RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3973
(285 letters)
>2xq2_A Sodium/glucose cotransporter; transport protein, inverted repeats,
LEUT-fold, galactose; 2.73A {Vibrio parahaemolyticus}
PDB: 2xq2_B 2kpe_A
Length = 593
Score = 73.7 bits (181), Expect = 5e-15
Identities = 28/196 (14%), Positives = 67/196 (34%), Gaps = 17/196 (8%)
Query: 35 LYSYSTNRTISDRRGGQLSKVLTFIYGLVCLCIAYLAKYLGSVLQASLTIFGVVGGPVLG 94
+Y + D + + + + ++ IA + +G Q G+V +L
Sbjct: 381 IYKEYISPDSGDHKLVNVGRTAAVVALIIAALIAPMLGGIGQCFQYIQEYTGLVSPGILA 440
Query: 95 VFTLGMTVTFANQQGALAGIVSGLLFCSLVGFGGPKPAPKKLPSTIEGCPNLVPSLSSIL 154
VF LG+ +GA+ G+V+ + F + F +V + +S+
Sbjct: 441 VFLLGLFWKKTTSKGAIIGVVASIPFALFLKFMPLSMPFMDQMLYTLLFTMVVIAFTSLS 500
Query: 155 RLDNSVDNNFIDEDATTIRYTDMSSSQDQYFYLYRISYMYYIVLGFCVTMLVGAIVSRFF 214
N D I ++ + + + + + +++ + + F+
Sbjct: 501 TSINDDDPKGISVTSSMFV-----------------TDRSFNIAAYGIMIVLAVLYTLFW 543
Query: 215 DTPSYDVNLLTPWVAA 230
++ L+ V A
Sbjct: 544 VNADAEITLIIFGVMA 559
>3dh4_A Sodium/glucose cotransporter; membrane protein, symporter, sugar
transport, SGLT, ION TRAN membrane, sodium transport,
symport; HET: GAL; 2.70A {Vibrio parahaemolyticus}
Length = 530
Score = 67.1 bits (164), Expect = 1e-12
Identities = 19/95 (20%), Positives = 38/95 (40%)
Query: 35 LYSYSTNRTISDRRGGQLSKVLTFIYGLVCLCIAYLAKYLGSVLQASLTIFGVVGGPVLG 94
+Y + D + + + + ++ IA + +G Q G+V +L
Sbjct: 352 IYKEYISPDSGDHKLVNVGRTAAVVALIIACLIAPMLGGIGQAFQYIQEYTGLVSPGILA 411
Query: 95 VFTLGMTVTFANQQGALAGIVSGLLFCSLVGFGGP 129
VF LG+ +GA+ G+V+ + F + F
Sbjct: 412 VFLLGLFWKKTTSKGAIIGVVASIPFALFLKFMPL 446
Score = 34.3 bits (79), Expect = 0.045
Identities = 8/44 (18%), Positives = 15/44 (34%)
Query: 184 YFYLYRISYMYYIVLGFCVTMLVGAIVSRFFDTPSYDVNLLTPW 227
F + +M ++ TM+V A S D ++
Sbjct: 442 KFMPLSMPFMDQMLYTLLFTMVVIAFTSLSTSINDDDPKGISVT 485
>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 = 35.2 bits (80), Expect = 0.025
Identities = 41/282 (14%), Positives = 80/282 (28%), Gaps = 97/282 (34%)
Query: 1 MYYVMRK-YCNRSKFSKSADQELETAELSLS----------------------------- 30
+ Y + + +RS S + + + + L
Sbjct: 205 LLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNL 264
Query: 31 HCQPLYSYSTNRTISDRRGGQLSKVLTFIYGLVCL----CIAYLAKYLGSVLQASLTIFG 86
C+ L + + + ++D + ++ + + L + L KYL Q L
Sbjct: 265 SCKILLT-TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQ-DLPREV 322
Query: 87 VVGGP-VLGVFTLGM-----------TVTFANQQGALAGIVSGL-------LFCSLVGFG 127
+ P L + + V + ++ L +F L F
Sbjct: 323 LTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVF- 381
Query: 128 GPKPAPKKLPST---------IEGCPNLV---------------PSLSSI----LRLDNS 159
P A +P+ I+ +V S SI L L
Sbjct: 382 -PPSA--HIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVK 438
Query: 160 VDN------NFIDEDATTIRY--TDMSSSQ-DQYFYLYRISY 192
++N + +D + D+ DQYFY + I +
Sbjct: 439 LENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSH-IGH 479
Score = 28.7 bits (63), Expect = 2.5
Identities = 12/83 (14%), Positives = 25/83 (30%), Gaps = 26/83 (31%)
Query: 209 IVSRFFDT---PSYDVNLLTPW--------------VAARAR--------RKHNGPYKEP 243
+V +F + +Y L++P + R R K+N +P
Sbjct: 78 MVQKFVEEVLRINYKF-LMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQP 136
Query: 244 EGAVGENAANDKREPGMSCCGVG 266
+ + + + GV
