RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1735
(335 letters)
>1xke_A RAN-binding protein 2; beta barrel, pleckstrin-homology (PH)
domain, phosphotyrosine-binding (PTB) domain, protein
transport; NMR {Homo sapiens} SCOP: b.55.1.3
Length = 130
Score = 43.1 bits (101), Expect = 1e-05
Identities = 25/105 (23%), Positives = 44/105 (41%), Gaps = 10/105 (9%)
Query: 15 RVKLYALNAD-RQWDDKGTGHVSSIYVEKHKGMSLLVRAEADGTLLLESKIQTDTAYQKQ 73
RVKL+ +A+ QW ++G G++ + E + + +L+R E + I T +
Sbjct: 14 RVKLFRFDAEVSQWKERGLGNLKILKNEVNGKLRMLMRREQVLKVCANHWITTTMNLKPL 73
Query: 74 Q--DTLIVWSERDNYD-------LALSFQEKAGCDEIWEKICQVQ 109
D +W D D LA F+ +E +K + Q
Sbjct: 74 SGSDRAWMWLASDFSDGDAKLEQLAAKFKTPELAEEFKQKFEECQ 118
>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 = 45.8 bits (108), Expect = 2e-05
Identities = 61/298 (20%), Positives = 105/298 (35%), Gaps = 93/298 (31%)
Query: 79 VWSERDNYDLALSFQEKAGCDEIWEKICQVQGKDPSVEIT--------QDIIEESEDERF 130
VW+ DN+ F++ G I + +P V +T + I E F
Sbjct: 1645 VWNRADNH-----FKDTYG-----FSILDIVINNP-VNLTIHFGGEKGKRIRENYSAMIF 1693
Query: 131 DDMSDGSPPIELPPCEIN-RLEEI------KELMQTCLASP----VRKEKLA-EAIESEG 178
+ + DG E EIN L T P + EK A E ++S+G
Sbjct: 1694 ETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLM--EKAAFEDLKSKG 1751
Query: 179 YIRKLVGIF--HMCEDLENLPG----LHCLYDILKSIFLLNKTQLLDILF------SDDI 226
I F H +L G L L D++ SI L++++F +
Sbjct: 1752 LI-PADATFAGH------SL-GEYAALASLADVM-SI-----ESLVEVVFYRGMTMQVAV 1797
Query: 227 ILDVVGCLEYDPALTSPKRHRHYL----------RTNSKFKEVVPISNSDLLGKIHQTYR 276
D +G Y +P R R + +V I N ++ +
Sbjct: 1798 PRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQ------ 1851
Query: 277 IQYI-----QDVVLPTPSLFEDNILSTVSSFIYFNKIEIVTLIQFSQNLQPQAKENFY 329
QY+ + + + ++ V +FI KI+I+ L Q S +L+ + + + +
Sbjct: 1852 -QYVAAGDLRAL----------DTVTNVLNFIKLQKIDIIEL-QKSLSLE-EVEGHLF 1896
Score = 37.7 bits (87), Expect = 0.005
Identities = 28/168 (16%), Positives = 53/168 (31%), Gaps = 56/168 (33%)
Query: 181 RKLVGIFHMCEDLE---NLP-GLHCLYDILKSIFLLNKTQLLDILFSDDIILDVVGCLEY 236
R L + H LE +P + L+ F + + +DD E
Sbjct: 7 RPLT-LSH--GSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADD---------E- 53
Query: 237 DPALTSPKRHRHYLRTNSKFKEVVPISNSDLLGKIHQTYRIQYIQDVVLPTPSLFEDNIL 296
P + ++L+GK + Y+ +V P+ D +L
Sbjct: 54 ------------------------PTTPAELVGKF-----LGYVSSLVEPSKVGQFDQVL 84
Query: 297 STV-----SSFIYFNKIE--IVTLIQFSQNLQPQAKE---NFYKTRDV 334
+ + ++ N I L+Q + + KE N+ R +
Sbjct: 85 NLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIM 132
Score = 33.5 bits (76), Expect = 0.11
Identities = 41/255 (16%), Positives = 84/255 (32%), Gaps = 90/255 (35%)
Query: 80 W-SERDNYDLALS--FQEKAGCDEIWEKI-CQVQGKDPSVEITQDIIEESEDERFDDMSD 135
W S + A++ F + I + P+ + I+E+S + ++
