RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15471
(550 letters)
>2a65_A Leutaa, Na(+):neurotransmitter symporter (SNF family); membrane
protein, transport protein; HET: BOG; 1.65A {Aquifex
aeolicus} SCOP: f.54.1.1 PDB: 2q6h_A* 2q72_A* 2qb4_A*
2qei_A* 3f3a_A* 3f3c_A* 3f3d_A* 3f3e_A* 3f48_A* 3f4i_A*
3f4j_A* 3usg_A* 3usi_A 3usj_A 3usk_A 3usl_A* 3usm_A*
3uso_A 3usp_A* 3qs5_A* ...
Length = 519
Score = 208 bits (532), Expect = 6e-61
Identities = 101/475 (21%), Positives = 179/475 (37%), Gaps = 44/475 (9%)
Query: 1 MLVLAGKPMYFLELAVGQFGGVGPLG-------LWNCCPIAKGVGVAMVTVSLIVCIYYN 53
+L G P+ ++E A+G++GG G L AK +GV + + L+V IYY
Sbjct: 50 AFLLVGIPLMWIEWAMGRYGGAQGHGTTPAIFYLLWRNRFAKILGVFGLWIPLVVAIYYV 109
Query: 54 VIMSYTLYYMFSSLQFDVPWSKCDPEWADMSTCYVRGVNVSMSHVKSARVVICQVESATR 113
I S+TL + L VP + D + S
Sbjct: 110 YIESWTLGFAIKFLVGLVPEPPPNATDPDSILRPFKEFLYS------------------- 150
Query: 114 KVLKLSDGIENLGPVKTDLAICLAVSWIVVVLCLMKGIKTSG--KVVYFAATFPYVILVT 171
+ + G E + I ++ + V L++GI G + A +++ V
Sbjct: 151 -YIGVPKGDEPILKPSLFAYIVFLITMFINVSILIRGIS-KGIERFAKIAMPTLFILAVF 208
Query: 172 LLVTGLLQD----GAISGVLYFITPTWEKLLDIQVWHAAAGQMFFSLSVSMGGLIMYSSY 227
L++ L + A G+ + TP +EKL D VW AA GQ+FF+LS+ G +I Y+SY
Sbjct: 209 LVIRVFLLETPNGTAADGLNFLWTPDFEKLKDPGVWIAAVGQIFFTLSLGFGAIITYASY 268
Query: 228 NDFSNNVYRDALVVSVMDTITSIMSG--IVTFSILGAMAHDLNVPINQVVKEGPGLAFVA 285
++ L + ++ ++ G I + + V I L F+
Sbjct: 269 VRKDQDIVLSGLTAATLNEKAEVILGGSISIPAAVAFFGVANAVAIA--KAGAFNLGFIT 326
Query: 286 YPEALLRLPFPQLWSILFFLMLFVLGLDSEFALLENVLTSVSDEFLVLRNHKLPFCICTA 345
P + L+F +LF GL S A+++ ++ + DE + R + TA
Sbjct: 327 LPAIFSQTAGGTFLGFLWFFLLFFAGLTSSIAIMQPMIAFLEDELKLSRK---HAVLWTA 383
Query: 346 LVCYVIGLSCVTHGGNYVLTLMDVYGGGTAVLFIAIFECVSLVWVYGLKNLCWDLKFMLK 405
+ + + N L MD + G V+F + E + W++G ++
Sbjct: 384 AIVFFSAHLVM--FLNKSLDEMDFWAGTIGVVFFGLTELIIFFWIFGADKAWEEINRGGI 441
Query: 406 FQPGVYWRFTWVFCAPVILATIFIYSIIAHKPLHYENYDYPDW-ADGVGWCLACL 459
+ + + + P LA + + + P E + W L
Sbjct: 442 IKVPRIYYYVMRYITPAFLAVLLVVWAREYIPKIMEETHWTVWITRFYIIGLFLF 496
>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 = 46.2 bits (109), Expect = 3e-05
Identities = 73/415 (17%), Positives = 123/415 (29%), Gaps = 147/415 (35%)
Query: 166 YVILVTLLV---TGLLQDGAISGVLYFITPTWEKL----LDIQVW----HAAAGQMFF-S 213
Y +LV L+ L + L T EK+ L+I W + + S
Sbjct: 180 YHVLVGDLIKFSAETLSE------LIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLS 233
Query: 214 LSVSMG--GLIMYSSYNDFSNNV-YRDALVVSVMDTITSIMSGIVTFSILGAMAH---DL 267
+ +S G+I + Y + + + + S + T G+VT ++ A
Sbjct: 234 IPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVT-AVAIAETDSWESF 292
Query: 268 NVPINQVVKEGPGLAF-------VAYPEALLR-------------LPFPQLWSILFFLML 307
V + + + + F AYP L +P P ML
Sbjct: 293 FVSVRKAIT----VLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSP---------ML 339
