RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9623
(355 letters)
>1hx8_A Synapse-enriched clathrin adaptor protein LAP; all alpha, alpha
helices repeats, coiled-coil, endocytosis/exocytosis
complex; 2.20A {Drosophila melanogaster} SCOP: a.7.8.2
a.118.9.3
Length = 299
Score = 66.0 bits (160), Expect = 2e-12
Identities = 32/202 (15%), Positives = 66/202 (32%), Gaps = 20/202 (9%)
Query: 27 FQSASIGKAVNSQETPVKEKHFHLKDGYGKLIYQYTRLLLGKLDFHRRNPGFPGNLILSQ 86
F +S Q+ + + I +Y + L K +R ++
Sbjct: 106 FNLSSFLDKGTVQDGGMGVPGGRMGYDMSPFIRRYAKYLNEKSLSYRA---------MAF 156
Query: 87 SELDRIGENDINNYFQMSVEMFDYLDEILALQAAVFGSLDMSRSNSMTSSGQCRLSPLIP 146
+ + M+ E L + LQA + L+ ++ S+G +
Sbjct: 157 DFCKVKRGKEEGSLRSMNAE--KLLKTLPVLQAQLDALLEFDCQSNDLSNG-VINMSFML 213
Query: 147 CIQDSSQLY----DFCVKILFKLHASLPSEILAGHR--SRFLKQFSQLRQFYMTSSTLQY 200
+D +L+ D + +L K +FL + ++ +F + +
Sbjct: 214 LFRDLIRLFACYNDGIINLLEKYFDMNKKHARDALDLYKKFLVRMDRVGEFLKVAENVGI 273
Query: 201 FKHLIQVPTLPETPPNLLIQAE 222
K +P L + P +LL E
Sbjct: 274 DK--GDIPDLTKAPSSLLDALE 293
Score = 38.7 bits (89), Expect = 0.002
Identities = 6/64 (9%), Positives = 17/64 (26%), Gaps = 1/64 (1%)
Query: 255 DISHTSSQNASNAILGTFHDKSSTIFWQCA-SRLPLMENVIVAWKFCHVLHKILREGHPH 313
+ ++ + S N +V +K H ++ G+
Sbjct: 35 ECIGPKKKHLDYLVHCANEPNVSIPHLANLLIERSQNANWVVVYKSLITTHHLMAYGNER 94
Query: 314 VIKE 317
++
Sbjct: 95 FMQY 98
>3zyl_A Phosphatidylinositol-binding clathrin assembly PR; endocytosis,
endobrevin, synaptobrevin, VAMP2, VAMP3, AP180,
membrane, adaptor protein; 1.70A {Rattus norvegicus}
PDB: 3zyk_A 1hf8_A 1hfa_A* 1hg2_A* 1hg5_A*
Length = 271
Score = 58.7 bits (141), Expect = 4e-10
Identities = 22/162 (13%), Positives = 59/162 (36%), Gaps = 21/162 (12%)
Query: 44 KEKHFHLKDGYGKLIYQYTRLLLGKLDFHRRNPGFPGNLILSQSELDRIGENDINNYFQM 103
+K I +Y+R L K +R+ ++ M
Sbjct: 117 LDKSGLQGYDMSTFIRRYSRYLNEKAVSYRQVAFDFT----------KVKRGADGVMRTM 166
Query: 104 SVEMFDYLDEILALQAAVFGSLDMSRSNSMTSSGQCRLSPLIPCIQDSSQLYDFC----- 158
+ E L + +Q + LD + +++ ++G + + +D+ +L+
Sbjct: 167 NTE--KLLKTVPIIQNQMDALLDFNVNSNELTNG-VINAAFMLLFKDAIRLFAAYNEGII 223
Query: 159 --VKILFKLHASLPSEILAGHRSRFLKQFSQLRQFYMTSSTL 198
++ F + + E L ++ +FL + +++ +F + +
Sbjct: 224 NLLEKYFDMKKNQCKEGLDIYK-KFLTRMTRISEFLKVAEQV 264
Score = 38.6 bits (89), Expect = 0.002
Identities = 8/64 (12%), Positives = 19/64 (29%), Gaps = 1/64 (1%)
Query: 255 DISHTSSQNASNAILGTFHDKSS-TIFWQCASRLPLMENVIVAWKFCHVLHKILREGHPH 313
+I ++ I T + + +V +K H ++ G+
Sbjct: 40 EIMGPKKKHLDYLIQCTNEMNVNIPQLADSLFERTTNSSWVVVFKSLITTHHLMVYGNER 99
Query: 314 VIKE 317
I+
Sbjct: 100 FIQY 103
>3zym_A Phosphatidylinositol-binding clathrin assembly PR
vesicle-associated membrane protein...; endocytosis,
synaptobrevin, VAMP2, VAMP3, AP180; HET: PO4; 2.03A
{Rattus norvegicus}
