RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8312
(145 letters)
>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 = 90.1 bits (223), Expect = 5e-24
Identities = 53/117 (45%), Positives = 76/117 (64%), Gaps = 8/117 (6%)
Query: 37 EEAARACKRKYEAVAVVTGEEEEVNILQINCKLFLYD-SVKTWIELGRGQLRLND----- 90
+ A K E V V+TGEE E N+LQ+ CKLF++D + ++W+E GRG LRLND
Sbjct: 4 GSSGTARKCLLEKVEVITGEEAESNVLQMQCKLFVFDKTSQSWVERGRGLLRLNDMASTD 63
Query: 91 INNSLSRIVIRVVGSLRVILNTKIWAEMVVQKPSDNSVRLTAI--ENGQAKVYLVKV 145
SR+V+R GSLR+ILNTK+WA+M + K S+ S+ +TA+ E+ KV+L+
Sbjct: 64 DGTLQSRLVMRTQGSLRLILNTKLWAQMQIDKASEKSIHITAMDTEDQGVKVFLISA 120
>2y8g_A Ranbp3-B, RAN-binding protein 3; protein transport, CRM1-mediated
nuclear export; 1.61A {Homo sapiens} PDB: 2y8f_A
Length = 138
Score = 89.3 bits (221), Expect = 6e-24
Identities = 50/106 (47%), Positives = 72/106 (67%), Gaps = 8/106 (7%)
Query: 48 EAVAVVTGEEEEVNILQINCKLFLYDSV-KTWIELGRGQLRLN-----DINNSLSRIVIR 101
V V+TGEE E N+LQ+ CKLF++D ++W+ +GRG LRLN D SR+V+R
Sbjct: 3 MKVEVITGEEAESNVLQMQCKLFVFDKTSQSWVAVGRGLLRLNDMASTDDGTLQSRLVMR 62
Query: 102 VVGSLRVILNTKIWAEMVVQKPSDNSVRLTAI--ENGQAKVYLVKV 145
GSLR+ILNTK+WA+M + K S+ S+R+TA+ E+ KV+L+
Sbjct: 63 TQGSLRLILNTKLWAQMQIDKASEKSIRITAMDTEDQGVKVFLISA 108
>3n7c_A ABR034WP; nuclear pore complex, NUP2, RAN-binding domain,
nucleoporin, structural genomics, PSI-2, protein
structure initiative; 2.26A {Ashbya gossypii} PDB:
3oan_A
Length = 130
Score = 82.7 bits (204), Expect = 2e-21
Identities = 25/102 (24%), Positives = 49/102 (48%), Gaps = 6/102 (5%)
Query: 50 VAVVTGEEEEVNILQINCKLFLYDS-VKTWIELGRGQLRLND--INNSLSRIVIRVVGSL 106
+++ GEE E + KL ++DS K + G G+L+L + R++ R G
Sbjct: 1 MSLTNGEENEEVLFCEKAKLLIFDSDTKGYTSRGVGELKLLRKKDDKGKVRVLCRSEGMG 60
Query: 107 RVILNTKIWAEMVVQKPSDNS---VRLTAIENGQAKVYLVKV 145
V+LNT + Q ++ ++ I +G+ + +++KV
Sbjct: 61 HVLLNTSVVKSFKYQPIDADNENLIKWPIITDGKLETFIIKV 102
>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 = 68.5 bits (167), Expect = 6e-16
Identities = 26/106 (24%), Positives = 46/106 (43%), Gaps = 8/106 (7%)
Query: 48 EAVAVVTGEEEEVNILQINCKLFLYDSV-KTWIELGRGQLRLN-DINNSLSRIVIRVVGS 105
+ + V TGEE+E KLF +D K W E G G +++ + R+++R
Sbjct: 10 DKIEVKTGEEDEEEFFCNRAKLFRFDVESKEWKERGIGNVKILRHKTSGKIRLLMRREQV 69
Query: 106 LRVILNTKIWAEMVVQ--KPSDNSVRLTAI----ENGQAKVYLVKV 145
L++ N I +M + SD S A+ E + + ++
Sbjct: 70 LKICANHYISPDMKLTPNAGSDRSFVWHALDYADELPKPEQLAIRF 115
>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 = 67.7 bits (165), Expect = 1e-15
Identities = 26/100 (26%), Positives = 43/100 (43%), Gaps = 8/100 (8%)
Query: 54 TGEEEEVNILQINCKLFLYD-SVKTWIELGRGQLRLN-DINNSLSRIVIRVVGSLRVILN 111
+GEE+E + KLF +D V W E G G L++ + N R+++R L+V N
Sbjct: 2 SGEEDEKVLYSQRVKLFRFDAEVSQWKERGLGNLKILKNEVNGKLRMLMRREQVLKVCAN 61
Query: 112 TKIWAEMVVQK--PSDNSVRLTAI----ENGQAKVYLVKV 145
I M ++ SD + A + + + K
