RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4183
(898 letters)
>3org_A CMCLC; transporter, transport protein; 3.50A {Cyanidioschyzon
merolae}
Length = 632
Score = 326 bits (837), Expect = e-100
Identities = 91/484 (18%), Positives = 171/484 (35%), Gaps = 106/484 (21%)
Query: 186 GSVAGIIDIGSSWMSDLKYGLCPEAFWLNKEQCCWSSNETSFEDTGNCSQWLTWAEVMGS 245
+D+ + +L+ + A
Sbjct: 22 ALFIFAVDLAVHGLEELRMKISRLAGRF-------------------------------- 49
Query: 246 NKEGFMAYTLEYVFFIAWALLFASLAAGLVRMFAPYACGSGIPEQNYSDVEGSSLVVYVG 305
Y+ ++ + L+ + + A GSG+P+ ++ Y
Sbjct: 50 ---------AGYILYVVSGVALCLLSTFWCAVLSTEAEGSGLPQ-----MKSILSGFYDK 95
Query: 306 KSGHSS-----SKSCGRIMLAVSAGLSLRKGRTPWFTLRPCIGNILSYL--FPKYGRNEA 358
+K+ G ++ A+ GL + P + I + L F + + A
Sbjct: 96 MRSALELRVLFAKALG-LICAIGGGLPVGW-EGPNVHIACIIAHQFYRLGVFKELCTDRA 153
Query: 359 KKREILSAAAAAGVSVAFGAPIGGVLFSLEEVSYYFPLKTLWRSFFCALIAAFVLRSINP 418
+ + L+AA A G++ +FGAP+GGVL+S+E ++ ++ ++ W+ AL A V
Sbjct: 154 LRLQTLAAACAVGLASSFGAPLGGVLYSIETIASFYLVQAFWKGVLSALSGAIVYE--LL 211
Query: 419 FGNEHSVLFYVEY--NKPWIFFELIPFVGLGVIGGIIAYIFIRLNLKWCRYRKMSRLGQY 476
+ F + + + LG + G++ +FIR R G
Sbjct: 212 YTTPLVEAFEGTNFDASDVSRTQTLLYAILGALMGVLGALFIRCVRSIYELRMRHYPGTN 271
Query: 477 PVTEVLVITAITTLISFPNPFTRMSTKA-----------GPGVYTAVWLLMITLVLKLVL 525
V V+ + + +P + +A + L++ ++K +L
Sbjct: 272 RYFLVGVVALFASALQYPFRLFALDPRATINDLFKAVPLYQTDHFGWTELILMPIIKFIL 331
Query: 526 TVFTFGIKVPCGLFIPSLCLGGIVGRIVGIGMQQLAFHYPHIWIFAGECSTNDCITPGLY 585
+ G+ +P G+F+PS +G GR+ G M+ + + I PG Y
Sbjct: 332 VALSIGLPLPAGVFVPSFLIGAGFGRLYGELMRVVF---------------GNAIVPGSY 376
Query: 586 AMVGAAAVLGGVTR----------MTGNILSYLFPKYGRNEAKKREILSAAAAAGVSVAF 635
A+VGAAA GVTR +TG + +L P ++S A V AF
Sbjct: 377 AVVGAAAFTAGVTRALSCAVIIFEVTGQ-IRHLVPV----------LISVLLAVIVGNAF 425
Query: 636 GAPI 639
+
Sbjct: 426 NRSL 429
Score = 280 bits (719), Expect = 9e-84
Identities = 66/302 (21%), Positives = 117/302 (38%), Gaps = 48/302 (15%)
Query: 600 MTGNILSYL--FPKYGRNEAKKREILSAAAAAGVSVAFGAPIGGVLFSLEEVSYYFPLKT 657
+ + L F + + A + + L+AA A G++ +FGAP+GGVL+S+E ++ ++ ++
Sbjct: 134 IIAHQFYRLGVFKELCTDRALRLQTLAAACAVGLASSFGAPLGGVLYSIETIASFYLVQA 193
Query: 658 LWRSFFCALIAAFVLRSINPFGNEHSVLFYVEY--NKPWIFFELIPFVGLGVIGGIIAYI 715
W+ AL A V + F + + + LG + G++ +
Sbjct: 194 FWKGVLSALSGAIVYE--LLYTTPLVEAFEGTNFDASDVSRTQTLLYAILGALMGVLGAL 251
Query: 716 FIRLNLKWCRYRKMSRLGQYPVTEVLVITAITTLISFPNPFTRMSTSQLIYLLFSQCGGV 775
FIR R G V V+ + + +P + I LF
Sbjct: 252 FIRCVRSIYELRMRHYPGTNRYFLVGVVALFASALQYPFRLFALDPRATINDLFKAVPLY 311
Query: 776 SYNNGLCDYVINHNATSTSNPTTSEAGPGVYTAVWLLMITLVLKLVLTVFTFGIKVPCGL 835
++ L++ ++K +L + G+ +P G+
Sbjct: 312 QTDH---------------------------FGWTELILMPIIKFILVALSIGLPLPAGV 344
Query: 836 FIPSLCLGGIVGRIVGIGMQQLAFHYPHIWIFAGECSTNDCITPGLYAMVGAAAVLGGVT 895
F+PS +G GR+ G M+ + + I PG YA+VGAAA GVT
Sbjct: 345 FVPSFLIGAGFGRLYGELMRVVF---------------GNAIVPGSYAVVGAAAFTAGVT 389
Query: 896 RM 897
R
Sbjct: 390 RA 391
Score = 94.8 bits (236), Expect = 4e-20
Identities = 17/110 (15%), Positives = 30/110 (27%), Gaps = 4/110 (3%)
Query: 28 VLRSINPFGNEHSVLFYVEY--NKPWIFFELIPFVGLGVIGGIIAYIFIRLNLKWCRYRK 85
V + F + + + LG + G++ +FIR R
Sbjct: 207 VYE--LLYTTPLVEAFEGTNFDASDVSRTQTLLYAILGALMGVLGALFIRCVRSIYELRM 264