Length = 310
Score = 54.9 bits (131), Expect = 1e-08
Identities = 25/187 (13%), Positives = 66/187 (35%), Gaps = 21/187 (11%)
Query: 44 KEKHFHLKDGYGKLIYQYTRLLLGKLDFHRRNPGFPGNLILSQSELDRIGENDINNYFQM 103
+K I +Y+R L K +R+ ++ M
Sbjct: 117 LDKSGLQGYDMSTFIRRYSRYLNEKAVSYRQVAFDFT----------KVKRGADGVMRTM 166
Query: 104 SVEMFDYLDEILALQAAVFGSLDMSRSNSMTSSGQCRLSPLIPCIQDSSQLYDFC----- 158
+ E L + +Q + LD + +++ ++G + + +D+ +L+
Sbjct: 167 NTE--KLLKTVPIIQNQMDALLDFNVNSNELTNG-VINAAFMLLFKDAIRLFAAYNEGII 223
Query: 159 --VKILFKLHASLPSEILAGHRSRFLKQFSQLRQFYMTSSTLQYFKHLIQVPTLPETPPN 216
++ F + + E L ++ +FL + +++ +F + + + I
Sbjct: 224 NLLEKYFDMKKNQCKEGLDIYK-KFLTRMTRISEFLKVAEQVGIDRGDISGSGSGHMDRV 282
Query: 217 LLIQAEL 223
+Q+E+
Sbjct: 283 RNLQSEV 289
Score = 38.3 bits (88), Expect = 0.003
Identities = 8/64 (12%), Positives = 19/64 (29%), Gaps = 1/64 (1%)
Query: 255 DISHTSSQNASNAILGTFHDKSS-TIFWQCASRLPLMENVIVAWKFCHVLHKILREGHPH 313
+I ++ I T + + +V +K H ++ G+
Sbjct: 40 EIMGPKKKHLDYLIQCTNEMNVNIPQLADSLFERTTNSSWVVVFKSLITTHHLMVYGNER 99
Query: 314 VIKE 317
I+
Sbjct: 100 FIQY 103
>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 = 55.2 bits (132), Expect = 2e-08
Identities = 59/397 (14%), Positives = 112/397 (28%), Gaps = 120/397 (30%)
Query: 1 MSSLSLPRVLQPRKTSLEL----ERETFEKFQSASIG---------KAVNSQETPVKEKH 47
+ S L L L + + F ++ K V + H
Sbjct: 238 LKSKPYENCL------LVLLNVQNAKAWNAF---NLSCKILLTTRFKQVTDFLSAATTTH 288
Query: 48 FHLKDGYGKLIYQYTRLLLGK-LDF---------HRRNPGFPGNLILSQ-SELDRIGEND 96
L L + LL K LD NP LS +E R G
Sbjct: 289 ISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNP-----RRLSIIAESIRDGLAT 343
Query: 97 INNY-----------FQMSVEMFD-------YLDEILAL-------QAAVFGSL--DMSR 129
+N+ + S+ + + + L++ + + D+ +
Sbjct: 344 WDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDR--LSVFPPSAHIPTILLSLIWFDVIK 401
Query: 130 SNSMTSSGQCRLSPLIPCIQDSSQ--LYDFCVKILFKLHASLPSEILAGHRSRFLKQFSQ 187
S+ M + L+ S + I +L L +E A HR + ++
Sbjct: 402 SDVMVVVNKLHKYSLVEKQPKESTISIPS----IYLELKVKLENEY-ALHR-SIVDHYNI 455
Query: 188 LRQFYMTSSTL----QYF-----KHL--IQVPTLPETPPNLL-----IQAELGSYVTPVV 231
+ F QYF HL I+ P + ++ ++
Sbjct: 456 PKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKI-------- 507
Query: 232 ILPDPPSTSDPGDSMSPVTGDLVDI----SH-TSSQNASNAILGTFHDKSSTIFWQCASR 286
S ++ + L + + + ++ D F
Sbjct: 508 -----RHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILD-----F------ 551
Query: 287 LPLMENVIVAWKFCHVLHKILREGHPHVIKESIKQAQ 323
LP +E ++ K+ +L L + +E+ KQ Q
Sbjct: 552 LPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQVQ 588
Score = 41.0 bits (95), Expect = 6e-04
Identities = 54/309 (17%), Positives = 99/309 (32%), Gaps = 87/309 (28%)
Query: 47 HFHLKDGYGKLIYQYTRLLLG-----KLDFHRRN-PGFPGNLILSQSELDRI-GENDINN 99
H H+ G+ YQY +L +F ++ P + ILS+ E+D I D
