L++S PY++ L + F K
Sbjct: 219 -HSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLS---CK------- 267
Query: 533 GGAIFAATESYNKRAIQKDAYLNNNMTYMEFLGCTMTAFGP-----VIAMFLTTIMQD-P 586
I T R Q +L+ T L P ++ +L QD P
Sbjct: 268 ---ILLTT-----RFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLP 319
Query: 587 VKVIILVASAFAWLLSLLLSSIVWFVIRYQCNIIFGVVISVLCQEAFRYILYLILQKSRG 646
+V+ + SI+ IR + ++++ L
Sbjct: 320 REVL---------TTNPRRLSIIAESIRDGLATW----------DNWKHVNCDKLTT--- 357
Query: 647 GLQYVSDRNTMDNTYAMAYVSGLGYGTISAAFSLLNVLDQVSGPGTMGLKGESQYFGFTT 706
I ++ LNVL+ P +
Sbjct: 358 --------------------------IIESS---LNVLE----PAEY----RKMFDRL-- 378
Query: 707 SIF-------TCCFSLLHVFWSIVFFRGVEIKNRTLKTGVVLDIGSKYTKYGIFGSFQPK 759
S+F T LL + W V V + L +++ K + I +
Sbjct: 379 SVFPPSAHIPT---ILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLEL 435
Query: 760 GFIKSQVKDPHTNKLRNLYEYKDADDLYGLLIEFIRKIFFKYF 802
H + + Y D L+ ++ + F+ +
Sbjct: 436 KVKLENEYALH-RSIVDHYNIPKTFDSDDLIPPYLDQYFYSHI 477
>1k8k_A ARP3, actin-like protein 3, actin-2; beta-propeller, structural
protein; 2.00A {Bos taurus} SCOP: c.55.1.1 c.55.1.1 PDB:
1tyq_A* 1u2v_A* 2p9i_A* 2p9k_A* 2p9l_A 2p9n_A* 2p9p_A*
2p9s_A* 2p9u_A* 3dxk_A* 3dxm_A* 3rse_A
Length = 418
Score = 76.7 bits (189), Expect = 1e-14
Identities = 74/427 (17%), Positives = 143/427 (33%), Gaps = 80/427 (18%)
Query: 23 VVLDIGSKYTKYGIFGSFQPKGVV---------LDIGSKYTKYGIFGSFQPKGFIKSQVK 73
V+D G+ YTK G G+ +P+ ++ +G + + + G FI +
Sbjct: 8 CVVDCGTGYTKLGYAGNTEPQFIIPSCIAIKESAKVGDQAQRRVMKGVDDLDFFIGDEAI 67
Query: 74 DPHTNKLRNLYEY---KDADDLYGLLIEFIRKIFFKYFVTSPKDKRIVVVESVLTPTVWR 130
+ T + + +D D + + ++ FKY P+D ++ E L R
Sbjct: 68 EKPTYATKWPIRHGIVEDWDLMERFM----EQVIFKYLRAEPEDHYFLLTEPPLNTPENR 123
Query: 131 NTLAKVLFKHYEVLSLLYVPSHLVSLCTLG--------VNTGLVLDIGYSEATLLPVYEG 182
A+++F+ + V L +++L TG V+D G ++PV EG
Sbjct: 124 EYTAEIMFESFNVPGLYIAVQAVLALAASWTSRQVGERTLTGTVIDSGDGVTHVIPVAEG 183
Query: 183 VPVLCAWKDLSLGGQSVEAHIRRGQSVESHIRSLLIDEIKALENPDPYIVTVEDVENLSD 242
+ K + + G+ + I + L + + I + +E
Sbjct: 184 YVIGSCIKHIPIAGRDITYFI-----------------QQLLRDREVGIPPEQSLE---- 222
Query: 243 SIIEDIK-----VCSCFVTTMERSAEIAAKNP-DHKYPSGFMYPLKNGKKIPVSGHIRET 296
+ +K VC V + +K + + K I V G+ R
Sbjct: 223 -TAKAVKERYSYVCPDLVKEFNKYDTDGSKWIKQYTGINA---ISKKEFSIDV-GYERFL 277
Query: 297 AFEVLFELDL----DMLNIATIILDSLLSVASSDGREE-----------TQY--FPFRCW 339
E+ F + I+ ++ + + + D R T + F R
Sbjct: 278 GPEIFFHPEFANPDFTQPISEVVDEVIQN-CPIDVRRPLYKNIVLSGGSTMFRDFGRRLQ 336
Query: 340 --VNTRTPEKLCCLVGWSNICCYKLFIKNFKFH-EFPAKENYVAWLGGAIFAATESYNKR 396
+ +L S +L K + Y W GG++ A+T + +
Sbjct: 337 RDLKRTVDARLKLSEELSGG---RLKPKPIDVQVITHHMQRYAVWFGGSMLASTPEFYQV 393
Query: 397 AIQKDVY 403
K Y
Sbjct: 394 CHTKKDY 400
Score = 75.5 bits (186), Expect = 2e-14
Identities = 73/414 (17%), Positives = 134/414 (32%), Gaps = 85/414 (20%)
Query: 739 VVLDIGSKYTKYGIFGSFQPKGFIKSQVKDPHTN-----KLRNLYEYKDADDLY------ 787
V+D G+ YTK G G+ +P+ I S + + R + + D D +
Sbjct: 8 CVVDCGTGYTKLGYAGNTEPQFIIPSCIAIKESAKVGDQAQRRVMKGVDDLDFFIGDEAI 67
Query: 788 ---GLLI----------------EFIRKIFFKYFVTSPKDKRIVVVESVLTPTVWRNTLA 828
F+ ++ FKY P+D ++ E L R A
Sbjct: 68 EKPTYATKWPIRHGIVEDWDLMERFMEQVIFKYLRAEPEDHYFLLTEPPLNTPENREYTA 127
Query: 829 KVLFKHYEVLSLLYVPSHLVSLCTLG--------VNTGLVLDIGYSEATLLPVYEGVPVL 880
+++F+ + V L +++L TG V+D G ++PV EG +
Sbjct: 128 EIMFESFNVPGLYIAVQAVLALAASWTSRQVGERTLTGTVIDSGDGVTHVIPVAEGYVIG 187
Query: 881 CAWKDLSLGGGQSVESHIRSLLIDEIKALENPDPYIVTVEDVENLSDSIIEDIK-----V 935
K + + G I + + L + + I + +E + +K V
