RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17618
(164 letters)
>3l81_A AP-4 complex subunit MU-1; immunoglobulin-like beta-sandwich,
coated PIT, golgi apparat membrane, phosphoprotein,
protein transport, transport; 1.60A {Homo sapiens}
Length = 301
Score = 122 bits (307), Expect = 6e-35
Identities = 35/172 (20%), Positives = 59/172 (34%), Gaps = 19/172 (11%)
Query: 7 SSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLS 66
S + PS S + NE + DV+E + +I GS + ++QG I L
Sbjct: 10 SKVAPSSAASRPVLSSRSDQSQKNEVFLDVVERLSVLIASNGSLLKVDVQGEIRLKSFLP 69
Query: 67 GMPDLTLSFMNPRL--------------FDDVSFHPCVRFKRWEAERILSFIPPDGNFRL 112
++ + D+VSFH V +E+ RIL PP G +
Sbjct: 70 SGSEMRIGLTEEFSVGKSELRGYGPGIRVDEVSFHSSVNLDEFESHRILRLQPPQGELTV 129
Query: 113 MSYHTRVSGSNGGRPNASCPSFHRMVTSASCLTIRIR-KVKKDKNRSISVTD 163
M Y S+ F + +++ K++ D +
Sbjct: 130 MRYQL----SDDLPSPLPFRLFPSVQWDRGSGRLQVYLKLRCDLLSKSQALN 177
>1i31_A Clathrin coat assembly protein AP50; beta-sandwich, peptide-binding
site, protein-peptide complex, clathrin adaptor; 2.50A
{Rattus norvegicus} SCOP: b.2.7.1 PDB: 1bw8_A 2pr9_A
3h85_A 1bxx_A 1hes_A 1h6e_A
Length = 314
Score = 118 bits (295), Expect = 5e-33
Identities = 41/135 (30%), Positives = 63/135 (46%), Gaps = 21/135 (15%)
Query: 3 SVYVSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCC 62
+ S + S + WRR G+KY NE + DV+E V+ ++ G + + + G +
Sbjct: 23 TKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMK 82
Query: 63 IKLSGMPDLTLSFMNPRL---------------------FDDVSFHPCVRFKRWEAERIL 101
LSGMP+ + + DD +FH CVR ++++ER +
Sbjct: 83 SYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSI 142
Query: 102 SFIPPDGNFRLMSYH 116
SFIPPDG F LM Y
Sbjct: 143 SFIPPDGEFELMRYR 157
>4en2_M AP-1 complex subunit MU-1; human immunodeficiency virus 1, HIV,
NEF, antigen presentation, HOST defense, adaptor protein
complex 1, MU1 subunit; 2.58A {Mus musculus} PDB: 4emz_A
Length = 266
Score = 114 bits (285), Expect = 7e-32
Identities = 49/117 (41%), Positives = 63/117 (53%), Gaps = 13/117 (11%)
Query: 20 WRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNPR 79
WR G+KY NE + DVIE V+ ++ G+ + SEI G I + LSGMP+L L +
Sbjct: 2 WRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLNDKV 61
Query: 80 LF-------------DDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSN 123
LF +DV FH CVR R+E +R +SFIPPDG F LMSY
Sbjct: 62 LFDNTGRGKSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKP 118
>3ml6_A Chimeric complex between protein dishevlled2 HOMO and clathrin
adaptor AP-2 complex...; dishevelled, frizzled
internalization; 3.50A {Mus musculus}
Length = 385
Score = 101 bits (251), Expect = 4e-26
Identities = 35/124 (28%), Positives = 54/124 (43%), Gaps = 21/124 (16%)
Query: 16 SSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSF 75
G + NE + DV+E V+ ++ G + + + G + LSGMP+
Sbjct: 107 PYHELEFGGSGGSRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGM 166