Sbjct: 4 HHHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKS-ILSKEEIDHIIMSKD--- 59
Query: 100 YFQMSVEMFDYLDEIL------ALQAAVFGSLDMSRSNSMTS-SGQCRLSPLIPCIQDSS 152
+V L L +Q V L ++ M+ + R P + +
Sbjct: 60 ----AVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQR-QPSMM-----T 109
Query: 153 QLYDFCVKILFKLHASLPSEILAGHRSRFLKQFSQLRQFYMTSSTLQYFKHLIQVPTLPE 212
++Y L+ + + SR L+ + +LR + L+++ P
Sbjct: 110 RMYIEQRDRLYNDNQVFAK----YNVSR-LQPYLKLR------------QALLELR--PA 150
Query: 213 TPPNLLIQAELGSYVTPVVILPDPPSTSDPGDSMSPVTGDLVDISHTSSQNASNAILGTF 272
N+LI LGS G + V D+ S +
Sbjct: 151 --KNVLIDGVLGS-----------------GKTW--VALDVC---------LSYKVQCKM 180
Query: 273 HDKSSTIFW----QCASRLPLMENVIVAWKFCHVLHKILREGHPHVIKESIKQAQVITNV 328
K IFW C S ++E + K + + H ++ + +
Sbjct: 181 DFK---IFWLNLKNCNSPETVLEML---QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAEL 234
Query: 329 GKMWHAAQY 337
++ + Y
Sbjct: 235 RRLLKSKPY 243
Score = 34.8 bits (79), Expect = 0.042
Identities = 20/165 (12%), Positives = 45/165 (27%), Gaps = 37/165 (22%)
Query: 198 LQYFKHLIQVPTLPETPPNLLIQAELGSYVTPVVILPDPPSTSDPGDSMSPVTGDLVDIS 257
F + + P ++L + E + +++ D S + L
Sbjct: 26 EDAFVDNFDCKDVQDMPKSILSKEE----IDHIIMSKDAVSGTL----------RLFWTL 71
Query: 258 HTSSQNASNAILGTFHDKS-----STIFWQCASRLPLMENVI----VAWKFCHVLHK--I 306
+ + + + S I + + I + V K +
Sbjct: 72 LSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNV 131
Query: 307 LREGHPHVIKESIKQAQVITNV--------GKMWHAAQYISRSCR 343
R +++++ + + NV GK W A C
Sbjct: 132 SRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALD----VCL 172
>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 = 49.3 bits (117), Expect = 2e-06
Identities = 70/405 (17%), Positives = 115/405 (28%), Gaps = 143/405 (35%)
Query: 3 SLSLPRVLQPRKTSLELERETFEK-FQSASIGKAVNSQETPVKEKHFHLKDGYGKLIYQY 61
L +P + L +E F K + G A + + T E
Sbjct: 19 VLLVPTASFFIASQL---QEQFNKILPEPTEGFAADDEPTTPAE---------------- 59
Query: 62 TRLLLGK-LDF--HRRNPGFPG------NLILSQSELDRIGENDINNYFQMSVEMFDYLD 112
L+GK L + P G NL L++ E + NDI+ ++ ++ D
Sbjct: 60 ---LVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHA---LAAKLLQEND 113
Query: 113 EILALQAAVFGSLDMSRSNSMTSSGQCRLSPLIPCIQDSSQLYDFCVKILFKLHASLPSE 172
L + + +R + + S L + + + +L A
Sbjct: 114 TTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGN----------AQLVA----- 158
Query: 173 ILAGHRSRFLKQ------FSQLRQFYMT------------SSTLQ-----------YFKH 203
I G Q F +LR Y T + TL F
Sbjct: 159 IFGG-------QGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQ 211
Query: 204 LIQVP---TLPETPPNL--------------LIQAELGSY-VTPVVILPDPPSTSDPGDS 245
+ + P P+ +IQ L Y VT ++ P
Sbjct: 212 GLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQ--LAHYVVTAKLLGFTPGELRSYLKG 269
