RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy799
(209 letters)
>3l1l_A Arginine/agmatine antiporter; TCDB 2.A.3.2.5, ADIC, Arg-bound,
amino-acid transport, cell inner membrane, cell
membrane, membrane; HET: ARG BNG; 3.00A {Escherichia
coli} PDB: 3h5m_A* 3h6b_A 3lrb_A 3lrc_A 3ob6_A* 3hqk_A
3ncy_A
Length = 445
Score = 52.4 bits (126), Expect = 2e-08
Identities = 23/129 (17%), Positives = 42/129 (32%), Gaps = 13/129 (10%)
Query: 3 PVFEMIASPAVAVAFSERVLGPF-QFIVPLGVVLATFGCALSVQFGVTRLCYAAGREGHM 61
P + S + + LG IV G + AA +G
Sbjct: 251 PNAALRVSASPFGDAARMALGDTAGAIVSFCAAAGCLGSLGGWTLLAGQTAKAAADDGLF 310
Query: 62 LQAFSFVHVKRLTPAPAVLFQVPLVIPIFVLIMSIVLSLTPIVTKPAPQFLIAVAFIVLG 121
F+ V+ K TP ++ I+ + L+ I +F + + V+
Sbjct: 311 PPIFARVN-KAGTPVAGLIIVG---------ILMTIFQLSSISPNATKEFGLVSSVSVIF 360
Query: 122 ILVYIPFVY 130
L +P++Y
Sbjct: 361 TL--VPYLY 367
>3gia_A Uncharacterized protein MJ0609; membrane protein, transporter, cell
membrane, membrane, transmembrane, transport protein;
HET: D10 BCN; 2.32A {Methanocaldococcus jannaschii} PDB:
3gi9_C* 3gi8_C
Length = 444
Score = 45.4 bits (108), Expect = 4e-06
Identities = 12/116 (10%), Positives = 45/116 (38%), Gaps = 7/116 (6%)
Query: 9 ASPAVAVAFSERVLGPFQFIVPLGVVLATFGCALSVQFGVTRLCYAAGREGHMLQAFSFV 68
+ A+AVA + ++ +G + + + +G + Y+ ++G + + F
Sbjct: 256 SENALAVAAKPFLGNLGFLLISIGALFSISSAMNATIYGGANVAYSLAKDGELPEFFE-- 313
Query: 69 HVKRLTPAPAVLFQVPLVIPIFVLIMSIVLSLTPIVTKPAPQFLIAVAFIVLGILV 124
+ + ++ +++ ++ + + + F++ F++L +
Sbjct: 314 RKVWFKSTEGL-----YITSALGVLFALLFNMEGVASITSAVFMVIYLFVILSHYI 364
>4djk_A Probable glutamate/gamma-aminobutyrate antiporter; LEUT,
glutamate-GABA antiporter, transport protein; 3.10A
{Escherichia coli} PDB: 4dji_A
Length = 511
Score = 40.6 bits (95), Expect = 2e-04
Identities = 20/130 (15%), Positives = 53/130 (40%), Gaps = 12/130 (9%)
Query: 1 MDPVFEMIASPAVAVAFSERVLGPFQFIVPLGVVLATFGCALSVQFGVTRLCYAAGREGH 60
++ ++ + V ++ + ++ ++L S G +R Y ++
Sbjct: 265 INLSAGVMQTFTVLMSHVAPEIEWTVRVISALLLLGVLAEIASWIVGPSRGMYVTAQKNL 324
Query: 61 MLQAFSFVHVKRLTPAPAVLFQVPLVIPIFVLIMS----------IVLSLTPIVTKPAPQ 110
+ AF+ ++ K P V+ Q+ + +++ + I L+LT ++
Sbjct: 325 LPAAFAKMN-KNGVPVTLVISQLVITSIALIILTNTGGGNNMSFLIALALTVVIY-LCAY 382
Query: 111 FLIAVAFIVL 120
F++ + +IVL
Sbjct: 383 FMLFIGYIVL 392
Score = 26.4 bits (58), Expect = 9.0
Identities = 11/51 (21%), Positives = 22/51 (43%), Gaps = 2/51 (3%)
Query: 86 VIPIFVLIMSIVLSLTPIVTKPAPQFLIAVAFIVLGILVY--IPFVYYQYR 134
++ + IM+ ++S P + V +V+ LV +PF+ Y