Query: 76 MNPRLF---------------------DDVSFHPCVRFKRWEAERILSFIPPDGNFRLMS 114
+ + DD +FH CVR ++++ER +SFIPPDG F LM
Sbjct: 167 NDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMR 226
Query: 115 YHTR 118
Y T
Sbjct: 227 YRTT 230
>2vgl_M AP-2 complex subunit MU-1; cytoplasmic vesicle, alternative
splicing, endocytosis, lipid-binding, golgi apparatus,
adaptor, membrane, transport; HET: IHP; 2.59A {Rattus
norvegicus} PDB: 2jkr_M 2jkt_M 2bp5_M* 2xa7_M
Length = 435
Score = 97.8 bits (242), Expect = 1e-24
Identities = 40/122 (32%), Positives = 60/122 (49%), Gaps = 21/122 (17%)
Query: 17 SVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFM 76
+ WRR G+KY NE + DV+E V+ ++ G + + + G + LSGMP+
Sbjct: 158 QIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMN 217
Query: 77 NPRL---------------------FDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSY 115
+ + DD +FH CVR ++++ER +SFIPPDG F LM Y
Sbjct: 218 DKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRY 277
Query: 116 HT 117
T
Sbjct: 278 RT 279
>1w63_M Adaptor-related protein complex 1, MU 1 subunit; endocytosis,
clathrin adaptor, transport, coated PITS; 4.0A {Mus
musculus} SCOP: i.23.1.1
Length = 423
Score = 92.7 bits (229), Expect = 6e-23
Identities = 54/175 (30%), Positives = 81/175 (46%), Gaps = 16/175 (9%)
Query: 1 MRSVYVSSILPSGQLSSVPWRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYID 60
+ + P+ ++V WR G+KY NE + DVIE V+ ++ G+ + SEI G I
Sbjct: 140 HKLETGAPRPPATVTNAVSWRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIK 199
Query: 61 CCIKLSGMPDLTLSFMNPRLF-------------DDVSFHPCVRFKRWEAERILSFIPPD 107
+ LSGMP+L L + LF +DV FH CVR R+E +R +SFIPPD
Sbjct: 200 MRVFLSGMPELRLGLNDKVLFDNTGRGKSKSVELEDVKFHQCVRLSRFENDRTISFIPPD 259
Query: 108 GNFRLMSYHTRVSGSNGGRPNASCPSFHRMVTSASCLTIRIRKVKKDKNRSISVT 162
G F LMSY + S ++ + K ++ + +V
Sbjct: 260 GEFELMSYRLNTHVKP---LIWIESVIEKHSHSRIEYMVKAKSQFKRRSTANNVE 311
>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 = 32.3 bits (73), Expect = 0.064
Identities = 25/126 (19%), Positives = 41/126 (32%), Gaps = 45/126 (35%)
Query: 38 EEVDAIIDKTGSTIFSEIQGYI------DCCIKLSGMPDLTLSFMNPRL----------- 80
E+V ++KT S + + Q I + +SG P +L +N L
Sbjct: 347 EQVQDYVNKTNSHLPAGKQVEISLVNGAKNLV-VSGPP-QSLYGLNLTLRKAKAPSGLDQ 404
Query: 81 ---------------FDDVS--FH-----PCV-RFKRWEAERILSFIPPDGNFRLMSYHT 117
F V+ FH P + + +SF D ++ Y T
Sbjct: 405 SRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKD--IQIPVYDT 462
Query: 118 RVSGSN 123
GS+
Sbjct: 463 F-DGSD 467
Score = 31.9 bits (72), Expect = 0.091
Identities = 20/130 (15%), Positives = 35/130 (26%), Gaps = 62/130 (47%)
Query: 13 GQLSSVPWRRTGVKYTNNEAYFDVIEE--------VDAIIDKTGSTIFSEIQGYIDCCIK 64
GQ G N + YF+ + + V +I + T+ I+ +D
Sbjct: 162 GQ---------G----NTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDA--- 205
Query: 65 LSGMPDLTLSFMNPRLFDDVSFHPCVRFKRW--EAERILSFIPPDGNFRLMSYHTRVSGS 122
+ + + W PD ++ L+S
