RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6184
(156 letters)
>1x5b_A Signal transducing adaptor molecule 2; VHS domain, ubiquitin
binding, STAM2, structural genomics, NPPSFA; NMR {Homo
sapiens} PDB: 2l0t_B
Length = 163
Score = 108 bits (272), Expect = 4e-31
Identities = 30/110 (27%), Positives = 57/110 (51%), Gaps = 1/110 (0%)
Query: 10 PSHALASIKKKLTNSNPHIVLYALLVLESCVKNCGNLIHDEVGTKAFMEQMKELVRGTQH 69
L +I K++ + PH+ L AL +L +CV NCG + H EV ++ F +++ +++ H
Sbjct: 50 AKDCLKAIMKRVNHKVPHVALQALTLLGACVANCGKIFHLEVCSRDFATEVRAVIKNKAH 109
Query: 70 EEVKAKILELIQAWAHAFRNSPKYRAVPTK-SWMTDKGFKNPSKSSDSLG 118
+V K+ L+ W+ F+ P++ + M ++G P S + G
Sbjct: 110 PKVCEKLKSLMVEWSEEFQKDPQFSLISATIKSMKEEGITFPPAGSQTSG 159
>1mhq_A ADP-ribosylation factor binding protein GGA2; super helix, protein
transport; 2.20A {Homo sapiens} SCOP: a.118.9.2
Length = 148
Score = 103 bits (259), Expect = 3e-29
Identities = 28/115 (24%), Positives = 52/115 (45%), Gaps = 9/115 (7%)
Query: 10 PSHALASIKKKLTNSNPHIVLYALLVLESCVKNCGNLIHDEVGTKAFMEQMKELVRGTQ- 68
P+HA + K+ + LYAL VLE C+ +CG H EV F+ ++ +++
Sbjct: 36 PTHAPWLLAHKIQSPQEKEALYALTVLEMCMNHCGEKFHSEVAKFRFLNELIKVLSPKYL 95
Query: 69 ----HEEVKAKILELIQAWAHAFRNSPKYRAVPTKSWMTDKG--FKNPSKSSDSL 117
+VK +++E++ +W F K R + +G ++P D +
Sbjct: 96 GSWATGKVKGRVIEILFSWTVWFPEDIKIRDAYQM--LKKQGIIKQDPKLPVDKI 148
>3zyq_A Hepatocyte growth factor-regulated tyrosine kinas substrate;
signaling; 1.48A {Homo sapiens} PDB: 4avx_A*
Length = 226
Score = 104 bits (260), Expect = 1e-28
Identities = 49/88 (55%), Positives = 63/88 (71%)
Query: 10 PSHALASIKKKLTNSNPHIVLYALLVLESCVKNCGNLIHDEVGTKAFMEQMKELVRGTQH 69
+A+ SIKKK+ + NPH+ LYAL V+ES VKNCG +HDEV K ME++K+L++
Sbjct: 43 AKYAVNSIKKKVNDKNPHVALYALEVMESVVKNCGQTVHDEVANKQTMEELKDLLKRQVE 102
Query: 70 EEVKAKILELIQAWAHAFRNSPKYRAVP 97
V+ KIL LIQAWAHAFRN PKY+ V
Sbjct: 103 VNVRNKILYLIQAWAHAFRNEPKYKVVQ 130
>1dvp_A HRS, hepatocyte growth factor-regulated tyrosine kinase substrate;
VHS, FYVE, zinc finger, superhelix, transferase; HET:
CIT; 2.00A {Drosophila melanogaster} SCOP: a.118.9.2
g.50.1.1
Length = 220
Score = 101 bits (253), Expect = 1e-27
Identities = 46/88 (52%), Positives = 61/88 (69%)
Query: 10 PSHALASIKKKLTNSNPHIVLYALLVLESCVKNCGNLIHDEVGTKAFMEQMKELVRGTQH 69
P +A A+IKKK+ + NPH Y+LLVLES VKNCG +H+EV TK E + T H
Sbjct: 40 PKNAFAAIKKKMNSPNPHSSCYSLLVLESIVKNCGAPVHEEVFTKENCEMFSSFLESTPH 99
Query: 70 EEVKAKILELIQAWAHAFRNSPKYRAVP 97
E V+ K+LEL+Q WA+AFR+S KY+A+
Sbjct: 100 ENVRQKMLELVQTWAYAFRSSDKYQAIK 127
>1juq_A ADP-ribosylation factor binding protein GGA3; protein-peptide
compelx, VHS domain, DXXLL sorting signal, signaling
protein; 2.20A {Homo sapiens} SCOP: a.118.9.2 PDB:
1jpl_A 1lf8_A*
Length = 171
Score = 100 bits (249), Expect = 1e-27
Identities = 32/114 (28%), Positives = 53/114 (46%), Gaps = 9/114 (7%)