Sbjct: 188 SCIKHIPIAG-----RDITYFI---QQLLRDREVGIPPEQSLE-----TAKAVKERYSYV 234
Query: 936 CSCFVTTMERSAEIAAKNP-DHKYPSGFMYPLKNGKKIPVSGHIRETAFEVLFELDL--- 991
C V + +K + + K I V G+ R E+ F +
Sbjct: 235 CPDLVKEFNKYDTDGSKWIKQYTGINA---ISKKEFSIDV-GYERFLGPEIFFHPEFANP 290
Query: 992 -DMLNIATIILDSLLSVASSDGREE-----------TQY--FPFRCW--VNTRTPEKLCC 1035
I+ ++ + + + D R T + F R + +L
Sbjct: 291 DFTQPISEVVDEVIQN-CPIDVRRPLYKNIVLSGGSTMFRDFGRRLQRDLKRTVDARLKL 349
Query: 1036 LVGWSNICCYKLFIKNFKFH-EFPAKENYVAWLGGAIFAATESYNKRAIQKDVY 1088
S +L K + Y W GG++ A+T + + K Y
Sbjct: 350 SEELSGG---RLKPKPIDVQVITHHMQRYAVWFGGSMLASTPEFYQVCHTKKDY 400
Score = 72.0 bits (177), Expect = 3e-13
Identities = 25/121 (20%), Positives = 52/121 (42%), Gaps = 11/121 (9%)
Query: 444 EVLFELDL----DMLNIATIILDSLLKTGRDMKKPLAENILLTGGTAMTPGLKYRLLQEL 499
E+ F + I+ ++ + + D+++PL +NI+L+GG+ M RL ++L
Sbjct: 280 EIFFHPEFANPDFTQPISEVVDEVIQNCPIDVRRPLYKNIVLSGGSTMFRDFGRRLQRDL 339
Query: 500 RTLIESPPYK------DKLFIKNFKFH-EFPAKENYVAWLGGAIFAATESYNKRAIQKDA 552
+ +++ +L K + Y W GG++ A+T + + K
Sbjct: 340 KRTVDARLKLSEELSGGRLKPKPIDVQVITHHMQRYAVWFGGSMLASTPEFYQVCHTKKD 399
Query: 553 Y 553
Y
Sbjct: 400 Y 400
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 69.7 bits (170), Expect = 5e-12
Identities = 110/682 (16%), Positives = 192/682 (28%), Gaps = 256/682 (37%)
Query: 122 SVLTPT-VW------RNTLAKVLFKHYEVLSLLYVPSHLVSLCT--LGVNTGLVLDIGYS 172
+L PT + + K+L + E + P+ L LG + LV
Sbjct: 19 VLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLV------ 72
Query: 173 EATLLPVYEGVPVLCAWKDLSLGGQSVEAHIRRGQSVESHIRSLLIDEIKALENPDPYIV 232
E + + ++ V L+L E G + + LL +
Sbjct: 73 EPSKVGQFDQV--------LNLCLTEFENCYLEGNDIHALAAKLLQEN------------ 112
Query: 233 TVEDVENLSDSIIEDIKVCSCFVTTMERSAEIAAKNPDHK-YPSGFMYPLKNGKKIPVS- 290
++++ ++ ++T A I AK P K S + G V+
Sbjct: 113 --------DTTLVKTKELIKNYIT-----ARIMAKRPFDKKSNSALFRAVGEGNAQLVAI 159
Query: 291 ----GHIRETAFEVLFEL-DL---------DMLNIATIILDSLLSVASSDGREETQYFPF 336
G+ + FE EL DL D++ + L L+ + TQ
Sbjct: 160 FGGQGNT-DDYFE---ELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNI 215
Query: 337 RCWVNT--RTPEK--LCC------LVGWSNICCYKLFIKNFKFHEFPAKENYVAWLGGA- 385
W+ TP+K L L+G + Y + K F P ++L GA
Sbjct: 216 LEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFT--PG--ELRSYLKGAT 271
Query: 386 -----IFAAT--------ESYNKRAIQ------------KDVY----LNNNVIPDWCN-- 414
+ A ES+ + + Y L +++ D
Sbjct: 272 GHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENN 331
Query: 415 -------LSVLGTDLK------KSVNPYLHFPVSGHIRETAFEVLFELDLDMLNIATIIL 461
LS+ + N +L P + I+
Sbjct: 332 EGVPSPMLSISNLTQEQVQDYVNKTNSHL--PAGKQV----------------EIS---- 369
Query: 462 DSLLKTGRDMKKPLAENILLTGGTAMTP-GLKYRLLQELRTLIESPPYKDKLFIKNFKFH 520
L G N++++G P L Y L LR ++P D+
Sbjct: 370 ---LVNGAK-------NLVVSG----PPQSL-YGLNLTLRK-AKAPSGLDQ--------S 405
Query: 521 EFPAKENYVAWLGGAIFAATESYNKRAIQKDAYLNNNMTYMEFLGCTMTAFGPVIAMFLT 580
P +++R ++ FL PV + F +
Sbjct: 406 RIP-------------------FSERKLK---------FSNRFL--------PVASPFHS 429
Query: 581 TIMQDPVKVII--LVASAFAWLLSLLLSSI-VWFV-----IRYQCNIIFGVVISVLCQEA 632
++ +I LV + ++ + I V+ +R G + +
Sbjct: 430 HLLVPASDLINKDLVKNNVSFNAKDI--QIPVYDTFDGSDLRVLS----GSISERIVDCI 483
Query: 633 FRYILY----------LILQKSRGGLQYVSDRNTMDNTYAMAYVSGLGYGTISAAFSLLN 682
R + IL GG + T N G G I A
Sbjct: 484 IRLPVKWETTTQFKATHILDFGPGGASGLGVL-THRN------KDGTGVRVIVA------ 530
Query: 683 VLDQVSGPGTMGLKGESQYFGF 704
GT+ + + Y GF
Sbjct: 531 --------GTLDINPDDDY-GF 543
Score = 69.7 bits (170), Expect = 5e-12
Identities = 87/448 (19%), Positives = 139/448 (31%), Gaps = 142/448 (31%)