Sbjct: 206 ---------EKVFTQGLN---------ILEWLENPSN-----TPDKDY-LLSI------- 234
Query: 123 NGGRPNASCP 132
P SCP
Sbjct: 235 ----P-ISCP 239
>1miq_A Plasmepsin; aspartic proteinase zymogen, domain opening, hydrolase;
2.50A {Plasmodium vivax} SCOP: b.50.1.2 PDB: 1ls5_A*
Length = 375
Score = 30.1 bits (68), Expect = 0.28
Identities = 6/38 (15%), Positives = 10/38 (26%), Gaps = 1/38 (2%)
Query: 38 EEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSF 75
E ++ + Y+ C MP L
Sbjct: 273 EFLNKFFANLNVIKVPFLPFYVTTC-DNKEMPTLEFKS 309
>1wu4_A Xylanase Y; (alpla/alpha)6 barrel, glycoside hydrolase family 8,
hydrola; 1.35A {Bacillus halodurans} SCOP: a.102.1.2
PDB: 1wu5_A* 3a3v_A 2drr_A 2drs_A 1wu6_A* 2drq_A 2dro_A
Length = 396
Score = 30.1 bits (67), Expect = 0.33
Identities = 14/111 (12%), Positives = 37/111 (33%), Gaps = 19/111 (17%)
Query: 20 WRRTGVKYTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNPR 79
W + + Y++V +++ ++D + +E Y GM + +
Sbjct: 36 WEQLFGDNPETKIYYEVGDDLGYLLDTGNLDVRTEGMSY--------GMM-MAVQMDRKD 86
Query: 80 LFDDVSFHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSNGGRPNAS 130
+FD R W + + ++ + ++ + G+ A
Sbjct: 87 IFD--------RIWNW-TMKNM-YMTEGVHAGYFAWSCQPDGTKNSWGPAP 127
>3lgb_A DNA primase large subunit; Fe-S cluster, DNA-binding, DNA-directed
RNA POL iron, iron-sulfur, metal-binding,
nucleotidyltransferase; HET: DNA MSE EPE; 1.54A
{Saccharomyces cerevisiae}
Length = 194
Score = 28.5 bits (63), Expect = 0.70
Identities = 8/56 (14%), Positives = 17/56 (30%), Gaps = 5/56 (8%)
Query: 89 CVRFKRWEAERILSFIPPDGNFRLMSYHTR-VSGSNGGRPNASCPSFHRMVTSASC 143
++F + + + + Y R G G R N H +++
Sbjct: 57 ALKFWS----EAFTNMTMEKFNKEYRYSFRHNYGLEGNRINYKPWDCHTILSKPRP 108
>3l9q_A DNA primase large subunit; POL alpha, DNA replication, polymerase,
iron-sulfur DNA-binding, DNA-directed RNA polymerase,
iron, iron-sulfur binding; HET: DNA; 1.70A {Homo
sapiens} PDB: 3q36_A*
Length = 195
Score = 28.5 bits (63), Expect = 0.80
Identities = 14/56 (25%), Positives = 25/56 (44%), Gaps = 3/56 (5%)
Query: 89 CVRFKRWEAERILSFIPPDGNFRLMSYHTR-VSGSNGGRPNASCPSFHRMVTSASC 143
++F W+ E I + PD + SY+ R G G R + + S +++ S
Sbjct: 54 ALQF--WKQEFIKGKMDPDKFDKGYSYNIRHSFGKEGKRTDYTPFSCLKIILSNPP 107
>3maz_A Signal-transducing adaptor protein 1; modular domain,
phosphotyrosine, specificity, cytoplasm, phosphoprotein,
SH2 domain, signaling protein; HET: PTR; 1.90A {Homo
sapiens}
Length = 125
Score = 26.7 bits (59), Expect = 2.3
Identities = 8/25 (32%), Positives = 9/25 (36%), Gaps = 2/25 (8%)
Query: 86 FHPCVRFKRWEAERILSFIPPDGNF 110
V R EA +L P GN
Sbjct: 18 CFYTV--SRKEATEMLQKNPSLGNM 40
>1nc5_A Hypothetical protein YTER; structural genomics, helix barrel,
PSI, protein structure initiative, midwest center for
structural genomics, MCSG; 1.60A {Bacillus subtilis}
SCOP: a.102.1.6 PDB: 2d8l_A* 2gh4_A*
Length = 373
Score = 27.4 bits (60), Expect = 2.4
Identities = 9/38 (23%), Positives = 18/38 (47%), Gaps = 3/38 (7%)