Query: 10 PSHALASIKKKLTNSNPHIVLYALLVLESCVKNCGNLIHDEVGTKAFMEQMKELVRGTQ- 68
P A+ + K+ + L AL VLE+C+KNCG H+EVG F+ ++ ++V
Sbjct: 48 PQIAVRLLAHKIQSPQEWEALQALTVLEACMKNCGRRFHNEVGKFRFLNELIKVVSPKYL 107
Query: 69 ----HEEVKAKILELIQAWAHAFRNSPKYRAVPTKSWMTDKG--FKNPSKSSDS 116
E+VK K++EL+ +W A K + + +G +P D
Sbjct: 108 GDRVSEKVKTKVIELLYSWTMALPEEAKIKDAYHM--LKRQGIVQSDPPIPVDR 159
>3g2s_A C-terminal fragment of sortilin-related receptor; ADP-ribosylation
factor binding protein GGA1, VHS, acidic- cluster
dileucine signal, sorla; 1.70A {Homo sapiens} PDB:
3g2t_A* 3g2u_A 3g2v_A* 3g2w_A 1ujk_A* 1jwf_A 1ujj_A
1jwg_A* 1py1_A*
Length = 149
Score = 98.8 bits (246), Expect = 2e-27
Identities = 29/92 (31%), Positives = 44/92 (47%), Gaps = 5/92 (5%)
Query: 10 PSHALASIKKKLTNSNPHIVLYALLVLESCVKNCGNLIHDEVGTKAFMEQMKELVRGTQ- 68
P A + K+ + + AL VLE+C+K+CG HDEVG F+ ++ ++V
Sbjct: 46 PPLATRLLAHKIQSPQEWEAIQALTVLETCMKSCGKRFHDEVGKFRFLNELIKVVSPKYL 105
Query: 69 ----HEEVKAKILELIQAWAHAFRNSPKYRAV 96
E+VK KILEL+ +W K
Sbjct: 106 GSRTSEKVKNKILELLYSWTVGLPEEVKIAEA 137
>3ldz_A STAM-1, signal transducing adapter molecule 1; ubiquitin-binding,
cytoplasm, UBL conjugation, endosome, membrane, protein
transport, SH3 domain; 2.60A {Homo sapiens}
Length = 140
Score = 96.2 bits (239), Expect = 2e-26
Identities = 26/87 (29%), Positives = 48/87 (55%), Gaps = 1/87 (1%)
Query: 10 PSHALASIKKKLTNSNPHIVLYALLVLESCVKNCGNLIHDEVGTKAFMEQMKELVRGTQH 69
P L SI +++ + +PH+ + AL +L +CV NCG + H EV ++ F ++ ++ H
Sbjct: 40 PKDCLRSIMRRVNHKDPHVAMQALTLLGACVSNCGKIFHLEVCSRDFASEVSNVLNKG-H 98
Query: 70 EEVKAKILELIQAWAHAFRNSPKYRAV 96
+V K+ L+ W F+N P+ +
Sbjct: 99 PKVCEKLKALMVEWTDEFKNDPQLSLI 125
>1elk_A Target of MYB1; superhelix of helices, endocytosis/exocytosis
complex; 1.50A {Homo sapiens} SCOP: a.118.9.2
Length = 157
Score = 96.2 bits (239), Expect = 3e-26
Identities = 37/91 (40%), Positives = 53/91 (58%), Gaps = 4/91 (4%)
Query: 10 PSHALASIKKKLTNS-NPHIVLYALLVLESCVKNCGNLIHDEVGTKAFMEQMKELV---R 65
P AL ++KK++ + N H V+ AL VLE+CVKNCG+ H V ++ F+E + +
Sbjct: 51 PKDALRAVKKRIVGNKNFHEVMLALTVLETCVKNCGHRFHVLVASQDFVESVLVRTILPK 110
Query: 66 GTQHEEVKAKILELIQAWAHAFRNSPKYRAV 96
V K+L LIQ+WA AFR+SP V
Sbjct: 111 NNPPTIVHDKVLNLIQSWADAFRSSPDLTGV 141
>3rru_A TOM1L1 protein; structural genomics, PSI-biology, northeast
structural genom consortium, NESG, super-helical
protein; 3.00A {Homo sapiens}
Length = 152
Score = 88.9 bits (220), Expect = 2e-23
Identities = 21/91 (23%), Positives = 43/91 (47%), Gaps = 4/91 (4%)
Query: 10 PSHALASIKKKLT-NSNPHIVLYALLVLESCVKNCGNLIHDEVGTKAFMEQMKELV---R 65
P A+ ++KK+++ N N + L +++ CV+NCG + K F+++ + R
Sbjct: 51 PKDAVKALKKRISKNYNHKEIQLTLSLIDMCVQNCGPSFQSLIVKKEFVKENLVKLLNPR 110
Query: 66 GTQHEEVKAKILELIQAWAHAFRNSPKYRAV 96