Query: 56 YGIFGSFQPKGFIKSQVKDPHTNKLRNLYE-YKDADDLYGLLIEFIRKIFFKYFVTSPKD 114
IFG Q G ++ LR+LY+ Y L G LI+F + + + + D
Sbjct: 157 VAIFGG-Q--GNTDDYFEE-----LRDLYQTYH---VLVGDLIKFSAETLSE-LIRTTLD 204
Query: 115 KRIVVVESVLTPTVWRNTLAKVLFKHYEVLSLLYVP-----------SHLVSLC-TLGVN 162
V L W + K Y LL +P +H V LG
Sbjct: 205 AE-KVFTQGLNILEWLENPSNTPDKDY----LLSIPISCPLIGVIQLAHYVVTAKLLGFT 259
Query: 163 TGLVLDIGYSEATLLPVYEGVP--VLCA----WKD-LSLGGQSVEA--HI-RRGQSVESH 212
G + +G+ V A W+ +++ I R +
Sbjct: 260 PGELRSY---LKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPN 316
Query: 213 IR---SLLIDEIKALEN-PDPYIVTVEDVENLSDSIIED-IKVCSCFVTTMERSAEIAAK 267
S+L D ++ E P P + + NL+ ++D + + + + EI+
Sbjct: 317 TSLPPSILEDSLENNEGVPSPMLS----ISNLTQEQVQDYVNKTNSHLPA-GKQVEIS-- 369
Query: 268 NPDHKYPSGFMYPLKNG-KKIPVSGHIRETAFEVLFELDLDMLNIATIILDSLLSVASSD 326
L NG K + VSG + L LN+ L +
Sbjct: 370 -------------LVNGAKNLVVSGPPQ----------SLYGLNLT------LRKAKAPS 400
Query: 327 GREETQYFPFRCWVNTRTPEKLCCLVGWSNICCYKLFIKNF-----KFHEF---PAKENY 378
G ++++ PF R + F F FH PA +
Sbjct: 401 GLDQSR-IPFS----ERKLK----------------FSNRFLPVASPFHSHLLVPASDLI 439
Query: 379 VAWLGGAIFAATESYNKRAIQKDVYLNNNVIPDWCNLSVLGTDLKKSVNPYLHFPVSGHI 438
L S+N + IQ VY + G+DL+ +SG I
Sbjct: 440 NKDLVKNNV----SFNAKDIQIPVYDTFD-----------GSDLRV---------LSGSI 475
Query: 439 RETAFEVLFELDLDMLNI----ATIILD 462
E + + L + AT ILD
Sbjct: 476 SERIVDCIIRLPVKWETTTQFKATHILD 503
Score = 60.4 bits (146), Expect = 3e-09
Identities = 97/641 (15%), Positives = 157/641 (24%), Gaps = 281/641 (43%)
Query: 422 LKKSVNPYLHFPVSGHIRETAF-----------EVLFELDLDMLNIATII---LDSLLKT 467
L + F E + ++L E D ++ +I + + +
Sbjct: 84 LNLCLT---EF-------ENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMA 133
Query: 468 GRDMKKPLAENILLTGGTAMTPGL-----------KYRLLQELRTLIESPPYKDKLFIK- 515
R K + + L L Y +ELR L ++ IK
Sbjct: 134 KRPFDKK-SNSALFRAVGEGNAQLVAIFGGQGNTDDY--FEELRDLYQTYHVLVGDLIKF 190
Query: 516 -------------NFKFHEFPAKENYVAWLGGAIFAATESYNKRA---------IQKDAY 553
+ + F N + WL + Y IQ Y
Sbjct: 191 SAETLSELIRTTLDAEKV-FTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHY 249
Query: 554 LNNNMTYMEFLGCTMTAFGPVIAMFLTTIMQDPVKVIILVASAFA----W--LLSLLLSS 607
+ + LG T + T Q ++ A A A W + +
Sbjct: 250 ----VVTAKLLGFTPGELRSYLKG-ATGHSQG-----LVTAVAIAETDSWESFFVSVRKA 299
Query: 608 IVW-FVIRYQCNIIFGVVISVLCQEAFRYILYL---ILQKSRGGLQYVSDRNTMDN---- 659
I F I GV C EA+ L IL+ S ++N
Sbjct: 300 ITVLFFI--------GVR----CYEAYP-NTSLPPSILEDS------------LENNEGV 334
Query: 660 -TYAMAYVSGLGYGTISA---------------AFSLLNVLDQ--VSGPGTMGLKGESQY 701
+ M +S L + SL+N VSGP
Sbjct: 335 PSP-MLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQ--------- 384
Query: 702 FGFTTSIFTCCFSLLHVFWSIVFFRGVEIKNRTLKTGVVLDIGSKYTKYGIFGSFQPKGF 761
SL G+ + R K LD
Sbjct: 385 ------------SL----------YGLNLTLRKAKAPSGLD------------------- 403
Query: 762 IKSQVKDPHTNKLRNLYEYKDADDLYGLLIEFIRKIFFKY-F--VTSPKDKRIVVVESVL 818
Q + P + RK+ F F V SP
Sbjct: 404 ---QSRIPFSE----------------------RKLKFSNRFLPVASP------------ 426
Query: 819 TPTVWRNTLAKVLFKHYEVLSLLYVPSHLVSLCTLGVNTGLVLDIGYSEATLLPVYEGVP 878
F H SHL+ + + D+ + + +P
Sbjct: 427 -------------F-H----------SHLLV----PASDLINKDLVKNNVSFNAKDIQIP 458
Query: 879 VLCA--WKDLSLGGGQSVESHIRSLLIDEI--------KALENPDPYIV-----TVEDVE 923
V DL + + I ++D I + +I+ +
Sbjct: 459 VYDTFDGSDL-----RVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLG 513
Query: 924 NLSDSIIED--IKVCSCFVTTMERSAEIAAKNPDHKYPSGF 962
L+ + ++V T++ NPD Y GF
Sbjct: 514 VLTHRNKDGTGVRVIV--AGTLD-------INPDDDY--GF 543
Score = 59.7 bits (144), Expect = 5e-09
