RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16076
(161 letters)
>1wmh_B Partitioning defective-6 homolog alpha; kinase, PB1 domain, OPCA
motif, APKC, cell polarity, transferase/cell cycle
complex; 1.50A {Homo sapiens} SCOP: d.15.2.2
Length = 86
Score = 91.3 bits (227), Expect = 4e-25
Identities = 28/69 (40%), Positives = 41/69 (59%), Gaps = 2/69 (2%)
Query: 32 FDAEFRRFSVPKPDISTYNEFKILVEKLHHLDEIPFHLTYIATDGDLLPINNDSNLGKAL 91
FDAEFRRF++P+ +S + EF L+ +H + + L Y GDLLP+ ND +L +AL
Sbjct: 13 FDAEFRRFALPRASVSGFQEFSRLLRAVHQIPGLDVLLGYTDAHGDLLPLTNDDSLHRAL 72
Query: 92 L--NSFLRV 98
LR+
Sbjct: 73 ASGPPPLRL 81
>1nf3_C PAR-6B; semi-CRIB motif, switch I and II, PDZ domain, GTPase
binding domain, signaling protein; HET: GNP; 2.10A {Mus
musculus} SCOP: b.36.1.1 PDB: 2lc6_A 1ry4_A 1x8s_A
2lc7_A 1rzx_A
Length = 128
Score = 47.9 bits (114), Expect = 5e-08
Identities = 34/60 (56%), Positives = 42/60 (70%), Gaps = 1/60 (1%)
Query: 90 ALLNSFLRVSQIIDVDVVPETCRRVRLLKSPNSERPLGFYIRDGTSLRVTSTGLDKFLRI 149
++ F VS IIDVD++PET RRVRL K + PLGFYIRDG+S+RVT GL+K I
Sbjct: 9 SMPQDFRPVSSIIDVDILPETHRRVRLCKYGTEK-PLGFYIRDGSSVRVTPHGLEKVPGI 67
>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 = 37.7 bits (87), Expect = 0.001
Identities = 37/159 (23%), Positives = 61/159 (38%), Gaps = 53/159 (33%)
Query: 8 FI---SHYSYPQGITTVYHKYNAFTLSFDAEFRRFSVPKPDISTYNEFKILVEKLHHLDE 64
FI + +YP T++ ++ D+ VP P +S N + V+ ++++
Sbjct: 305 FIGVRCYEAYPN--TSL-----PPSILEDSLENNEGVPSPMLSISNLTQEQVQD--YVNK 355
Query: 65 IPFHL-----TYIATDGDLLPINNDSNL---G--KAL--LNSFLRVSQIIDVDVVPETCR 112
HL I+ L +N NL G ++L LN LR ++ P
Sbjct: 356 TNSHLPAGKQVEIS-----L-VNGAKNLVVSGPPQSLYGLNLTLRKAK------APSGLD 403
Query: 113 RVRLLKSPNSERPLGFYIRDGTSLRVTSTGLDKFLRISS 151
+ R+ P SER L F R FL ++S
Sbjct: 404 QSRI---PFSERKLKFSNR--------------FLPVAS 425
Score = 34.6 bits (79), Expect = 0.012
Identities = 30/169 (17%), Positives = 52/169 (30%), Gaps = 41/169 (24%)
Query: 28 FTLSF-DAEFRRFSVPKPDISTYN----EF-KIL---VEKLHHLDEI--PFHLT-----Y 71
TLS E VP + +F KIL E DE P L Y
Sbjct: 9 LTLSHGSLEHV-LLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGY 67
Query: 72 IATDGDLLPINNDSNLGKALLNSF----LRVSQI------IDVDVVPETCRRVRLLKS-- 119
+++ + + + L F L + I + + + L+K+
Sbjct: 68 VSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYI 127
Query: 120 ---PNSERPLGFYIRDGTS--LRVTSTGLDKFLRI----SSSTKYINDL 159
++RP + S R G + + I ++ Y +L
Sbjct: 128 TARIMAKRPFD---KKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEEL 173
Score = 34.3 bits (78), Expect = 0.015
Identities = 33/159 (20%), Positives = 51/159 (32%), Gaps = 55/159 (34%)
Query: 31 SFDAEFRRFSVP-------------KPDISTYNEF-KILVEKLHHLDEIPFHLTYI--AT 74
+ R+ P K S N F + PFH + A+
Sbjct: 388 GLNLTLRKAKAPSGLDQSRIPFSERKLKFS--NRFLPVAS---------PFHSHLLVPAS 436
Query: 75 D---GDLLPIN---NDSNLGKALLNSF----LR-VSQIIDVDVVPETCR-RVRLLKSPNS 122
D DL+ N N ++ + ++F LR +S I +V R V+ +
Sbjct: 437 DLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQF 496
Query: 123 ER-------PLGFY--------IRDGTSLRVTSTG-LDK 145
+ P G +DGT +RV G LD
Sbjct: 497 KATHILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDI 535
>1va8_A Maguk P55 subfamily member 5; PDZ domain, palmitoylated 5, PALS1
protein, structural genomics, riken structural
