RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15646
(388 letters)
>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 = 145 bits (367), Expect = 7e-43
Identities = 65/126 (51%), Positives = 92/126 (73%), Gaps = 2/126 (1%)
Query: 164 FKPIIPLPDEVPVTTGEENETVLFEQRAKLYRFV--DKEWKERGVGQLKLLKNKDTGKVR 221
F+P++PLPD++ V TGEE+E F RAKL+RF KEWKERG+G +K+L++K +GK+R
Sbjct: 2 FEPVVPLPDKIEVKTGEEDEEEFFCNRAKLFRFDVESKEWKERGIGNVKILRHKTSGKIR 61
Query: 222 LLMRRDIVHKICANHFLHQDMELKPMPNTKQAYIWFAQDYADEVVSDEQLCAKFKLPEDA 281
LLMRR+ V KICANH++ DM+L P + ++++W A DYADE+ EQL +FK PE+A
Sbjct: 62 LLMRREQVLKICANHYISPDMKLTPNAGSDRSFVWHALDYADELPKPEQLAIRFKTPEEA 121
Query: 282 ERFRSV 287
F+
Sbjct: 122 ALFKCK 127
Score = 108 bits (270), Expect = 1e-28
Identities = 53/102 (51%), Positives = 73/102 (71%), Gaps = 6/102 (5%)
Query: 276 KLPEDAERFRSVTTGEENETVLFEQRAKLYRFV--DKEWKERGVGQLKLLKNKDTGKVRL 333
LP+ E V TGEE+E F RAKL+RF KEWKERG+G +K+L++K +GK+RL
Sbjct: 7 PLPDKIE----VKTGEEDEEEFFCNRAKLFRFDVESKEWKERGIGNVKILRHKTSGKIRL 62
Query: 334 LMRRDIVHKICANHFLHQDMELKPMSNTKQAYIWFAQDYADE 375
LMRR+ V KICANH++ DM+L P + + ++++W A DYADE
Sbjct: 63 LMRREQVLKICANHYISPDMKLTPNAGSDRSFVWHALDYADE 104
>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 = 136 bits (342), Expect = 2e-38
Identities = 62/149 (41%), Positives = 89/149 (59%), Gaps = 6/149 (4%)
Query: 144 EQANESDDETPANDHDPLPDFKPIIPLPDEVPVTTGEENETVLFEQRAKLYRFVD----K 199
+ ++ + P F+PI+ LP E + T EE+E LF+ RAKL+RF
Sbjct: 7 THEDHDTSTENTDESNHDPQFEPIVSLP-EQEIKTLEEDEEELFKMRAKLFRFASENDLP 65
Query: 200 EWKERGVGQLKLLKNKDTGKVRLLMRRDIVHKICANHFLHQDMELKPMPNTKQAYIWFAQ 259
EWKERG G +KLLK+K+ G +RLLMRRD KICANH++ MELKP + +A++W
Sbjct: 66 EWKERGTGDVKLLKHKEKGAIRLLMRRDKTLKICANHYITPMMELKPNAGSDRAWVWNTH 125
Query: 260 -DYADEVVSDEQLCAKFKLPEDAERFRSV 287
D+ADE E L +F E+A++F++
Sbjct: 126 ADFADECPKPELLAIRFLNAENAQKFKTK 154
Score = 103 bits (258), Expect = 3e-26
Identities = 56/119 (47%), Positives = 72/119 (60%), Gaps = 10/119 (8%)
Query: 262 ADEVVSDEQLCAKFKLPEDAERFRSVTTGEENETVLFEQRAKLYRFVD----KEWKERGV 317
DE D Q LPE + T EE+E LF+ RAKL+RF EWKERG
Sbjct: 18 TDESNHDPQFEPIVSLPEQE-----IKTLEEDEEELFKMRAKLFRFASENDLPEWKERGT 72
Query: 318 GQLKLLKNKDTGKVRLLMRRDIVHKICANHFLHQDMELKPMSNTKQAYIWFAQ-DYADE 375
G +KLLK+K+ G +RLLMRRD KICANH++ MELKP + + +A++W D+ADE
Sbjct: 73 GDVKLLKHKEKGAIRLLMRRDKTLKICANHYITPMMELKPNAGSDRAWVWNTHADFADE 131
>2ec1_A Nucleoporin 50 kDa; ranbp domain, nuclear pore-associated protein
60 kDa-like, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 125
Score = 131 bits (332), Expect = 8e-38
Identities = 28/116 (24%), Positives = 49/116 (42%), Gaps = 5/116 (4%)
Query: 176 VTTGE-ENETVLFEQRAKLYRFVDKEWKERGVGQLKLLKNKDTGKVRLLMRRD-IVHKIC 233
++GE + E + ++ KL+ D E+KE+G+G L LK K +LL+R D + I
Sbjct: 4 GSSGEVKEEDAFYSKKCKLFYKKDNEFKEKGIGTLH-LKPTANQKTQLLVRADTNLGNIL 62
Query: 234 ANHFLHQDMELKPMPNTKQAYIWFAQDYADEVVSD--EQLCAKFKLPEDAERFRSV 287
N + +M + DE + + + K EDA+ +