Query: 86 MSRLGQYPVTEVLVITAITTLISFPNPFTRMSTSQLIYLLFSQCGGLSMD 135
G V V+ + + +P + I LF D
Sbjct: 265 RHYPGTNRYFLVGVVALFASALQYPFRLFALDPRATINDLFKAVPLYQTD 314
>3nd0_A SLL0855 protein; CLC family CL-/H+ antiporter, CLC_EC1 homolog,
transport protein; 3.20A {Synechocystis} PDB: 3q17_A
Length = 466
Score = 133 bits (336), Expect = 3e-33
Identities = 75/373 (20%), Positives = 130/373 (34%), Gaps = 59/373 (15%)
Query: 255 LEYVFFIAWALLFASLAAGLVRMFAPYACGSGIPEQNYSDVEGSSLVVYVGKSGHSS-SK 313
L ++ + +L+ L++ FAP GSGIP+ +EG K
Sbjct: 73 LAWLVTALISGGMVALSFWLMKRFAPDTSGSGIPQ-----IEGHLEGKLPLVWQRVLPIK 127
Query: 314 SCGRIMLAVSAGLSL-RKGRTPWFTLRPCI---GNILSYLFPKYGRNEAKKREILSAAAA 369
G L++ AG+ +G P I G+I + + +R +++ A
Sbjct: 128 LVGGF-LSLGAGMLAGFEG--------PTIQMGGSIGQMTGGWFKATQENQRILIAVGAG 178
Query: 370 AGVSVAFGAPIGGVLFSLEEVSYYFPLKTLW--RSFFCALIAAFVLRSINPFGNEHSVLF 427
AG++ AF AP+ GV EE+ F +TL F ++A +LR I G +
Sbjct: 179 AGLATAFNAPLAGVALIGEEMHPRFRSQTLAYHSLLFGCVMATIILRMI--RGQSA--II 234
Query: 428 YVEYNKPWIFFELIPFVGLGVIGGIIAYIFIRLNLKWCR-YRKMSRLGQYPVTEVLVITA 486
+ K L F+ LG++ G++ Y F R K + ++ L +L
Sbjct: 235 SLTEFKRVPLDSLWMFIILGILFGVMGYTFNRGLFKVLDWFDRLPPLATKWKGFLLGSII 294
Query: 487 ITTLISFPNPF-----TRMSTKAGPGVYTAVWLLMITLVLKLVLTVFTFGIKVPCGLFIP 541
+ + + L++ + +LT+ +G G+F P
Sbjct: 295 GILSLFPLPLTDGGDNAVLWAFNSQ---SHFSTLILVFCGRFLLTLICYGSGAIGGIFAP 351
Query: 542 SLCLGGIVGRIVGIGMQQLAFHYPHIWIFAGECSTNDCITPGLYAMVGAAAVLGGVTR-- 599
L + IV + L P + A+ G A++ R
Sbjct: 352 MLGIASIVSVAMARHFHLLFPSQI--------------PEPAVMAIAGMGALVAATVRAP 397
Query: 600 ---------MTGN 603
MT N
Sbjct: 398 LTAILLTIEMTDN 410
Score = 111 bits (280), Expect = 4e-26
Identities = 51/288 (17%), Positives = 90/288 (31%), Gaps = 55/288 (19%)
Query: 611 KYGRNEAKKREILSAAAAAGVSVAFGAPIGGVLFSLEEVSYYFPLKTLW--RSFFCALIA 668
+ + +R +++ A AG++ AF AP+ GV EE+ F +TL F ++A
Sbjct: 161 WFKATQENQRILIAVGAGAGLATAFNAPLAGVALIGEEMHPRFRSQTLAYHSLLFGCVMA 220
Query: 669 AFVLRSINPFGNEHSVLFYVEYNKPWIFFELIPFVGLGVIGGIIAYIFIRLNLKWCRYRK 728
+LR I G + + K L F+ LG++ G++ Y F R L
Sbjct: 221 TIILRMI--RGQSA--IISLTEFKRVPLDSLWMFIILGILFGVMGYTFNRG-LFKVL-DW 274
Query: 729 MSRLGQYPVTEVLVITAITTLISFPNPFTRMSTSQLIYLLFSQCGGVSYNNGLCDYVINH 788
RL + ++ L + N
Sbjct: 275 FDRLPPLATKWKGFLLGSIIG--------------ILSLFPLPLTDGGD--NAVLWAFNS 318
Query: 789 NATSTSNPTTSEAGPGVYTAVWLLMITLVLKLVLTVFTFGIKVPCGLFIPSLCLGGIVGR 848
+ L++ + +LT+ +G G+F P L + IV
Sbjct: 319 QSH-----------------FSTLILVFCGRFLLTLICYGSGAIGGIFAPMLGIASIVSV 361
Query: 849 IVGIGMQQLAFHYPHIWIFAGECSTNDCITPGLYAMVGAAAVLGGVTR 896
+ L P + A+ G A++ R
Sbjct: 362 AMARHFHLLFPSQI--------------PEPAVMAIAGMGALVAATVR 395
Score = 30.4 bits (69), Expect = 2.8
Identities = 11/45 (24%), Positives = 18/45 (40%), Gaps = 2/45 (4%)
Query: 35 FGNEHSVLFYVEYNKPWIFFELIPFVGLGVIGGIIAYIFIRLNLK 79
G + + K L F+ LG++ G++ Y F R K
Sbjct: 228 RGQSA--IISLTEFKRVPLDSLWMFIILGILFGVMGYTFNRGLFK 270
>1ots_A Voltage-gated CLC-type chloride channel ERIC; CLC chloride channel,
FAB complex, membrane protein; 2.51A {Escherichia coli}
SCOP: f.20.1.1 PDB: 2fee_A 2h2p_A 2exw_A 1kpk_A 2exy_A
2htl_A 3ejy_A 2ht2_A 2fed_A 2fec_A 1otu_A 3ejz_A 2ht4_A
2htk_A 2ht3_A 1ott_A 2h2s_A 3det_A 2ez0_A 3nmo_A ...
