RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 043481
(351 letters)
>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 = 40.8 bits (95), Expect = 7e-04
Identities = 47/239 (19%), Positives = 68/239 (28%), Gaps = 62/239 (25%)
Query: 144 TSLRIQDFLAIGAILSATDSVCTLQVLSQDETP---------FL-YSIVFGEGVVNDATS 193
+ L+ + F I + T+ + D+ P FL Y E
Sbjct: 31 SQLQ-EQFNKI--LPEPTEG------FAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFD 81
Query: 194 IVLFNAIQSF--DF---NNIDGTVALNLLGTFLYLYFTSTALGIVLGLLSAYIIKTLYFL 248
VL + F + N+I +A LL T L L+ Y
Sbjct: 82 QVLNLCLTEFENCYLEGNDIH-ALAAKLLQE------NDTTLVKTKELIKNY-----ITA 129
Query: 249 RHSTDREGAPMMLMAYLSCILAELLNLSGILTIF---FCGIIMSHYTWHNVTESSRI-TT 304
R R A + + ++ IF G Y E + T
Sbjct: 130 RIMAKRPFDKKSNSALFRAVGE---GNAQLVAIFGGQ--GNT-DDY----FEELRDLYQT 179
Query: 305 KHAFAT--ISFIAETFIFL--------YVFMDALDIDKW--KASNARNIFAVSSTMFSL 351
H I F AET L VF L+I +W SN + + S S
Sbjct: 180 YHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISC 238
Score = 40.4 bits (94), Expect = 8e-04
Identities = 44/289 (15%), Positives = 80/289 (27%), Gaps = 115/289 (39%)
Query: 15 VSASFLNTSTIIALSVFFTLLC---ACIIIGHLIEENRWANESITALLLGLCAGGVVLLA 71
++A L + + + A I+ ++ + S AL + G L+A
Sbjct: 104 LAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDK---KSNS--ALFRAVGEGNAQLVA 158
Query: 72 SKDRSSHLLVF----NEDLFF-----LY-----LLPPIIFNAGFQVK---------KKQF 108
+F N D +F LY L+ +I + + +K F
Sbjct: 159 ---------IFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVF 209
Query: 109 FKNFTTM-LLFG---------ICGTVISFYLISVGAFSIF----KKMGMT---------- 144
+ + L + IS LI V + + K +G T
Sbjct: 210 TQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKG 269
Query: 145 -SLRIQDFLAIGAILSATDS--------VCTLQVL------SQDETPFL--------YSI 181
+ Q + ++ TDS + VL + P S+
Sbjct: 270 ATGHSQGLVT-AVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSL 328
Query: 182 VFGEGV------VNDAT---------------------SIVLFNAIQSF 203
EGV +++ T I L N ++
Sbjct: 329 ENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNL 377
Score = 33.1 bits (75), Expect = 0.17
Identities = 51/302 (16%), Positives = 87/302 (28%), Gaps = 108/302 (35%)
Query: 1 MAPHETLQQLSALKVSASFLNTSTIIALSV----FFTLLCACI----IIG---H------ 43
P E L + L T+ IA + FF + I IG +
Sbjct: 258 FTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNT 317
Query: 44 -----LIEENRWANESITALLLGLCAGGVVLLASKDRSSHLLVFNEDLFFLYLLPP---- 94
++E++ NE + + +L + L + ++ N LP
Sbjct: 318 SLPPSILEDSLENNEGVPSPMLS-ISN----LTQEQVQDYVNKTNSH------LPAGKQV 366
Query: 95 -I-IFNAGFQVKKKQFFKNFTTMLLFGICGTVISFYLISVGAFSIFKKMGMTSLRI---- 148
I + N KN + G S Y +++ G+ RI
Sbjct: 367 EISLVNG---------AKNLV------VSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSE 411
Query: 149 ------QDFLAIGA-----IL-SATDSVCT--------------------------LQVL 170
FL + + +L A+D + L+VL
Sbjct: 412 RKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVL 471
Query: 171 SQDETPFLYSIVFGEGV------VNDATSIVLF-----NAIQSFDFNNIDGT-VALNLLG 218
S + + + V AT I+ F + + N DGT V + + G
Sbjct: 472 SGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIVAG 531