Sbjct: 63 LNVLIPPNMPCTRTGKNNVLIVCVPNPPIDEKNATMPVTMLIRVKTSEDADELHKI 118
Score = 116 bits (292), Expect = 5e-32
Identities = 25/92 (27%), Positives = 41/92 (44%), Gaps = 3/92 (3%)
Query: 286 SVTTGE-ENETVLFEQRAKLYRFVDKEWKERGVGQLKLLKNKDTGKVRLLMRRD-IVHKI 343
S ++GE + E + ++ KL+ D E+KE+G+G L LK K +LL+R D + I
Sbjct: 3 SGSSGEVKEEDAFYSKKCKLFYKKDNEFKEKGIGTLH-LKPTANQKTQLLVRADTNLGNI 61
Query: 344 CANHFLHQDMELKPMSNTKQAYIWFAQDYADE 375
N + +M + DE
Sbjct: 62 LLNVLIPPNMPCTRTGKNNVLIVCVPNPPIDE 93
>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 = 126 bits (317), Expect = 1e-35
Identities = 57/112 (50%), Positives = 79/112 (70%), Gaps = 2/112 (1%)
Query: 178 TGEENETVLFEQRAKLYRFVD--KEWKERGVGQLKLLKNKDTGKVRLLMRRDIVHKICAN 235
+GEE+E VL+ QR KL+RF +WKERG+G LK+LKN+ GK+R+LMRR+ V K+CAN
Sbjct: 2 SGEEDEKVLYSQRVKLFRFDAEVSQWKERGLGNLKILKNEVNGKLRMLMRREQVLKVCAN 61
Query: 236 HFLHQDMELKPMPNTKQAYIWFAQDYADEVVSDEQLCAKFKLPEDAERFRSV 287
H++ M LKP+ + +A++W A D++D EQL AKFK PE AE F+
Sbjct: 62 HWITTTMNLKPLSGSDRAWMWLASDFSDGDAKLEQLAAKFKTPELAEEFKQK 113
Score = 108 bits (271), Expect = 6e-29
Identities = 46/89 (51%), Positives = 67/89 (75%), Gaps = 2/89 (2%)
Query: 289 TGEENETVLFEQRAKLYRFVD--KEWKERGVGQLKLLKNKDTGKVRLLMRRDIVHKICAN 346
+GEE+E VL+ QR KL+RF +WKERG+G LK+LKN+ GK+R+LMRR+ V K+CAN
Sbjct: 2 SGEEDEKVLYSQRVKLFRFDAEVSQWKERGLGNLKILKNEVNGKLRMLMRREQVLKVCAN 61
Query: 347 HFLHQDMELKPMSNTKQAYIWFAQDYADE 375
H++ M LKP+S + +A++W A D++D
Sbjct: 62 HWITTTMNLKPLSGSDRAWMWLASDFSDG 90
>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 = 126 bits (318), Expect = 4e-35
Identities = 60/161 (37%), Positives = 86/161 (53%), Gaps = 4/161 (2%)
Query: 130 KKQLETSPLIKQSLEQANESDDETPANDHDPLPDFKPIIPLPDEVPVTTGEENETVLFEQ 189
K+ E K + E+ E P F+P++ L +V V T EE+E VL++
Sbjct: 21 GKKAEKPETKKDEEDTKEETKKEGDDAPESPDIHFEPVVHLE-KVDVKTMEEDEEVLYKV 79
Query: 190 RAKLYRFV--DKEWKERGVGQLKLLKNKDTGKVRLLMRRDIVHKICANHFLHQDMELKPM 247
RAKL+RF KEWKERG G K LKNK T KVR+LMRRD KICANH + + LKP
Sbjct: 80 RAKLFRFDADAKEWKERGTGDCKFLKNKKTNKVRILMRRDKTLKICANHIIAPEYTLKPN 139
Query: 248 PNTKQAYIWF-AQDYADEVVSDEQLCAKFKLPEDAERFRSV 287
+ +++++ D A+ +F E+A++F+
Sbjct: 140 VGSDRSWVYACTADIAEGEAEAFTFAIRFGSKENADKFKEE 180
Score = 95.3 bits (236), Expect = 3e-23
Identities = 46/92 (50%), Positives = 60/92 (65%), Gaps = 3/92 (3%)
Query: 287 VTTGEENETVLFEQRAKLYRFV--DKEWKERGVGQLKLLKNKDTGKVRLLMRRDIVHKIC 344
V T EE+E VL++ RAKL+RF KEWKERG G K LKNK T KVR+LMRRD KIC
Sbjct: 66 VKTMEEDEEVLYKVRAKLFRFDADAKEWKERGTGDCKFLKNKKTNKVRILMRRDKTLKIC 125
Query: 345 ANHFLHQDMELKPMSNTKQAYIWF-AQDYADE 375
ANH + + LKP + +++++ D A+
Sbjct: 126 ANHIIAPEYTLKPNVGSDRSWVYACTADIAEG 157
>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 = 120 bits (301), Expect = 3e-33
Identities = 39/117 (33%), Positives = 58/117 (49%), Gaps = 6/117 (5%)
Query: 174 VPVTTGEENETVLFEQRAKLYRFV--DKEWKERGVGQLKLLKNK-DTGKVRLLMRRDIVH 230
+ +T GEENE VLF ++AKL F K + RGVG+LKLL+ K D GKVR+L R + +
Sbjct: 1 MSLTNGEENEEVLFCEKAKLLIFDSDTKGYTSRGVGELKLLRKKDDKGKVRVLCRSEGMG 60