Identities = 77/416 (18%), Positives = 125/416 (30%), Gaps = 145/416 (34%)
Query: 750 YGIFGSFQPKGFIKSQVKDPHTNKLRNLYE-YKDADDLYGLLIEFIRKIFFKYFVTSPKD 808
IFG Q G ++ LR+LY+ Y L G LI+F + + + + D
Sbjct: 157 VAIFGG-Q--GNTDDYFEE-----LRDLYQTYH---VLVGDLIKFSAETLSE-LIRTTLD 204
Query: 809 KRIVVVESVLTPTVWRNTLAKVLFKHYEVLSLLYVP-----------SHLVSLC-TLGVN 856
V L W + K Y LL +P +H V LG
Sbjct: 205 AE-KVFTQGLNILEWLENPSNTPDKDY----LLSIPISCPLIGVIQLAHYVVTAKLLGFT 259
Query: 857 TGLVLDIGYSEATLLPVYEGVP--VLCA----WKDL------------SLGGGQSVESHI 898
G + +G+ V A W+ +G V +
Sbjct: 260 PGELRSY---LKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIG----VRCYE 312
Query: 899 R--------SLLIDEIKALEN-PDPYIVTVEDVENLSDSIIED-IKVCSCFVTTMERSAE 948
S+L D ++ E P P + + NL+ ++D + + + + E
Sbjct: 313 AYPNTSLPPSILEDSLENNEGVPSPMLS----ISNLTQEQVQDYVNKTNSHLPA-GKQVE 367
Query: 949 IAAKNPDHKYPSGFMYPLKNG-KKIPVSGHIRETAFEVLFELDLDMLNIATIILDSLLSV 1007
I+ L NG K + VSG + L LN+ L
Sbjct: 368 IS---------------LVNGAKNLVVSGPPQ----------SLYGLNLT------LRKA 396
Query: 1008 ASSDGREETQYFPFRCWVNTRTPEKLCCLVGWSNICCYKLFIKNF-----KFHEF---PA 1059
+ G ++++ PF R + F F FH PA
Sbjct: 397 KAPSGLDQSR-IPFS----ERKLK----------------FSNRFLPVASPFHSHLLVPA 435
Query: 1060 KENYVAWLGGAIFAATESYNKRAIQKDVY----------LNNNVIPDWCNLSVNLP 1105
+ L S+N + IQ VY L+ ++ + + LP
Sbjct: 436 SDLINKDLVKNNV----SFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLP 487
Score = 55.4 bits (133), Expect = 1e-07
Identities = 58/324 (17%), Positives = 103/324 (31%), Gaps = 112/324 (34%)
Query: 391 ESYNKRAIQKDVYLNNNVIPDWCNLSVLGTDLKKSV--NP---YLHF-PVSGH-IRETAF 443
+ Y +DV+ N D G + V NP +HF G IRE
Sbjct: 1634 DLYKTSKAAQDVW--NRA--DNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYS 1689
Query: 444 EVLFELDLDMLNIATIILDSLLKTGRDMKKPLAENILLTGGTAMTPGLKYRLLQELRTLI 503
++FE +D G+ + + + I + +
Sbjct: 1690 AMIFETIVD---------------GKLKTEKIFKEIN----------------EHSTSYT 1718
Query: 504 ESPPYKDKLFIKNFKFHEF--PAKENYVAWLGGAIFAATESYNKRAIQKDAYLNNNMTYM 561
K L +F PA + + A F +S K I DA
Sbjct: 1719 FRSE-KGLLSAT-----QFTQPA----LTLMEKAAFEDLKS--KGLIPADAT-------- 1758
Query: 562 EF----LG--CTMTAFGPVIAMFLTTIMQDPVKVI----ILVASAFAWLLSLLLSSIVWF 611
F LG + + V+++ + V+V+ + + A
Sbjct: 1759 -FAGHSLGEYAALASLADVMSI------ESLVEVVFYRGMTMQVA--------------- 1796
Query: 612 VIRYQ--------CNIIFGVVISVLCQEAFRYILYLILQKSRGGLQYVSDRNTMDNTYAM 663
V R + I G V + QEA +Y++ + +++ ++ V N N
Sbjct: 1797 VPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIV---N--YNVENQ 1851
Query: 664 AYVSGLGYGTISAAFSLLNVLDQV 687
YV+ G + A ++ NVL+ +
Sbjct: 1852 QYVAA---GDLRALDTVTNVLNFI 1872
Score = 48.9 bits (116), Expect = 1e-05
Identities = 108/608 (17%), Positives = 165/608 (27%), Gaps = 219/608 (36%)
Query: 409 IP--DWCNLSVLGTDLKKSVNPYLHFPVSGHIRETAFEVLFELDLDMLN-IATII----- 460
+P + S L K L P G + EL L +++++
Sbjct: 22 VPTASFFIASQLQEQFNKI----LPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKV 77
Query: 461 --LDSLLKTGRDMKKPLA--ENILLTGGTAMTPGLKYRLLQELRTLIESPPYKDKLFIKN 516
D +L L EN L G L +L ++ K K IKN
Sbjct: 78 GQFDQVLNLC------LTEFENCYLEGNDIHA------LAAKLLQENDTTLVKTKELIKN 125
Query: 517 FKFHEFPAKENYVAWLGGAIFAATESYNKR--AI---Q--KDAYLN------NNMTYMEF 563
+ AK + A+F A N + AI Q D Y TY
Sbjct: 126 YITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQ--TYHVL 183
Query: 564 LGCTMTAFGPVIAMFLTTIMQDPVKVIILVASAF---AWL--------LSLLLSSIVWFV 612
+G A L+ +++ + + WL LLS +
Sbjct: 184 VG----DLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPI--- 236
Query: 613 IRYQCNIIFGVVISVLCQEAFRYILYLILQKSRGGLQYVSDRNTMDNTYAMAYVSGLGYG 672
