RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5450
(133 letters)
>1wxa_A Afadin, AF-6 protein; RAS-binding domain, ubiquitin-like fold,
structural genomics, NPPSFA; NMR {Mus musculus} SCOP:
d.15.1.5
Length = 116
Score = 114 bits (287), Expect = 3e-34
Identities = 40/109 (36%), Positives = 53/109 (48%), Gaps = 9/109 (8%)
Query: 19 KDGGPDTGGTLKIYGESLCRDVPYKTLLLSVRDNATQVVKEMLAKYGLTREDAHQYCLVQ 78
G +GGTL+IY +SL ++PYKT+LLS D A V E L KYGL +E+ YC+ +
Sbjct: 2 SSGSSGSGGTLRIYADSLKPNIPYKTILLSTTDTADFAVAESLEKYGLEKENPKDYCIAR 61
Query: 79 VNTAIPETPNTAQQNGGDQFMNNQREYILDEDECPLAILMNHPQSRESR 127
V +E ILD+DECPL I P +
Sbjct: 62 VML---------PPGAQHSDERGAKEIILDDDECPLQIFREWPSDKGIL 101
>3ec8_A Putative uncharacterized protein FLJ10324; beta barrel, helix,
structural genomics, structural genomics consortium,
SGC, cell adhesion; 2.60A {Homo sapiens}
Length = 166
Score = 99.4 bits (247), Expect = 1e-27
Identities = 30/109 (27%), Positives = 48/109 (44%), Gaps = 10/109 (9%)
Query: 25 TGGTLKIYGESLCRDVPYKTLLLSVRDNATQVVKEMLAKYGLTREDAHQYCLVQVNTAIP 84
G LK++G+S+C YK++L + +A ++VKE L +Y L A QY L V
Sbjct: 34 APGVLKVFGDSVCTGTHYKSVLATGTSSARELVKEALERYALDPRQAGQYVLCDVV---- 89
Query: 85 ETPNTAQQNGGDQFMNNQREYILDEDECPLAIL-MNHPQSRESRTIQFK 132
Q Q + + + E PL I + P+ SR + +
Sbjct: 90 -----GQAGDAGQRWQARCFRVFGDSEKPLLIQELWKPREGLSRRFELR 133
>3kh0_A Ralgds, ralgef, RAL guanine nucleotide dissociation stimulator;
structural genomics consortium, SGC, RAS-association
domain, alternative splicing; 2.10A {Homo sapiens} PDB:
2rgf_A 1lxd_A
Length = 140
Score = 43.2 bits (101), Expect = 2e-06
Identities = 16/52 (30%), Positives = 30/52 (57%), Gaps = 5/52 (9%)
Query: 42 YKTLLLSVRDNATQVVKEMLAKYGLTREDAHQYCLVQVNTA-----IPETPN 88
YK++L++ +D A V+++ + K+ L E+ Y L+Q+ + IPE N
Sbjct: 40 YKSILVTSQDKAPAVIRKAMDKHNLEEEEPEDYELLQILSDDRKLKIPENAN 91
>2c5l_C Phosphoinositide-specific phospholipase C PLC-epsilon; signaling
protein/complex, RAS, ubiquitin superfold, oncogene,
GTP-binding; HET: GTP; 1.9A {Homo sapiens} SCOP:
d.15.1.5 PDB: 2byf_A
Length = 117
Score = 41.3 bits (96), Expect = 8e-06
Identities = 14/85 (16%), Positives = 26/85 (30%), Gaps = 13/85 (15%)
Query: 37 CRDVPYKTLLLSVRDNATQVVKEMLAK-----YGLTREDAHQYCLVQVNTAIPETPNTAQ 91
+ P + A V+++ L K L+ + Y L++ T
Sbjct: 16 SPEQPRTVIKAPRVSTAQDVIQQTLCKAKYSLSILSNPNPSDYVLLEEVVKDTTNKKTTT 75
Query: 92 QNGGDQFMNNQREYILDEDECPLAI 116
+QR +L + EC
Sbjct: 76 PKS------SQR--VLLDQECVFQA 92