Sbjct: 289 WESFFVSVRKAITVLF---------F--IGVRCYEAYPNTSLPPSILEDSLEN-----NE 332
Query: 136 GSP-PIELPPCEINRLEEIKELMQTCLASPVR---KEKLAEAIE---SEGYIRKLVGIFH 188
G P P M L+ + +E++ + + S K V I
Sbjct: 333 GVPSP-----------------M---LS--ISNLTQEQVQDYVNKTNSHLPAGKQVEI-- 368
Query: 189 MCEDLENLP------G----LHCLYDILKSIFL---LNKTQLLDILFSDDIILDVVGCLE 235
L N G L+ L L+ L++++ I FS+ +
Sbjct: 369 ---SLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSR---IPFSERK---LKFSNR 419
Query: 236 YDPALTSPKRHRHYLR-TNSKFKE-----VVPISNSDLLGKI--HQTY---RIQYIQDVV 284
+ P + SP H H L + + V + D+ +I + T+ ++ + +
Sbjct: 420 FLP-VASP-FHSHLLVPASDLINKDLVKNNVSFNAKDI--QIPVYDTFDGSDLRVLSGSI 475
Query: 285 LPTPSLFEDNILSTV 299
+ + + I V
Sbjct: 476 --SERIVDCIIRLPV 488
>2crf_A RAN binding protein 3; RAN_BP1 domain, ranbp3, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: b.55.1.3
Length = 150
Score = 40.8 bits (95), Expect = 1e-04
Identities = 19/125 (15%), Positives = 44/125 (35%), Gaps = 19/125 (15%)
Query: 8 EADDTRRRVKLYALN-ADRQWDDKGTGHVSSIYVEKHKGMS-------LLVRAEADGTLL 59
E++ + + KL+ + + W ++G G + + L++R + L+
Sbjct: 26 ESNVLQMQCKLFVFDKTSQSWVERGRGL---LRLNDMASTDDGTLQSRLVMRTQGSLRLI 82
Query: 60 LESKIQTDTAYQKQQDTLIVWSERDNYD-----LALSFQEKAGCD---EIWEKICQVQGK 111
L +K+ K + I + D D +S K + +I ++ +
Sbjct: 83 LNTKLWAQMQIDKASEKSIHITAMDTEDQGVKVFLISASSKDTGQLYAALHHRILALRSR 142
Query: 112 DPSVE 116
S
Sbjct: 143 VESGP 147
>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 = 41.0 bits (95), Expect = 5e-04
Identities = 58/372 (15%), Positives = 117/372 (31%), Gaps = 90/372 (24%)
Query: 5 VRAEADDTRRRVKLYALNADRQWDDKGTGHVSSIY-VEKHKGMSLLVRAEADGTLLLESK 63
++ E ++Y DR ++D V + Y V + + L +A LLE +
Sbjct: 98 IKTEQRQPSMMTRMYIEQRDRLYND---NQVFAKYNVSRLQPYLKLRQA------LLELR 148
Query: 64 IQTDTAYQ------KQQDTLIVWSERDNYDLALSFQEKAGCDEIWEKICQVQGKDPSVEI 117
+ K + + Q K W + + +E+
Sbjct: 149 PAKNVLIDGVLGSGKT--WVALDVCLSY-----KVQCKMDFKIFWLNLKNCNSPETVLEM 201
Query: 118 TQDIIEESEDERFDDMSDGSPPIELPPCEINRLEEIKELMQTCLASPVRKEKL------- 170
Q ++ + D + SD S I+L R+ I+ ++ L S + L
Sbjct: 202 LQKLLYQI-DPNWTSRSDHSSNIKL------RIHSIQAELRRLLKSKPYENCLLVLLNVQ 254
Query: 171 -AEAIES-EGYIRKLV-----GIFHMCEDLENLPGLH-CLYDILKSIFLLNKTQLLDILF 222
A+A + + L+ + + L H L + L ++ +L
Sbjct: 255 NAKAWNAFNLSCKILLTTRFKQVT---DFLSAATTTHISLDHHSMT---LTPDEVKSLL- 307
Query: 223 SDDIILDVVGCLEYD---------PALTS---------PKRHRHYLRTN-SKFKEVVPIS 263
L + C D P S ++ N K ++ S
Sbjct: 308 -----LKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESS 362
Query: 264 NSDLLGKIHQTYRIQYIQDVVLPTPSLFED-NILSTVSSFIYFNKIE-----IVTLIQFS 317
+ L ++ + + V P +I + + S I+F+ I+ +V +
Sbjct: 363 LNVLEPAEYRKM---FDRLSVFP-----PSAHIPTILLSLIWFDVIKSDVMVVVNKLHKY 414
Query: 318 QNLQPQAKENFY 329
++ Q KE+