C +I + Q A Y++ K G + +G G
Sbjct: 237 ---SCPLIG------VIQLA----HYVVTAKLLG----FTPGELRSYLKG---ATGHSQG 276
Query: 673 TISAAFSLLNVLDQVSGPGTMGLKGESQYFGFTTSIFTCCFSLLHVFWSIVFFRGVEIKN 732
++A ++ + ES F F + +++FF GV
Sbjct: 277 LVTAVA--------IAETDS----WES---------F---FVSVRKAITVLFFIGVRCYE 312
Query: 733 RTLKTGVVLDIGSKYTKYGIFGSFQP----KGFIKSQVKD--PHTNK-----------LR 775
T + I + G P + QV+D TN L
Sbjct: 313 AYPNTSLPPSILEDSLENNE-GVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLV 371
Query: 776 NLYEYKDAD---------DLYGLLIEFIRKIFFKYFVTSPKD-------KRIVVVES--- 816
N A LYGL + RK S D +R + +
Sbjct: 372 N-----GAKNLVVSGPPQSLYGLNLTL-RKAK----APSGLDQSRIPFSERKLKFSNRFL 421
Query: 817 -VLTPTVWRNTLAKVLFKHYEVLSLLYVPSHLVSLCTLGVNTGLVLDIGYSEATLLPVYE 875
V +P F H SHL L+P +
Sbjct: 422 PVASP-----------F-H----------SHL----------------------LVPASD 437
Query: 876 GVPVLCAWKDLSLGGGQSVESHIRSLLIDEIKALENPDP-Y-IVTVEDVENLSDSIIEDI 933
+ KDL +V + + + I P Y D+ LS SI E I
Sbjct: 438 LIN-----KDLV---KNNVSFNAKDIQI----------PVYDTFDGSDLRVLSGSISERI 479
Query: 934 KVCSCFVT 941
C +
Sbjct: 480 --VDCIIR 485
Score = 37.7 bits (87), Expect = 0.029
Identities = 39/268 (14%), Positives = 78/268 (29%), Gaps = 88/268 (32%)
Query: 262 AEIAAKNPDHKYPSGFMYPLKNGKKIPVSGHIRETAFEVLFELDLDMLNIATIILDSLLS 321
+I NP + + + GK+I RE ++FE +D I +
Sbjct: 1662 LDIVINNPVNLT---IHFGGEKGKRI------RENYSAMIFETIVDGKLKTEKIFKEINE 1712
Query: 322 VASS---DGREE----TQYFPFRCWVNTRT-PEKLCCLVGWSNICCYKLFIKNFKF---- 369
++S + TQ+ T P L ++
Sbjct: 1713 HSTSYTFRSEKGLLSATQF----------TQP----ALTLME-KAAFEDLKSKGLIPADA 1757
Query: 370 ----H---EFPAKENYVAWLGGAI-FAATES-------YNKRAIQKDVYLNNN-----VI 409
H E+ A + L + + + A+ +D +N +
Sbjct: 1758 TFAGHSLGEYAA---LAS-LADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAIN 1813
Query: 410 PDWCNLSVLGTDLKKS--------------VN---P---YLHFPVSGHIRETAFEVLFEL 449
P S L+ VN Y+ +G +R A + + +
Sbjct: 1814 PGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYV---AAGDLR--ALDTVTNV 1868
Query: 450 DLDMLNIATIILDSLLKTGR--DMKKPL 475
L+ + + I + L K+ +++ L
Sbjct: 1869 -LNFIKLQKIDIIELQKSLSLEEVEGHL 1895
Score = 37.0 bits (85), Expect = 0.042
Identities = 45/306 (14%), Positives = 86/306 (28%), Gaps = 133/306 (43%)
Query: 87 KDADDLYGLLIEFIRKIFFKYFVTSPKDKRIVVVESVLTPTVWRNTLAKVLFKHYEVLSL 146
+ + + + I +FF + V YE
Sbjct: 287 DSWESFFVSVRKAITVLFF------------IGVRC------------------YEAYPN 316
Query: 147 LYVPSHLVSLCTLGVNTGLVLDIGYSEATLLPVYEGVP-----VLCAWKDLSLGGQSVEA 201
+P ++ L+ EGVP + +L+ + V+
Sbjct: 317 TSLPPSILEDS---------LENN----------EGVPSPMLSI----SNLTQ--EQVQD 351
Query: 202 HIRRGQS---VESHIRSLLIDEIKALEN-PDPYIVT--VEDVENLSDSIIEDIKVCS--- 252
++ + S + EI +L N +V+ + + L + + K S
Sbjct: 352 YVNKTNSHLPAGKQV------EI-SLVNGAKNLVVSGPPQSLYGL-NLTLRKAKAPSGLD 403
Query: 253 -CFVTTMERSAE-------IAAKNPDHKYPSGFMYP--------LKNGK--------KIP 288
+ ER + +A+ P H S + P L +IP
Sbjct: 404 QSRIPFSERKLKFSNRFLPVAS--PFH---SHLLVPASDLINKDLVKNNVSFNAKDIQIP 458
Query: 289 V----SGH-IRETAFEVLFELDLDML------------NIATIILD---------SLLSV 322
V G +R + + + +D + AT ILD +L+
Sbjct: 459 VYDTFDGSDLRVLSGSISERI-VDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTH 517
Query: 323 ASSDGR 328
+ DG
Sbjct: 518 RNKDGT 523
Score = 33.5 bits (76), Expect = 0.46
Identities = 28/210 (13%), Positives = 54/210 (25%), Gaps = 76/210 (36%)
Query: 890 GGQSV----ESHIRSLLIDEIKALENPDPYIVTVEDVENLSDSIIEDIKVCSCFVTTMER 945
G Q + + S ++ D + + SI++
Sbjct: 1625 GSQEQGMGMDLYKTSKAAQDV--WNRADNHFK-----DTYGFSILD-------------- 1663
Query: 946 SAEIAAKNPDHKYPSGFMYPLKNGKKIPVSGHIRETAFEVLFELDLDMLNIATIILDSLL 1005