Length = 465
Score = 129 bits (327), Expect = 4e-32
Identities = 88/392 (22%), Positives = 149/392 (38%), Gaps = 67/392 (17%)
Query: 242 VMGSNKEGFMAYTLEYVFFIAWALLFASLAAGLVRMFAPYACGSGIPEQNYSDVEGSSLV 301
MG+ Y L + + A LVR +AP A GSGIPE +EG
Sbjct: 64 RMGALVHTADNYPLLLTVAFLCSAVLAMFGYFLVRKYAPEAGGSGIPE-----IEG---A 115
Query: 302 VYVGKSGHSSSKSCGRI---MLAVSAGLSL-RKGRTPWFTLRPCI------GNILSYLFP 351
+ + + + + G+ L R+G P + G ++ +F
Sbjct: 116 LEDQRPVRWWRVLPVKFFGGLGTLGGGMVLGREG--------PTVQIGGNIGRMVLDIFR 167
Query: 352 KYGRNEAKKREILSAAAAAGVSVAFGAPIGGVLFSLEEV--SYYFPLKTLWRSFFCALIA 409
+ + + +L+ AAAG++ AF AP+ G+LF +EE+ + + L ++ F +++
Sbjct: 168 L--KGDEARHTLLATGAAAGLAAAFNAPLAGILFIIEEMRPQFRYTLISIKAVFIGVIMS 225
Query: 410 AFVLRSINPFGNEHSVLFYVEYNKPWIFFELIPFVGLGVIGGIIAYIFIR--LNLKWCRY 467
+ R L V L ++ LG+I GI IF + L ++ +
Sbjct: 226 TIMYRIF--NHEV--ALIDVGKLSDAPLNTLWLYLILGIIFGIFGPIFNKWVLGMQDLLH 281
Query: 468 RKMSRLGQYPVTEVLVITAITTLISFPNPFT-----RMSTKAGPGVYTAVWLLMITLVLK 522
R V I + L+ F P T + A G ++ L+ I V +
Sbjct: 282 RVHGGNITKWVLMGGAIGGLCGLLGFVAPATSGGGFNLIPIATAGNFSMGMLVFI-FVAR 340
Query: 523 LVLTVFTFGIKVPCGLFIPSLCLGGIVGRIVGIGMQQLAFHYPHIWIFAGECSTNDCITP 582
++ T+ F P G+F P L LG ++G G+ +L Y +
Sbjct: 341 VITTLLCFSSGAPGGIFAPMLALGTVLGTAFGMVAVELFPQYH--------------LEA 386
Query: 583 GLYAMVGAAAVLGGVTR-----------MTGN 603
G +A+ G A+L R MT N
Sbjct: 387 GTFAIAGMGALLAASIRAPLTGIILVLEMTDN 418
Score = 112 bits (283), Expect = 2e-26
Identities = 56/299 (18%), Positives = 112/299 (37%), Gaps = 54/299 (18%)
Query: 600 MTGNILSYLFPKYGRNEAKKREILSAAAAAGVSVAFGAPIGGVLFSLEEV--SYYFPLKT 657
G ++ +F + + + +L+ AAAG++ AF AP+ G+LF +EE+ + + L +
Sbjct: 157 NIGRMVLDIFRL--KGDEARHTLLATGAAAGLAAAFNAPLAGILFIIEEMRPQFRYTLIS 214
Query: 658 LWRSFFCALIAAFVLRSINPFGNEHSVLFYVEYNKPWIFFELIPFVGLGVIGGIIAYIFI 717
+ F +++ + R L V L ++ LG+I GI IF
Sbjct: 215 IKAVFIGVIMSTIMYRIF--NHEV--ALIDVGKLSDAPLNTLWLYLILGIIFGIFGPIFN 270
Query: 718 RLNLKWCRYRKMSRLGQYPVTEVLVITAITTLISFPNPFTRMSTSQLIYLLFSQCGGVSY 777
+ + + + R+ +T+ +++ + L+ + G +
Sbjct: 271 KW-VLGMQ-DLLHRVHGGNITKWVLMGGAIGGLCG-----------LLGFVAPATSGGGF 317
Query: 778 NNGLCDYVINHNATSTSNPTTSEAGPGVYTAVWLLMITLVLKLVLTVFTFGIKVPCGLFI 837
L N + + +L+ V +++ T+ F P G+F
Sbjct: 318 --NLIPIATAGNFS-----------------MGMLVFIFVARVITTLLCFSSGAPGGIFA 358
Query: 838 PSLCLGGIVGRIVGIGMQQLAFHYPHIWIFAGECSTNDCITPGLYAMVGAAAVLGGVTR 896
P L LG ++G G+ +L Y + G +A+ G A+L R
Sbjct: 359 PMLALGTVLGTAFGMVAVELFPQYH--------------LEAGTFAIAGMGALLAASIR 403
Score = 30.1 bits (68), Expect = 3.4
Identities = 17/80 (21%), Positives = 26/80 (32%), Gaps = 4/80 (5%)
Query: 35 FGNEHSVLFYVEYNKPWIFFELIPFVGLGVIGGIIAYIFIR--LNLKWCRYRKMSRLGQY 92
L V L ++ LG+I GI IF + L ++ +R
Sbjct: 233 NHEV--ALIDVGKLSDAPLNTLWLYLILGIIFGIFGPIFNKWVLGMQDLLHRVHGGNITK 290
Query: 93 PVTEVLVITAITTLISFPNP 112
V I + L+ F P
Sbjct: 291 WVLMGGAIGGLCGLLGFVAP 310
>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 = 41.6 bits (97), Expect = 0.001
Identities = 55/296 (18%), Positives = 93/296 (31%), Gaps = 86/296 (29%)