genomics/proteomics initiative; NMR {Mus musculus} SCOP:
b.36.1.1
Length = 113
Score = 33.2 bits (76), Expect = 0.011
Identities = 9/26 (34%), Positives = 15/26 (57%), Gaps = 2/26 (7%)
Query: 108 PETCRRVRLLKSPNSERPLGFYIRDG 133
ET + VR+ K+ + PLG +R+
Sbjct: 23 GETVKIVRIEKARDI--PLGATVRNE 46
>2kkc_A Sequestosome-1; P62, PB1, autophagy, ubiquitin-proteasome system,
NF-KB signaling, alternative splicing, apoptosis,
cytoplasm, differentiation; NMR {Rattus norvegicus}
PDB: 2ktr_B
Length = 102
Score = 32.8 bits (74), Expect = 0.012
Identities = 16/67 (23%), Positives = 25/67 (37%), Gaps = 10/67 (14%)
Query: 35 EFRRFSVPKP------DISTYNEFKILVEKLH----HLDEIPFHLTYIATDGDLLPINND 84
E RRFS + + L+ ++ L F Y A GDL+ ++D
Sbjct: 21 EIRRFSFCFSPEPEAEAAAGPGPCERLLSRVAVLFPALRPGGFQAHYRAERGDLVAFSSD 80
Query: 85 SNLGKAL 91
L A+
Sbjct: 81 EELTMAM 87
>2ktr_A Sequestosome-1; autophagy, NF-KB signaling, HOMO-oligomer, PB1
dimer, signaling protein, transport protein; NMR {Rattus
norvegicus}
Length = 117
Score = 32.4 bits (73), Expect = 0.022
Identities = 16/67 (23%), Positives = 24/67 (35%), Gaps = 10/67 (14%)
Query: 35 EFRRFSVPKPDISTYNE------FKILVEKLH----HLDEIPFHLTYIATDGDLLPINND 84
E RRFS + L+ ++ L F Y A GDL+ ++D
Sbjct: 36 EIRRFSFCFSPEPEAEAAAGPGPSERLLSRVAVLFPALRPGGFQAHYRAERGDLVAFSSD 95
Query: 85 SNLGKAL 91
L A+
Sbjct: 96 EELTMAM 102
>2d8i_A T-cell lymphoma invasion and metastasis 1 variant; PDZ domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 114
Score = 32.3 bits (73), Expect = 0.023
Identities = 5/33 (15%), Positives = 15/33 (45%)
Query: 103 DVDVVPETCRRVRLLKSPNSERPLGFYIRDGTS 135
++++ P+ + + + KS + GF +
Sbjct: 8 EIEICPKVTQSIHIEKSDTAADTYGFSLSSVEE 40
>2ejy_A 55 kDa erythrocyte membrane protein; GPC, maguk, PDZ, membrane
protein; NMR {Homo sapiens} PDB: 2ev8_A
Length = 97
Score = 31.2 bits (71), Expect = 0.041
Identities = 4/26 (15%), Positives = 9/26 (34%), Gaps = 2/26 (7%)
Query: 108 PETCRRVRLLKSPNSERPLGFYIRDG 133
R ++ K P+G ++
Sbjct: 10 GHMVRLIQFEKVTE--EPMGICLKLN 33
>2e7k_A Maguk P55 subfamily member 2; PDZ domain, MPP2 protein, discs large
homolog 2, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 91
Score = 29.7 bits (67), Expect = 0.13
Identities = 6/26 (23%), Positives = 9/26 (34%), Gaps = 2/26 (7%)
Query: 109 ETCRRVRLLKSPNSERPLGFYIRDGT 134
+ R V + K+ LG R
Sbjct: 5 SSGRMVGIRKTAGE--HLGVTFRVEG 28
>3o46_A Maguk P55 subfamily member 7; PDZ domain, structural genomics
consortium, SGC, protein BIN; 1.30A {Homo sapiens}
Length = 93
Score = 28.5 bits (64), Expect = 0.33
Identities = 7/26 (26%), Positives = 14/26 (53%), Gaps = 3/26 (11%)
Query: 108 PETCRRVRLLKSPNSERPLGFYIRDG 133
++ + +RL+K+ PLG I+
Sbjct: 2 SDSVKIIRLVKN---REPLGATIKKD 24
>1kwa_A Hcask/LIN-2 protein; PDZ domain, neurexin, syndecan, receptor
clustering, kinase; 1.93A {Homo sapiens} SCOP: b.36.1.1
Length = 88
Score = 28.5 bits (64), Expect = 0.34
Identities = 5/23 (21%), Positives = 11/23 (47%), Gaps = 2/23 (8%)
Query: 111 CRRVRLLKSPNSERPLGFYIRDG 133
R V+ K+ + P+G ++
Sbjct: 2 SRLVQFQKNTD--EPMGITLKMN 22
>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 = 29.1 bits (64), Expect = 0.72
Identities = 32/195 (16%), Positives = 64/195 (32%), Gaps = 46/195 (23%)
Query: 7 KFISHYSYPQGITTVYHKYNAFTLSFDAEFRR----FSVPKPDI-------------STY 49