Query: 231 KICANHFLHQDMELKPMPNTKQAYIWFAQDYADEVVSDEQLCAKFKLPEDAERFRSV 287
+ N + + + +P+ + I + D + E K K D R
Sbjct: 61 HVLLNTSVVKSFKYQPIDADNENLIKWP-IITDGKL--ETFIIKVKQKADGRRLVGA 114
Score = 104 bits (262), Expect = 1e-27
Identities = 34/87 (39%), Positives = 51/87 (58%), Gaps = 3/87 (3%)
Query: 286 SVTTGEENETVLFEQRAKLYRFV--DKEWKERGVGQLKLLKNK-DTGKVRLLMRRDIVHK 342
S+T GEENE VLF ++AKL F K + RGVG+LKLL+ K D GKVR+L R + +
Sbjct: 2 SLTNGEENEEVLFCEKAKLLIFDSDTKGYTSRGVGELKLLRKKDDKGKVRVLCRSEGMGH 61
Query: 343 ICANHFLHQDMELKPMSNTKQAYIWFA 369
+ N + + + +P+ + I +
Sbjct: 62 VLLNTSVVKSFKYQPIDADNENLIKWP 88
>2y8g_A Ranbp3-B, RAN-binding protein 3; protein transport, CRM1-mediated
nuclear export; 1.61A {Homo sapiens} PDB: 2y8f_A
Length = 138
Score = 110 bits (277), Expect = 9e-30
Identities = 29/120 (24%), Positives = 52/120 (43%), Gaps = 11/120 (9%)
Query: 173 EVPVTTGEENETVLFEQRAKLYRF--VDKEWKERGVGQLKLLKNKD----TGKVRLLMRR 226
+V V TGEE E+ + + + KL+ F + W G G L+L T + RL+MR
Sbjct: 4 KVEVITGEEAESNVLQMQCKLFVFDKTSQSWVAVGRGLLRLNDMASTDDGTLQSRLVMRT 63
Query: 227 DIVHKICANHFLHQDMELKPMPNTKQAYIWFAQDYADEVVSDEQLCAKFKLPEDAERFRS 286
++ N L M++ ++++ A D D+ V + A +D + +
Sbjct: 64 QGSLRLILNTKLWAQMQIDKA--SEKSIRITAMDTEDQGVKVFLISASS---KDTGQLYA 118
Score = 102 bits (255), Expect = 1e-26
Identities = 27/98 (27%), Positives = 44/98 (44%), Gaps = 8/98 (8%)
Query: 287 VTTGEENETVLFEQRAKLYRF--VDKEWKERGVGQLKLLKNKD----TGKVRLLMRRDIV 340
V TGEE E+ + + + KL+ F + W G G L+L T + RL+MR
Sbjct: 7 VITGEEAESNVLQMQCKLFVFDKTSQSWVAVGRGLLRLNDMASTDDGTLQSRLVMRTQGS 66
Query: 341 HKICANHFLHQDMELKPMSNTKQAYIWFAQDYADEVVS 378
++ N L M++ S +++ A D D+ V
Sbjct: 67 LRLILNTKLWAQMQIDKAS--EKSIRITAMDTEDQGVK 102
>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 = 110 bits (277), Expect = 2e-29
Identities = 30/125 (24%), Positives = 56/125 (44%), Gaps = 10/125 (8%)
Query: 169 PLPDEVPVTTGEENETVLFEQRAKLYRFV--DKEWKERGVGQLKLLKNK----DTGKVRL 222
L ++V V TGEE E+ + + + KL+ F + W ERG G L+L T + RL
Sbjct: 12 CLLEKVEVITGEEAESNVLQMQCKLFVFDKTSQSWVERGRGLLRLNDMASTDDGTLQSRL 71
Query: 223 LMRRDIVHKICANHFLHQDMELKPMPNTKQAYIWFAQDYADEVVSDEQLCAKFKLPEDAE 282
+MR ++ N L M++ ++++ A D D+ V + + +
Sbjct: 72 VMRTQGSLRLILNTKLWAQMQIDKA--SEKSIHITAMDTEDQGV--KVFLISASSKDTGQ 127
Query: 283 RFRSV 287
+ ++
Sbjct: 128 LYAAL 132
Score = 97.4 bits (242), Expect = 1e-24
Identities = 29/99 (29%), Positives = 44/99 (44%), Gaps = 8/99 (8%)
Query: 286 SVTTGEENETVLFEQRAKLYRFV--DKEWKERGVGQLKLLKNK----DTGKVRLLMRRDI 339
V TGEE E+ + + + KL+ F + W ERG G L+L T + RL+MR
Sbjct: 18 EVITGEEAESNVLQMQCKLFVFDKTSQSWVERGRGLLRLNDMASTDDGTLQSRLVMRTQG 77
Query: 340 VHKICANHFLHQDMELKPMSNTKQAYIWFAQDYADEVVS 378
++ N L M++ S + A D D+ V
Sbjct: 78 SLRLILNTKLWAQMQIDKASEK--SIHITAMDTEDQGVK 114
>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 = 66.1 bits (161), Expect = 9e-14
Identities = 20/112 (17%), Positives = 40/112 (35%), Gaps = 16/112 (14%)