I NP + + + GK+I RE ++FE +D I +
Sbjct: 1664 ---IVINNPVNLT---IHFGGEKGKRI------RENYSAMIFETIVDGKLKTEKIFKEIN 1711
Query: 1006 SVASS---DGREE----TQYFPFRCWVNTRT-PEKLCCLVGWSNICCYKLFIKNFKF--- 1054
++S + TQ+ T P L ++
Sbjct: 1712 EHSTSYTFRSEKGLLSATQF----------TQP----ALTLME-KAAFEDLKSKGLIPAD 1756
Query: 1055 -----H---EFPAKENYVAWLGGAI-FAAT 1075
H E+ A + L + +
Sbjct: 1757 ATFAGHSLGEYAA---LAS-LADVMSIESL 1782
>2dyj_A Ribosome-binding factor A; 16S rRNA processing, 17S RNA, KH domain;
1.84A {Thermus thermophilus} SCOP: d.52.7.1 PDB: 2r1c_A
Length = 95
Score = 35.7 bits (83), Expect = 0.012
Identities = 18/63 (28%), Positives = 29/63 (46%), Gaps = 5/63 (7%)
Query: 204 RRGQSVESHIRSLLIDEIKALENPDPYIVTVEDVENLSDSIIEDIKVCSCFVTTMERSAE 263
+E+ ++ L +EI+ALE+P +++TVE V LS D V S +V
Sbjct: 3 YGKAHLEAQLKRALAEEIQALEDPRLFLLTVEAVR-LSK----DGSVLSVYVEAFREEEG 57
Query: 264 IAA 266
Sbjct: 58 ALR 60
Score = 33.0 bits (76), Expect = 0.082
Identities = 18/58 (31%), Positives = 29/58 (50%), Gaps = 5/58 (8%)
Query: 894 VESHIRSLLIDEIKALENPDPYIVTVEDVENLSDSIIEDIKVCSCFVTTMERSAEIAA 951
+E+ ++ L +EI+ALE+P +++TVE V LS D V S +V
Sbjct: 8 LEAQLKRALAEEIQALEDPRLFLLTVEAVR-LSK----DGSVLSVYVEAFREEEGALR 60
>4ehu_A Activator of 2-hydroxyisocaproyl-COA dehydratase; actin fold,
ATPase, electron transfer, ATP/ADP binding; HET: ANP;
1.60A {Clostridium difficile} PDB: 4eht_A* 4eia_A
Length = 276
Score = 32.9 bits (75), Expect = 0.54
Identities = 13/56 (23%), Positives = 25/56 (44%), Gaps = 2/56 (3%)
Query: 455 NIATIILDSLLKTGRDM--KKPLAENILLTGGTAMTPGLKYRLLQELRTLIESPPY 508
+I I S+ K + + + N+++ GG A G+ + +E+ T I P
Sbjct: 184 DIVAGIHTSVAKRVSSLVKRIGVQRNVVMVGGVARNSGIVRAMAREINTEIIVPDI 239
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 31.5 bits (70), Expect = 0.77
Identities = 6/27 (22%), Positives = 10/27 (37%), Gaps = 11/27 (40%)
Query: 220 EIKALEN------PD--PYI---VTVE 235
+K L+ D P + T+E
Sbjct: 21 ALKKLQASLKLYADDSAPALAIKATME 47
Score = 31.5 bits (70), Expect = 0.77
Identities = 6/27 (22%), Positives = 10/27 (37%), Gaps = 11/27 (40%)
Query: 905 EIKALEN------PD--PYI---VTVE 920
+K L+ D P + T+E
Sbjct: 21 ALKKLQASLKLYADDSAPALAIKATME 47
>2wsu_A Putative fiber protein; viral protein, carbohydrate recognition
domain, tandem-repea; 1.90A {Porcine adenovirus 4} PDB:
2wsv_A* 2wt0_A* 2wt1_A* 2wt2_A*
Length = 343
Score = 31.3 bits (70), Expect = 1.7
Identities = 34/189 (17%), Positives = 57/189 (30%), Gaps = 27/189 (14%)
Query: 280 PLKNGKKIPVSGHIRETAFEVLFELDLDMLNIA-------------TIILDSLLSVASSD 326
+ G I + G + +A +L ++A I+ +S +S+
Sbjct: 41 GVPTGASIVLEGTLTPSAVFFTLDLVTGPASLALHFNVRLPLEGEKHIVCNSREG-SSNW 99
Query: 327 GREE-TQYFPFRCWVNTRTPEKLCCLVGWSNICCYKLFIKNFKFHEFP---AKENYVAWL 382
G E Q FPF EK LV Y++ + +FP +
Sbjct: 100 GEEVRPQEFPFE-------REKPFVLVIVIQSDTYQITVNGKPLVDFPQRLQGITRASLS 152
Query: 383 GGAIFAATESYNKRAIQKDVYLNNNVIPDWCNLSVLGTDLKKSVNPYLHFPVSGHIRETA 442
G +F Y + L P +L + P V+G A
Sbjct: 153 GDLVFTRLTMYPPGDPRPTTLLPPPAAPLDVIPDAYVLNLPTGLTPRTLLTVTGTPTPLA 212
Query: 443 FEVLFELDL 451
F ++L
Sbjct: 213 EF--FIVNL 219
>1hux_A Activator of (R)-2-hydroxyglutaryl-COA dehydratase; actin fold,
metal binding protein; HET: ADP; 3.00A {Acidaminococcus
fermentans} SCOP: c.55.1.5
Length = 270
Score = 31.0 bits (70), Expect = 1.7
Identities = 12/56 (21%), Positives = 27/56 (48%), Gaps = 2/56 (3%)
Query: 455 NIATIILDSLLKTGRDM--KKPLAENILLTGGTAMTPGLKYRLLQELRTLIESPPY 508
+I I S+ + + + +++++TGG A G++ L + L I++ P
Sbjct: 186 DIIAGIHRSVASRVIGLANRVGIVKDVVMTGGVAQNYGVRGALEEGLGVEIKTSPL 241