Sbjct: 137 YLKLRQALLELRPAKNVLIDGVL 159
>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 = 0.11
Identities = 27/165 (16%), Positives = 44/165 (26%), Gaps = 60/165 (36%)
Query: 2 YYVMRKYCNR-------SKFSKSADQE-----------------LETAELSLSHCQPLY- 36
Y R R S ++ + E EL + LY
Sbjct: 126 YITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFE--EL-----RDLYQ 178
Query: 37 SYSTN-RTISDRRGGQLSKVL------TFIYGLVCLCIAYLAK--------YLGSVLQAS 81
+Y + LS+++ ++ + +L YL S+ S
Sbjct: 179 TYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSI-PIS 237
Query: 82 LTIFGVVGGPVLGVFTLGMTVTFANQQG----ALAGIVSGLLFCS 122
P++GV L V A G L + G S
Sbjct: 238 C--------PLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHS 274
>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 = 31.1 bits (69), Expect = 0.21
Identities = 7/33 (21%), Positives = 18/33 (54%), Gaps = 5/33 (15%)
Query: 130 KPAPKKLPSTIE-GCPNLVPSLSSILRLDNSVD 161
K A KKL ++++ + P+L+ + +++
Sbjct: 19 KQALKKLQASLKLYADDSAPALA----IKATME 47
Score = 28.8 bits (63), Expect = 1.4
Identities = 7/18 (38%), Positives = 10/18 (55%)
Query: 78 LQASLTIFGVVGGPVLGV 95
LQASL ++ P L +
Sbjct: 25 LQASLKLYADDSAPALAI 42
>3um7_A Potassium channel subfamily K member 4; potassium ION channel,
metal transport; 3.31A {Homo sapiens}
Length = 309
Score = 29.8 bits (66), Expect = 1.1
Identities = 10/47 (21%), Positives = 19/47 (40%), Gaps = 2/47 (4%)
Query: 170 TTIRYTDMSSSQD--QYFYLYRISYMYYIVLGFCVTMLVGAIVSRFF 214
TT+ + D + D Q Y+ ++I+LG V + +
Sbjct: 237 TTVGFGDYVAGADPRQDSPAYQPLVWFWILLGLAYFASVLTTIGNWL 283
>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 = 29.2 bits (66), Expect = 1.6
Identities = 14/77 (18%), Positives = 30/77 (38%), Gaps = 5/77 (6%)
Query: 44 ISDR--RGGQLSKVLTFIYGLVCLCIAYLAKYLGSVLQASLTIFGV---VGGPVLGVFTL 98
+SD+ RG + + + F+ + I Y G+ + + + + GPV+ +
Sbjct: 311 MSDKVFRGNRGATGVFFMTLVTIATIVYWMNPAGNPTVDMICMIVIGFLIYGPVMLIGLH 370
Query: 99 GMTVTFANQQGALAGIV 115
+ + G AG
Sbjct: 371 ALELAPKKAAGTAAGFT 387
>3kmi_A Putative membrane protein COG4129; structural genomics, PSI-2,
protein structure initiative, MI center for structural
genomics, MCSG; HET: MSE; 1.96A {Clostridium difficile}
Length = 177
Score = 28.5 bits (64), Expect = 1.6
Identities = 11/65 (16%), Positives = 23/65 (35%), Gaps = 5/65 (7%)
Query: 158 NSVDNNFIDEDATTIRYTDMSSSQDQYFYLYRISYMYYIVLGFCVTMLVGAIVSRFFDTP 217
++++N + + + + D+ SQ + +Y V T I+S F
Sbjct: 61 DNINNTLLSDTRFFLEHMDIIKSQ-----RDILENLYSYVSQLNSTPPQAHILSAFIHKI 115
Query: 218 SYDVN 222
Y
Sbjct: 116 GYTEF 120
>2gfp_A EMRD, multidrug resistance protein D; membrane protein, multidrug
transporter; 3.50A {Escherichia coli}
Length = 375
Score = 29.1 bits (66), Expect = 1.7
Identities = 14/91 (15%), Positives = 25/91 (27%), Gaps = 12/91 (13%)
Query: 49 GGQLSKVLTFIYGLVCLCIAYLAKYLGSVLQASLTIFGVVGGPV----LGVFTLGMTVTF 104
G + + + + + + L +L FGV+ +F G + F
Sbjct: 251 GAWFAGRPNKRFSTL-MWQSVICCLLAGLLMWIPDWFGVMNVWTLLVPAALFFFGAGMLF 309
Query: 105 AN-------QQGALAGIVSGLLFCSLVGFGG 128
LAG L+ G
Sbjct: 310 PLATSGAMEPFPFLAGTAGALVGGLQNIGSG 340
>3b9w_A Ammonium transporter family; membrane protein, ammonia transport,
rhesus protein, transpo protein; HET: BOG; 1.30A
{Nitrosomonas europaea} PDB: 3bhs_A 3b9y_A* 3b9z_A*
Length = 407
Score = 27.7 bits (62), Expect = 4.5