Query: 182 NETVLFEQRAKLYRFVD--KEW----KERGVGQLKLLKNKDTGKVRLLMRRDIVHKICAN 235
+E + + RA + + D K+W G ++ + + R++ R+ H++ N
Sbjct: 2 SEQSICQARAAVMVYDDANKKWVPAGGSTGFSRVHIYHHTGNNTFRVVGRKIQDHQVVIN 61
Query: 236 HFLHQDMELKPMPNTKQAYIWFAQDYADEVVSDEQLCAKFKLPEDAERFRSV 287
+ + ++ T + Q Y F EDA F S
Sbjct: 62 CAIPKGLKYNQATQTFHQWRDARQVYG----------LNFGSKEDANVFASA 103
>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 = 4e-04
Identities = 34/210 (16%), Positives = 62/210 (29%), Gaps = 62/210 (29%)
Query: 216 DTGKVRLLMRRDIVHKICANHFLH---QDMELKPMPNTKQAYIWFAQDYADEVVSDEQLC 272
+TG+ + +DI+ F + + K + QD ++S E++
Sbjct: 10 ETGEHQY-QYKDILS-----VFEDAFVDNFDCKDV-----------QDMPKSILSKEEID 52
Query: 273 AKFKLPEDAERFRSV-----TTGEENETVLFEQRAKL-YRFVDKEWKERGVGQLKLLKNK 326
+ + + EE E+ ++ Y+F+ K + +
Sbjct: 53 HIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMY 112
Query: 327 DTGKVRL-----------LMRRDIVHKICANHFLHQDMELKPMSNT---------KQAYI 366
+ RL + R K+ L +EL+P N K
Sbjct: 113 IEQRDRLYNDNQVFAKYNVSRLQPYLKL--RQAL---LELRPAKNVLIDGVLGSGKT--- 164
Query: 367 WFAQD-YADEVVSDRFDS-------GNCNC 388
W A D V + D NCN
Sbjct: 165 WVALDVCLSYKVQCKMDFKIFWLNLKNCNS 194
>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 = 36.6 bits (84), Expect = 0.017
Identities = 26/162 (16%), Positives = 44/162 (27%), Gaps = 65/162 (40%)
Query: 234 ANHFLH----QDMELKPMPNTKQAYIWFAQDYADEVVSDEQLCAKF-------KLPEDAE 282
F Q+ K +P + FA D DE + +L KF P
Sbjct: 24 TASFFIASQLQEQFNKILP---EPTEGFAAD--DEPTTPAELVGKFLGYVSSLVEPSKVG 78
Query: 283 RFRSVTTGEENETVL--FEQRAKLYRFVDKEWKERGVGQLKLLKNKDTGKVRLLMRRDIV 340
+F V L FE + L+ D +
Sbjct: 79 QFDQVL-----NLCLTEFEN-----CY---------------LEGND------------I 101
Query: 341 HKICANHFLHQDMELKPMSNTK--QAYIWFAQDYADEVVSDR 380
H + A L Q+ + + + + Y +++ R
Sbjct: 102 HALAAK--LLQENDTTLVKTKELIKNY------ITARIMAKR 135
Score = 30.4 bits (68), Expect = 1.3
Identities = 37/230 (16%), Positives = 71/230 (30%), Gaps = 53/230 (23%)
Query: 134 ETSPLIKQSLEQANESDDETPANDHDPLPDFKPIIPLPDEVPVTTGEENETVLFE-QRAK 192
+TS + +A+ +T F I+ + PV T+ F ++ K
Sbjct: 1637 KTSKAAQDVWNRADNHFKDT--------YGFS-ILDIVINNPVNL-----TIHFGGEKGK 1682
Query: 193 LYRFVDKEWKERGVGQLKLLKNKDTGKVRLLMRRDIVHKICANHFLHQDMELKPMPNTKQ 252
R + D + ++I + F + L T Q
Sbjct: 1683 RIR--------ENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFT-Q 1733
Query: 253 AYIWFAQDYADEVVSDEQLCAKFKLPEDAERFR--SVTTGE--------ENETVL-FEQR 301
+ + A E L +K +P DA F S+ GE + V+ E
Sbjct: 1734 PAL-TLMEKA--AF--EDLKSKGLIPADA-TFAGHSL--GEYAALASLAD---VMSIESL 1782
Query: 302 AKL--YR--FVDK--EWKERGVGQLKLLKNKDTGKVRLLMRRDIVHKICA 345
++ YR + E G ++ + G+V ++ + +
Sbjct: 1783 VEVVFYRGMTMQVAVPRDELGRSNYGMIAI-NPGRVAASFSQEALQYVVE 1831
>3dzy_A Retinoic acid receptor RXR-alpha; DNA-binding, HOST-virus
interaction, metal-binding, nucleus, receptor,
transcription, transcription regulation, zinc-FIN
activator; HET: DNA REA BRL; 3.10A {Homo sapiens} PDB:
3dzu_A* 3e00_A*
Length = 467
Score = 33.5 bits (76), Expect = 0.12