Query: 308 FVLGLDSEFALLENVLTSVSDEFLVLRNHKLP--FCICTALVCYVIGLSCVTHGG--NYV 363
+ L E +++ + N LP + +LV G N V
Sbjct: 340 SISNLTQEQ--VQDYVNKT--------NSHLPAGKQVEISLVN-----------GAKNLV 378
Query: 364 LTLMDVYGGGTAVLFIAIFECVSLVWVYGLKNLCWDLKFM-------LKF---QPGVYWR 413
++ G SL YGL K + F + R
Sbjct: 379 VS-------GPP---------QSL---YGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNR 419
Query: 414 FTWVFCAPVILATIFIYSIIAHKPL---HYENYDYPDWADGVGWCLACLSMCQIPFWALV 470
F V +P F H L + + + V + + QIP +
Sbjct: 420 FLPVA-SP------F------HSHLLVPASDLINKDLVKNNVSFNAKDI---QIPVYDTF 463
Query: 471 --VVLRAKGSSLKQKFLNAI--SPTEDWGPALRAKGSSLKQKFLNAISPTEDWGP 521
LR S+ ++ ++ I P W + K + L D+GP
Sbjct: 464 DGSDLRVLSGSISERIVDCIIRLPV-KWETTTQFKAT----HIL-------DFGP 506
Score = 34.6 bits (79), Expect = 0.11
Identities = 63/430 (14%), Positives = 104/430 (24%), Gaps = 152/430 (35%)
Query: 251 MSGIVT--FSI-LGAMAHDLNVPIN-----QVVKEGPGLAFVA-YPEALLRLPF------ 295
M T ++ G++ H L VP ++E F PE
Sbjct: 1 MDAYSTRPLTLSHGSLEHVLLVPTASFFIASQLQE----QFNKILPEPTEGFAADDEPTT 56
Query: 296 -PQLWSILFFLMLFVLGL--DSEFALLENVLTSVSDEF--LVLRN---H----KLPFCIC 343
+L FL +V L S+ + VL EF L H KL
Sbjct: 57 PAELVG--KFLG-YVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQEND 113
Query: 344 TALV-------CYVIGLSCVTHGGNYVLT--LMDVYGGGTAVLFIAIF-----------E 383
T LV Y+ + L G G A L AIF E
Sbjct: 114 TTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLV-AIFGGQGNTDDYFEE 172
Query: 384 CVSLVWVYG-------------LKNLCWDLKFMLKFQPGVYWRFTWV-----------FC 419
L Y L L K W+
Sbjct: 173 LRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLL 232
Query: 420 -APVILATIFIYS----IIAHKPLHYENYDYPDWADGVGWCL------ACLSMC------ 462
P+ I + ++ K L + + + G ++
Sbjct: 233 SIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESF 292
Query: 463 --------QIPFWALVVVLRAKGSSLKQKF-LNAISPT-----EDWG-----PALRAKGS 503
+ F+ + +R + + ++ P+ + P L
Sbjct: 293 FVSVRKAITVLFF---IGVRC-----YEAYPNTSLPPSILEDSLENNEGVPSPMLSISNL 344
Query: 504 SLKQ-----KFLNAISPTEDW---------------GPA------DPEIKKQWAEEKKNF 537
+ +Q N+ P GP + ++K A +
Sbjct: 345 TQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQ 404
Query: 538 EKVPM---KP 544
++P K
Sbjct: 405 SRIPFSERKL 414
Score = 30.4 bits (68), Expect = 2.2
Identities = 39/267 (14%), Positives = 73/267 (27%), Gaps = 90/267 (33%)
Query: 56 MSYTLYYMFSSLQFDVPWSKCDPEWADM---------------STCY---VRGVNVSMSH 97
M LY + Q DV W++ D + D T + +G + ++
Sbjct: 1631 MGMDLYKTSKAAQ-DV-WNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENY 1688
Query: 98 VKSARVVICQVESATRKVLKLSDGIENL------GPVKTDL--------AICLAVSWIVV 143
I + T K+ K + E+ K L A+ +
Sbjct: 1689 SAMIFETIVDGKLKTEKIFKEIN--EHSTSYTFRSE-KGLLSATQFTQPAL-TLME--KA 1742
Query: 144 VLCLMK--GIKTSGKVV-------YFAATFPYVILVTLLVTGLLQDGAISGVLYFITPTW 194
+K G+ + Y AA L +++ V+
Sbjct: 1743 AFEDLKSKGLIPADATFAGHSLGEY-AA----------LA-------SLADVMSI----- 1779