Query: 246 MSPVTGDLVD---ISHTSS-----QNASNAILGTFHDKSSTIFW------QCASRLPLME 291
+ + LV I+ T S + AI + +F+ + L
Sbjct: 270 ATGHSQGLVTAVAIAETDSWESFFVSVRKAI--------TVLFFIGVRCYEAYPNTSLPP 321
Query: 292 NVIVAWKFCHVLHKILR--EGHPH---VIKESIKQAQVITNVGKM 331
+ +L L EG P I ++ Q QV V K
Sbjct: 322 S---------ILEDSLENNEGVPSPMLSIS-NLTQEQVQDYVNKT 356
>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 = 36.1 bits (82), Expect = 0.006
Identities = 8/41 (19%), Positives = 18/41 (43%), Gaps = 13/41 (31%)
Query: 183 KQFSQLRQFYMTSSTLQYFKHLIQVPTLPETPPNLLIQAEL 223
KQ L++ ++L+ + ++ P L I+A +
Sbjct: 19 KQ--ALKKL---QASLKLYA--------DDSAPALAIKATM 46
>1rfz_A Hypothetical protein APC35681; structural genomics, PSI, protein
structure initiative, midwest center for structural
genomics; 2.80A {Geobacillus stearothermophilus} SCOP:
a.195.1.1
Length = 168
Score = 29.7 bits (67), Expect = 0.75
Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 5/49 (10%)
Query: 81 NLILSQSELDRIGE-NDINNYFQMSVEM---FDYLDEILALQAA-VFGS 124
N IL+ +LD++ E ++ Q + +DEILAL V+GS
Sbjct: 65 NAILTGIQLDKLAEDGRLDEPLQSIIRRDEGLYGVDEILALSIVNVYGS 113
>3fmw_A Oxygenase; mithramycin, baeyer-villiger, flavin binding protein,
oxidoreductase; HET: FAD; 2.89A {Streptomyces
argillaceus}
Length = 570
Score = 28.9 bits (65), Expect = 2.6
Identities = 11/85 (12%), Positives = 20/85 (23%), Gaps = 22/85 (25%)
Query: 8 RVLQPRKTSLELERETFEKFQSASIGKAVNSQETPVKEKHFHLKDGYGKLIYQYTRLLLG 67
L R ++E + K F +
Sbjct: 91 GALHIR--TVET-------LDLRGLLDRFLEGTQVAKGLPFA-------------GIFTQ 128
Query: 68 KLDFHRRNPGFPGNLILSQSELDRI 92
LDF + P ++ QS + +
Sbjct: 129 GLDFGLVDTRHPYTGLVPQSRTEAL 153
>4aqs_A Laminin subunit beta-1; cell adhesion; HET: NAG BMA MAN FUL; 3.11A
{Mus musculus}
Length = 525
Score = 27.7 bits (61), Expect = 6.4
Identities = 22/106 (20%), Positives = 34/106 (32%), Gaps = 16/106 (15%)
Query: 244 DSMSPVTGDLVDISHTSSQNASNAILGTFHDKSSTIFWQCASRLPLMENVIVAW-KFCHV 302
DS P L SH ++ TF I+WQ + + + H
Sbjct: 63 DSRDPYHETLNPDSHLIEN-----VVTTFAPNRLKIWWQSEN-GVENVTIQLDLEAEFHF 116
Query: 303 LHKILREGHPHVIKESIKQAQVI---TNVGKMWHAAQYISRSCRRV 345
H I+ K A +I ++ GK W +Y + C
Sbjct: 117 THLIMT------FKTFRPAAMLIERSSDFGKAWGVYRYFAYDCESS 156
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 0.134 0.397
Gapped
Lambda K H
0.267 0.0531 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,295,550
Number of extensions: 306005
Number of successful extensions: 548
Number of sequences better than 10.0: 1
Number of HSP's gapped: 540
Number of HSP's successfully gapped: 14
Length of query: 355
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 260
Effective length of database: 4,049,298
Effective search space: 1052817480
Effective search space used: 1052817480
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: 58 (26.6 bits)