>1lfd_A Ralgds; RAL, effector interaction; HET: GNP; 2.10A {Rattus
norvegicus} SCOP: d.15.1.5 PDB: 2b3a_A
Length = 87
Score = 39.8 bits (93), Expect = 2e-05
Identities = 15/52 (28%), Positives = 29/52 (55%), Gaps = 5/52 (9%)
Query: 42 YKTLLLSVRDNATQVVKEMLAKYGLTREDAHQYCLVQV-----NTAIPETPN 88
YK++L++ +D A V+++ + K+ L ++ Y L+Q+ IPE N
Sbjct: 18 YKSILVTSQDKAPTVIRKAMDKHNLDEDEPEDYELLQIISEDHKLKIPENAN 69
>1rlf_A RLF, RLF-RBD; signal transduction protein; NMR {Mus musculus} SCOP:
d.15.1.5
Length = 90
Score = 39.8 bits (93), Expect = 2e-05
Identities = 19/70 (27%), Positives = 31/70 (44%), Gaps = 7/70 (10%)
Query: 42 YKTLLLSVRDNATQVVKEMLAKYGLTREDAHQYCLVQV-----NTAIPETPNT--AQQNG 94
YK++L++ +D A V+ +L K A ++ LVQ+ IP + N A
Sbjct: 21 YKSILVTSQDKAPSVISRVLKKNNRDSAVASEFELVQLLPGDRELTIPHSANVFYAMDGA 80
Query: 95 GDQFMNNQRE 104
F+ QR
Sbjct: 81 SHDFLLRQRR 90
>1rax_A Protein (RA-domain of RAL guanosine dissociation stimulator);
RAS-binding domain, ralgef, ralgds, RAS; NMR {Homo
sapiens} SCOP: d.15.1.5
Length = 115
Score = 39.6 bits (92), Expect = 3e-05
Identities = 16/52 (30%), Positives = 29/52 (55%), Gaps = 5/52 (9%)
Query: 42 YKTLLLSVRDNATQVVKEMLAKYGLTREDAHQYCLVQV-----NTAIPETPN 88
YK++L++ +D A V+++ + K+ L E+ Y L+Q+ IPE N
Sbjct: 43 YKSILVTSQDKAPAVIRKAMDKHNLEEEEPEDYELLQILSDDRKLKIPENAN 94
>1ef5_A RGL; RAS-binding domain, RAS, RBD, RA, riken structural
genomics/proteomics initiative, RSGI, structural
genomics, signaling protein; NMR {Mus musculus} SCOP:
d.15.1.5
Length = 103
Score = 39.1 bits (91), Expect = 4e-05
Identities = 16/52 (30%), Positives = 30/52 (57%), Gaps = 5/52 (9%)
Query: 42 YKTLLLSVRDNATQVVKEMLAKYGLTREDAHQYCLVQV-----NTAIPETPN 88
YK+++L+ +D V++ ++K+ L + A +Y LVQV IP++ N
Sbjct: 33 YKSIMLTSQDKTPAVIQRAMSKHNLESDPAEEYELVQVISEDKELVIPDSAN 84
>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 = 37.0 bits (85), Expect = 0.001
Identities = 16/85 (18%), Positives = 29/85 (34%), Gaps = 17/85 (20%)
Query: 16 FRSKDGGPDTGGTLKIYGESLCRDVPYKTLLLSVRDNATQVVKEMLAKYGLTREDAHQYC 75
R + P+T I +SL + + +LS+ LT+E Y
Sbjct: 308 VRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSIS--------------NLTQEQVQDY- 352
Query: 76 LVQVNTAIPETP--NTAQQNGGDQF 98
+ + N+ +P + NG
Sbjct: 353 VNKTNSHLPAGKQVEISLVNGAKNL 377
>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 = 36.0 bits (82), Expect = 0.002
Identities = 22/130 (16%), Positives = 42/130 (32%), Gaps = 32/130 (24%)
Query: 2 RRRRQQKLEQKLQQFRSKDG----GPDTGGTLKIYGES-----LCRDVPYKTLL------ 46