Sbjct: 62 HWITTTMNLKPLSGSDRAWMWLASDFSDGDAKLEQLAAKF 101
>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 = 67.1 bits (163), Expect = 8e-15
Identities = 32/153 (20%), Positives = 59/153 (38%), Gaps = 17/153 (11%)
Query: 2 SQNPSETFDEPDSDSGGEDNGTTRHKSLSEAAREYEEAARACKRKYEAVAVVTGEEEEVN 61
++ P DE D+ + G + A E + E V V T EE+E
Sbjct: 24 AEKPETKKDEEDTKEETKKEG--------DDAPESPDIHFEPVVHLEKVDVKTMEEDEEV 75
Query: 62 ILQINCKLFLYDS-VKTWIELGRGQLRLN-DINNSLSRIVIRVVGSLRVILNTKIWAEMV 119
+ ++ KLF +D+ K W E G G + + + RI++R +L++ N I E
Sbjct: 76 LYKVRAKLFRFDADAKEWKERGTGDCKFLKNKKTNKVRILMRRDKTLKICANHIIAPEYT 135
Query: 120 VQKPSDNSVRL-------TAIENGQAKVYLVKV 145
++ + A +A + ++
Sbjct: 136 LKPNVGSDRSWVYACTADIAEGEAEAFTFAIRF 168
>2ec1_A Nucleoporin 50 kDa; ranbp domain, nuclear pore-associated protein
60 kDa-like, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 125
Score = 64.9 bits (158), Expect = 1e-14
Identities = 23/92 (25%), Positives = 39/92 (42%), Gaps = 3/92 (3%)
Query: 49 AVAVVTGE-EEEVNILQINCKLFLYDSVKTWIELGRGQLRLNDINNSLSRIVIRVVGSLR 107
+ +GE +EE CKLF + E G G L L N +++++R +L
Sbjct: 1 GSSGSSGEVKEEDAFYSKKCKLFYKKD-NEFKEKGIGTLHLKPTANQKTQLLVRADTNLG 59
Query: 108 -VILNTKIWAEMVVQKPSDNSVRLTAIENGQA 138
++LN I M + N+V + + N
Sbjct: 60 NILLNVLIPPNMPCTRTGKNNVLIVCVPNPPI 91
>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 = 63.7 bits (154), Expect = 2e-13
Identities = 24/141 (17%), Positives = 49/141 (34%), Gaps = 11/141 (7%)
Query: 16 SGGEDNGTTRHKSLSEAAREYEEAARACKRKYEAVAVVTGEEEEVNILQINCKLFLYDSV 75
+ +D S + + T EE+E + ++ KLF + S
Sbjct: 2 AAAKDTHEDHDTSTENTDESNHDPQFEPIVSLPEQEIKTLEEDEEELFKMRAKLFRFASE 61
Query: 76 KT---WIELGRGQLRLN-DINNSLSRIVIRVVGSLRVILNTKIWAEMVVQK--PSDNSVR 129
W E G G ++L R+++R +L++ N I M ++ SD +
Sbjct: 62 NDLPEWKERGTGDVKLLKHKEKGAIRLLMRRDKTLKICANHYITPMMELKPNAGSDRAWV 121
Query: 130 LTAI-----ENGQAKVYLVKV 145
E + ++ ++
Sbjct: 122 WNTHADFADECPKPELLAIRF 142
>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 = 42.3 bits (99), Expect = 2e-05
Identities = 27/134 (20%), Positives = 46/134 (34%), Gaps = 28/134 (20%)
Query: 26 HKSLSEAAREY----EEAARACKRKYEAVA----VVTGEEEEVNILQINCKLFLYDSV-- 75
+K L E + E A E V V+ E + Q +D V
Sbjct: 38 NKILPEPTEGFAADDEPTTPA-----ELVGKFLGYVSSLVEPSKVGQ-------FDQVLN 85
Query: 76 KTWIELGRGQLRLNDINN---SLSRIVIRVVGSLRVILNTKIWAEMVVQKPSD---NSVR 129
E L NDI+ L + + + ++ I A ++ ++P D NS
Sbjct: 86 LCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSAL 145
Query: 130 LTAIENGQAKVYLV 143
A+ G A++ +
Sbjct: 146 FRAVGEGNAQLVAI 159
>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 = 33.4 bits (75), Expect = 0.012
Identities = 9/30 (30%), Positives = 16/30 (53%), Gaps = 5/30 (16%)
Query: 56 EEEEVNILQINCKLFLYDS-----VKTWIE 80
E++ + LQ + KL+ DS +K +E
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAIKATME 47
>1evh_A WH1 domain, protein (MENA EVH1 domain); molecular recognition,