Identities = 24/106 (22%), Positives = 39/106 (36%), Gaps = 5/106 (4%)
Query: 6 PIPTGPPPQLSSTTPTSSNATKIPPTSTSTADVKSFGSPAQLTSSPLG-----VSTTGTA 60
P S S P ST ++ + G P + SSP+G V TT T
Sbjct: 31 GSMAAPSLHPSLGPGIGSPGQLHSPISTLSSPINGMGPPFSVISSPMGPHSMSVPTTPTL 90
Query: 61 NSTPIKPSANTSLGGQLNTSQIGGNLNTSGQIGGPLNTSGQLNSSQ 106
+ P ++ + ++ I L +G + P + SG + S
Sbjct: 91 GFSTGSPQLSSPMNPVSSSEDIKPPLGLNGVLKVPAHPSGNMASFT 136
>1wck_A BCLA protein; collagen-like protein, bacterial surface antigen,
jelly- roll topology, structural protein; 1.36A
{Bacillus anthracis}
Length = 220
Score = 31.5 bits (71), Expect = 0.30
Identities = 16/112 (14%), Positives = 26/112 (23%), Gaps = 6/112 (5%)
Query: 8 PTGPPPQLSSTTPTSSNATKIPPTSTSTADVKSFGSPAQLTSSPLGVSTTGTANST---- 63
PTGP T PT + P T + + S + +
Sbjct: 51 PTGPTGPTGPTGPTGATGLTGPTGPTGPSGLGLPAGLYAFNSGGISLDLGINDPVPFNTV 110
Query: 64 -PIKPSANTSLGGQLNTSQIGGNLNTSGQIGGPLNTSGQLNSSQTGSGQTTP 114
+A + L G + S + +G P
Sbjct: 111 GSQFGTAISQLDADTFVISETGFYKITVIANT-ATASVLGGLTIQVNGVPVP 161
Score = 30.7 bits (69), Expect = 0.58
Identities = 16/113 (14%), Positives = 30/113 (26%), Gaps = 2/113 (1%)
Query: 2 ATIKPIPTGPPPQLSSTTPTSSNATKIPPTSTSTADVKSFGSPAQLTSSPLGVSTTGTAN 61
T PTG T PT + +P + P +
Sbjct: 57 PTGPTGPTGATGLTGPTGPTGPSGLGLPAGLYAFNSGGISLDLGINDPVPFN-TVGSQFG 115
Query: 62 STPIKPSANTSLGGQLNTSQIGGNLNTSGQIGGPLNTSGQLNSSQTGSGQTTP 114
+ + A+T + + +I NT + Q+N ++
Sbjct: 116 TAISQLDADTFVISETGFYKITVIANT-ATASVLGGLTIQVNGVPVPGTGSSL 167
>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein,
abnormal nuclear; zinc-finger, beta barrel, VWA domain,
gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP:
a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1
Length = 926
Score = 32.1 bits (72), Expect = 0.32
Identities = 27/165 (16%), Positives = 41/165 (24%), Gaps = 7/165 (4%)
Query: 8 PTGPPPQLSSTTPTSSNATKIPPTSTSTAD--VKSFGSPAQLTSSPLGVSTTGTANSTPI 65
P + TP A +PP + A G P Q +G T +
Sbjct: 10 PQAQLQYGQNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTPAQEQL 69
Query: 66 K---PSANTSLGGQLNTSQIGGNLNTSGQIGGPLNTSGQLNSSQTGSGQTTPHKFQIQMP 122
A TS+ + + N Q P+ L Q + M
Sbjct: 70 HQQIDQATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAPAYGQPSAAMG 129
Query: 123 HESLSVIKKQLETSPLIKQSLEQANESDDETPANDHDPLPDFKPI 167
+ QL L+ + + P P P
Sbjct: 130 QNMRPM--NQLYPIDLLTELPPPITDLTLPPPPLVIPPERMLVPS 172
Score = 29.8 bits (66), Expect = 1.8
Identities = 22/155 (14%), Positives = 45/155 (29%), Gaps = 2/155 (1%)
Query: 6 PIPTGPPPQLSSTTPTSSNATKIPPTSTSTADVKSFGSPA--QLTSSPLGVSTTGTANST 63
P PP ++ + P + + + F +PA QL +T+
Sbjct: 26 PAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTPAQEQLHQQIDQATTSMNDMHL 85
Query: 64 PIKPSANTSLGGQLNTSQIGGNLNTSGQIGGPLNTSGQLNSSQTGSGQTTPHKFQIQMPH 123
P + + Q G Q GQ +++ + + + I +
Sbjct: 86 HNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAPAYGQPSAAMGQNMRPMNQLYPIDLLT 145
Query: 124 ESLSVIKKQLETSPLIKQSLEQANESDDETPANDH 158
E I P + E+ + + A+