R + KL Q L + R G G+ G++ +C + +
Sbjct: 133 RLQPYLKLRQALLELRPAKNVLIDGV--LGS----GKTWVALDVCLSYKVQCKMDFKIFW 186
Query: 47 LSV-RDNATQVVKEMLAKYGLTREDAHQYC-LVQVNTAIPETPNTAQQNGGDQFMNNQRE 104
L++ N+ + V EML K L + + ++ I ++ Q +
Sbjct: 187 LNLKNCNSPETVLEMLQK--LLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLK--SKP 242
Query: 105 Y-----ILDE 109
Y +L
Sbjct: 243 YENCLLVLLN 252
Score = 32.5 bits (73), Expect = 0.029
Identities = 16/83 (19%), Positives = 33/83 (39%), Gaps = 18/83 (21%)
Query: 9 LEQKLQQFRSKDGGP----DTGGTLKIYGESLCRDVPYKTLLLS-------------VRD 51
LEQK++ + +T LK Y +C + P L++ +
Sbjct: 503 LEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICS 562
Query: 52 NATQVVK-EMLAKYGLTREDAHQ 73
T +++ ++A+ E+AH+
Sbjct: 563 KYTDLLRIALMAEDEAIFEEAHK 585
Score = 26.7 bits (58), Expect = 2.8
Identities = 11/49 (22%), Positives = 17/49 (34%), Gaps = 5/49 (10%)
Query: 29 LKIYGESLCRDVPYKTLLLSVRDNATQVVKEM---LAKYGLTREDAHQY 74
L ++ S +P L L D V + L KY L + +
Sbjct: 378 LSVFPPSA--HIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKES 424
>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 = 34.5 bits (78), Expect = 0.004
Identities = 7/29 (24%), Positives = 12/29 (41%), Gaps = 7/29 (24%)
Query: 5 RQQ--KLEQKLQQFRSKDGGPDTGGTLKI 31
+Q KL+ L+ + D+ L I
Sbjct: 19 KQALKKLQASLKLY-----ADDSAPALAI 42
Score = 32.6 bits (73), Expect = 0.015
Identities = 13/50 (26%), Positives = 20/50 (40%), Gaps = 24/50 (48%)
Query: 6 QQKLEQKLQQFRSKDGGPDTGGTLKIYG-ESLCRDVPYKTLLLSVRDNAT 54
+Q L +KLQ +LK+Y +S P L++ AT
Sbjct: 19 KQAL-KKLQ------------ASLKLYADDS----AP----ALAI--KAT 45
>2ii1_A Acetamidase; 10172637, structural genomics, joint center for
structural genomics, PSI-2, protein structure
initiative, J hydrolase; 1.95A {Bacillus halodurans}
Length = 301
Score = 27.7 bits (61), Expect = 1.1
Identities = 5/43 (11%), Positives = 15/43 (34%)
Query: 43 KTLLLSVRDNATQVVKEMLAKYGLTREDAHQYCLVQVNTAIPE 85
+TL + + + + L+ E+A + + +
Sbjct: 233 ETLDAAAVQATKNMATFLANRTALSIEEAGMLLSGAGDLYVSQ 275
>1gax_A Valrs, valyl-tRNA synthetase; protein-RNA complex, rossmann fold,
coiled coil, riken structural genomics/proteomics
initiative, RSGI; HET: VAA; 2.90A {Thermus thermophilus}
SCOP: a.2.7.3 a.27.1.1 b.51.1.1 c.26.1.1 PDB: 1ivs_A*
1iyw_A
Length = 862
Score = 27.5 bits (62), Expect = 1.6
Identities = 11/19 (57%), Positives = 13/19 (68%), Gaps = 1/19 (5%)
Query: 53 ATQ-VVKEMLAKYGLTRED 70
ATQ VV+ +L K G TR D
Sbjct: 86 ATQVVVERLLLKEGKTRHD 104