Query: 127 SQCGGLSMDLCSSSVLPSGSFGLVFQTPLIHSLKHDYHNSWLNFFHNKIPLHTFYDSEEG 186
SQ G+ MDL +S + V+ H K Y S L+ N T + E
Sbjct: 1626 SQEQGMGMDLYKTSK----AAQDVWNRADNH-FKDTYGFSILDIVINNPVNLTIHFGGEK 1680
Query: 187 SVAGIIDIGSSWMSDLKYGLCPEAFWLNKEQCCWSSNETSFEDTGNCSQWLTWAEVMGSN 246
I ++ + + + + E F++ S T+ +
Sbjct: 1681 GKR----IRENYSA-MIFETIVDGK---------LKTEKIFKEINEHSTSYTF-----RS 1721
Query: 247 KEGFMAYTLEY--VFFIAWALLFASLAA-------GLVRMFAPYACG-S-GIPEQNYS-- 293
++G ++ T ++ AL AA GL+ A +A G S G E Y+
Sbjct: 1722 EKGLLSAT-QFTQP-----ALTLMEKAAFEDLKSKGLIPADATFA-GHSLG--E--YAAL 1770
Query: 294 ----DV----EGSSLVVYVGKSGHSSSK--SCGRIMLAVSAGLSLRKGRTPWFTLRPCIG 343
DV +V Y G + + GR + A + GR +
Sbjct: 1771 ASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIA---INPGR---------VA 1818
Query: 344 NILSYLFPKYGRNEAKKREILSAAAAAG--VSVA-FGAP-----IGGVLFSLEEVS 391
S EA + + G V + + G L +L+ V+
Sbjct: 1819 ASFS--------QEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVT 1866
Score = 38.5 bits (89), Expect = 0.012
Identities = 93/575 (16%), Positives = 156/575 (27%), Gaps = 171/575 (29%)
Query: 100 ITAITTLISFPNPFTRMSTSQLI--YLLFSQCGGLSMDLCSSSVL----PSGSFGL--VF 151
I A+ + N T + T +LI Y+ D S+S L G+ L +F
Sbjct: 101 IHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIF 160
Query: 152 --QTPLIHSLKHDYHNSWLNFFHNKIPLHTFYDSEEGSVAGIIDIGSSWMSDLKYGLCPE 209
Q DY F L Y + V +I ++ L
Sbjct: 161 GGQ-----GNTDDY-------FEE---LRDLYQTYHVLVGDLIKF----SAETLSELIRT 201
Query: 210 AFWLNKEQCCWSSNETSFEDTGNCSQWLTWAEVMGSNKEGFMAYTLEYVFFIAWALLFAS 269
E F N +WL + ++ I+ L+
Sbjct: 202 T----------LDAEKVFTQGLNILEWLENPSNTPD--KDYLLSI-----PISCPLI--- 241
Query: 270 LAAGLVRMFAPY--AC-GSGI-PEQNYSDVEGSSLVVYVGKSGHSSSKSCGRIM-LAVSA 324
G+++ A Y G P + S ++G+ +GHS G + +A++
Sbjct: 242 ---GVIQ-LAHYVVTAKLLGFTPGELRSYLKGA--------TGHSQ----GLVTAVAIAE 285
Query: 325 GLSLRKGRTPWFTLRPCIGNILSYLFPKY-G-R-NEAKKREILSAAA-AAGVSVAFGAPI 380
S W + + ++ LF + G R EA L + + G P
Sbjct: 286 TDS-------WESFFVSVRKAITVLF--FIGVRCYEAYPNTSLPPSILEDSLENNEGVP- 335
Query: 381 GGVLFSLEEVSYYFPLKTLWRSFFCALIAAFVLRSINPFGNEHSVLFYVEYNKPWIFFEL 440
S + L + + N + N
Sbjct: 336 ----------SPMLSISNLTQEQVQDYVNKT-----NSHLPAGKQVEISLVNGAKNL--- 377
Query: 441 IPFVGLGVIGGIIAYIFIRLNLKWCRYRKMSRLGQY----------PVTEVLVITAITTL 490
V+ G ++ LNL + + S L Q L + +
Sbjct: 378 -------VVSGPPQSLY-GLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVAS---- 425
Query: 491 ISFPNPF-TRMSTKAGPGVYTAVWLLMITLVLK-LVLTVF-TFGIKVPCGLFIPSLCLGG 547
PF + + A + + ++ K + + V+ TF L G
Sbjct: 426 -----PFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVL------SGS 474
Query: 548 IVGRIVGIGMQQLAFHYPHIWIFAGECSTNDCIT------PGLYAMVGAAAVLGGVTRMT 601
I RIV P W E +T T PG G+ +T
Sbjct: 475 ISERIV-----DCIIRLPVKW----ETTTQFKATHILDFGPG---------GASGLGVLT 516
Query: 602 GNILSYLFPKYGRNEAKKREILSAAAAAGVSVAFG 636
G R I++ +G
Sbjct: 517 HRNKD------GTG---VRVIVAGTLDINPDDDYG 542
Score = 36.2 bits (83), Expect = 0.065
Identities = 82/454 (18%), Positives = 129/454 (28%), Gaps = 181/454 (39%)