H + + T + N AE+R+ SV P
Sbjct: 345 DNWKHVNCDKLTTIIESSLNVLE---PAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIK 401
Query: 50 NEFKILVEKLHH---LDEIPFHLTYIATDGDL---LPINNDSNLGKALLNSFLRVSQIID 103
++ ++V KLH +++ P T L + + N+ L +++++ +
Sbjct: 402 SDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDS 461
Query: 104 VDVVPETCRRV-------RLLKSPNSERPLGF---Y---------IR-DGTSLRVTSTGL 143
D++P + L + ER F + IR D T+ + + L
Sbjct: 462 DDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSIL 521
Query: 144 DKFLRISSSTKYIND 158
+ ++ YI D
Sbjct: 522 NTLQQLKFYKPYICD 536
>3qe1_A Sorting nexin-27, G protein-activated inward RECT potassium channel
3 chimera; PDZ domain, PDZ binding, GIRK3 regulation,
early endosomes; 1.68A {Rattus norvegicus} PDB: 3qdo_A
3qgl_A
Length = 107
Score = 27.3 bits (61), Expect = 1.3
Identities = 9/24 (37%), Positives = 13/24 (54%), Gaps = 3/24 (12%)
Query: 112 RRVRLLKSPNSERPLGFYIRDGTS 135
R VR++KS + GF +R S
Sbjct: 8 RVVRIVKSESG---YGFNVRGQVS 28
>1bf2_A Isoamylase; hydrolase, glycosidase, debranching enzyme; 2.00A
{Pseudomonas amyloderamosa} SCOP: b.1.18.2 b.71.1.1
c.1.8.1
Length = 750
Score = 27.7 bits (62), Expect = 2.2
Identities = 9/36 (25%), Positives = 17/36 (47%), Gaps = 2/36 (5%)
Query: 25 YNAFTLSFDAEFRRFSVPKPDISTYNEFKILVEKLH 60
Y T ++ + RR++ K EF+ +V+ H
Sbjct: 250 YM--TENYFSPDRRYAYNKAAGGPTAEFQAMVQAFH 283
>2vr5_A Glycogen operon protein GLGX; hydrolase, glycosidase, glycosyl
hydrolase, glycogen debraching; HET: GLC A16; 2.8A
{Sulfolobus solfataricus} PDB: 2vnc_A* 2vuy_A
Length = 718
Score = 27.3 bits (61), Expect = 2.4
Identities = 9/36 (25%), Positives = 16/36 (44%), Gaps = 2/36 (5%)
Query: 25 YNAFTLSFDAEFRRFSVPKPDISTYNEFKILVEKLH 60
Y+ ++F + R+S FK +V +LH
Sbjct: 244 YD--PINFFSPECRYSSTGCLGGQVLSFKKMVNELH 277
>2eaq_A LIM domain only protein 7; conserved hypothetical protein,
structural genomics, NPPSFA; 1.46A {Homo sapiens}
Length = 90
Score = 26.2 bits (58), Expect = 2.5
Identities = 5/24 (20%), Positives = 10/24 (41%)
Query: 112 RRVRLLKSPNSERPLGFYIRDGTS 135
R+ + ++P GF I+
Sbjct: 5 MRISINQTPGKSLDFGFTIKWDIP 28
>1vd2_A Protein kinase C, IOTA type; PB1 domain, OPCA motif, APKC, ZIP/P62,
MEK5, molecular recognition, transferase; NMR {Homo
sapiens} SCOP: d.15.2.2 PDB: 1wmh_A
Length = 89
Score = 24.9 bits (54), Expect = 6.6
Identities = 14/80 (17%), Positives = 28/80 (35%), Gaps = 3/80 (3%)
Query: 30 LSFDAEFRRFSVPKPDISTYNEFKILVEKLHHLD-EIPFHLTYIATDGDLLPINNDSNLG 88
+ + P I ++ V + D E F + +I +GD +++ L
Sbjct: 11 AYYRGDIMITHFE-PSI-SFEGLCNEVRDMCSFDNEQLFTMKWIDEEGDPCTVSSQLELE 68
Query: 89 KALLNSFLRVSQIIDVDVVP 108
+A L + + V P
Sbjct: 69 EAFRLYELNKDSELLIHVFP 88
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 0.139 0.401
Gapped
Lambda K H
0.267 0.0700 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,523,105
Number of extensions: 143381
Number of successful extensions: 271
Number of sequences better than 10.0: 1
Number of HSP's gapped: 268
Number of HSP's successfully gapped: 29
Length of query: 161
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 75
Effective length of database: 4,300,587
Effective search space: 322544025
Effective search space used: 322544025
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 (24.3 bits)