RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15594
(200 letters)
>3l6x_A Catenin delta-1; catenin, armadillo, ARM, JMD, CE adhesion,
complex, cell-CELL adhesion, ARVCF, delta-catenin DP120,
JAC-1, cell membrane, membrane; 2.40A {Homo sapiens}
PDB: 3l6y_A
Length = 584
Score = 108 bits (271), Expect = 6e-28
Identities = 49/191 (25%), Positives = 84/191 (43%), Gaps = 35/191 (18%)
Query: 1 MRDLVQKLPSGNAQHDQGTSDDTIAAVLATLNEVIKKNAEFSRNASSAGEYARKKLRECE 60
+ +LV+ LP G S+DT+ ++L T+NEVI +N E ++
Sbjct: 397 IPNLVKNLPGGQQNSSWNFSEDTVISILNTINEVIAENLEAAK----------------- 439
Query: 61 GLIDSLLYVVKSAIEKSLLESGGVERLMNITKQRQKYTPRVLKFAGQVLFTMWQHQELRE 120
L E+ G+E+L+ I K + + ++ A VL T+W ++ELR+
Sbjct: 440 ----------------KLRETQGIEKLVLINKSG-NRSEKEVRAAALVLQTIWGYKELRK 482
Query: 121 VYKKHGWKEQDFVTKTVAARNAGPNSPNNANSTLNRPMASQGGTRYEDRTIQRPNQNMEA 180
+K GWK+ DF A + S + +STL +Q + DR + +
Sbjct: 483 PLEKEGWKKSDFQVNLNNASRSQS-SHSYDDSTLPLIDRNQKSDKKPDREEIQMSNMGSN 541
Query: 181 SRSLIQNYTNY 191
++SL NY+
Sbjct: 542 TKSLDNNYSTP 552
Score = 40.3 bits (93), Expect = 3e-04
Identities = 24/82 (29%), Positives = 45/82 (54%), Gaps = 1/82 (1%)
Query: 4 LVQKLPSGNAQHDQGTSDDTIAAVLATLNEVIKKNAEFSRNASSAGEYARKKLRECEGLI 63
L ++ ++ ++ ++D + V+ A RN SS AR+KLREC+GL+
Sbjct: 179 LTDEVIIPHSGWEREPNEDCKPRHIEW-ESVLTNTAGCLRNVSSERSEARRKLRECDGLV 237
Query: 64 DSLLYVVKSAIEKSLLESGGVE 85
D+L+++V++ I + +S VE
Sbjct: 238 DALIFIVQAEIGQKDSDSKLVE 259
>1xm9_A Plakophilin 1; armadillo repeat, cell adhesion; 2.80A {Homo
sapiens} SCOP: a.118.1.24
Length = 457
Score = 57.5 bits (138), Expect = 3e-10
Identities = 16/121 (13%), Positives = 39/121 (32%), Gaps = 37/121 (30%)
Query: 1 MRDLVQKLPSGNAQHDQGTSDDTIAAVLATLNEVIKKNAEFSRNASSAGEYARKKLRECE 60
++ + L S S+D +++ T+ ++ + +
Sbjct: 373 FPEVTRLLTSHTGNTSN--SEDILSSACYTVRNLMASQPQLA------------------ 412
Query: 61 GLIDSLLYVVKSAIEKSLLESGGVERLMNITKQRQKYTPRVLKFAGQVLFTMWQHQELRE 120
K S + ++N+ + +P+ + A +L MW +EL+
Sbjct: 413 ---------------KQYFSSSMLNNIINLCRSSA--SPKAAEAARLLLSDMWSSKELQG 455
Query: 121 V 121
V
Sbjct: 456 V 456
Score = 35.2 bits (80), Expect = 0.010
Identities = 22/72 (30%), Positives = 32/72 (44%), Gaps = 2/72 (2%)
Query: 18 GTSDDTIAAVLATLNEVIKKNA-EFSRNASSAGEYARKKLRECEGLIDSLLYVVKSAIEK 76
G D ++ + NA RN SSA R+ +R GLIDSL+ V++ +
Sbjct: 142 GWCDGNSNMSREVVDPEVFFNATGCLRNLSSADA-GRQTMRNYSGLIDSLMAYVQNCVAA 200
Query: 77 SLLESGGVERLM 88
S + VE M
Sbjct: 201 SRCDDKSVENCM 212
>3tt9_A Plakophilin-2; cell adhesion; 1.55A {Homo sapiens}
Length = 233
Score = 48.4 bits (115), Expect = 3e-07
Identities = 19/43 (44%), Positives = 25/43 (58%)
