RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16653
(301 letters)
>1pw4_A Glycerol-3-phosphate transporter; transmembrane, inner membrane,
major facilitator superfamily, secondary active membrane
transporter; 3.30A {Escherichia coli} SCOP: f.38.1.1
Length = 451
Score = 39.6 bits (93), Expect = 9e-04
Identities = 14/77 (18%), Positives = 30/77 (38%), Gaps = 2/77 (2%)
Query: 222 DCIPFQVKGIATGIAVAVNWIGAFLVT-LCFGFLVRHFGSAATFWIFTVCCVVGTVFTFM 280
+ P + G A G ++G + G+ V FG F + ++ + +
Sbjct: 373 ELAPKKAAGTAAGFTGLFGYLGGSVAASAIVGYTVDFFGWDGGFMVMIGGSILAVILLIV 432
Query: 281 VVPETKGKTLAQIQREL 297
V+ + + Q+ +EL
Sbjct: 433 VMIG-EKRRHEQLLQEL 448
>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 = 37.0 bits (85), Expect = 0.007
Identities = 42/303 (13%), Positives = 82/303 (27%), Gaps = 100/303 (33%)
Query: 29 SIIVTPAQNMASDERDNITLNMLQK----------EGDAPTY----LSALGSFFQMFL-- 72
I+ P + A+D+ ++ K + L F +L
Sbjct: 39 KILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEG 98
Query: 73 ----TLGILYLYCLGLSTYTVIAIGCLAVPILLLVLFF--LVVPETPIY------LMKSG 120
L + L L+ + ++ + P L ++
Sbjct: 99 NDIHAL---------AAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAV 149
Query: 121 NNKKAEVSLRF--------Y----RGSRYDVP-------LELAA--IQREIDAAARKKAS 159
A++ F Y R Y ++ +A + I +
Sbjct: 150 GEGNAQLVAIFGGQGNTDDYFEELR-DLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKV 208
Query: 160 FS---DLVS---------SRANLRALIISLGLMVFQQFSGVNAVIFYSNDIFKSAGSTLD 207
F+ +++ + L ++ IS L+ Q + V+ K G
Sbjct: 209 FTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQL--AHYVVT-----AKLLG--FT 259
Query: 208 PGFSYIQDSLISMFDCIPFQVKGI--ATGIAVAVNWIGAFL--VTLCFGFLVRHFGSAAT 263
PG ++ L +G+ A IA +W +F V L
Sbjct: 260 PG--ELRSYLKGATGH----SQGLVTAVAIAETDSW-ESFFVSVRKAITVL--------- 303
Query: 264 FWI 266
F+I
Sbjct: 304 FFI 306
>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 = 34.5 bits (78), Expect = 0.016
Identities = 10/31 (32%), Positives = 15/31 (48%), Gaps = 8/31 (25%)
Query: 123 KKAEVSLRFYR-GSRYDVPLELA-AIQREID 151
KK + SL+ Y S P A AI+ ++
Sbjct: 23 KKLQASLKLYADDS---AP---ALAIKATME 47
>2cfq_A Lactose permease; transport, transport mechanism, lactose/H+
symport, sugar transport, transmembrane, formylation;
2.95A {Escherichia coli} SCOP: f.38.1.2 PDB: 1pv7_A*
1pv6_A 2cfp_A 2v8n_A 2y5y_A*
Length = 417
Score = 31.1 bits (70), Expect = 0.40
Identities = 3/45 (6%), Positives = 15/45 (33%)
Query: 242 IGAFLVTLCFGFLVRHFGSAATFWIFTVCCVVGTVFTFMVVPETK 286
+ +++ G + G + + + + T+ + +
Sbjct: 360 LAMIFMSVLAGNMYESIGFQGAYLVLGLVALGFTLISVFTLSGPG 404
>4aq5_E Acetylcholine receptor gamma subunit; membrane protein,
freeze-trapping, asymmetric gating, allost mechanism;
6.20A {Torpedo marmorata} PDB: 4aq9_E
Length = 488
Score = 29.3 bits (65), Expect = 1.6
Identities = 6/20 (30%), Positives = 10/20 (50%)
Query: 264 FWIFTVCCVVGTVFTFMVVP 283
FWI + +GT+ F+
Sbjct: 451 FWIALLLFSLGTLAIFLTGH 470