+++ +IL I+ W+ F V
Sbjct: 111 YNLPLDIQNRILNFIKTWSQGFPGGVDVSEV 141
>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 = 35.8 bits (82), Expect = 0.003
Identities = 38/202 (18%), Positives = 57/202 (28%), Gaps = 78/202 (38%)
Query: 5 EW----TIVPSHA-LASIKKKLTNSNPHIVLYALLVLESCVKNCGNLIHDEVGTKAF--- 56
EW + P L SI S P I + L H V K
Sbjct: 217 EWLENPSNTPDKDYLLSI----PISCPLIGVIQLA-------------HYVVTAKLLGFT 259
Query: 57 MEQMKELVRG-TQHEE--VKAKILELIQAWAHAFRNSPKY------------RAVPTKSW 101
+++ ++G T H + V A + +W F + K A P S
Sbjct: 260 PGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSL 319
Query: 102 MTDKGFKNPSKSSDSL--------------GL---ELQ--IFRIC-------HIHFSEIK 135
PS DSL L ++Q + + + S +
Sbjct: 320 -------PPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVN 372
Query: 136 GIDQIVDSSSSVAL-----WLR 152
G +V S +L LR
Sbjct: 373 GAKNLVVSGPPQSLYGLNLTLR 394
>1sz9_A PCF11 protein; RNA polymerase II CTD interacting domain, arm
repeats, transcription; 2.10A {Saccharomyces cerevisiae}
SCOP: a.118.9.4 PDB: 1sza_A* 2bf0_X
Length = 144
Score = 34.7 bits (79), Expect = 0.004
Identities = 12/83 (14%), Positives = 28/83 (33%), Gaps = 8/83 (9%)
Query: 11 SHALASIKKKLTNSNPHIVLYALLVLESCVKNCGNLIHDEVG---TKAFMEQMKELVRGT 67
+ + +I+ ++ P LYA L+S KN G+ + +
Sbjct: 42 QYFVDAIESRIEKCMPKQKLYAFYALDSICKNVGSPYTIYFSRNLFNLYKRTYLLV---- 97
Query: 68 QHEEVKAKILELIQAWAHAFRNS 90
+ K++ + + W +
Sbjct: 98 -DNTTRTKLINMFKLWLNPNDTG 119
>4flb_A Regulation of nuclear PRE-mRNA domain-containing; structural
genomics consortium, SGC, protein binding; 1.80A {Homo
sapiens}
Length = 132
Score = 30.7 bits (69), Expect = 0.081
Identities = 11/73 (15%), Positives = 23/73 (31%), Gaps = 1/73 (1%)
Query: 11 SHALASIKKKLTNSNPHIVLYALLVLESCVKNCGNLIHDEVGTKAFMEQMKELVRGTQHE 70
S + K L S L + ++NC ++F + + E +
Sbjct: 39 STIVYHWMKWLRRSAYPHRLNLFYLANDVIQNCKRKNAIIFR-ESFADVLPEAAALVKDP 97
Query: 71 EVKAKILELIQAW 83
V + + + W
Sbjct: 98 SVSKSVERIFKIW 110
>3u0r_A Apoptosis inhibitor 5; heat repeat, armadillo repeat, lysine
acetylation; 2.50A {Homo sapiens} PDB: 3v6a_A
Length = 507
Score = 27.6 bits (60), Expect = 1.8
Identities = 16/81 (19%), Positives = 30/81 (37%), Gaps = 17/81 (20%)
Query: 46 LIHDEVGTKAFMEQMKELVRGTQHEEVKA--------------KILELIQAWAHAFRNSP 91
L + G + ++ Q++ ++G E +K I LI+ F P
Sbjct: 380 LQYFARGLQVYIRQLRLALQGKTGEALKTEENKIKVVALKITNNINVLIKDL---FHIPP 436
Query: 92 KYRAVPTKSWMTDKGFKNPSK 112
Y++ T SW + + K
Sbjct: 437 SYKSTVTLSWKPVQKVEIGQK 457
>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 = 26.8 bits (58), Expect = 2.4
Identities = 8/29 (27%), Positives = 14/29 (48%), Gaps = 9/29 (31%)
Query: 16 SIKK-----KL--TNSNPHIVLYALLVLE 37
++KK KL +S P + + A +E
Sbjct: 21 ALKKLQASLKLYADDSAPALAIKA--TME 47
>3nnk_A Ureidoglycine-glyoxylate aminotransferase; PLP-dependent; HET: LLP;