>3lwa_A Secreted thiol-disulfide isomerase; thioredoxin, PSI, MCSG,
structural genomics, midwest center for structural
genomics; 1.75A {Corynebacterium glutamicum}
Length = 183
Score = 27.0 bits (60), Expect = 1.7
Identities = 13/84 (15%), Positives = 25/84 (29%), Gaps = 23/84 (27%)
Query: 11 QKLQQFRSKDGGPDTGGTLKIYGESLCRDVPYKTLLLSVRDNATQVVKEMLAKYGLT--- 67
Q + + + G + G ++VRD + + ++ + GL
Sbjct: 82 QIIHE-ELQAAGNGDTPGGTVLG-------------INVRDYSRDIAQDFVTDNGLDYPS 127
Query: 68 -----REDAHQYCLVQVNTAIPET 86
A V + IP T
Sbjct: 128 IYDPPFMTAASLGGVPAS-VIPTT 150
>2j91_A Adenylosuccinate lyase; disease mutation, adenylosuccinase, succino
AMP-lyase, purin biosynthesis, adenylosuccinase DEFI
AMP, ADSL, saicar, purine; HET: AMP; 1.8A {Homo sapiens}
PDB: 2vd6_A*
Length = 503
Score = 27.3 bits (61), Expect = 1.7
Identities = 15/62 (24%), Positives = 29/62 (46%), Gaps = 7/62 (11%)
Query: 53 ATQVVKEMLAKYGLTREDAHQYCLVQVNTAIPETPNTAQQNGGDQFMNNQREYILDEDEC 112
AT+ + + K G +R+D H+ ++V + + + +Q GGD N+ E I +
Sbjct: 403 ATENIIMAMVKAGGSRQDCHE--KIRVLSQ--QAASVVKQEGGD---NDLIERIQVDAYF 455
Query: 113 PL 114
Sbjct: 456 SP 457
>3ov2_A Curcumin synthase; type III polyketide synthase, transferase; 2.32A
{Curcuma longa} PDB: 3ov3_A
Length = 393
Score = 26.8 bits (59), Expect = 2.3
Identities = 9/48 (18%), Positives = 17/48 (35%), Gaps = 5/48 (10%)
Query: 36 LCRDVPYKTLLLSVRDNATQVVKEMLAKYGLTREDAHQYCLVQVNTAI 83
+P + DN + ++ LA G+ + + N AI
Sbjct: 267 FLNQLPAI-----IADNLGRSLERALAPLGVREWNDVFWVAHPGNWAI 309
>3mjj_A Predicted acetamidase/formamidase; beta/alpha structure, hydrolase;
1.99A {Thermoanaerobacter tengcongensis} PDB: 3tkk_A
Length = 301
Score = 26.6 bits (58), Expect = 2.8
Identities = 7/42 (16%), Positives = 12/42 (28%), Gaps = 4/42 (9%)
Query: 48 SVRDNATQVVKEML----AKYGLTREDAHQYCLVQVNTAIPE 85
S+ V +M L+ E + N I +
Sbjct: 236 SLDKAVEIAVHDMAELFKKHTDLSTEGIATLFSITGNAQISQ 277
>2wu9_A 3-ketoacyl-COA thiolase 2, peroxisomal; cysteine oxidation, fatty
acid metabolism, oxylipin biosynthesis, plant lipid
metabolism; 1.50A {Arabidopsis thaliana} PDB: 2c7y_A
2c7z_A 2wua_A
Length = 442
Score = 26.8 bits (60), Expect = 2.8
Identities = 10/70 (14%), Positives = 23/70 (32%), Gaps = 21/70 (30%)
Query: 59 EMLA-KYGLTREDAHQYCLV-QVNTAIPETPNTAQQNG-------------GDQFMNNQR 103
E +A ++G++R++ Q + A A G D +++
Sbjct: 181 ENVAQRFGVSRQEQDQAAVDSHRKAA------AATAAGKFKDEIIPVKTKLVDPKTGDEK 234
Query: 104 EYILDEDECP 113
+ D+