Query: 219 TF 220
T
Sbjct: 532 TL 533
Score = 32.3 bits (73), Expect = 0.27
Identities = 52/322 (16%), Positives = 98/322 (30%), Gaps = 97/322 (30%)
Query: 91 LLPPIIFNAGFQVKKKQFFKNFTTM---------------LLFGICGTVISFYLISVGAF 135
L+P F Q+++ QF K L+ G V S L+
Sbjct: 21 LVPTASFFIASQLQE-QFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSS--LVEPSKV 77
Query: 136 SIFKKMGMTSLRIQDFLAIGAILSATD--SVCTLQVLSQDETPFL--------Y---SIV 182
F ++ L +F L D ++ ++L +++T + Y I+
Sbjct: 78 GQFDQVLNLCL--TEFEN--CYLEGNDIHAL-AAKLLQENDTTLVKTKELIKNYITARIM 132
Query: 183 FGEGVVNDATSIVLFNAIQSFDFNNIDGTVAL--------NLLGTF-----LY-LY---- 224
+ S LF A+ +G L N F LY Y
Sbjct: 133 AKRPFDKKSNSA-LFRAVG-------EGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLV 184
Query: 225 --FTSTALGIVLGLLSAYIIKTLYF---------LRHSTDREGAPMMLMAYLSCILAELL 273
+ + L+ + F L + ++ +L +SC L ++
Sbjct: 185 GDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVI 244
Query: 274 NLSGILTIFFCGIIMSHYTWHNVTESSRITTKHAFATIS--FIAETFIFLYVFMDALDID 331
L+ + + +T + + T H+ ++ IAET D
Sbjct: 245 QLAHYVV--TAKL--LGFTPGELRSYLKGATGHSQGLVTAVAIAET-------------D 287
Query: 332 KWKA--SNARNIFAVSSTMFSL 351
W++ + R V +F +
Sbjct: 288 SWESFFVSVRKAITV---LFFI 306
Score = 28.9 bits (64), Expect = 3.8
Identities = 28/174 (16%), Positives = 51/174 (29%), Gaps = 53/174 (30%)
Query: 128 YLISVGAFSIF-------KKM-----GMTSLRI-QDFLAIGAILSATDSVCTLQVLSQDE 174
+ FSI + G RI +++ A+ + D + + ++
Sbjct: 1652 HFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAM-IFETIVDGKLKTEKIFKEI 1710
Query: 175 TPFLYSIVFG--EGVVND---------ATSIVLFNAIQSFDFNNIDGTVALNL---LGTF 220
S F +G+++ F ++S D T A LG +
Sbjct: 1711 NEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFA---GHSLGEY 1767
Query: 221 LYLYFTSTAL----GIVLGLLSAYIIKTLYFLRHST-------DREGAPMMLMA 263
AL V+ + S ++ + F R T D G M
Sbjct: 1768 -------AALASLAD-VMSIESL--VEVV-FYRGMTMQVAVPRDELGRSNYGMI 1810
>1y4e_A Sodium/hydrogen exchanger 1; NHE1 isoform, transmembrane, membrane
protein; HET: HSL; NMR {Homo sapiens}
Length = 27
Score = 32.9 bits (75), Expect = 0.006
Identities = 12/21 (57%), Positives = 16/21 (76%)
Query: 81 VFNEDLFFLYLLPPIIFNAGF 101
D+FFL+LLPPII +AG+
Sbjct: 1 FLQSDVFFLFLLPPIILDAGY 21
>2k3c_A TMIX peptide; membrane peptide, dodecylphosphocholine micelle,
NHE1, Na+/H+ transporter, metal transport; NMR
{Synthetic}
Length = 33
Score = 32.0 bits (72), Expect = 0.018
Identities = 14/27 (51%), Positives = 19/27 (70%), Gaps = 3/27 (11%)
Query: 262 MAYLSCILAELLNLSGILTIFFCGIIM 288
MAYLS AEL +LSGI+ + G++M
Sbjct: 5 MAYLS---AELFHLSGIMALIASGVVM 28
>2htg_A NHE-1, NHE1 isoform of Na+/H+ exchanger 1, solute; membrane
protein, transmembrane segment, helix-KINK-helix; NMR
{Synthetic}
Length = 28
Score = 27.3 bits (60), Expect = 0.69
Identities = 10/20 (50%), Positives = 17/20 (85%)
Query: 178 LYSIVFGEGVVNDATSIVLF 197
L+ +VFGE ++NDA ++VL+
Sbjct: 6 LHILVFGESLLNDAVTVVLY 25
>2y7p_A LYSR-type regulatory protein; transcription regulator, DNA-binding,
transcription, transcr factor, transcription regulation;
HET: SAL PEU; 1.85A {Burkholderia SP} PDB: 2y7k_A*