Query: 43 RNASSAGEYARKKLRECEGLIDSLLYVVKSAIEKSLLESGGVE 85
RN SSAG RK +R C+GLIDSL++ V+ I + E
Sbjct: 176 RNMSSAGADGRKAMRRCDGLIDSLVHYVRGTIADYQPDDKATE 218
>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 = 41.8 bits (97), Expect = 9e-05
Identities = 19/138 (13%), Positives = 41/138 (29%), Gaps = 26/138 (18%)
Query: 54 KKLRECEGLIDSLLYVVKSAIEKSLLESG----GVERLMNITKQRQKYTPRVLKFAGQVL 109
+C+ + D ++ ++ S G RL +Q+ V KF +V
Sbjct: 30 VDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEM--VQKFVEEV- 86
Query: 110 FTMWQHQELREVYKKHGWKEQDFVTKTVAARNAGPNSPNNA-NSTLNRPMASQGGTRYED 168
LR Y F+ + P+ +R +
Sbjct: 87 --------LRINY--------KFLMSPIKTEQRQPSMMTRMYIEQRDR--LYNDNQVFAK 128
Query: 169 RTIQRPNQNMEASRSLIQ 186
+ R ++ ++L++
Sbjct: 129 YNVSRLQPYLKLRQALLE 146
>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 = 40.4 bits (94), Expect = 3e-04
Identities = 28/136 (20%), Positives = 48/136 (35%), Gaps = 43/136 (31%)
Query: 10 SGNAQHDQGTSDDTIAAVLATLNE-VIKKNAEFSRNASSAGEYARKKLRECEGLIDSLLY 68
GN H +AA L N+ + K E +N +A A++ + +S L+
Sbjct: 97 EGNDIH-------ALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKS---NSALF 146
Query: 69 VVKSAIEKSLLESGGVERLMNITKQRQKYTPRVLKFAGQ----VLFTMWQHQELREVYKK 124
++ G +L+ I F GQ F +ELR++Y+
Sbjct: 147 --RAV------GEGNA-QLVAI-------------FGGQGNTDDYF-----EELRDLYQT 179
Query: 125 HGWKEQDFVTKTVAAR 140
+ D + K A
Sbjct: 180 YHVLVGDLI-KFSAET 194
Score = 36.2 bits (83), Expect = 0.006
Identities = 24/165 (14%), Positives = 49/165 (29%), Gaps = 74/165 (44%)
Query: 1 MRDLVQKLPSGNAQHDQGTSDDT------IAAV-LATLNEVIKKNAEFSRNASSA----G 49
+++ + S + ++G T + + A E +K +A+ A G
Sbjct: 1707 FKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAF-EDLKSKGLIPADATFAGHSLG 1765
Query: 50 EYA--------------------RKKL-----------RECEGLI-------------DS 65
EYA R R G+I ++
Sbjct: 1766 EYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEA 1825
Query: 66 LLYVVKSAIEKS--LLE-------------SG---GVERLMNITK 92
L YVV+ +++ L+E +G ++ + N+
Sbjct: 1826 LQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLN 1870
>3gs3_A Symplekin, LD45768P; helix-turn-helix heat repeat extended loop,
transcription, protein binding; 2.40A {Drosophila
melanogaster}
Length = 257
Score = 34.6 bits (79), Expect = 0.013
Identities = 10/46 (21%), Positives = 17/46 (36%)
Query: 58 ECEGLIDSLLYVVKSAIEKSLLESGGVERLMNITKQRQKYTPRVLK 103
E ++D LL + S+ L I K R + V++
Sbjct: 209 EGNNILDILLQFHGTTHISSVNLIACTSSLCTIAKMRPIFMGAVVE 254
>3o2t_A Symplekin; heat repeat, scaffold, protein binding; 1.40A {Homo
sapiens} PDB: 3odr_A 3ods_A 3o2q_A* 3o2s_A