Sbjct: 417 IVGLLTSIMAFIVSFLPPDNIQGDSTDMYVELLVVSFLVVLALPFILYAVH 467
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 32.8 bits (74), Expect = 0.053
Identities = 24/125 (19%), Positives = 40/125 (32%), Gaps = 30/125 (24%)
Query: 56 GREGHMLQAFSFVHVKRLTPAPAVLFQV-PLVIPIFVLIMS-IVLSLTPIVTKPAPQFL- 112
G G +Q V+ +V V P + I+S + LS T + +FL
Sbjct: 114 GSVGMAIQ----VNYSSEVKENSVDSDDKAKVPP-LIRIVSGLELSDTK---QKGKKFLV 165
Query: 113 IA------VAFIV-----------LGILVYIPFVYYQYRMPYLDNIT--YFIQVLLKVVP 153
IA +A + + + D I+ Y++Q K
Sbjct: 166 IAYEPFENIAIELPPNEILFSENNDMDNNNDGVDELNKKCTFWDAISKLYYVQFFFKQAE 225
Query: 154 PDQTD 158
+Q D
Sbjct: 226 QEQAD 230
>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 = 33.1 bits (75), Expect = 0.071
Identities = 36/222 (16%), Positives = 65/222 (29%), Gaps = 51/222 (22%)
Query: 17 FSE-RVL----GPF--QFIVPLGVVLATFGCALSVQFGVTRLCYAAGREGHMLQAFSFVH 69
F E R L I L+ L + G L ++
Sbjct: 170 FEELRDLYQTYHVLVGDLIKFSAETLSE----LIRTTLDAEKVFTQG-----LNILEWLE 220
Query: 70 VKRLTPAPAVLFQVPLVIP-IFVL------IMSIVLSLTPIVTKPAPQFLIAVAFIVLGI 122
TP L +P+ P I V+ + + +L TP + L G+
Sbjct: 221 NPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSY---LKGATGHSQGL 277
Query: 123 LVYIPFVYYQYRMPYLDNITYFIQVLL-------KVVPPDQTDPDN-SDTESNGVS---- 170
+ + + ++ I VL + P P D+ N
Sbjct: 278 VTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSP 337
Query: 171 -LSVKHSSDDVQANGVEKHALLEVEVRTP------I-VINGA 204
LS+ + + + V+ + + + P I ++NGA
Sbjct: 338 MLSISNLTQEQ----VQDY-VNKTNSHLPAGKQVEISLVNGA 374
>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 = 1.5
Identities = 29/180 (16%), Positives = 53/180 (29%), Gaps = 40/180 (22%)
Query: 34 VLATF--GCALSVQFGVTR-LCYAAGREGHMLQAFSFVHVKR-LTPAPAVLFQVPLVIPI 89
F C + + TR S H LTP +
Sbjct: 258 AWNAFNLSCKILL---TTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVK--------SL 306
Query: 90 FVLIMSI-VLSLTPIVTKPAPQFLIAV--AFIVLGILVYIPFVYYQYRMPYLDNITYFIQ 146
+ + L V P +++ I G+ + + + D +T I+
Sbjct: 307 LLKYLDCRPQDLPREVLTTNP-RRLSIIAESIRDGLATWDNWKHVNC-----DKLTTIIE 360
Query: 147 VLLKVVPPDQTD---------PDNSDTESNGVSLSV---KHSSDDVQ--ANGVEKHALLE 192
L V+ P + P ++ + LS+ DV N + K++L+E
Sbjct: 361 SSLNVLEPAEYRKMFDRLSVFPPSAHIPTI--LLSLIWFDVIKSDVMVVVNKLHKYSLVE 418
>2yro_A Galectin-8; GAL-BIND lectin, sugar binding, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 155
Score = 26.5 bits (58), Expect = 4.3
Identities = 8/42 (19%), Positives = 15/42 (35%), Gaps = 3/42 (7%)
Query: 106 KPAPQFLIAVAFIVLGILVYI---PFVYYQYRMPYLDNITYF 144