2y84_A 2y7w_A 2y7r_A
Length = 218
Score = 29.2 bits (66), Expect = 1.9
Identities = 11/31 (35%), Positives = 18/31 (58%), Gaps = 3/31 (9%)
Query: 140 KMGMT---SLRIQDFLAIGAILSATDSVCTL 167
+ G+ L + F+AIG IL +TD + T+
Sbjct: 126 RAGIKRRMRLVVPHFIAIGPILHSTDLIATV 156
>1uth_A LYSR-type regulatory protein; transcription regulation,
transcriptional regulator; 2.2A {Burkholderia SP} SCOP:
c.94.1.1 PDB: 1utb_A 1utb_B 1uth_B 2uyf_A 2uye_A
Length = 315
Score = 28.7 bits (65), Expect = 3.0
Identities = 11/31 (35%), Positives = 18/31 (58%), Gaps = 3/31 (9%)
Query: 140 KMGMT---SLRIQDFLAIGAILSATDSVCTL 167
+ G+ L + F+AIG IL +TD + T+
Sbjct: 223 RAGIKRRMRLVVPHFIAIGPILHSTDLIATV 253
>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 = 28.7 bits (63), Expect = 3.8
Identities = 37/249 (14%), Positives = 76/249 (30%), Gaps = 90/249 (36%)
Query: 4 HETLQQLS-ALKVSASFLNTSTI----IALSVF-------FTLLCACIIIGHLIEE---- 47
H +L+ ++ S + L + LSVF LL +I +I+
Sbjct: 349 HVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLS--LIWFDVIKSDVMV 406
Query: 48 -----------NRWANE---SITALLLGLCAGGVVLLASKDRSSH-LLV---------FN 83
+ E SI ++ L L + + + H +V +
Sbjct: 407 VVNKLHKYSLVEKQPKESTISIPSIYLELK-----VKLENEYALHRSIVDHYNIPKTFDS 461
Query: 84 EDL--------FFLYL---------------LPPIIFNAGFQVKKKQFFKNFTTMLLFGI 120
+DL F+ ++ + + F +++K ++ +T
Sbjct: 462 DDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRF-LEQK--IRHDSTAW--NA 516
Query: 121 CGTVIS------FYLISVGAFSIFKKMGMTSLR---IQDFL-AIGAILSATDSVCTLQVL 170
G++++ FY + I I DFL I L + L++
Sbjct: 517 SGSILNTLQQLKFY----KPY-ICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIA 571
Query: 171 SQDETPFLY 179
E ++
Sbjct: 572 LMAEDEAIF 580
>3oxn_A Putative transcriptional regulator, LYSR family; structural
genomics, PSI-2, protein structure initiative; 2.70A
{Vibrio parahaemolyticus}
Length = 241
Score = 28.0 bits (63), Expect = 3.9
Identities = 6/22 (27%), Positives = 9/22 (40%)
Query: 146 LRIQDFLAIGAILSATDSVCTL 167
LR A AI+ + T+
Sbjct: 145 LRAYHLEAALAIVDTLPIIITV 166
>2esn_A Probable transcriptional regulator; PA0477, APC5828,transcription,
PSI, protein struc initiative, MCSG; 2.10A {Pseudomonas
aeruginosa} SCOP: a.4.5.37 c.94.1.1
Length = 310
Score = 27.6 bits (62), Expect = 6.5
Identities = 6/31 (19%), Positives = 15/31 (48%), Gaps = 3/31 (9%)
Query: 140 KMGMT---SLRIQDFLAIGAILSATDSVCTL 167
+ G+ ++++ LA + +TD + T
Sbjct: 222 RSGLRREVAVQLPTVLAALFLAGSTDFLLTA 252
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
0.330 0.141 0.413
Gapped
Lambda K H
0.267 0.0728 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,064,244
Number of extensions: 296680
Number of successful extensions: 740
Number of sequences better than 10.0: 1
Number of HSP's gapped: 738
Number of HSP's successfully gapped: 26
Length of query: 351
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 257
Effective length of database: 4,077,219
Effective search space: 1047845283
Effective search space used: 1047845283
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 (21.9 bits)
S2: 58 (26.1 bits)