Identities = 11/74 (14%), Positives = 23/74 (31%), Gaps = 7/74 (9%)
Query: 58 FIYGLVC-LCIAYLAKYLGSVLQA--SLTIFGVVGGPVLGVFTLGMTVTFANQQGA--LA 112
+ G + + ++ L S + + + + G P G+ + L
Sbjct: 267 LLGGAISVVGFVFIQPMLESKAKTIDTCGVHNLHGLP--GLLGGFSAILIVPGIAVAQLT 324
Query: 113 GIVSGLLFCSLVGF 126
GI L + G
Sbjct: 325 GIGITLALALIGGV 338
>2xut_A Proton/peptide symporter family protein; transport protein,
membrane protein, major facilitator super transporter;
3.62A {Shewanella oneidensis}
Length = 524
Score = 27.7 bits (62), Expect = 5.4
Identities = 23/172 (13%), Positives = 56/172 (32%), Gaps = 32/172 (18%)
Query: 46 DRRGGQLSKVLTFIYGLVCLCIAYLAKYLGSVL---QASLTIFGVVGGPVLGVFTLGMTV 102
+R G +L+ + G+ ++++ ++ ++L+IF + + T
Sbjct: 364 ERMGVKLTALRKMGAGIAITGLSWIVVGTIQLMMDGGSALSIFWQI--LPYALLTF---- 417
Query: 103 TFANQQGALAGIVSGLLFCSLVGFGGPKPAPKKLPSTIEGCPNLVPSLSSILRLDNSVDN 162
G + +GL F APK + TI L ++ ++ + N
Sbjct: 418 ------GEVLVSATGLEFAY-------SQAPKAMKGTIMSFWTLSVTVGNLW---VLLAN 461
Query: 163 NFIDEDATTIRYTDMSSSQDQYFYLYRISYMYYIVLGFCVTMLVGAIVSRFF 214
+ T + ++ + +V A+ +R +
Sbjct: 462 VSVKSP------TVTEQIVQTGMSVTAFQMFFFAGFAI-LAAIVFALYARSY 506
>3ukm_A Potassium channel subfamily K member 1; membrane protein,
eukaryotic, two-pore DO potassium channel, K2P channel,
membrane; HET: UND; 3.40A {Homo sapiens}
Length = 280
Score = 27.5 bits (60), Expect = 5.6
Identities = 10/48 (20%), Positives = 19/48 (39%), Gaps = 3/48 (6%)
Query: 170 TTIRYTDMSSSQD---QYFYLYRISYMYYIVLGFCVTMLVGAIVSRFF 214
+TI D + ++ LY+I Y++LG ++V
Sbjct: 214 STIGLGDYVPGEGYNQKFRELYKIGITCYLLLGLIAMLVVLETFCELH 261
>2nq2_A Hypothetical ABC transporter permease protein HI1471; putative iron
chelatin ABC transporter, nucleotide binding domain;
2.40A {Haemophilus influenzae}
Length = 337
Score = 26.8 bits (60), Expect = 7.6
Identities = 16/66 (24%), Positives = 24/66 (36%), Gaps = 14/66 (21%)
Query: 75 GSVLQASLTI---FGVVGGPVL----GVFTLGMTVTFANQQGA-------LAGIVSGLLF 120
GS +L I F + G G TL + F+ + L G++ LF
Sbjct: 102 GSAFGGTLAIFFGFSLYGLFTSTILFGFGTLALVFLFSFKFNQRSLLMLILIGMILSGLF 161
Query: 121 CSLVGF 126
+LV
Sbjct: 162 SALVSL 167
>1mlw_A Tryptophan 5-monooxygenase; aromatic amino acid hydroxylase
catalytic domain fold, oxidoreductase; HET: HBI; 1.71A
{Homo sapiens} SCOP: d.178.1.1 PDB: 3hf6_A* 3hf8_A*
3hfb_A* 3e2t_A*
Length = 301
Score = 26.6 bits (58), Expect = 8.9
Identities = 12/61 (19%), Positives = 22/61 (36%), Gaps = 6/61 (9%)
Query: 149 SLSSILRLDNSVDNN-----FIDEDATTIRYTDMSSSQDQYFYLYRISYMYYIVLGFCVT 203
LSSI L +++ + F + +++ QD YF + F T
Sbjct: 233 LLSSISELKHALSGHAKVKPFDPKITCKQEC-LITTFQDVYFVSESFEDAKEKMREFTKT 291
Query: 204 M 204
+
Sbjct: 292 I 292
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
0.321 0.137 0.412
Gapped
Lambda K H
0.267 0.0639 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,206,825
Number of extensions: 245975
Number of successful extensions: 463
Number of sequences better than 10.0: 1
Number of HSP's gapped: 461
Number of HSP's successfully gapped: 22
Length of query: 285
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 192
Effective length of database: 4,105,140
Effective search space: 788186880
Effective search space used: 788186880
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (25.9 bits)