Query: 254 TLEYVFFIAWALLFASLAAGLVRMFAPYACGSGIPE--QNY-SDVEGSSLVVYVGK-SGH 309
+LE+V + A F A+ L F +PE + + +D E ++ VGK G+
Sbjct: 15 SLEHVLLVPTASFFI--ASQLQEQFN-----KILPEPTEGFAADDEPTTPAELVGKFLGY 67
Query: 310 SSSKSCGRIMLAVSAGLSLRKGRTPWFTLRPCIGNILSYLFPKYGRNEAKKREILSAAAA 369
SS + + F +L+ ++ + +I + AA
Sbjct: 68 VSSL--------------VEPSKVGQFD------QVLNLCLTEFENCYLEGNDIHALAAK 107
Query: 370 AGVSVAFGAPIGGVLFSLEEVSYYFPLKTLWRSFFCALIAAFVLRSINPFGNEH-SVLFY 428
E + K L +++ A I A PF + S LF
Sbjct: 108 ---------------LLQENDTTLVKTKELIKNYITARIMA-----KRPFDKKSNSALFR 147
Query: 429 -VEYNKPWIFFELIPFVGLGVIGG---IIAYIFIRLNLKWCRYRKMSRLGQYPVTEVLVI 484
V + I F GG Y F L + Y + L+
Sbjct: 148 AVGEGNAQLV--AI-F------GGQGNTDDY-FEELRDLYQTYH--------VLVGDLIK 189
Query: 485 TAITTLISFPNPFTRMSTKAGPGVYTAV-----WLLMITLVLKLVLTVFTFGIKVPCGLF 539
+ TL + R + A V+T WL P +
Sbjct: 190 FSAETL----SELIRTTLDAEK-VFTQGLNILEWL--------------ENPSNTPDKDY 230
Query: 540 ---IP-SLCLGGIVGRIVGIGMQQLAFHYPHIWIFAGECSTNDCITPGLYAMVGAAAVLG 595
IP S IG+ QLA HY + TPG + L
Sbjct: 231 LLSIPISC---------PLIGVIQLA-HY---VVT---AKLLG-FTPGELR-----SYLK 268
Query: 596 GVTRMTGNILSYLFPKYGRNEAKKREILSAAA-AAGVSVAFGAPIGGVLFSLEEVSYYFP 654
G T G ++ +++A A A S
Sbjct: 269 GAT--------------GHSQG----LVTAVAIAETDS---------------------- 288
Query: 655 LKTLWRSFFCALIAAFVLRSINPFGNEHSVLFYV 688
W SFF ++ A + VLF++
Sbjct: 289 ----WESFFVSVRKA--IT----------VLFFI 306
Score = 33.5 bits (76), Expect = 0.44
Identities = 66/418 (15%), Positives = 114/418 (27%), Gaps = 154/418 (36%)
Query: 520 VLKLVLTVFTFGIKVPCGLFIPSLCLGG--IVGRIVGIGMQQLAFHYPHIWIFAGECSTN 577
VL L LT F + L G I H A +
Sbjct: 83 VLNLCLTEFE------------NCYLEGNDI--------------H-----ALAAKLLQE 111
Query: 578 DCITPGLYAMVGAAAVLGGVTRMTGNILSYLFPKYGRNEAKKREILSA---AAAAGVS-- 632
+ T + I +Y+ + ++ SA A G +
Sbjct: 112 NDTTLVKTKEL---------------IKNYITARIMAKRPFDKKSNSALFRAVGEGNAQL 156
Query: 633 -VAFGAPIG-GVLFSLEEVSYYFP-LKTLWRSFFCALIAAFVLRSINPFGNEHSVLFYVE 689
FG G G + ++ YF L+ L++++ L+ + S L
Sbjct: 157 VAIFG---GQG---NTDD---YFEELRDLYQTYH-VLVGDLIKFSAETLSE----LIRTT 202
Query: 690 YNKPWIFFELIPFVGLGVIGGIIAYIFIRLNLKWCRYRKMSRLGQYPVTEVLVITAITTL 749
+ +F + GL + L+W + P + L+ +
Sbjct: 203 LDAEKVFTQ-----GLNI-------------LEW-----LENPSNTPDKDYLL----SIP 235
Query: 750 ISFPNPFTRMSTSQLIYLLFSQCGGVSYNNGLCDYVI-------NHNATSTSNPTTSEAG 802
IS P LI ++ Q L YV+ + +
Sbjct: 236 ISCP----------LIGVI--Q---------LAHYVVTAKLLGFTPGELRSYLKGATGHS 274
Query: 803 PGVYTAV-------WLLMITLVLKLVLTVFTFGIK----VPCGLFIPSL---CLGGIVGR 848
G+ TAV W V K + +F G++ P PS+ L G
Sbjct: 275 QGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGV 334
Query: 849 ------IVGIGMQQLAFHYPHIWIFAGECSTNDCITPGLY----AMV--GAAAVLGGV 894
I + +Q+ ++ + L +V G L G+
Sbjct: 335 PSPMLSISNLTQEQVQ---DYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGL 389
>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 = 34.1 bits (77), Expect = 0.27
Identities = 32/219 (14%), Positives = 55/219 (25%), Gaps = 74/219 (33%)