Query: 195 EKLLDI------QVWHAAAGQMFFSLSVSMGGLIMYSSYNDFSNNVYRDALVVSVMDTIT 248
E L+++ + A + M + FS + V++ +
Sbjct: 1780 ESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFS-----QEALQYVVERVG 1834
Query: 249 SIMSGIVTFSILGAMAHDLNVPINQVV 275
+V I + NV Q V
Sbjct: 1835 KRTGWLV--EI----VNY-NVENQQYV 1854
>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 = 42.5 bits (99), Expect = 4e-04
Identities = 71/565 (12%), Positives = 137/565 (24%), Gaps = 196/565 (34%)
Query: 61 YYMF--SSLQFDVPW--SKCDPEWADMS---TCYVRGVNV--SMSHVKSARVVICQVESA 111
F L+ + + S E S Y+ + + + V + V
Sbjct: 79 VQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNV------- 131
Query: 112 TR--KVLKLSDGIENLGPVKTDLAICLAVSWIVVVLCLMKGIKTSGKVVYFAATFPYVIL 169
+R LKL + L P K V++ + G SGK
Sbjct: 132 SRLQPYLKLRQALLELRPAKN------------VLIDGVLG---SGK------------- 163
Query: 170 VTLLVTGLLQDGAISGVLYF----IT----PTWEKLLDI-QVWHAAAGQMFFSLSVSMGG 220
T + + + + F + + E +L++ Q + S S
Sbjct: 164 -TWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSN 222
Query: 221 LIMYSSYND--------FSNNVYRDAL----------VVSVMD------------TITSI 250
+ + + + Y + L + + +T
Sbjct: 223 IKL--RIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDF 280
Query: 251 MSGIVTFSI--------------LGAMAHDLNVPIN----QVVKEGP-GLAFVAYPEALL 291
+S T I + L+ +V+ P L+ +A +
Sbjct: 281 LSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIA---ESI 337
Query: 292 RLPFPQLWSILFFLMLFVLGLDSEFALLENVLTSVS-----DEFLVLRNH-KLP---FCI 342
R W + + L + NVL D V +P +
Sbjct: 338 R-DGLATWD--NWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSL 394
Query: 343 ---------CTALVCYVIGLSCVT-HGGNYVLTLMDVY------GGGTAVLFIAIFECVS 386
+V + S V +++ +Y L +I + +
Sbjct: 395 IWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYN 454
Query: 387 LVWVYGLKNLCWDLKFMLKFQPGVYWRFTWVFCAPVILATIFIYSIIAH---KPLHYENY 443
+ K D + + Y+ YS I H H E
Sbjct: 455 I-----PKTFDSD-DLIPPYLDQ-YF-----------------YSHIGHHLKNIEHPERM 490
Query: 444 D-----YPD--W------ADGVGWCLACLSMCQIPFWALVVVLRAKGSSLKQKFLNAISP 490
+ D + D W + L+ + I
Sbjct: 491 TLFRMVFLDFRFLEQKIRHDSTAWN------ASGSILNTLQQLK--------FYKPYICD 536
Query: 491 TEDWGPALRAKGSSLKQKFLNAISP 515
+ P +++ FL I
Sbjct: 537 ND---PKYERLVNAIL-DFLPKIEE 557
Score = 31.7 bits (71), Expect = 0.83
Identities = 32/212 (15%), Positives = 56/212 (26%), Gaps = 61/212 (28%)
Query: 223 MYSSYND----FSNNVYRDALVVSVMDTITSIMSGIVTFSILGAMAHDLNVPI------- 271
Y D F + + V D SI+S I+ +
Sbjct: 14 HQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLS 73
Query: 272 --NQVVKEGPGLAFVAYPEALLRLPFPQLWSILFFLMLFVLGLDSEFALLENVLTSVSDE 329
++V++ FV E +LR+ + L S + + + + L + +
Sbjct: 74 KQEEMVQK-----FV---EEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQV 125
Query: 330 FL---VLRNHKLPFCICTAL-----VCYVIGLSCVTHGGNYVLTLMDVYGG-GTAVLFIA 380
F V R + AL V + G + G G +
Sbjct: 126 FAKYNVSRLQPY-LKLRQALLELRPAKNV-----LIDG-------V---LGSGKTWV--- 166
