RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11674
(161 letters)
>2ec1_A Nucleoporin 50 kDa; ranbp domain, nuclear pore-associated protein
60 kDa-like, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 125
Score = 104 bits (261), Expect = 6e-30
Identities = 24/91 (26%), Positives = 40/91 (43%), Gaps = 3/91 (3%)
Query: 70 VTTGE-ENETVLFEQRAKLYRFVDKEWKERGVGQLKLLKNKDTGKVRLLMRRD-IVHKIC 127
++GE + E + ++ KL+ D E+KE+G+G L LK K +LL+R D + I
Sbjct: 4 GSSGEVKEEDAFYSKKCKLFYKKDNEFKEKGIGTLH-LKPTANQKTQLLVRADTNLGNIL 62
Query: 128 ANHFLHQDMELKPMPNTKQAYIWFAQDYADE 158
N + +M + DE
Sbjct: 63 LNVLIPPNMPCTRTGKNNVLIVCVPNPPIDE 93
>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 = 100 bits (251), Expect = 3e-28
Identities = 56/145 (38%), Positives = 80/145 (55%), Gaps = 42/145 (28%)
Query: 14 FKPIIPLPDEVPVTTGEENETVLFEQRAKLYRFVDKEWKERGVGQLKLLKNKDTGKVTTG 73
F+P++PLPD++ V TGEE+E F RAKL+RF +
Sbjct: 2 FEPVVPLPDKIEVKTGEEDEEEFFCNRAKLFRFDVE------------------------ 37
Query: 74 EENETVLFEQRAKLYRFVDKEWKERGVGQLKLLKNKDTGKVRLLMRRDIVHKICANHFLH 133
KEWKERG+G +K+L++K +GK+RLLMRR+ V KICANH++
Sbjct: 38 ------------------SKEWKERGIGNVKILRHKTSGKIRLLMRREQVLKICANHYIS 79
Query: 134 QDMELKPMPNTKQAYIWFAQDYADE 158
DM+L P + ++++W A DYADE
Sbjct: 80 PDMKLTPNAGSDRSFVWHALDYADE 104
>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 = 100 bits (249), Expect = 5e-28
Identities = 45/89 (50%), Positives = 66/89 (74%), Gaps = 2/89 (2%)
Query: 72 TGEENETVLFEQRAKLYRFVD--KEWKERGVGQLKLLKNKDTGKVRLLMRRDIVHKICAN 129
+GEE+E VL+ QR KL+RF +WKERG+G LK+LKN+ GK+R+LMRR+ V K+CAN
Sbjct: 2 SGEEDEKVLYSQRVKLFRFDAEVSQWKERGLGNLKILKNEVNGKLRMLMRREQVLKVCAN 61
Query: 130 HFLHQDMELKPMPNTKQAYIWFAQDYADE 158
H++ M LKP+ + +A++W A D++D
Sbjct: 62 HWITTTMNLKPLSGSDRAWMWLASDFSDG 90
>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 = 94.2 bits (234), Expect = 1e-25
Identities = 33/86 (38%), Positives = 50/86 (58%), Gaps = 3/86 (3%)
Query: 70 VTTGEENETVLFEQRAKLYRFV--DKEWKERGVGQLKLLKNK-DTGKVRLLMRRDIVHKI 126
+T GEENE VLF ++AKL F K + RGVG+LKLL+ K D GKVR+L R + + +
Sbjct: 3 LTNGEENEEVLFCEKAKLLIFDSDTKGYTSRGVGELKLLRKKDDKGKVRVLCRSEGMGHV 62
Query: 127 CANHFLHQDMELKPMPNTKQAYIWFA 152
N + + + +P+ + I +
Sbjct: 63 LLNTSVVKSFKYQPIDADNENLIKWP 88
>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 = 93.3 bits (231), Expect = 1e-24
Identities = 49/94 (52%), Positives = 64/94 (68%), Gaps = 5/94 (5%)
Query: 70 VTTGEENETVLFEQRAKLYRFVD----KEWKERGVGQLKLLKNKDTGKVRLLMRRDIVHK 125
+ T EE+E LF+ RAKL+RF EWKERG G +KLLK+K+ G +RLLMRRD K
Sbjct: 38 IKTLEEDEEELFKMRAKLFRFASENDLPEWKERGTGDVKLLKHKEKGAIRLLMRRDKTLK 97
Query: 126 ICANHFLHQDMELKPMPNTKQAYIWFAQ-DYADE 158
ICANH++ MELKP + +A++W D+ADE
Sbjct: 98 ICANHYITPMMELKPNAGSDRAWVWNTHADFADE 131
>2y8g_A Ranbp3-B, RAN-binding protein 3; protein transport, CRM1-mediated
nuclear export; 1.61A {Homo sapiens} PDB: 2y8f_A
Length = 138
Score = 90.8 bits (225), Expect = 2e-24
Identities = 26/98 (26%), Positives = 44/98 (44%), Gaps = 8/98 (8%)
Query: 70 VTTGEENETVLFEQRAKLYRF--VDKEWKERGVGQLKLLKNKD----TGKVRLLMRRDIV 123
V TGEE E+ + + + KL+ F + W G G L+L T + RL+MR
Sbjct: 7 VITGEEAESNVLQMQCKLFVFDKTSQSWVAVGRGLLRLNDMASTDDGTLQSRLVMRTQGS 66
Query: 124 HKICANHFLHQDMELKPMPNTKQAYIWFAQDYADEVVS 161
++ N L M++ ++++ A D D+ V
Sbjct: 67 LRLILNTKLWAQMQIDKA--SEKSIRITAMDTEDQGVK 102
>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 = 91.8 bits (227), Expect = 5e-24