2.58A {Klebsiella pneumoniae}
Length = 411
Score = 27.2 bits (61), Expect = 2.5
Identities = 6/36 (16%), Positives = 12/36 (33%)
Query: 23 NSNPHIVLYALLVLESCVKNCGNLIHDEVGTKAFME 58
N+ V+ L LE+ + +A +
Sbjct: 370 NARKDCVMTTLSALEAVLNYLKFPTTQGAAMQAAWD 405
>2y4o_A Phenylacetate-coenzyme A ligase; phenylacetic acid degradation
pathway; HET: DLL; 1.90A {Burkholderia cenocepacia}
Length = 443
Score = 27.3 bits (61), Expect = 2.6
Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 5/53 (9%)
Query: 44 GNLIHDEVGTKAFMEQMKELVRGTQHEEVKAKILELIQA-WAHAFRNSPKYRA 95
G+ + A +E ++ R +E++A LE ++ HA+ N P YR
Sbjct: 1 GSHMTHPTHPAAALEPIETASR----DELQALQLERLKWSLRHAYDNVPHYRR 49
>2z9v_A Aspartate aminotransferase; pyridoxamine, pyruvate; HET: PXM; 1.70A
{Mesorhizobium loti} PDB: 2z9u_A* 2z9w_A* 2z9x_A*
Length = 392
Score = 26.4 bits (59), Expect = 3.8
Identities = 7/40 (17%), Positives = 14/40 (35%)
Query: 23 NSNPHIVLYALLVLESCVKNCGNLIHDEVGTKAFMEQMKE 62
+ P + AL L + G + G +A + +
Sbjct: 351 TAQPIYAIAALTALGGAMNAAGRKLAIGKGIEAALAVIDA 390
>2y27_A Phenylacetate-coenzyme A ligase; phenylacetic acid degradation
pathway; HET: MSE PG4 ATP; 1.60A {Burkholderia
cenocepacia} PDB: 2y4n_A*
Length = 437
Score = 26.5 bits (59), Expect = 3.9
Identities = 11/40 (27%), Positives = 18/40 (45%), Gaps = 6/40 (15%)
Query: 70 EEVKAKILELIQA-WAHAFRNSPKYRAVPTKSWMTDKGFK 108
+E+ A LE ++ HA+ +SP YR + G
Sbjct: 21 DELTALQLERLKWSLRHAYDHSPVYRR-----KFDEAGVH 55
>1ek9_A Outer membrane protein TOLC; integral membrane protein, alpha
helical barrel, beta barrel; 2.10A {Escherichia coli}
SCOP: f.5.1.1 PDB: 1tqq_A 2vde_A 2vdd_A 2wmz_A* 2xmn_A*
Length = 428
Score = 26.3 bits (58), Expect = 5.3
Identities = 5/17 (29%), Positives = 10/17 (58%)
Query: 79 LIQAWAHAFRNSPKYRA 95
L+Q + A ++P+ R
Sbjct: 3 LMQVYQQARLSNPELRK 19
>3peh_A Endoplasmin homolog; structural genomics, structural genomics
consortium, SGC, HE protein, chaperone, ATP binding;
HET: IBD; 2.75A {Plasmodium falciparum 3D7} PDB: 3pej_A*
Length = 281
Score = 26.0 bits (58), Expect = 5.9
Identities = 4/11 (36%), Positives = 7/11 (63%)
Query: 52 GTKAFMEQMKE 62
GT F+E + +
Sbjct: 120 GTSNFLEAISK 130
>3dwb_A ECE-1, endothelin-converting enzyme 1; protein, disease mutation,
glycoprotein, hirschsprung diseas hydrolase, membrane,
metal-binding; HET: 5HD RDF; 2.38A {Homo sapiens}
Length = 670
Score = 26.2 bits (58), Expect = 6.0
Identities = 10/37 (27%), Positives = 16/37 (43%), Gaps = 5/37 (13%)
Query: 69 HEEVKAKILELIQAWAHAFRNSPKYRAVPTKSWMTDK 105
E+ K+ E+I AF S + T WM ++
Sbjct: 357 AEDSKSIATEIILEIKKAFEES-----LSTLKWMDEE 388
>3m1i_C Exportin-1; heat repeat, GTP-binding, nucleotide-binding, NUCL
protein transport, transport, cytoplasm, GTPase
activation; HET: GTP; 2.00A {Saccharomyces cerevisiae}
PDB: 2l1l_B