Sbjct: 235 PITVSVDDGI 244
>1quu_A Human skeletal muscle alpha-actinin 2; triple-helix coiled coil,
contractIle protein; 2.50A {Homo sapiens} SCOP: a.7.1.1
a.7.1.1
Length = 250
Score = 26.2 bits (57), Expect = 3.8
Identities = 7/16 (43%), Positives = 11/16 (68%)
Query: 4 RRQQKLEQKLQQFRSK 19
RR ++LE ++FR K
Sbjct: 7 RRLERLEHLAEKFRQK 22
>1yis_A Adenylosuccinate lyase; structural genomics, PSI, P structure
initiative, southeast collaboratory for structura
genomics, secsg; 2.40A {Caenorhabditis elegans}
Length = 478
Score = 26.1 bits (58), Expect = 4.0
Identities = 6/29 (20%), Positives = 13/29 (44%), Gaps = 2/29 (6%)
Query: 53 ATQVVKEMLAKYGLTREDAHQYCLVQVNT 81
+ ML + G+ R+ AH +++
Sbjct: 377 GLEKAMMMLTEEGVDRQQAHA--VIRKTA 403
>4eei_A Adenylosuccinate lyase; structural genomics, niaid, national
institute of allergy AN infectious diseases; HET: AMP;
1.92A {Francisella tularensis subsp}
Length = 438
Score = 25.7 bits (57), Expect = 5.6
Identities = 6/21 (28%), Positives = 10/21 (47%), Gaps = 2/21 (9%)
Query: 61 LAKYGLTREDAHQYCLVQVNT 81
+A RED ++ +VQ
Sbjct: 361 VANTPFMREDCYK--IVQQVA 379
>2v7s_A Probable conserved lipoprotein LPPA; unknown function, putative
lipoprotein; 1.96A {Mycobacterium tuberculosis}
Length = 215
Score = 25.3 bits (54), Expect = 6.6
Identities = 14/57 (24%), Positives = 21/57 (36%), Gaps = 1/57 (1%)
Query: 18 SKDGGPDTGGTLKIYGESLCRDVPYK-TLLLSVRDNATQVVKEMLAKYGLTREDAHQ 73
++G T I + V + T A +V+E AKYG T E +
Sbjct: 98 DRNGALCDKLTADIARRPIANSVMFGATFSAEDFKIAANIVREEAAKYGATTESSLF 154
>1dof_A Adenylosuccinate lyase; purine biosynthesis; 2.10A {Pyrobaculum
aerophilum} SCOP: a.127.1.1
Length = 403
Score = 25.3 bits (56), Expect = 8.6
Identities = 5/29 (17%), Positives = 12/29 (41%), Gaps = 2/29 (6%)
Query: 53 ATQVVKEMLAKYGLTREDAHQYCLVQVNT 81
T+ + K G +R +A++ +
Sbjct: 353 LTEFHMNRMIKEGASRAEAYK--KAKEVK 379
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
0.317 0.133 0.383
Gapped
Lambda K H
0.267 0.0727 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,865,529
Number of extensions: 95300
Number of successful extensions: 303
Number of sequences better than 10.0: 1
Number of HSP's gapped: 299
Number of HSP's successfully gapped: 32
Length of query: 133
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 50
Effective length of database: 4,384,350
Effective search space: 219217500
Effective search space used: 219217500
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (23.8 bits)