Sbjct: 415 SLVEKQPKESTI 426
>2y8g_A Ranbp3-B, RAN-binding protein 3; protein transport, CRM1-mediated
nuclear export; 1.61A {Homo sapiens} PDB: 2y8f_A
Length = 138
Score = 38.0 bits (88), Expect = 8e-04
Identities = 14/81 (17%), Positives = 28/81 (34%), Gaps = 11/81 (13%)
Query: 15 RVKLYALN-ADRQWDDKGTGHVSSIYVEKHKGMS-------LLVRAEADGTLLLESKIQT 66
+ KL+ + + W G G + + L++R + L+L +K+
Sbjct: 21 QCKLFVFDKTSQSWVAVGRGL---LRLNDMASTDDGTLQSRLVMRTQGSLRLILNTKLWA 77
Query: 67 DTAYQKQQDTLIVWSERDNYD 87
K + I + D D
Sbjct: 78 QMQIDKASEKSIRITAMDTED 98
>1k5d_B RAN-specific GTPase-activating protein; ranbp1, rangap, GAP, signal
transduction, nuclear transport, GTP hydrolysis, ground
state; HET: GNP; 2.70A {Homo sapiens} SCOP: b.55.1.3
PDB: 1k5g_B*
Length = 201
Score = 37.1 bits (85), Expect = 0.003
Identities = 21/127 (16%), Positives = 44/127 (34%), Gaps = 13/127 (10%)
Query: 15 RVKLYALNADR---QWDDKGTGHVSSIYVEKHKGMSLLVRAEADGTLLLESKIQTDTAYQ 71
R KL+ ++ +W ++GTG V + ++ + LL+R + + I +
Sbjct: 52 RAKLFRFASENDLPEWKERGTGDVKLLKHKEKGAIRLLMRRDKTLKICANHYITPMMELK 111
Query: 72 KQQ--DTLIVWSERDNYD--------LALSFQEKAGCDEIWEKICQVQGKDPSVEITQDI 121
D VW+ ++ LA+ F + K + + + E
Sbjct: 112 PNAGSDRAWVWNTHADFADECPKPELLAIRFLNAENAQKFKTKFEECRKEIEEREKKAGS 171
Query: 122 IEESEDE 128
+ E
Sbjct: 172 GKNDHAE 178
>2ec1_A Nucleoporin 50 kDa; ranbp domain, nuclear pore-associated protein
60 kDa-like, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 125
Score = 34.1 bits (78), Expect = 0.015
Identities = 21/107 (19%), Positives = 44/107 (41%), Gaps = 14/107 (13%)
Query: 15 RVKLYALNADRQWDDKGTGHVSSIYVEKHKGMSLLVRAEAD-GTLLLESKIQTDTAYQKQ 73
+ KL+ D ++ +KG G + + ++ LLVRA+ + G +LL I + +
Sbjct: 19 KCKLFYK-KDNEFKEKGIGTL-HLKPTANQKTQLLVRADTNLGNILLNVLIPPNMPCTRT 76
Query: 74 Q--DTLIVWSERDNYD---------LALSFQEKAGCDEIWEKICQVQ 109
+ LIV D + + + DE+ + + + +
Sbjct: 77 GKNNVLIVCVPNPPIDEKNATMPVTMLIRVKTSEDADELHKILLEKK 123
>3m1i_B RAN-specific GTPase-activating protein 1; heat repeat, GTP-binding,
nucleotide-binding, NUCL protein transport, transport,
cytoplasm, GTPase activation; HET: GTP; 2.00A
{Saccharomyces cerevisiae}
Length = 191
Score = 35.2 bits (80), Expect = 0.016
Identities = 21/106 (19%), Positives = 43/106 (40%), Gaps = 11/106 (10%)
Query: 15 RVKLYALNAD-RQWDDKGTGHVSSIYVEKHKGMSLLVRAEADGTLLLESKIQTDTAYQKQ 73
R KL+ +AD ++W ++GTG + +K + +L+R + + I + +
Sbjct: 80 RAKLFRFDADAKEWKERGTGDCKFLKNKKTNKVRILMRRDKTLKICANHIIAPEYTLKPN 139
Query: 74 Q--DTLIVWSERDNYD--------LALSFQEKAGCDEIWEKICQVQ 109
D V++ + A+ F K D+ E+ + Q
Sbjct: 140 VGSDRSWVYACTADIAEGEAEAFTFAIRFGSKENADKFKEEFEKAQ 185
>1rrp_B Nuclear pore complex protein NUP358; complex (small GTPase/nuclear
protein), small GTPase, nuclear transport; HET: GNP;