Sbjct: 146 ELPPPITDLTLPPPPLVIPPERMLVPSELSNASPD 180
>3nwa_A GB, GB-1, GB1, envelope glycoprotein B; coiled-coil, membrane
fusion, viral P glycoprotein B, HSV-1, membrane; HET:
NAG; 2.26A {Human herpesvirus 1} PDB: 3nwf_A* 3nw8_A*
3nwd_A*
Length = 703
Score = 31.9 bits (72), Expect = 0.36
Identities = 10/73 (13%), Positives = 18/73 (24%), Gaps = 1/73 (1%)
Query: 1 PATIKPIPTGPPPQLSSTTPTSSNATKIPPTSTSTADVKSFGSPAQ-LTSSPLGVSTTGT 59
P + Q ++ P + + T K P P G + T
Sbjct: 5 PTSPGTPGVAAATQAANGGPATPAPPALGAAPTGDPKPKKNKKPKNPTPPRPAGDNATVA 64
Query: 60 ANSTPIKPSANTS 72
A ++
Sbjct: 65 AGHATLREHLRDI 77
Score = 29.5 bits (66), Expect = 2.2
Identities = 8/73 (10%), Positives = 22/73 (30%), Gaps = 5/73 (6%)
Query: 8 PTGPPPQLSSTTPTSSNATKIPPTSTSTADVKSFGSPAQLTSSPLGVSTTGTANSTPIKP 67
P P + ++ A P + + + + + N TP +P
Sbjct: 2 PAAPTSPGTPGVAAATQAANGGPATPAPPALGAAPTGDPKPKKN-----KKPKNPTPPRP 56
Query: 68 SANTSLGGQLNTS 80
+ + + + +
Sbjct: 57 AGDNATVAAGHAT 69
>3ghg_A Fibrinogen alpha chain; triple-stranded coiled coil, beta sheets,
alpha helices, AMY amyloidosis, blood coagulation,
disease mutation, glycoprot phosphoprotein; HET: NAG NDG
BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_A*
2a45_G*
Length = 562
Score = 31.4 bits (70), Expect = 0.58
Identities = 18/156 (11%), Positives = 39/156 (25%), Gaps = 6/156 (3%)
Query: 9 TGPPPQLSSTTPTSSNATKIPPTSTSTADVKSFGSPAQLTSSPLGVSTTGTANSTPIKPS 68
+ P + P SS ++ ++ S G + S S
Sbjct: 332 SPRPGSTGTWNPGSSERGSAGHWTSESSVSGSTGQWHSESGSFRPDSPGSGNARPNNPDW 391
Query: 69 ANTSLGGQLNTSQIGGNLNTSGQIGGPLNTSGQLNSSQTGSGQTTPHKFQIQMPHESLSV 128
+ +T + + + + SG TT
Sbjct: 392 GTFEEVSGNVSPGTRREYHTEKLVTSKGDKELRTGKEKVTSGSTTT------TRRSCSKT 445
Query: 129 IKKQLETSPLIKQSLEQANESDDETPANDHDPLPDF 164
+ K + K+ ++ S+D + + L
Sbjct: 446 VTKTVIGPDGHKEVTKEVVTSEDGSDCPEAMDLGTL 481
>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription,
multi-protein complex, DNA- binding, magnesium; 3.65A
{Schizosaccharomyces pombe}
Length = 1752
Score = 30.8 bits (69), Expect = 0.84
Identities = 21/70 (30%), Positives = 32/70 (45%), Gaps = 4/70 (5%)
Query: 1 PATIKPIPTGPPPQLSST--TPTSSNATKIPPTSTSTADVKSFGSPAQLTSSPLGVSTTG 58
P + PT P +S +PTS + + P+ + T+ S SP+ +SP S T
Sbjct: 1671 PTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSP-SYSPTS 1729
Query: 59 TANSTPIKPS 68
+ S P PS
Sbjct: 1730 PSYS-PTSPS 1738
Score = 29.3 bits (65), Expect = 2.9
Identities = 18/106 (16%), Positives = 30/106 (28%), Gaps = 3/106 (2%)
Query: 5 KPIPTGPPPQLSSTTPTSSNATKIPPTSTSTADVKSFGSPAQLTSSPLGVS-TTGTANST 63
+PT + ++ T P + D GSP SPL + G
Sbjct: 1463 TAVPTLAGSGMGTSQLPEGAGT--PYERSPMVDSGFVGSPDAAAFSPLVQGGSEGREGFG 1520
Query: 64 PIKPSANTSLGGQLNTSQIGGNLNTSGQIGGPLNTSGQLNSSQTGS 109
S + + +++ G L + SS S
Sbjct: 1521 DYGLLGAASPYKGVQSPGYTSPFSSAMSPGYGLTSPSYSPSSPGYS 1566
Score = 28.1 bits (62), Expect = 6.7
Identities = 25/116 (21%), Positives = 44/116 (37%), Gaps = 2/116 (1%)
Query: 1 PATIKPIPTGP--PPQLSSTTPTSSNATKIPPTSTSTADVKSFGSPAQLTSSPLGVSTTG 58