>2zze_A Alanyl-tRNA synthetase; ligase, hydrolase; HET: MLY; 2.16A
{Pyrococcus horikoshii} PDB: 2zzf_A 2zzg_A*
Length = 752
Score = 31.2 bits (69), Expect = 2.2
Identities = 10/78 (12%), Positives = 31/78 (39%), Gaps = 6/78 (7%)
Query: 100 IRKIFFKYFVTSPKDKRIVVVESVLTPTVWRNTL-----AKVLFKHYEVLSLLYVPSHLV 154
+R+ F ++F V + P WR+ + + + F+ + + P++ +
Sbjct: 62 MREXFLRFFEXHEIYPHGRVXRYPVLPR-WRDDVLLVGASIMDFQPWVISGEADPPANPL 120
Query: 155 SLCTLGVNTGLVLDIGYS 172
+ + + ++G +
Sbjct: 121 VISQPSIRFTDIDNVGIT 138
Score = 31.2 bits (69), Expect = 2.2
Identities = 10/78 (12%), Positives = 31/78 (39%), Gaps = 6/78 (7%)
Query: 794 IRKIFFKYFVTSPKDKRIVVVESVLTPTVWRNTL-----AKVLFKHYEVLSLLYVPSHLV 848
+R+ F ++F V + P WR+ + + + F+ + + P++ +
Sbjct: 62 MREXFLRFFEXHEIYPHGRVXRYPVLPR-WRDDVLLVGASIMDFQPWVISGEADPPANPL 120
Query: 849 SLCTLGVNTGLVLDIGYS 866
+ + + ++G +
Sbjct: 121 VISQPSIRFTDIDNVGIT 138
>2odr_C Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 701
Score = 31.1 bits (70), Expect = 2.4
Identities = 32/149 (21%), Positives = 56/149 (37%), Gaps = 19/149 (12%)
Query: 293 IRETAFEVLFELDLDMLNIATII-LDSLLSVASSDGREETQYFPFRCWVNTRTPEKLCCL 351
+RE + +E L+ N+A+++ LD + + + T+ V + + C L
Sbjct: 354 VREMVYPQFYEHKLNDRNVASMVKLDKVPV--MDEIYDLTKEL-IESCVKNKDLKSPCEL 410
Query: 352 VGWSNICCYKLFIKNFKFHEFPAKENYVAWLGGAIFAATESYNKRAIQKDVYLNNNV-IP 410
K KN K + F +E LG +I E Y VY N + IP
Sbjct: 411 AIEKTFSFGKT-KKNVKINIFEKEEG-KNLLGPSIL--NEIY--------VYDGNVIGIP 458
Query: 411 DWCNLSVLGTDLKKSVNPYLHFPVSGHIR 439
+ + + + K + V+ IR
Sbjct: 459 E--SFDGVKEEFKDFLEKGKSEGVATGIR 485
Score = 30.3 bits (68), Expect = 4.5
Identities = 24/152 (15%), Positives = 53/152 (34%), Gaps = 28/152 (18%)
Query: 438 IRETAFEVLFELDLDMLNIATII-LDSL--LKTGRDMKKPLAENILLTGGTAMTP----- 489
+RE + +E L+ N+A+++ LD + + D+ K L E + +P
Sbjct: 354 VREMVYPQFYEHKLNDRNVASMVKLDKVPVMDEIYDLTKELIE-SCVKNKDLKSPCELAI 412
Query: 490 ---GLKYRLLQELRTLIESPPYKDKLFIKNFKFHEFPAKENYVAWLGGAIFAATESYNKR 546
+ + ++ I L P+ N + G + ES++
Sbjct: 413 EKTFSFGKTKKNVKINIFEKEEGKNLL--------GPSILNEIYVYDGNVIGIPESFDGV 464
Query: 547 AIQ--------KDAYLNNNMTYMEFLGCTMTA 570
+ K + + Y++ L +T+
Sbjct: 465 KEEFKDFLEKGKSEGVATGIRYIDALCFKITS 496
Score = 30.0 bits (67), Expect = 6.2
Identities = 20/113 (17%), Positives = 41/113 (36%), Gaps = 13/113 (11%)
Query: 978 IRETAFEVLFELDLDMLNIATII-LDSLLSVASSDGREETQYFPFRCWVNTRTPEKLCCL 1036
+RE + +E L+ N+A+++ LD + + + T+ V + + C L
Sbjct: 354 VREMVYPQFYEHKLNDRNVASMVKLDKVPV--MDEIYDLTKEL-IESCVKNKDLKSPCEL 410
Query: 1037 VGWSNI----CCYKLFIKNFKFHE-----FPAKENYVAWLGGAIFAATESYNK 1080
+ I F+ E P+ N + G + ES++
Sbjct: 411 AIEKTFSFGKTKKNVKINIFEKEEGKNLLGPSILNEIYVYDGNVIGIPESFDG 463
>2ych_A Competence protein PILM; cell cycle, type IV pilus actin secretion;
HET: ATP; 2.20A {Thermus thermophilus}
Length = 377
Score = 30.6 bits (69), Expect = 3.2
Identities = 10/47 (21%), Positives = 16/47 (34%)
Query: 455 NIATIILDSLLKTGRDMKKPLAENILLTGGTAMTPGLKYRLLQELRT 501
+ + SL +++ E L GG + GL L L
Sbjct: 286 ELTQELRRSLEFFRIQLEEASPEVGYLLGGGSKLRGLASLLTDTLGV 332
>2odr_D Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 685
Score = 30.3 bits (68), Expect = 4.4
Identities = 32/149 (21%), Positives = 56/149 (37%), Gaps = 19/149 (12%)
Query: 293 IRETAFEVLFELDLDMLNIATII-LDSLLSVASSDGREETQYFPFRCWVNTRTPEKLCCL 351
+RE + +E L+ N+A+++ LD + + + T+ V + + C L
Sbjct: 354 VREMVYPQFYEHKLNDRNVASMVKLDKVPV--MDEIYDLTKEL-IESCVKNKDLKSPCEL 410
Query: 352 VGWSNICCYKLFIKNFKFHEFPAKENYVAWLGGAIFAATESYNKRAIQKDVYLNNNV-IP 410
K KN K + F +E LG +I E Y VY N + IP
Sbjct: 411 AIEKTFSFGKT-KKNVKINIFEKEEG-KNLLGPSIL--NEIY--------VYDGNVIGIP 458