2.96A {Homo sapiens} SCOP: b.55.1.3
Length = 134
Score = 33.8 bits (77), Expect = 0.023
Identities = 23/105 (21%), Positives = 38/105 (36%), Gaps = 10/105 (9%)
Query: 15 RVKLYALNA-DRQWDDKGTGHVSSIYVEKHKGMSLLVRAEADGTLLLESKIQTDTAYQKQ 73
R KL+ + ++W ++G G+V + + + LL+R E + I D
Sbjct: 28 RAKLFRFDVESKEWKERGIGNVKILRHKTSGKIRLLMRREQVLKICANHYISPDMKLTPN 87
Query: 74 Q--DTLIVWSERDNYD-------LALSFQEKAGCDEIWEKICQVQ 109
D VW D D LA+ F+ K + Q
Sbjct: 88 AGSDRSFVWHALDYADELPKPEQLAIRFKTPEEAALFKCKFEEAQ 132
>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation,
GTP-binding domain, maturation enzyme, oxidoreductase;
2.99A {Thermotoga neapolitana}
Length = 423
Score = 34.6 bits (80), Expect = 0.037
Identities = 24/122 (19%), Positives = 50/122 (40%), Gaps = 4/122 (3%)
Query: 66 TDTAYQKQQDTLIVWSERDNYD-LALSFQEKAGCDEIWEKICQVQGKDPSVEITQDIIEE 124
D +K ++ ++ R L +S +K G D+I + I ++ D + D+I+
Sbjct: 150 IDVLGEKAEELKGLYESRYEAKVLLVSALQKKGFDDIGKTISEILPGDEEIPYLGDLIDG 209
Query: 125 SEDERFDDMSDGSPPIELPPCEINRLEEIKELMQT-CLASPVRKEKLAEAIESEGYIRKL 183
+ D + ++ I+E + +A V++ +L +E+ G KL
Sbjct: 210 GDLVILVVPID--LGAPKGRLIMPQVHAIREALDREAIALVVKERELRYVMENIGMKPKL 267
Query: 184 VG 185
V
Sbjct: 268 VI 269
>2ifs_A N-WAsp, wiskott-aldrich syndrome protien ineracting protein and
neural wiskott-aldrich syndrome...; verprolin,
polyproline, protein- protein complex; NMR {Homo
sapiens}
Length = 169
Score = 32.0 bits (72), Expect = 0.14
Identities = 18/92 (19%), Positives = 36/92 (39%), Gaps = 1/92 (1%)
Query: 16 VKLYALNADRQWDDKGTGHVSSIYVEKHKGMSLLVRAEADGTLLLESKIQTDTAYQKQQD 75
V+LYA + + W K +G + + L + DG LL E ++ + Y +
Sbjct: 65 VQLYAADRNCMWSKKCSGVACLVKDNPQRSYFLRIFDIKDGKLLWEQELYNNFVYNSPRG 124
Query: 76 TLIVWSERDNYDLALSFQEKAGCDEIWEKICQ 107
+ D +AL+F + + + +
Sbjct: 125 YFHTF-AGDTCQVALNFANEEEAKKFRKAVTD 155
>1mke_A WIP - N-WAsp, fusion protein consisting of wiskott-aldrich syndrome
protein interacting protein...; polyproline,
protein-protein complex; NMR {Rattus norvegicus} SCOP:
b.55.1.4
Length = 152
Score = 31.5 bits (71), Expect = 0.17
Identities = 18/92 (19%), Positives = 36/92 (39%), Gaps = 1/92 (1%)
Query: 16 VKLYALNADRQWDDKGTGHVSSIYVEKHKGMSLLVRAEADGTLLLESKIQTDTAYQKQQD 75
V+LYA + + W K +G + + L + DG LL E ++ + Y +
Sbjct: 48 VQLYAADRNCMWSKKCSGVACLVKDNPQRSYFLRIFDIKDGKLLWEQELYNNFVYNSPRG 107
Query: 76 TLIVWSERDNYDLALSFQEKAGCDEIWEKICQ 107
+ D +AL+F + + + +
Sbjct: 108 YFHTF-AGDTCQVALNFANEEEAKKFRKAVTD 138
>1qc6_A EVH1 domain from ENA/VAsp-like protein; AN incomplete seven
stranded anti-parallel beta barrel closed by AN alpha
helix, EVH1 domain; 2.60A {Mus musculus} SCOP: b.55.1.4
Length = 130
Score = 28.5 bits (63), Expect = 1.5
Identities = 18/91 (19%), Positives = 31/91 (34%), Gaps = 9/91 (9%)