Identities = 46/92 (50%), Positives = 60/92 (65%), Gaps = 3/92 (3%)
Query: 70 VTTGEENETVLFEQRAKLYRFV--DKEWKERGVGQLKLLKNKDTGKVRLLMRRDIVHKIC 127
V T EE+E VL++ RAKL+RF KEWKERG G K LKNK T KVR+LMRRD KIC
Sbjct: 66 VKTMEEDEEVLYKVRAKLFRFDADAKEWKERGTGDCKFLKNKKTNKVRILMRRDKTLKIC 125
Query: 128 ANHFLHQDMELKPMPNTKQAYIWF-AQDYADE 158
ANH + + LKP + +++++ D A+
Sbjct: 126 ANHIIAPEYTLKPNVGSDRSWVYACTADIAEG 157
>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 = 88.6 bits (219), Expect = 3e-23
Identities = 28/99 (28%), Positives = 47/99 (47%), Gaps = 8/99 (8%)
Query: 69 KVTTGEENETVLFEQRAKLYRFV--DKEWKERGVGQLKLLKNK----DTGKVRLLMRRDI 122
+V TGEE E+ + + + KL+ F + W ERG G L+L T + RL+MR
Sbjct: 18 EVITGEEAESNVLQMQCKLFVFDKTSQSWVERGRGLLRLNDMASTDDGTLQSRLVMRTQG 77
Query: 123 VHKICANHFLHQDMELKPMPNTKQAYIWFAQDYADEVVS 161
++ N L M++ ++++ A D D+ V
Sbjct: 78 SLRLILNTKLWAQMQIDKA--SEKSIHITAMDTEDQGVK 114
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.6 bits (63), Expect = 0.65
Identities = 16/61 (26%), Positives = 29/61 (47%), Gaps = 13/61 (21%)
Query: 49 KEWKERGVGQLKLLKNKDTGKVTTGEENETVLFEQRAKLYRFVDKEWKERGVGQLKLLKN 108
++W+E Q K L+ D ++ + E R K + ++ EW +R Q++ KN
Sbjct: 88 RKWREE---QRKRLQELD-------AASKVMEQEWREKAKKDLE-EWNQRQSEQVE--KN 134
Query: 109 K 109
K
Sbjct: 135 K 135
>2qz7_A Uncharacterized protein SCO6318; APC7352, homologue of telluride
resistance protein (TERD), S streptomyces coelicolor
A3(2); 2.10A {Streptomyces coelicolor A3}
Length = 194
Score = 26.5 bits (58), Expect = 3.7
Identities = 4/18 (22%), Positives = 7/18 (38%)
Query: 41 AKLYRFVDKEWKERGVGQ 58
A+ R W+ R +
Sbjct: 156 AEFTRNASGAWEFREAVR 173
Score = 26.5 bits (58), Expect = 3.7
Identities = 4/18 (22%), Positives = 7/18 (38%)
Query: 85 AKLYRFVDKEWKERGVGQ 102
A+ R W+ R +
Sbjct: 156 AEFTRNASGAWEFREAVR 173
>2qng_A Uncharacterized protein SAV2460; structural genomics, PSI-2,
protein structure initiative, midwest center for
structural genomics, MCSG; HET: MSE; 1.40A {Streptomyces
avermitilis}
Length = 199
Score = 25.6 bits (56), Expect = 7.1
Identities = 5/34 (14%), Positives = 6/34 (17%), Gaps = 4/34 (11%)
Query: 26 VTTGEENET-VLFEQRAKLYRFVDKEWKERGVGQ 58
G T + R EW
Sbjct: 150 DFGGVLGSTAATV---GEFVRDDSGEWTFHPGIH 180
Score = 25.6 bits (56), Expect = 7.1
Identities = 5/34 (14%), Positives = 6/34 (17%), Gaps = 4/34 (11%)
Query: 70 VTTGEENET-VLFEQRAKLYRFVDKEWKERGVGQ 102
G T + R EW
Sbjct: 150 DFGGVLGSTAATV---GEFVRDDSGEWTFHPGIH 180
>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET:
DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11
e.13.1.2
Length = 503
Score = 25.5 bits (55), Expect = 9.6
Identities = 9/56 (16%), Positives = 22/56 (39%), Gaps = 6/56 (10%)
Query: 19 PLPDEVPVTTGEENETVLFEQRA----KLYRFVDKEWKERGVGQLKLLKNKDTGKV 70
+ PV+ + + Q + L R +++ + +++LK + TG
Sbjct: 411 AHEEGRPVSITDLRGSGALRQLSDTIIALER--NQQGDMPNLVLVRILKCRFTGDT 464
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 0.136 0.405
Gapped
Lambda K H
0.267 0.0660 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,509,642
Number of extensions: 140743
Number of successful extensions: 288
Number of sequences better than 10.0: 1
Number of HSP's gapped: 268
Number of HSP's successfully gapped: 31
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 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (24.3 bits)