Query: 411 DWCNLSVLGTDLKKSVNPYLHFPVSGHIR 439
+ + + + K + V+ IR
Sbjct: 459 E--SFDGVKEEFKDFLEKGKSEGVATGIR 485
Score = 29.6 bits (66), Expect = 7.6
Identities = 24/152 (15%), Positives = 53/152 (34%), Gaps = 28/152 (18%)
Query: 438 IRETAFEVLFELDLDMLNIATII-LDSL--LKTGRDMKKPLAENILLTGGTAMTP----- 489
+RE + +E L+ N+A+++ LD + + D+ K L E + +P
Sbjct: 354 VREMVYPQFYEHKLNDRNVASMVKLDKVPVMDEIYDLTKELIE-SCVKNKDLKSPCELAI 412
Query: 490 ---GLKYRLLQELRTLIESPPYKDKLFIKNFKFHEFPAKENYVAWLGGAIFAATESYNKR 546
+ + ++ I L P+ N + G + ES++
Sbjct: 413 EKTFSFGKTKKNVKINIFEKEEGKNLL--------GPSILNEIYVYDGNVIGIPESFDGV 464
Query: 547 AIQ--------KDAYLNNNMTYMEFLGCTMTA 570
+ K + + Y++ L +T+
Sbjct: 465 KEEFKDFLEKGKSEGVATGIRYIDALCFKITS 496
Score = 29.6 bits (66), Expect = 7.7
Identities = 20/113 (17%), Positives = 41/113 (36%), Gaps = 13/113 (11%)
Query: 978 IRETAFEVLFELDLDMLNIATII-LDSLLSVASSDGREETQYFPFRCWVNTRTPEKLCCL 1036
+RE + +E L+ N+A+++ LD + + + T+ V + + C L
Sbjct: 354 VREMVYPQFYEHKLNDRNVASMVKLDKVPV--MDEIYDLTKEL-IESCVKNKDLKSPCEL 410
Query: 1037 VGWSNI----CCYKLFIKNFKFHE-----FPAKENYVAWLGGAIFAATESYNK 1080
+ I F+ E P+ N + G + ES++
Sbjct: 411 AIEKTFSFGKTKKNVKINIFEKEEGKNLLGPSILNEIYVYDGNVIGIPESFDG 463
>2ood_A BLR3880 protein; PSI-II, PSI-2, guanine deaminase, guanine,
structural genomics, protein structure initiative; HET:
GUN; 2.62A {Bradyrhizobium japonicum} SCOP: b.92.1.4
c.1.9.9
Length = 475
Score = 29.3 bits (66), Expect = 7.4
Identities = 14/93 (15%), Positives = 23/93 (24%), Gaps = 29/93 (31%)
Query: 227 PDPYIVTVEDVENLSDSIIEDIK-------------VCSCFVTTMERSAEIAAKNPDHKY 273
P +I T E+ S +I ++ + ++PD
Sbjct: 172 PAEFIDTPENFYRDSKRLIAQYHDKGRNLYAITPRFAFGASPELLKACQRLKHEHPD--- 228
Query: 274 PSGFMYPLKNGKKIPVSGHIRETAFEVLFELDL 306
V+ HI E E L
Sbjct: 229 -------------CWVNTHISENPAECSGVLVE 248
Score = 29.3 bits (66), Expect = 7.4
Identities = 14/93 (15%), Positives = 23/93 (24%), Gaps = 29/93 (31%)
Query: 912 PDPYIVTVEDVENLSDSIIEDIK-------------VCSCFVTTMERSAEIAAKNPDHKY 958
P +I T E+ S +I ++ + ++PD
Sbjct: 172 PAEFIDTPENFYRDSKRLIAQYHDKGRNLYAITPRFAFGASPELLKACQRLKHEHPD--- 228
Query: 959 PSGFMYPLKNGKKIPVSGHIRETAFEVLFELDL 991
V+ HI E E L
Sbjct: 229 -------------CWVNTHISENPAECSGVLVE 248
>2odr_A Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 665
Score = 29.2 bits (65), Expect = 8.4
Identities = 32/149 (21%), Positives = 56/149 (37%), Gaps = 19/149 (12%)
Query: 293 IRETAFEVLFELDLDMLNIATII-LDSLLSVASSDGREETQYFPFRCWVNTRTPEKLCCL 351
+RE + +E L+ N+A+++ LD + + + T+ V + + C L
Sbjct: 354 VREMVYPQFYEHKLNDRNVASMVKLDKVPV--MDEIYDLTKEL-IESCVKNKDLKSPCEL 410
Query: 352 VGWSNICCYKLFIKNFKFHEFPAKENYVAWLGGAIFAATESYNKRAIQKDVYLNNNV-IP 410
K KN K + F +E LG +I E Y VY N + IP
Sbjct: 411 AIEKTFSFGKT-KKNVKINIFEKEEG-KNLLGPSIL--NEIY--------VYDGNVIGIP 458
Query: 411 DWCNLSVLGTDLKKSVNPYLHFPVSGHIR 439
+ + + + K + V+ IR
Sbjct: 459 E--SFDGVKEEFKDFLEKGKSEGVATGIR 485
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.323 0.139 0.423
Gapped
Lambda K H
0.267 0.0613 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 17,179,621
Number of extensions: 1071049
Number of successful extensions: 1941
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1904
Number of HSP's successfully gapped: 62
Length of query: 1107
Length of database: 6,701,793
Length adjustment: 104
Effective length of query: 1003
Effective length of database: 3,798,009
Effective search space: 3809403027
Effective search space used: 3809403027
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 63 (28.3 bits)