Length = 1049
Score = 26.0 bits (56), Expect = 7.9
Identities = 8/77 (10%), Positives = 24/77 (31%), Gaps = 17/77 (22%)
Query: 23 NSNPHIVLYALLVLESCVKNCGNLIHDEVGTKAFMEQMKELVRGTQHEEVKAKILELIQA 82
++NP AL +L+ + L+ ++ ++ ++ +I +
Sbjct: 60 STNPQSKFIALSILDKLITRKWKLLPND-----------------HRIGIRNFVVGMIIS 102
Query: 83 WAHAFRNSPKYRAVPTK 99
+ + K
Sbjct: 103 MCQDDEVFKTQKNLINK 119
>2gqp_A Endoplasmin; GRP94, HSP82, HSP90, HTPG, chaperone, ligand, NECA,
NPCA, adenosine; HET: PA7 PG4 1PE; 1.50A {Canis lupus
familiaris} SCOP: d.122.1.1 PDB: 1tc0_A* 1tbw_A* 1u0z_A*
1u2o_A* 1ysz_A* 1yt0_A* 1yt1_A* 2exl_A* 2fyp_A* 2gfd_A*
1tc6_A* 2h8m_A* 2hch_A* 2hg1_A* 3o2f_A* 2esa_A*
Length = 236
Score = 25.2 bits (56), Expect = 8.7
Identities = 5/11 (45%), Positives = 7/11 (63%)
Query: 52 GTKAFMEQMKE 62
GT F+ +M E
Sbjct: 106 GTSEFLNKMTE 116
>3ied_A Heat shock protein; HSP90, chaperone, structural genomics,
structura genomics consortium, SGC, stress response;
HET: AN2; 2.01A {Plasmodium falciparum}
Length = 272
Score = 25.3 bits (55), Expect = 9.6
Identities = 5/11 (45%), Positives = 9/11 (81%)
Query: 52 GTKAFMEQMKE 62
GT F++Q++E
Sbjct: 157 GTAKFLKQIEE 167
>3isl_A Purine catabolism protein PUCG; pyridoxalphosphate, PLP dependent
enzymes, purine metabolism transaminases,
aminotransferases; HET: PLP; 2.06A {Bacillus subtilis}
Length = 416
Score = 25.3 bits (56), Expect = 9.8
Identities = 7/36 (19%), Positives = 14/36 (38%)
Query: 23 NSNPHIVLYALLVLESCVKNCGNLIHDEVGTKAFME 58
+ VL+ L LE+ + I +A ++
Sbjct: 370 SCRKENVLFVLAGLEAVLLRHNAGIEAGKALQAALD 405
>1qy5_A Endoplasmin; GRP94, NECA, HSP90, chaperone; HET: NEC; 1.75A {Canis
lupus familiaris} SCOP: d.122.1.1 PDB: 1qy8_A* 1qye_A*
1u0y_A* 1yt2_A*
Length = 269
Score = 25.2 bits (56), Expect = 9.8
Identities = 5/11 (45%), Positives = 7/11 (63%)
Query: 52 GTKAFMEQMKE 62
GT F+ +M E
Sbjct: 102 GTSEFLNKMTE 112
>3nmq_A Heat shock protein HSP 90-beta; ATPase, chaperone-chaperone
inhibitor complex; HET: 7PP; 2.20A {Homo sapiens}
Length = 239
Score = 25.2 bits (56), Expect = 9.8
Identities = 7/11 (63%), Positives = 9/11 (81%)
Query: 52 GTKAFMEQMKE 62
GTKAFME ++
Sbjct: 113 GTKAFMEALQA 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
0.320 0.132 0.406
Gapped
Lambda K H
0.267 0.0571 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,368,108
Number of extensions: 123136
Number of successful extensions: 267
Number of sequences better than 10.0: 1
Number of HSP's gapped: 257
Number of HSP's successfully gapped: 41
Length of query: 156
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 70
Effective length of database: 4,300,587
Effective search space: 301041090
Effective search space used: 301041090
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 (21.8 bits)
S2: 53 (24.5 bits)