Query: 18 SHLALKVL-FHVLRSINPFGNEHSVLFYV---EYNKPWIFFE----LIPFVGLGVIGGII 69
+ +AL V + ++ F +F++ N P E L+ +
Sbjct: 164 TWVALDVCLSYKVQCKMDFK-----IFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSD 218
Query: 70 AYIFIRLNLKWCRYRKMSRLGQYPVTEVLVI------------------TAITT------ 105
I+L + + L P L++ +TT
Sbjct: 219 HSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVT 278
Query: 106 ------------LISFPNPFTRMSTSQLIYLLFSQCGGLSMDLCSSSVLP----SGSFGL 149
L T L + C LP + +
Sbjct: 279 DFLSAATTTHISLDHHSMTLTPDEVKSL----LLKYLD-----CRPQDLPREVLTTN--- 326
Query: 150 VFQTPLIHSL----KHDYHNSWLNFFH-NKIPLHTFYDS 183
P S+ D +W N+ H N L T +S
Sbjct: 327 ----PRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIES 361
Score = 29.4 bits (65), Expect = 6.0
Identities = 44/322 (13%), Positives = 88/322 (27%), Gaps = 94/322 (29%)
Query: 453 IAYIFI----RLNLKWC--RYRKMSRLGQYPVTEVLVITAITTLISFPNPFTRMSTKAGP 506
+ F+ R+N K+ + R Q + + I L + F + +
Sbjct: 78 MVQKFVEEVLRINYKFLMSPIKTEQR--QPSMMTRMYIEQRDRLYNDNQVFAKYN----- 130
Query: 507 GVYTAVWLLMITLVLKLVLT-------VFTFGIKVPCGLFIPSLCLGGIVGRIVGIGMQQ 559
V L L L+ L V G+ G + + V + Q
Sbjct: 131 -----VSRLQPYLKLRQALLELRPAKNVLIDGVL-GSG---KT-WVALDVCLSYKV---Q 177
Query: 560 LAFHYPHIWIFAGECSTNDCITPGLYAMVGAAAVLGGVTRMTGNILSYLF----PKYGRN 615
+ W+ C++ + + L + + ++ N S K +
Sbjct: 178 CKMDFKIFWLNLKNCNSPETVLEMLQKL---------LYQIDPNWTSRSDHSSNIKLRIH 228
Query: 616 EAK--KREILSAAAAAGVSVAFGAPIGGVLFSLEEVSYYFPLKTLWRSF-F-C------- 664
+ R +L + P L L V W +F C
Sbjct: 229 SIQAELRRLLKS-----------KPYENCLLVLLNVQN----AKAWNAFNLSCKILLTTR 273
Query: 665 -ALIAAFV--LRSINPFGNEHSVLFYVEYNKP----WI---FFEL-------IPFVGLGV 707
+ F+ + + + HS+ + K ++ +L P L +
Sbjct: 274 FKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRR-LSI 332
Query: 708 IGGIIAYIFIRLNLKWCRYRKM 729
I I W ++ +
Sbjct: 333 IAESIRDGLAT----WDNWKHV 350
>2gfn_A HTH-type transcriptional regulator PKSA related P; transcriptional
regulato PSI-2, regulatory protein, structural genomics,
protein STR initiative; 1.90A {Rhodococcus SP} SCOP:
a.4.1.9 a.121.1.1
Length = 209
Score = 32.7 bits (75), Expect = 0.35
Identities = 14/85 (16%), Positives = 25/85 (29%), Gaps = 39/85 (45%)
Query: 351 PKYGRNEAKKREILSA------------------AAAAGVSVAFGAPIGGVLFSLEEVSY 392
PK ++ ++R + A A +G S G +++
Sbjct: 2 PKIVDHDERRRALADAVLALIAREGISAVTTRAVAEESGWST--GV-----------LNH 48
Query: 393 YFPLKTLWRSFFCALIAAFVLRSIN 417
YF + L+ A LR
Sbjct: 49 YFGSRH-------ELLLA-ALRRAG 65
Score = 32.7 bits (75), Expect = 0.35
Identities = 14/85 (16%), Positives = 25/85 (29%), Gaps = 39/85 (45%)
Query: 610 PKYGRNEAKKREILSA------------------AAAAGVSVAFGAPIGGVLFSLEEVSY 651
PK ++ ++R + A A +G S G +++
Sbjct: 2 PKIVDHDERRRALADAVLALIAREGISAVTTRAVAEESGWST--GV-----------LNH 48
Query: 652 YFPLKTLWRSFFCALIAAFVLRSIN 676
YF + L+ A LR
Sbjct: 49 YFGSRH-------ELLLA-ALRRAG 65
>2np5_A Transcriptional regulator; TETR family, structural genomics,
protein structure initiative, midwest center for
structural genomics, MCSG; HET: MSE LMT NDS; 1.80A