>4aq5_B Acetylcholine receptor beta subunit; membrane protein,
freeze-trapping, asymmetric gating, allost mechanism;
6.20A {Torpedo marmorata} PDB: 4aq9_B
Length = 493
Score = 29.3 bits (65), Expect = 1.9
Identities = 6/20 (30%), Positives = 9/20 (45%)
Query: 264 FWIFTVCCVVGTVFTFMVVP 283
+IF C +GT F+
Sbjct: 464 LYIFITMCSIGTFSIFLDAS 483
>4aq5_C Acetylcholine receptor delta subunit; membrane protein,
freeze-trapping, asymmetric gating, allost mechanism;
6.20A {Torpedo marmorata} PDB: 4aq9_C
Length = 522
Score = 29.0 bits (64), Expect = 2.5
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 264 FWIFTVCCVVGTVFTFMVVP 283
+I T V+GT+F F++
Sbjct: 479 MFIITPVMVLGTIFIFVMGN 498
>2bg9_E Acetylcholine receptor protein, gamma chain; ION channel/receptor,
ION channel, electron microscopy, ION transport,
postsynaptic membrane; 4.00A {Torpedo marmorata}
Length = 370
Score = 28.7 bits (64), Expect = 2.7
Identities = 6/17 (35%), Positives = 10/17 (58%)
Query: 264 FWIFTVCCVVGTVFTFM 280
FWI + +GT+ F+
Sbjct: 345 FWIALLLFSLGTLAIFL 361
>2bg9_C Acetylcholine receptor protein, delta chain; ION channel/receptor,
ION channel, electron microscopy, ION transport,
postsynaptic membrane; 4.00A {Torpedo marmorata}
Length = 369
Score = 28.7 bits (64), Expect = 2.7
Identities = 7/18 (38%), Positives = 12/18 (66%)
Query: 263 TFWIFTVCCVVGTVFTFM 280
+ +I T V+GT+F F+
Sbjct: 342 SMFIITPVMVLGTIFIFV 359
>2yx6_A Hypothetical protein PH0822; structural genomics, unknown function,
NPPSFA, national PROJ protein structural and functional
analyses; HET: ADP; 2.00A {Pyrococcus horikoshii}
Length = 121
Score = 27.5 bits (61), Expect = 2.9
Identities = 5/35 (14%), Positives = 11/35 (31%), Gaps = 5/35 (14%)
Query: 235 IAVAVNWIGAFLVTLCFGFLVRHFGSAATFWIFTV 269
+A+ + +HFG + F +
Sbjct: 3 VAIPAEDDRGIKSNVS-----KHFGRSRYFVFVDI 32
>2bg9_B Acetylcholine receptor protein, beta chain; ION channel/receptor,
ION channel, electron microscopy, ION transport,
postsynaptic membrane; 4.00A {Torpedo marmorata}
Length = 370
Score = 28.3 bits (63), Expect = 3.1
Identities = 6/20 (30%), Positives = 9/20 (45%)
Query: 264 FWIFTVCCVVGTVFTFMVVP 283
+IF C +GT F+
Sbjct: 341 LYIFITMCSIGTFSIFLDAS 360
>1kzl_A Riboflavin synthase; biosynthesis of riboflavin, ligand binding,
transferase; HET: CRM; 2.10A {Schizosaccharomyces pombe}
SCOP: b.43.4.3 b.43.4.3
Length = 208
Score = 27.9 bits (63), Expect = 3.4
Identities = 6/22 (27%), Positives = 12/22 (54%)
Query: 268 TVCCVVGTVFTFMVVPETKGKT 289
T+ V + F+ M++ T+ K
Sbjct: 148 TITHVDDSTFSIMMISYTQSKV 169
>2bg9_A Acetylcholine receptor protein, alpha chain; ION channel/receptor,
ION channel, electron microscopy, ION transport,
postsynaptic membrane; 4.00A {Torpedo marmorata}
Length = 370
Score = 27.9 bits (62), Expect = 4.4
Identities = 6/17 (35%), Positives = 10/17 (58%)
Query: 264 FWIFTVCCVVGTVFTFM 280
+F + C++GTV F