Query: 26 KYTNNEAYFDVIEE-VDAIIDKTGSTIFSEIQGYIDCC 62
+ T + YF+ + D +ID G+ +F + +D
Sbjct: 55 EATGEKRYFEYAKAYADLLIDDNGNLLFR--RDELDAI 90
>3sjs_A URE3-BP sequence specific DNA binding protein; EF-hand, structural
genomics, seattle S genomics center for infectious
disease, ssgcid; 1.90A {Entamoeba histolytica} PDB:
3sia_A 3sib_A
Length = 220
Score = 27.1 bits (60), Expect = 2.7
Identities = 4/42 (9%), Positives = 12/42 (28%), Gaps = 5/42 (11%)
Query: 27 YTNNEAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGM 68
+ N+ ++ + A + +I C +
Sbjct: 148 FYINQRTSLLLHRLFA--RGMAFCDLNC---WIAICAFAAQT 184
>1izd_A Aspartic proteinase; sugar binding, acid protease, hydrolase; HET:
MAN; 1.90A {Aspergillus oryzae} SCOP: b.50.1.2 PDB:
1ize_A*
Length = 323
Score = 26.4 bits (59), Expect = 4.4
Identities = 7/39 (17%), Positives = 15/39 (38%), Gaps = 3/39 (7%)
Query: 38 EEVDAIIDKTGSTIFSEIQGYIDC-CIKLSGMPDLTLSF 75
VDA ++ + QG + +PD +++
Sbjct: 225 SIVDAYYEQVNGASYDSSQGGYVFPSS--ASLPDFSVTI 261
>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION
channel, transport protein, casse protein; 2.00A {Homo
sapiens} PDB: 2onj_A* 2hyd_A
Length = 578
Score = 26.4 bits (59), Expect = 6.1
Identities = 13/57 (22%), Positives = 18/57 (31%), Gaps = 20/57 (35%)
Query: 31 EAYFDVIEEVDAIIDKTGSTIFSEIQGYIDCCIKLSGMPDLTLSFMNPRLFDDVSFH 87
+ F +I+E I + G+ QG ID D VSF
Sbjct: 312 DRVFQLIDEDYDIKNGVGAQPIEIKQGRID--------------------IDHVSFQ 348
>2ysx_A Signaling inositol polyphosphate phosphatase SHIP II; SH2 domain,
phosphotyrosine binding domain, protein tyrosine kinase,
signal transduction; NMR {Homo sapiens}
Length = 119
Score = 25.3 bits (56), Expect = 6.4
Identities = 13/40 (32%), Positives = 18/40 (45%), Gaps = 7/40 (17%)
Query: 86 FHPCVRFKRWEAERILSFIPPDGNFRLMSYHTRVSGSNGG 125
H + R +AE +LS DG+F L+ R S S
Sbjct: 13 NHGNI--TRSKAEELLSRTGKDGSF-LV----RASESISR 45
>3s9k_A Tyrosine-protein kinase ITK/TSK; proline isomerization, CIS
proline, domain swapped dimer, SH transferase; HET: CIT;
2.35A {Mus musculus} PDB: 2etz_A* 2eu0_A* 1lui_A 1luk_A
1lum_A 1lun_A 2k79_B 2k7a_B
Length = 118
Score = 25.0 bits (55), Expect = 8.9
Identities = 6/25 (24%), Positives = 13/25 (52%), Gaps = 2/25 (8%)
Query: 86 FHPCVRFKRWEAERILSFIPPDGNF 110
++ + R +AE++L +G F
Sbjct: 12 YNKSI--SRDKAEKLLLDTGKEGAF 34
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
0.323 0.136 0.418
Gapped
Lambda K H
0.267 0.0474 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,598,433
Number of extensions: 149463
Number of successful extensions: 331
Number of sequences better than 10.0: 1
Number of HSP's gapped: 325
Number of HSP's successfully gapped: 28
Length of query: 164
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 78
Effective length of database: 4,300,587
Effective search space: 335445786
Effective search space used: 335445786
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 (22.0 bits)
S2: 53 (24.8 bits)