actin dynamics, contractIle protein; 1.80A {Mus
musculus} SCOP: b.55.1.4 PDB: 2xqn_M 2iyb_A
Length = 112
Score = 30.3 bits (68), Expect = 0.097
Identities = 15/73 (20%), Positives = 29/73 (39%), Gaps = 6/73 (8%)
Query: 59 EVNILQINCKLFLYD-SVKTWIELGRGQLRLN-----DINNSLSRIVIRVVGSLRVILNT 112
E +I Q + +YD + K W+ G N+ R+V R + +V++N
Sbjct: 3 EQSICQARAAVMVYDDANKKWVPAGGSTGFSRVHIYHHTGNNTFRVVGRKIQDHQVVINC 62
Query: 113 KIWAEMVVQKPSD 125
I + + +
Sbjct: 63 AIPKGLKYNQATQ 75
>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 = 30.1 bits (67), Expect = 0.13
Identities = 17/73 (23%), Positives = 33/73 (45%), Gaps = 7/73 (9%)
Query: 59 EVNILQINCKLFLYD-SVKTWIELGRGQLRLNDIN------NSLSRIVIRVVGSLRVILN 111
E +I Q + +YD + K W+ + GQ + IN +S R+V + +V++N
Sbjct: 3 EQSICQARASVMVYDDTSKKWVPIKPGQQGFSRINIYHNTASSTFRVVGVKLQDQQVVIN 62
Query: 112 TKIWAEMVVQKPS 124
I + + +
Sbjct: 63 YSIVKGLKYNQAT 75
>1xod_A Spred1; sprouty, EVH1, peptide-binding, signaling protein; 1.15A
{Xenopus tropicalis} SCOP: b.55.1.4 PDB: 1tj6_A
Length = 118
Score = 29.9 bits (67), Expect = 0.14
Identities = 12/77 (15%), Positives = 28/77 (36%), Gaps = 10/77 (12%)
Query: 58 EEVNILQINCKLFLYD-SVKTWIELGRGQL---------RLNDINNSLSRIVIRVVGSLR 107
+ + ++ + D S W++LG G L + D + + +
Sbjct: 2 SDDSYARVRAVVMTRDDSSGGWLQLGGGGLSSVTVSKTLQPGDSGGTEFLVHGERLRDKT 61
Query: 108 VILNTKIWAEMVVQKPS 124
V+L + ++V K +
Sbjct: 62 VVLECVLRRDLVYNKVT 78
>3nl6_A Thiamine biosynthetic bifunctional enzyme; thiamin biosynthesis,
eukaryoyes, transferase; HET: TPS ACP; 2.61A {Candida
glabrata} PDB: 3nl2_A* 3nl5_A* 3nl3_A* 3nm3_A* 3nm1_A*
Length = 540
Score = 28.7 bits (64), Expect = 0.76
Identities = 10/45 (22%), Positives = 16/45 (35%), Gaps = 8/45 (17%)
Query: 18 GEDNGTTR-----HKSLSEAAREYEEAARACKRKYEAVAVVTGEE 57
+ + +E +A + KY+ VAV TGE
Sbjct: 378 ELNKERMKGVDASSGISNELL---IQATKIVAFKYKTVAVCTGEF 419
>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 = 27.9 bits (61), Expect = 1.6
Identities = 18/146 (12%), Positives = 42/146 (28%), Gaps = 53/146 (36%)
Query: 23 TTRHKSLSEAAREYEEAARACKRKYEAVAVVTGEEEEVNILQ--INCKL----------- 69
TTR K +++ AA + ++ +E ++L ++C+
Sbjct: 271 TTRFKQVTDFL----SAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTN 326
Query: 70 ---------FLYDSVKTWIELGRGQLRLNDINNSLSRIVIRVVGSLR-----------VI 109
+ D + TW +N + L+ I+ + L +
Sbjct: 327 PRRLSIIAESIRDGLATWDNW----KHVN--CDKLTTIIESSLNVLEPAEYRKMFDRLSV 380
Query: 110 L--NTKI--------WAEMVVQKPSD 125
+ I W +++
Sbjct: 381 FPPSAHIPTILLSLIWFDVIKSDVMV 406
>2jp2_A Spred-2, sprouty-related, EVH1 domain-containing protein 2;
solution structure, structural genomics, structural
genomics consortium, SGC; NMR {Homo sapiens}
Length = 126
Score = 26.9 bits (59), Expect = 2.0
Identities = 11/78 (14%), Positives = 24/78 (30%), Gaps = 10/78 (12%)
Query: 57 EEEVNILQINCKLFLYD-SVKTWIELGRGQL---------RLNDINNSLSRIVIRVVGSL 106
+++ I+++ + D S W G + S I