Sbjct: 344 LCVFMLICIIGTVSVFA 360
>2gfp_A EMRD, multidrug resistance protein D; membrane protein, multidrug
transporter; 3.50A {Escherichia coli}
Length = 375
Score = 28.0 bits (63), Expect = 4.6
Identities = 9/34 (26%), Positives = 12/34 (35%)
Query: 252 GFLVRHFGSAATFWIFTVCCVVGTVFTFMVVPET 285
G L + A + V C T +PET
Sbjct: 145 GLLDTMWNWRACYLFLLVLCAGVTFSMARWMPET 178
>1oed_B Acetylcholine receptor protein, beta chain; ION channel/receptor,
ION channel, tubular crystal, transmembrane; 4.0A
{Torpedo marmorata} SCOP: f.36.1.1 PDB: 2k58_B
Length = 250
Score = 27.6 bits (60), Expect = 4.7
Identities = 6/20 (30%), Positives = 10/20 (50%)
Query: 264 FWIFTVCCVVGTVFTFMVVP 283
++F V C +GT F+
Sbjct: 224 LYVFFVICSIGTFSIFLDAS 243
>1eo1_A Hypothetical protein MTH1175; mixed A/B protein, mixed beta sheet,
strand order 321456; NMR
{Methanothermobacterthermautotrophicus} SCOP: c.55.5.1
Length = 124
Score = 26.4 bits (58), Expect = 6.5
Identities = 5/13 (38%), Positives = 6/13 (46%)
Query: 257 HFGSAATFWIFTV 269
FG A F I +
Sbjct: 19 FFGRAPYFMIVEM 31
>2dyq_A Amyloid beta A4 precursor protein-binding family 3;
phosphotyrosine-interaction domain (PTB/PID alzheimer'S
disease, structural genomics, NPPSFA; 3.10A {Homo
sapiens}
Length = 144
Score = 26.4 bits (58), Expect = 7.2
Identities = 12/38 (31%), Positives = 16/38 (42%), Gaps = 2/38 (5%)
Query: 210 FSYIQDSLISMFDCIPFQVKGIATGIAVAVNWIGAFLV 247
F I D F C F + A G++ AV A +V
Sbjct: 101 FGLIADLGRQSFQCAAFWCQPHAGGLSEAVQ--AACMV 136
>1oed_E Acetylcholine receptor protein, gamma chain; ION channel/receptor,
ION channel, tubular crystal, transmembrane; 4.0A
{Torpedo marmorata} SCOP: f.36.1.1
Length = 260
Score = 26.8 bits (58), Expect = 8.0
Identities = 6/20 (30%), Positives = 10/20 (50%)
Query: 264 FWIFTVCCVVGTVFTFMVVP 283
FWI + +GT+ F+
Sbjct: 234 FWIALLLFSIGTLAIFLTGH 253
>3dxe_A Amyloid beta A4 protein-binding family B member 1; alzheimer'S
disease, APP, AICD, Fe65, PTB domain, alternative
splicing, polymorphism, alzheimer disease, apoptosis;
2.00A {Homo sapiens} PDB: 3dxd_A 3dxc_A
Length = 140
Score = 26.0 bits (57), Expect = 9.3
Identities = 9/38 (23%), Positives = 18/38 (47%), Gaps = 2/38 (5%)
Query: 210 FSYIQDSLISMFDCIPFQVKGIATGIAVAVNWIGAFLV 247
F++I + + F C F + A ++ AV A ++
Sbjct: 88 FAFIMAAGPASFCCHMFWCEPNAASLSEAVQ--AACML 123
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 0.415
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: 4,492,168
Number of extensions: 267026
Number of successful extensions: 735
Number of sequences better than 10.0: 1
Number of HSP's gapped: 735
Number of HSP's successfully gapped: 34
Length of query: 301
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 208
Effective length of database: 4,105,140
Effective search space: 853869120
Effective search space used: 853869120
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: 57 (26.0 bits)