Query: 381 IFECVSLVWVYGLKNLCWDLKFMLKFQPGVYW 412
V C K K ++W
Sbjct: 167 ----ALDV--------CLSYKVQCKMDFKIFW 186
>2jln_A MHP1; hydantoin, transporter, membrane protein,
nucleobase-cation-symport-1 family; 2.85A
{Microbacterium liquefaciens} PDB: 2jlo_A* 2x79_A
Length = 501
Score = 35.1 bits (81), Expect = 0.050
Identities = 20/137 (14%), Positives = 43/137 (31%), Gaps = 4/137 (2%)
Query: 127 PVKTDLAICLAVSWIVVVLCLMKGIKTSGKVVYFAATFPYVILVTLLVTGLLQDGAISGV 186
T+L + + + + V+ GI + FA+ + V ++ L G
Sbjct: 137 TGFTNLPLWIVIFGAIQVVTTFYGITFIRWMNVFASPVLLAMGVYMVYLMLDGADVSLGE 196
Query: 187 LYFITPTWEKLLDIQVWHAAAGQMFFSLSVSMGGLIMYSSYNDFSNNVYRDALVVSVMDT 246
+ + + G + ++ VS+ N R+ +
Sbjct: 197 VMSMGGENPGMPFSTAIMIFVG-GWIAVVVSIHD---IVKECKVDPNASREGQTKADARY 252
Query: 247 ITSIMSGIVTFSILGAM 263
T+ G+V SI+
Sbjct: 253 ATAQWLGMVPASIIFGF 269
>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 = 0.34
Identities = 10/26 (38%), Positives = 12/26 (46%), Gaps = 7/26 (26%)
Query: 478 SSLKQKFLNAISPTEDWGPALRAKGS 503
+SLK L A D PAL K +
Sbjct: 27 ASLK---LYA--D--DSAPALAIKAT 45
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 31.7 bits (71), Expect = 0.35
Identities = 5/14 (35%), Positives = 10/14 (71%)
Query: 522 ADPEIKKQWAEEKK 535
+PE ++W EE++
Sbjct: 82 QEPESIRKWREEQR 95
>3fn1_B NEDD8-conjugating enzyme UBE2F; ligase, ATP-binding, cell cycle,
nucleotide-binding, UBL CON pathway; 2.50A {Homo
sapiens} PDB: 2edi_A
Length = 167
Score = 30.0 bits (68), Expect = 1.3
Identities = 10/50 (20%), Positives = 19/50 (38%), Gaps = 5/50 (10%)
Query: 492 EDWGPALRAKG--SSLKQKFLNAISPTEDWGPADPEIKKQWAEEKKNFEK 539
W P K L F + ++ +D P + E + +K++F
Sbjct: 110 TGWAPTRTLKDVVWGLNSLFTDLLNF-DD--PLNIEAAEHHLRDKEDFRN 156
>4dz1_A DALS D-alanine transporter; D-alanine binding, periplasmic,
transport protein; 1.90A {Salmonella enterica} PDB:
3r39_A 4f3s_A
Length = 259
Score = 29.2 bits (66), Expect = 2.9
Identities = 9/68 (13%), Positives = 17/68 (25%), Gaps = 3/68 (4%)
Query: 468 ALVVVLRAKGSSLKQKFLNAISPTEDWGPALRAKGSSLKQKFLNAISPTEDWGPADPEIK 527
V + + + G A + KGS ++ F + I
Sbjct: 192 EPVYFTFKNKKKMPIESRYVFKNVDQLGIAFK-KGSPVRDDFNLWLKEQGP-QKIS-GIV 248
Query: 528 KQWAEEKK 535
W +
Sbjct: 249 DSWMKHHH 256
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
0.326 0.141 0.455
Gapped
Lambda K H
0.267 0.0537 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,701,208
Number of extensions: 526678
Number of successful extensions: 1185
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1172
Number of HSP's successfully gapped: 21
Length of query: 550
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 452
Effective length of database: 3,965,535
Effective search space: 1792421820
Effective search space used: 1792421820
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: 60 (27.3 bits)