P + PT P P S +PTS + + P+ + T+ S SP+ +SP T+
Sbjct: 1629 PTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSP 1688
Query: 59 TANSTPIKPSANTSLGGQLNTSQIGGNLNTSGQIGGPLNTSGQLNSSQTGSGQTTP 114
+ + T S + + S + + S TS + + T+P
Sbjct: 1689 SYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSP 1744
>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 = 29.1 bits (64), Expect = 1.3
Identities = 8/21 (38%), Positives = 11/21 (52%), Gaps = 5/21 (23%)
Query: 140 KQSLEQANES-----DDETPA 155
KQ+L++ S DD PA
Sbjct: 19 KQALKKLQASLKLYADDSAPA 39
>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 = 28.5 bits (63), Expect = 3.1
Identities = 4/41 (9%), Positives = 9/41 (21%), Gaps = 4/41 (9%)
Query: 279 EDAERFRSVTTGEENETVLFEQRAKLYRFVDKEWKERGVGQ 319
+ + A+ R W+ R +
Sbjct: 137 RELLTDGFERVAGATAATV----AEFTRNASGAWEFREAVR 173
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.2 bits (62), Expect = 3.2
Identities = 10/49 (20%), Positives = 18/49 (36%), Gaps = 20/49 (40%)
Query: 168 IPLPDEVPVTTGEENETVLFEQRAKLYRFVDKEWKERGVGQLKLLKNKD 216
I D + +E E++ ++W+E Q K L+ D
Sbjct: 74 IAQADRLT----QEPESI-------------RKWREE---QRKRLQELD 102
Score = 27.8 bits (61), Expect = 4.9
Identities = 8/37 (21%), Positives = 15/37 (40%), Gaps = 16/37 (43%)
Query: 291 EENETVLFEQRAKLYRFVDKEWKERGVGQLKLLKNKD 327
+E E++ ++W+E Q K L+ D
Sbjct: 82 QEPESI-------------RKWREE---QRKRLQELD 102
>3v1v_A 2-MIB synthase, 2-methylisoborneol synthase; class I terpenoid
cyclase fold, DDXXXXD motif, NDXXSXXXE MOT
methylisoborneol biosynthesis; HET: GST; 1.80A
{Streptomyces coelicolor} PDB: 3v1x_A*
Length = 433
Score = 28.6 bits (63), Expect = 3.7
Identities = 11/84 (13%), Positives = 17/84 (20%), Gaps = 11/84 (13%)
Query: 1 PATIKPIPTGPPPQLSSTTPTSSNATKIPPTSTSTADVK-----------SFGSPAQLTS 49
P ++S A P T A + + L
Sbjct: 14 LVPRGSHMVIPSASVTSAASDFLAALHPPVTVPDPAPPPPPAPAAGNPPDTVTGDSVLQR 73
Query: 50 SPLGVSTTGTANSTPIKPSANTSL 73
G + GT + P
Sbjct: 74 ILRGPTGPGTTSLAPAVRYGRQPG 97
>1dab_A P.69 pertactin; pertussis beta helix, cell adhesion; 2.50A
{Bordetella pertussis} SCOP: b.80.1.7 PDB: 2iou_G
Length = 539
Score = 28.5 bits (62), Expect = 3.9
Identities = 14/94 (14%), Positives = 31/94 (32%), Gaps = 1/94 (1%)
Query: 21 TSSNATKIPPTSTSTADVKSFGSPAQLT-SSPLGVSTTGTANSTPIKPSANTSLGGQLNT 79
++ + + + + + +T +S +G + S + A L
Sbjct: 382 ALASQARWTGATRAVDSLSIDNATWVMTDNSNVGALRLASDGSVDFQQPAEAGRFKVLTV 441
Query: 80 SQIGGNLNTSGQIGGPLNTSGQLNSSQTGSGQTT 113
+ + G+ + L S +L Q SGQ
Sbjct: 442 NTLAGSGLFRMNVFADLGLSDKLVVMQDASGQHR 475
>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 = 28.0 bits (62), Expect = 4.9
Identities = 5/44 (11%), Positives = 6/44 (13%), Gaps = 4/44 (9%)
Query: 277 LPEDAERFRSVTTGEENET-VLFEQRAKLYRFVDKEWKERGVGQ 319
G T + R EW
Sbjct: 140 REGYTVLAEDDFGGVLGSTAATV---GEFVRDDSGEWTFHPGIH 180
>1brw_A PYNP, protein (pyrimidine nucleoside phosphorylase); domain
movement, transferase; HET: MES; 2.10A {Geobacillus