P F + + V V + + Y++R L +I
Sbjct: 94 SPGMYFEMIIYCDVREFKVAVNGVHSLEYKHRFKELSSIDTL 135
>2bs2_A Quinol-fumarate reductase flavoprotein subunit A; 2Fe-2S, 3Fe-4S,
4Fe-4S, citric acid cycle, dihaem cytochrome B; HET: FAD
HEM LMT; 1.78A {Wolinella succinogenes} SCOP: a.7.3.1
c.3.1.4 d.168.1.1 PDB: 2bs3_A* 1e7p_A* 2bs4_A* 1qlb_A*
Length = 660
Score = 27.3 bits (61), Expect = 4.8
Identities = 8/20 (40%), Positives = 9/20 (45%), Gaps = 3/20 (15%)
Query: 46 FG---VTRLCYAAGREGHML 62
FG R CY A GH +
Sbjct: 141 FGGTKKWRTCYTADATGHTM 160
>1kf6_A Fumarate reductase flavoprotein; respiration, fumarate reductace,
succinate dehydrogenase, CO quinol, quinone,
oxidoreductase; HET: FAD HQO CE1 1PE; 2.70A {Escherichia
coli} SCOP: a.7.3.1 c.3.1.4 d.168.1.1 PDB: 1kfy_A*
1l0v_A* 2b76_A* 3cir_A* 3p4p_A* 3p4q_A* 3p4r_A* 3p4s_A*
Length = 602
Score = 26.9 bits (60), Expect = 5.1
Identities = 6/20 (30%), Positives = 10/20 (50%), Gaps = 3/20 (15%)
Query: 46 FG---VTRLCYAAGREGHML 62
FG + R +AA + G +
Sbjct: 117 FGGMKIERTWFAADKTGFHM 136
>2wdq_A Succinate dehydrogenase flavoprotein subunit; succinate
dehydrogenase activity, cell inner membrane, trica acid
cycle; HET: FAD HEM CBE; 2.40A {Escherichia coli} PDB:
1nen_A* 2acz_A* 1nek_A* 2wdr_A* 2wdv_A* 2wp9_A* 2ws3_A*
2wu2_A* 2wu5_A*
Length = 588
Score = 26.8 bits (60), Expect = 5.7
Identities = 12/28 (42%), Positives = 12/28 (42%), Gaps = 4/28 (14%)
Query: 38 FGCALSVQFG---VTRLCYAAGREGHML 62
FG S FG R AA R GH L
Sbjct: 119 FG-GQSKNFGGEQAARTAAAADRTGHAL 145
>3naj_A Galectin-8; sugar binding protein; HET: GAL BGC; 2.80A {Homo
sapiens} PDB: 3ojb_A
Length = 291
Score = 26.2 bits (57), Expect = 8.7
Identities = 8/42 (19%), Positives = 15/42 (35%), Gaps = 3/42 (7%)
Query: 106 KPAPQFLIAVAFIVLGILVYIP---FVYYQYRMPYLDNITYF 144
P F + + V V + + Y++R L +I
Sbjct: 236 SPGMYFEMIIYCDVREFKVAVNGVHSLEYKHRFKELSSIDTL 277
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 0.413
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: 3,205,295
Number of extensions: 189377
Number of successful extensions: 383
Number of sequences better than 10.0: 1
Number of HSP's gapped: 380
Number of HSP's successfully gapped: 24
Length of query: 209
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 120
Effective length of database: 4,216,824
Effective search space: 506018880
Effective search space used: 506018880
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 (21.6 bits)
S2: 55 (25.2 bits)