Sbjct: 10 DDDSYIVRVKAVVMTRDDSSGGWFPQEGGGISRVGVCKVMHPEGNGRSGFLIHGERQKDK 69
Query: 107 RVILNTKIWAEMVVQKPS 124
V+L + ++V K +
Sbjct: 70 LVVLECYVRKDLVYTKAN 87
>1o9d_A 14-3-3-like protein C; protein-binding, fusicoccin, 14-3-3
family, activating drug; HET: TPO; 2.3A {Nicotiana
tabacum} SCOP: a.118.7.1 PDB: 1o9c_A* 1o9e_A* 1o9f_A*
3e6y_A*
Length = 260
Score = 27.2 bits (59), Expect = 2.1
Identities = 12/50 (24%), Positives = 21/50 (42%)
Query: 29 LSEAAREYEEAARACKRKYEAVAVVTGEEEEVNILQINCKLFLYDSVKTW 78
L+E A YEE ++ ++ EE N+L + K + +W
Sbjct: 17 LAEQAERYEEMVEFMEKVSNSLGSEELTVEERNLLSVAYKNVIGARRASW 66
>1v8a_A Hydroxyethylthiazole kinase; alpha-beta, ATP binding, transferase,
structural genomics, riken structural
genomics/proteomics initiative; 1.85A {Pyrococcus
horikoshii} SCOP: c.72.1.2 PDB: 3hpd_A
Length = 265
Score = 26.8 bits (59), Expect = 2.7
Identities = 10/40 (25%), Positives = 15/40 (37%)
Query: 18 GEDNGTTRHKSLSEAAREYEEAARACKRKYEAVAVVTGEE 57
GE+ T SL E ++ R++ VTG
Sbjct: 129 GEEGKTRGVDSLEYGEEEAKKLTMNAAREFNTTVAVTGAV 168
>3rj1_C Mediator of RNA polymerase II transcription subun; RNA polymeras
II, POL II, head module, head, regulator, helical
bundle; 4.30A {Saccharomyces cerevisiae}
Length = 223
Score = 25.7 bits (55), Expect = 6.0
Identities = 11/77 (14%), Positives = 22/77 (28%), Gaps = 3/77 (3%)
Query: 10 DEPDSDSGGEDNGTTRHKSLSEAAREYEEAARACKRKYEAVAVVTGEEEEVNILQINCKL 69
+ ++ + E R K++ + EE ++L + K
Sbjct: 133 SGVTTALLKDEEIEKLLQQDREITNWARTTFRNEYGKHDFKNEESLSEEHASLLVRDSKP 192
Query: 70 ---FLYDSVKTWIELGR 83
F D V + G
Sbjct: 193 SKPFNVDDVLKFTFTGE 209
>2eqz_A High mobility group protein B3; HMG-box domain, mobility group
protein 2A, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 86
Score = 24.6 bits (54), Expect = 6.3
Identities = 7/23 (30%), Positives = 15/23 (65%), Gaps = 1/23 (4%)
Query: 27 KSLSEAARE-YEEAARACKRKYE 48
K++S + ++E A+A K +Y+
Sbjct: 57 KTMSGKEKSKFDEMAKADKVRYD 79
>1aab_A High mobility group protein; HMG-BOX, DNA-binding; NMR {Rattus
norvegicus} SCOP: a.21.1.1
Length = 83
Score = 24.6 bits (54), Expect = 7.7
Identities = 8/23 (34%), Positives = 15/23 (65%), Gaps = 1/23 (4%)
Query: 27 KSLSEAARE-YEEAARACKRKYE 48
K++S + +E+ A+A K +YE
Sbjct: 49 KTMSAKEKGKFEDMAKADKARYE 71
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 0.129 0.358
Gapped
Lambda K H
0.267 0.0444 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,202,299
Number of extensions: 125011
Number of successful extensions: 263
Number of sequences better than 10.0: 1
Number of HSP's gapped: 250
Number of HSP's successfully gapped: 33
Length of query: 145
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 60
Effective length of database: 4,328,508
Effective search space: 259710480
Effective search space used: 259710480
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 (21.9 bits)
S2: 52 (24.5 bits)