Length = 386
Score = 33.6 bits (76), Expect = 0.036
Identities = 10/47 (21%), Positives = 21/47 (44%)
Query: 58 ECEGLIDSLLYVVKSAIEKSLLESGGVERLMNITKQRQKYTPRVLKF 104
E + ++ LL + S+ + + L NI +QR + V++
Sbjct: 222 EGKAALEQLLKFMVHPAISSINLTTALGSLANIARQRPMFMSEVIQA 268
>2eo5_A 419AA long hypothetical aminotransferase; PLP enzyme, structural
genomics, NPPSFA, N project on protein structural and
functional analyses; HET: PLP; 1.90A {Sulfolobus
tokodaii}
Length = 419
Score = 30.6 bits (70), Expect = 0.31
Identities = 4/34 (11%), Positives = 15/34 (44%), Gaps = 4/34 (11%)
Query: 25 AAVLATLNEVIKKNAEFSRNASSAGEYARKKLRE 58
A + +++K + + + G+ ++L+
Sbjct: 318 AIGSKVI-DIVK---DLLPHVNEIGKIFAEELQG 347
>3oks_A 4-aminobutyrate transaminase; ssgcid, transferase, seattle
structural genomics center for infectious disease; HET:
LLP; 1.80A {Mycobacterium smegmatis} PDB: 3r4t_A* 3q8n_A
Length = 451
Score = 29.1 bits (66), Expect = 0.90
Identities = 9/34 (26%), Positives = 14/34 (41%), Gaps = 2/34 (5%)
Query: 25 AAVLATLNEVIKKNAEFSRNASSAGEYARKKLRE 58
AA LAT+ E I+ A + + +L
Sbjct: 334 AAALATI-ETIESE-GLVARAQQIEKIMKDRLGR 365
>3dxv_A Alpha-amino-epsilon-caprolactam racemase; fold-TYPE1,
pyridoxal-5'-phosphate dependent racemase, pyrid
phosphate, isomerase; HET: PLP; 2.21A {Achromobacter
obae} PDB: 2zuk_A* 3dxw_A*
Length = 439
Score = 28.7 bits (65), Expect = 1.2
Identities = 12/34 (35%), Positives = 15/34 (44%), Gaps = 2/34 (5%)
Query: 25 AAVLATLNEVIKKNAEFSRNASSAGEYARKKLRE 58
AA LA L E I ++ + A G R L E
Sbjct: 307 AAGLAVL-ETIDRD-DLPAMAERKGRLLRDGLSE 338
>2p5q_A Glutathione peroxidase 5; thioredoxin fold, oxidoreductase; 2.00A
{Populus trichocarpa x populusdeltoides} PDB: 2p5r_A
Length = 170
Score = 27.9 bits (63), Expect = 1.6
Identities = 10/41 (24%), Positives = 18/41 (43%), Gaps = 12/41 (29%)
Query: 103 KFAGQVL----------FTMWQHQELREVYKKHGWKEQDFV 133
F G+VL T + E+ ++Y+K+ K+Q
Sbjct: 29 IFKGKVLLIVNVASKCGMTNSNYAEMNQLYEKY--KDQGLE 67
>2gs3_A PHGPX, GPX-4, phospholipid hydroperoxide glutathione peroxidase;
GSHPX-4,phospholipid hydroperoxide; 1.90A {Homo sapiens}
Length = 185
Score = 27.6 bits (62), Expect = 1.9
Identities = 6/41 (14%), Positives = 14/41 (34%), Gaps = 12/41 (29%)
Query: 103 KFAGQVL----------FTMWQHQELREVYKKHGWKEQDFV 133
K+ G V T + +L +++ ++ E
Sbjct: 46 KYRGFVCIVTNVASQGGKTEVNYTQLVDLHARY--AECGLR 84
>1zod_A DGD, 2,2-dialkylglycine decarboxylase; pyridoxal, cesium, lyase;
HET: MES PLP; 1.80A {Burkholderia cepacia} SCOP:
c.67.1.4 PDB: 1dka_A* 1m0o_A* 1m0p_A* 1m0n_A* 1zc9_A*
1zob_A* 1m0q_A* 2dkb_A* 1dgd_A* 1dge_A* 1d7u_A* 1d7s_A*