Query: 12 TRRRVKLYALNADRQW--DDKGTGHVSSIYVEKHKGMS---LLVRAEADGTLLLESKIQT 66
R V +Y + ++W G S I + + S ++ D +++ I
Sbjct: 9 ARASVMVYD-DTSKKWVPIKPGQQGFSRINIYHNTASSTFRVVGVKLQDQQVVINYSIVK 67
Query: 67 DTAYQKQQDTLIVWS-ERDNYDLALSFQEKA 96
Y + T W R Y L+F K
Sbjct: 68 GLKYNQATPTFHQWRDARQVY--GLNFASKE 96
>3l3f_X Protein DOA1, DOA1/UFD3; armadillo-like repeat structure, nucleus,
UBL conjugation PA protein binding; 1.90A {Saccharomyces
cerevisiae}
Length = 362
Score = 27.5 bits (60), Expect = 6.1
Identities = 15/44 (34%), Positives = 22/44 (50%), Gaps = 2/44 (4%)
Query: 102 WEKICQVQGKDPSVEITQDIIEESE-DERFD-DMSDGSPPIELP 143
W+K+ V G + + E D FD D+ DG PP++LP
Sbjct: 7 WKKVGDVVGAGATGNDKKIEFEGKTYDYVFDVDIEDGKPPLKLP 50
>3pst_A Protein DOA1; protein degradation, CDC48, ubiquitin, nuclear
protein; 2.00A {Saccharomyces cerevisiae} PDB: 3psp_A
Length = 425
Score = 27.5 bits (60), Expect = 7.9
Identities = 15/44 (34%), Positives = 22/44 (50%), Gaps = 2/44 (4%)
Query: 102 WEKICQVQGKDPSVEITQDIIEESE-DERFD-DMSDGSPPIELP 143
W+K+ V G + + E D FD D+ DG PP++LP
Sbjct: 70 WKKVGDVVGAGATGNDKKIEFEGKTYDYVFDVDIEDGKPPLKLP 113
>4dde_A 6-phospho-beta-glucosidase; structural genomics, PSI-biology,
protein structure initiati midwest center for structural
genomics, MCSG; HET: BG6; 1.45A {Streptococcus mutans}
PDB: 3pn8_A* 4f66_A* 4f79_A*
Length = 480
Score = 27.1 bits (61), Expect = 8.6
Identities = 6/14 (42%), Positives = 8/14 (57%)
Query: 269 GKIHQTYRIQYIQD 282
G +H YRI Y+
Sbjct: 391 GMVHDDYRIDYLGA 404
>3qom_A 6-phospho-beta-glucosidase; structural genomics, PSI-biology,
midwest center for structu genomics, MCSG, glycoside
hydrolase, hydrolase; HET: BGC; 1.50A {Lactobacillus
plantarum}
Length = 481
Score = 27.1 bits (61), Expect = 8.7
Identities = 7/14 (50%), Positives = 9/14 (64%)
Query: 269 GKIHQTYRIQYIQD 282
+IH YRI Y+ D
Sbjct: 391 NQIHDDYRIDYLTD 404
>2xhy_A BGLA, 6-phospho-beta-glucosidase BGLA; hydrolase, glycosidase;
2.30A {Escherichia coli}
Length = 479
Score = 27.1 bits (61), Expect = 9.3
Identities = 6/14 (42%), Positives = 9/14 (64%)
Query: 269 GKIHQTYRIQYIQD 282
G I+ YRI Y++
Sbjct: 390 GSINDDYRIDYLRA 403
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
0.318 0.136 0.393
Gapped
Lambda K H
0.267 0.0840 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,145,571
Number of extensions: 309558
Number of successful extensions: 860
Number of sequences better than 10.0: 1
Number of HSP's gapped: 853
Number of HSP's successfully gapped: 34
Length of query: 335
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 241
Effective length of database: 4,077,219
Effective search space: 982609779
Effective search space used: 982609779
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: 57 (25.5 bits)