stearothermophilus} SCOP: a.46.2.1 c.27.1.1 d.41.3.1
Length = 433
Score = 27.7 bits (62), Expect = 7.2
Identities = 7/24 (29%), Positives = 12/24 (50%)
Query: 250 TKQAYIWFAQDYADEVVSDEQLCA 273
TK+ W + Y + + D Q+ A
Sbjct: 17 TKEEIEWIVRGYTNGDIPDYQMSA 40
>2dsj_A Pyrimidine-nucleoside (thymidine) phosphorylase;
pyrimidine-nucleoside phosphorylase, structural
genomics; 1.80A {Thermus thermophilus}
Length = 423
Score = 27.7 bits (62), Expect = 7.3
Identities = 6/24 (25%), Positives = 10/24 (41%)
Query: 250 TKQAYIWFAQDYADEVVSDEQLCA 273
++ F Y + V D Q+ A
Sbjct: 17 RREDLEAFLLGYLRDEVPDYQVSA 40
>1uou_A Thymidine phosphorylase; transferase, glycosyltransferase,
chemotaxis, angiogenesis; HET: CMU; 2.11A {Homo sapiens}
SCOP: a.46.2.1 c.27.1.1 d.41.3.1 PDB: 2wk6_A 2wk5_A
2j0f_A
Length = 474
Score = 27.7 bits (62), Expect = 7.9
Identities = 3/24 (12%), Positives = 7/24 (29%)
Query: 250 TKQAYIWFAQDYADEVVSDEQLCA 273
++ F + Q+ A
Sbjct: 44 SEADIRGFVAAVVNGSAQGAQIGA 67
>2tpt_A Thymidine phosphorylase; transferase, salvage pathway; 2.60A
{Escherichia coli} SCOP: a.46.2.1 c.27.1.1 d.41.3.1 PDB:
1azy_A 1tpt_A 1otp_A
Length = 440
Score = 27.7 bits (62), Expect = 8.4
Identities = 5/24 (20%), Positives = 11/24 (45%)
Query: 250 TKQAYIWFAQDYADEVVSDEQLCA 273
+ + +F D +S+ Q+ A
Sbjct: 18 SDEEIRFFINGIRDNTISEGQIAA 41
>4eql_A 4-substituted benzoates-glutamate ligase GH3.12; firefly luciferase
family, acyl adenylase, amino acid conjug ligase; HET:
AMP SAL; 1.80A {Arabidopsis thaliana} PDB: 4epm_A*
4eq4_A* 4ewv_A*
Length = 581
Score = 27.7 bits (60), Expect = 8.9
Identities = 8/41 (19%), Positives = 15/41 (36%)
Query: 7 IPTGPPPQLSSTTPTSSNATKIPPTSTSTADVKSFGSPAQL 47
I ++ TS A K+ P + D +F ++
Sbjct: 90 ISARTITGFLLSSGTSGGAQKMMPWNNKYLDNLTFIYDLRM 130
>3h5q_A PYNP, pyrimidine-nucleoside phosphorylase; structural genomics,
glycosyltransferase, transferase; HET: MSE THM; 1.94A
{Staphylococcus aureus}
Length = 436
Score = 27.3 bits (61), Expect = 9.3
Identities = 5/24 (20%), Positives = 9/24 (37%)
Query: 250 TKQAYIWFAQDYADEVVSDEQLCA 273
T + +F Y + D Q +
Sbjct: 20 TTEEINFFIGGYVKGDIPDYQASS 43
>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 = 27.4 bits (60), Expect = 9.8
Identities = 9/56 (16%), Positives = 22/56 (39%), Gaps = 6/56 (10%)
Query: 169 PLPDEVPVTTGEENETVLFEQRA----KLYRFVDKEWKERGVGQLKLLKNKDTGKV 220
+ 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
0.312 0.130 0.379
Gapped
Lambda K H
0.267 0.0419 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,592,633
Number of extensions: 320751
Number of successful extensions: 647
Number of sequences better than 10.0: 1
Number of HSP's gapped: 606
Number of HSP's successfully gapped: 49
Length of query: 388
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 293
Effective length of database: 4,049,298
Effective search space: 1186444314
Effective search space used: 1186444314
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: 58 (26.9 bits)