1d7r_A* 1d7v_A* 1z3z_A*
Length = 433
Score = 27.5 bits (62), Expect = 3.2
Identities = 8/34 (23%), Positives = 17/34 (50%), Gaps = 2/34 (5%)
Query: 25 AAVLATLNEVIKKNAEFSRNASSAGEYARKKLRE 58
A L L +V++++ A+ G+ R+ L +
Sbjct: 312 AVGLRVL-DVVQRD-GLVARANVMGDRLRRGLLD 343
>3mhs_B Protein SUS1; multi-protein complex, hydrolase-transcription
regulator-Pro binding complex, acetylation, cytoplasm;
1.89A {Saccharomyces cerevisiae} PDB: 3fwc_C 3fwb_C
3kjl_A 3m99_C 3mhh_B 3kik_A
Length = 96
Score = 26.0 bits (57), Expect = 3.7
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 70 VKSAIEKSLLESGGVERLMNITKQR 94
+KS I++ L+ESG E + N K R
Sbjct: 8 LKSQIQQYLVESGNYELISNELKAR 32
>1ohv_A 4-aminobutyrate aminotransferase; PLP-dependent enzyme, 4- AMIN
acid, antiepileptic drug target; HET: PLP; 2.3A {Sus
scrofa} SCOP: c.67.1.4 PDB: 1ohw_A* 1ohy_A*
Length = 472
Score = 27.2 bits (61), Expect = 3.9
Identities = 7/35 (20%), Positives = 15/35 (42%), Gaps = 2/35 (5%)
Query: 24 IAAVLATLNEVIKKNAEFSRNASSAGEYARKKLRE 58
+ + +IK+ + NA+ AG+ L +
Sbjct: 361 NLLLAEVI-NIIKRE-DLLSNAAHAGKVLLTGLLD 393
>2jna_A Putative secreted protein; GFT-homodimer, PSI-2, alpha+beta,
putative secreted Pro structural genomics, protein
structure initiative; NMR {Salmonella typhimurium} SCOP:
d.230.6.1
Length = 104
Score = 25.7 bits (56), Expect = 6.4
Identities = 12/54 (22%), Positives = 20/54 (37%)
Query: 128 KEQDFVTKTVAARNAGPNSPNNANSTLNRPMASQGGTRYEDRTIQRPNQNMEAS 181
K T V+ +SP++ L+ ++GG Y + N EA
Sbjct: 34 KLVKVGTINVSQSGGQISSPSDLREKLSELADAKGGKYYHIIAAREHGPNFEAV 87
>1z7d_A Ornithine aminotransferase; structural genomics consortium, SGC,
malaria; 2.10A {Plasmodium yoelii yoelii} SCOP: c.67.1.4
PDB: 3lg0_A 3ntj_A
Length = 433
Score = 26.4 bits (59), Expect = 7.6
Identities = 7/34 (20%), Positives = 13/34 (38%), Gaps = 2/34 (5%)
Query: 25 AAVLATLNEVIKKNAEFSRNASSAGEYARKKLRE 58
+ + LN +I + NA G + L+
Sbjct: 320 SICVEALNVLINEK--LCENAEKLGGPFLENLKR 351
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
0.313 0.127 0.354
Gapped
Lambda K H
0.267 0.0580 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,803,269
Number of extensions: 152721
Number of successful extensions: 260
Number of sequences better than 10.0: 1
Number of HSP's gapped: 258
Number of HSP's successfully gapped: 29
Length of query: 200
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 111
Effective length of database: 4,216,824
Effective search space: 468067464
Effective search space used: 468067464
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 55 (25.3 bits)