RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6562
(429 letters)
>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter,
lipid flippase, hydrolase, inner membrane, lipid
transport, membrane; HET: ANP; 3.70A {Salmonella
typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A*
3b5z_A* 3b5w_A
Length = 582
Score = 31.0 bits (71), Expect = 0.75
Identities = 8/42 (19%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 152 LWVSWLLTPLFITIFLPLIILSMVYLSAIMLYMYRFGQWCMG 193
+ SW L+ + + + P++ +++ +S + + Q MG
Sbjct: 161 FYYSWQLS-IILVVLAPIVSIAIRVVSKRFRSISKNMQNTMG 201
>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter,
lipid flippase, hydrolase, inner membrane, lipid
transport, membrane; 5.50A {Vibrio cholerae}
Length = 582
Score = 31.0 bits (71), Expect = 0.82
Identities = 11/42 (26%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 152 LWVSWLLTPLFITIFLPLIILSMVYLSAIMLYMYRFGQWCMG 193
W SW L+ L + + P++ ++ ++S + R Q MG
Sbjct: 161 FWNSWQLS-LVLIVVAPVVAFAISFVSKRFRKISRNMQTAMG 201
>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 = 29.5 bits (65), Expect = 1.2
Identities = 8/40 (20%), Positives = 15/40 (37%), Gaps = 15/40 (37%)
Query: 46 KRNPKQVKSKMNPALPDHRKKSRNSGGKIPHPWSLARPIN 85
K+ K++++ + D S P +LA I
Sbjct: 19 KQALKKLQASLKLYADD-------SA---P---ALA--IK 43
>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 = 29.2 bits (65), Expect = 3.3
Identities = 22/157 (14%), Positives = 44/157 (28%), Gaps = 34/157 (21%)
Query: 262 YHGALPVDLYYFLSKVFLVKNRLMHTVADNFLFRIPA---ARFIIITPDNGNGLKGFTEG 318
+ L + L F + +L N + H +A L +I N +
Sbjct: 80 FDQVLNLCLTEFENC-YLEGNDI-HALAAKLLQENDTTLVKTKELIK----NYITARIMA 133
Query: 319 NRQSLNQSQGTHFAGLKLPSLSICVL--------PYRLTFCLRFD-----YNTNESYLIP 365
R +S F + + + + Y F+ Y T +
Sbjct: 134 KRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDY-------FEELRDLYQTYHVLVGD 186
Query: 366 IRISSTHPLEQIAPTPKPQSGLFVYEVKLKRNCTYQW 402
+ S L ++ T +F + + +W
Sbjct: 187 LIKFSAETLSELIRTTLDAEKVFTQGLNIL-----EW 218
>2ijr_A Hypothetical protein API92; structural genomics, PSI, protein
structure initiative; 2.70A {Yersinia
pseudotuberculosis} SCOP: e.66.1.1
Length = 300
Score = 27.7 bits (61), Expect = 6.8
Identities = 16/80 (20%), Positives = 28/80 (35%), Gaps = 11/80 (13%)
Query: 194 TCLVINRAWVQSHPRQRLKEILTEEFTFWHRARTVIATMWDAHGWVWHGYEVVNMDRIPD 253
T I+R ++QS E + E AR +I + W G V + +
Sbjct: 98 TIRQIDRIYLQSGIASVKWETIPEG------ARQIITQLMARQYPDWFG--VASWSSHIN 149
Query: 254 NS---SALIIYYHGALPVDL 270
+ + L + A D+
Sbjct: 150 GADCWTKLGVMQEHACNCDM 169
>3ddc_B RAS association domain-containing family protein; oncogene,
tumorsuppressor, ubiquitin fold, RAS effector, RAP
rassf1, rassf5, RAPL, NORE1, GMPPNP; HET: GNP; 1.80A
{Mus musculus}
Length = 163
Score = 27.4 bits (60), Expect = 6.8
Identities = 13/56 (23%), Positives = 20/56 (35%), Gaps = 4/56 (7%)
Query: 35 PYSDKEIGIQAKRNPKQVKSKMNPALPDHRKKSRNSGGKIPHPWSLARPINVPSKI 90
P + +EI + + K L + G I L RP+ VP+ I
Sbjct: 6 PPTIQEIKQKIDSYNSREKHC----LGMKLSEDGTYTGFIKVHLKLRRPVTVPAGI 57
>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP,
cyclic peptide, membrane protein; 3.80A {Mus musculus}
PDB: 3g61_A* 3g60_A*
Length = 1284
Score = 28.1 bits (63), Expect = 6.8
Identities = 9/30 (30%), Positives = 13/30 (43%), Gaps = 1/30 (3%)
Query: 152 LWVSWLLTPLFITIFLPLIILSMVYLSAIM 181
W LT L I P++ LS + I+
Sbjct: 204 FTRGWKLT-LVILAISPVLGLSAGIWAKIL 232
>2yl4_A ATP-binding cassette SUB-family B member 10, mitochondrial;
membrane protein, mitochondrial transport; HET: ACP LMT
CDL 14Y; 2.85A {Homo sapiens} PDB: 4aa3_A*
Length = 595
Score = 27.9 bits (63), Expect = 7.0
Identities = 7/38 (18%), Positives = 15/38 (39%), Gaps = 1/38 (2%)
Query: 152 LWVSWLLTPLFITIFLPLIILSMVYLSAIMLYMYRFGQ 189
+VS L F+ +P + + V + + + Q
Sbjct: 158 FFVSPNLA-TFVLSVVPPVSIIAVIYGRYLRKLTKVTQ 194
>3ksp_A Calcium/calmodulin-dependent kinase II associatio; cystatin-like
fold, structural genomics, joint center for ST genomics,
JCSG; HET: MSE NHE; 2.59A {Exiguobacterium sibiricum
255-15}
Length = 129
Score = 27.1 bits (59), Expect = 7.0
Identities = 12/44 (27%), Positives = 23/44 (52%), Gaps = 5/44 (11%)
Query: 211 LKEILTEEFTFWH-----RARTVIATMWDAHGWVWHGYEVVNMD 249
++EI+ + F++ R R+V W GW WH +++ +D
Sbjct: 84 VQEIVEDHFSYGRSMYIGRFRSVSLYHWANEGWKWHFHQLTPLD 127
>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 = 27.9 bits (61), Expect = 9.3
Identities = 16/134 (11%), Positives = 37/134 (27%), Gaps = 38/134 (28%)
Query: 4 LAMLALTFNNPIVQNPGSTHSTHFLKISLGGPYSDKEIGIQAKRNP------KQVK-SKM 56
++L + P +T+ ++S+ I + K V K+
Sbjct: 304 KSLLLKYLDCRPQDLPREVLTTNPRRLSI--------IAESIRDGLATWDNWKHVNCDKL 355
Query: 57 NPAL---------PDHRKKSR-----NSGGKIPHP-----WSLARPINVPSKILDKHRKW 97
+ ++RK IP W + +++K K+
Sbjct: 356 TTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWF-DVIKSDVMVVVNKLHKY 414
Query: 98 SNINLD---TRYYL 108
S + + +
Sbjct: 415 SLVEKQPKESTISI 428
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
0.324 0.139 0.443
Gapped
Lambda K H
0.267 0.0678 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,739,608
Number of extensions: 397100
Number of successful extensions: 648
Number of sequences better than 10.0: 1
Number of HSP's gapped: 644
Number of HSP's successfully gapped: 11
Length of query: 429
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 333
Effective length of database: 4,021,377
Effective search space: 1339118541
Effective search space used: 1339118541
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 59 (26.6 bits)