{Rhodococcus SP} SCOP: a.4.1.9 a.121.1.1
Length = 203
Score = 31.2 bits (71), Expect = 1.1
Identities = 14/84 (16%), Positives = 24/84 (28%), Gaps = 39/84 (46%)
Query: 351 PKYGRNEAKKREILSA------------------AAAAGVSVAFGAPIGGVLFSLEEVSY 392
+ + + +A A AGVS+ GA V +
Sbjct: 2 RERRYSSTSPERLAAALFDVAAESGLEGASVREVAKRAGVSI--GA-----------VQH 48
Query: 393 YFPLKTLWRSFFCALIAAFVLRSI 416
+F K + A LR++
Sbjct: 49 HFSTKD-------EMFAF-ALRTL 64
Score = 31.2 bits (71), Expect = 1.1
Identities = 14/84 (16%), Positives = 24/84 (28%), Gaps = 39/84 (46%)
Query: 610 PKYGRNEAKKREILSA------------------AAAAGVSVAFGAPIGGVLFSLEEVSY 651
+ + + +A A AGVS+ GA V +
Sbjct: 2 RERRYSSTSPERLAAALFDVAAESGLEGASVREVAKRAGVSI--GA-----------VQH 48
Query: 652 YFPLKTLWRSFFCALIAAFVLRSI 675
+F K + A LR++
Sbjct: 49 HFSTKD-------EMFAF-ALRTL 64
>3k40_A Aromatic-L-amino-acid decarboxylase; PLP dependent protein, alpha
beta protein, alternative splicing, catecholamine
biosynthesis, lyase; HET: LLP; 1.75A {Drosophila
melanogaster}
Length = 475
Score = 31.6 bits (72), Expect = 1.4
Identities = 18/77 (23%), Positives = 28/77 (36%), Gaps = 9/77 (11%)
Query: 264 ALLFASLAAGLVRMFAPYACGSGIPEQNYSDVEGSSLVVYVGKSGHSSSKSCGRIMLAVS 323
+ L A L A + PE + + G LV Y HSS + G +
Sbjct: 151 STLVALLGA---KAKKLKEVKELHPEWDEHTILGK-LVGYCSDQAHSSVERAGLLG---- 202
Query: 324 AGLSLRKGRTPWFTLRP 340
G+ LR ++ +R
Sbjct: 203 -GVKLRSVQSENHRMRG 218
>2nx4_A Transcriptional regulator, TETR family protein; HTH DNA binding
motif, structural genomics, PSI-2, Pro structure
initiative; 1.70A {Rhodococcus SP}
Length = 194
Score = 30.4 bits (69), Expect = 1.6
Identities = 14/65 (21%), Positives = 22/65 (33%), Gaps = 31/65 (47%)
Query: 351 PKYGRNEAKKREILSA------------------AAAAGVSVAFGAPIGGVLFSLEEVSY 392
PK ++ ++R I +A A AG + GA +S+
Sbjct: 3 PKLVDHDERRRSITAAAWRLIAARGIEAANMRDIATEAGYTN--GA-----------LSH 49
Query: 393 YFPLK 397
YF K
Sbjct: 50 YFAGK 54
Score = 30.4 bits (69), Expect = 1.6
Identities = 14/65 (21%), Positives = 22/65 (33%), Gaps = 31/65 (47%)
Query: 610 PKYGRNEAKKREILSA------------------AAAAGVSVAFGAPIGGVLFSLEEVSY 651
PK ++ ++R I +A A AG + GA +S+
Sbjct: 3 PKLVDHDERRRSITAAAWRLIAARGIEAANMRDIATEAGYTN--GA-----------LSH 49
Query: 652 YFPLK 656
YF K
Sbjct: 50 YFAGK 54
>3ml1_A NAPA, periplasmic nitrate reductase; heterodimer, oxidoreductase;
HET: MGD HEC; 1.60A {Ralstonia eutropha} PDB: 3o5a_A*
1ogy_A* 2nya_A*
Length = 802
Score = 31.2 bits (71), Expect = 1.9
Identities = 14/38 (36%), Positives = 16/38 (42%), Gaps = 5/38 (13%)
Query: 268 ASLAAGLVRMFAPYACGSGIPEQNYSDVEGSSLVVYVG 305
AS AAG +R F G P Y D E + V G
Sbjct: 154 ASAAAGFMRTF-----GMDEPMGCYDDFEAADAFVLWG 186
>1ybf_A AMP nucleosidase; structural genomics, protein structure
initiative, PSI, NEW research center for structural
genomics, nysgxrc; 2.90A {Bacteroides thetaiotaomicron}
SCOP: c.56.2.1
Length = 268
Score = 30.2 bits (68), Expect = 2.4
Identities = 14/59 (23%), Positives = 20/59 (33%), Gaps = 1/59 (1%)
Query: 542 SLCLGGIVGRIVGIGMQQLAFHYPHIWIFAGEC-STNDCITPGLYAMVGAAAVLGGVTR 599
+L G+ M L +P IF G+C G Y + AA G +
Sbjct: 65 TLINFGMGSANAATIMDLLWAIHPKAVIFLGKCGGLKLENALGDYLLPIAAIRGEGTSN 123
Score = 30.2 bits (68), Expect = 2.4
Identities = 14/59 (23%), Positives = 20/59 (33%), Gaps = 1/59 (1%)
Query: 839 SLCLGGIVGRIVGIGMQQLAFHYPHIWIFAGEC-STNDCITPGLYAMVGAAAVLGGVTR 896
+L G+ M L +P IF G+C G Y + AA G +
Sbjct: 65 TLINFGMGSANAATIMDLLWAIHPKAVIFLGKCGGLKLENALGDYLLPIAAIRGEGTSN 123
>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB;
ABC-transporter, transport protein; HET: ADP; 1.60A
{Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A*
2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*
Length = 247
Score = 30.1 bits (69), Expect = 2.6
Identities = 20/90 (22%), Positives = 31/90 (34%), Gaps = 29/90 (32%)
Query: 304 VGKSGHSSSKS-------------CGRIMLAVSAGLSLRKGRTPWFTLRPCIGNIL--SY 348
VG+SG S KS G++++ G L W LR +G +L +
Sbjct: 41 VGRSG--SGKSTLTKLIQRFYIPENGQVLID---GHDLALADPNW--LRRQVGVVLQDNV 93
Query: 349 LFP-------KYGRNEAKKREILSAAAAAG 371
L +++ AA AG
Sbjct: 94 LLNRSIIDNISLANPGMSVEKVIYAAKLAG 123
>1dvp_A HRS, hepatocyte growth factor-regulated tyrosine kinase substrate;
VHS, FYVE, zinc finger, superhelix, transferase; HET:
CIT; 2.00A {Drosophila melanogaster} SCOP: a.118.9.2
g.50.1.1
Length = 220
Score = 29.4 bits (65), Expect = 4.5
Identities = 19/133 (14%), Positives = 38/133 (28%), Gaps = 2/133 (1%)
Query: 88 RLGQYPVTEVLVITAITTLISFPNPFTRMSTSQLIYLLFSQCGGLSMDLCSSSVLPSGSF 147
+ Q VT AI ++ PNP + + ++ + CG + +
Sbjct: 32 EINQKDVTPKNAFAAIKKKMNSPNPHSSCYSLLVLESIVKNCGAPVHEEVFTKENCEMFS 91
Query: 148 GLVFQTPLIH--SLKHDYHNSWLNFFHNKIPLHTFYDSEEGSVAGIIDIGSSWMSDLKYG 205
+ TP + + +W F + D+ A +D +
Sbjct: 92 SFLESTPHENVRQKMLELVQTWAYAFRSSDKYQAIKDTMTILKAKGHTFPELREADAMFT 151
Query: 206 LCPEAFWLNKEQC 218
W + C
Sbjct: 152 ADTAPNWADGRVC 164
>2nap_A Protein (periplasmic nitrate reductase); nitrogenous acceptor,
dissimilatory nitrate reductase; HET: MGD MES; 1.90A
{Desulfovibrio desulfuricans} SCOP: b.52.2.2 c.81.1.1
PDB: 2jim_A* 2jir_A* 2jip_A* 2v45_A* 2v3v_A* 2jiq_A*
2jio_A*
Length = 723
Score = 29.9 bits (68), Expect = 5.1
Identities = 10/38 (26%), Positives = 16/38 (42%), Gaps = 5/38 (13%)
Query: 268 ASLAAGLVRMFAPYACGSGIPEQNYSDVEGSSLVVYVG 305
AS G V F G P Y+D++ ++ +G
Sbjct: 142 ASAVGGYVTSF-----GKDEPMGTYADIDQATCFFIIG 174
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
0.327 0.142 0.456
Gapped
Lambda K H
0.267 0.0616 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 14,259,604
Number of extensions: 895199
Number of successful extensions: 3018
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2979
Number of HSP's successfully gapped: 46
Length of query: 898
Length of database: 6,701,793
Length adjustment: 102
Effective length of query: 796
Effective length of database: 3,853,851
Effective search space: 3067665396
Effective search space used: 3067665396
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 62 (27.9 bits)