BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 011368
(487 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3DW8|B Chain B, Structure Of A Protein Phosphatase 2a Holoenzyme With B55
Subunit
pdb|3DW8|E Chain E, Structure Of A Protein Phosphatase 2a Holoenzyme With B55
Subunit
Length = 447
Score = 373 bits (958), Expect = e-103, Method: Compositional matrix adjust.
Identities = 206/482 (42%), Positives = 296/482 (61%), Gaps = 59/482 (12%)
Query: 12 LEWKCSQAFGERNPDEELQDVDIVSAIEFDKTGDYLAVGDRGGRVILFETVGGKNTPNQH 71
++W SQ G D+++ + DI+S +EF+ +G+ LA GD+GGRV++F+
Sbjct: 10 IQWCFSQVKGA--VDDDVAEADIISTVEFNHSGELLATGDKGGRVVIFQQ---------- 57
Query: 72 ISRSELEKQMDFTSTSHPEYRYKTEFQSHEPEFDYLKSLEIEEKINRVRWCAAPNGSMFI 131
E++ S S EY + FQSHEPEFDYLKSLEIEEKIN++RW N + F+
Sbjct: 58 ------EQENKIQSHSRGEYNVYSTFQSHEPEFDYLKSLEIEEKINKIRWLPQKNAAQFL 111
Query: 132 LSTNDKTIKLWKV--RDQKVK--KIKEMD-HFPFVSSENTL----LAEKNFMNEHNPPSF 182
LSTNDKTIKLWK+ RD++ + +KE D + ++ TL + M E +P
Sbjct: 112 LSTNDKTIKLWKISERDKRPEGYNLKEEDGRYRDPTTVTTLRVPVFRPMDLMVEASP--- 168
Query: 183 AHGYHLEWTENMATKVYPHAHDFXXXXXXXXXDCETFVSADDLRINLWNLEISDQCFNIV 242
+++ +AH + D ET++SADDLRINLW+LEI+D+ FNIV
Sbjct: 169 -------------RRIFANAHTYHINSISINSDYETYLSADDLRINLWHLEITDRSFNIV 215
Query: 243 DMKPSNMDDLTEVITSAEFHPIYCNLLAYSSSRGFVRLVDMRQSALCDHSARILRDAAES 302
D+KP+NM++LTEVIT+AEFHP CN YSSS+G +RL DMR SALCD +++ + E
Sbjct: 216 DIKPANMEELTEVITAAEFHPNSCNTFVYSSSKGTIRLCDMRASALCDRHSKLFEE-PED 274
Query: 303 HGSKSFFTEIIASISDIKFANDGQHLLSRDYMNLKLWDIRMDSTPVATFKIHEHLRPKLC 362
++SFF+EII+SISD+KF++ G+++++RDY+++K+WD+ M++ PV T+++HE+LR KLC
Sbjct: 275 PSNRSFFSEIISSISDVKFSHSGRYMMTRDYLSVKVWDLNMENRPVETYQVHEYLRSKLC 334
Query: 363 DLYNNDSIFDKFECSVSGDGLHFATGSYSNLLRIFSHGVGSAGGITVEAGKNENRKPILQ 422
LY ND IFDKFEC +G TGSY+N R+F + IT+EA + EN KP
Sbjct: 335 SLYENDCIFDKFECCWNGSDSVVMTGSYNNFFRMFDR--NTKRDITLEASR-ENNKPRTV 391
Query: 423 AAPRARRSSLSNLTRGLYRQAHENSSSGHHELSYNLSSKLLHLAWHPTTNLIACANGNSL 482
PR +S R+ E S S + + K+LH AWHP N+IA A N+L
Sbjct: 392 LKPRKVCASGK-------RKKDEISVD-----SLDFNKKILHTAWHPKENIIAVATTNNL 439
Query: 483 FF 484
+
Sbjct: 440 YI 441
>pdb|2E54|A Chain A, Crystal Structure Of Acetylornithine Aminotransferase From
Thermotoga Maritima
Length = 385
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 53/119 (44%), Gaps = 4/119 (3%)
Query: 309 FTEIIASISDIKFAN--DGQHLLSRDYMNLKLWDIRMDSTPV-ATFKIHEHLRPKLCDLY 365
F ++ +F N D + +S D + L I+ +S V AT + E R KLCD Y
Sbjct: 146 FEPLVPGFEYFEFNNVEDLRRKMSEDVCAVFLEPIQGESGIVPATKEFLEEAR-KLCDEY 204
Query: 366 NNDSIFDKFECSVSGDGLHFATGSYSNLLRIFSHGVGSAGGITVEAGKNENRKPILQAA 424
+ +FD+ +C + G FA Y + + + G GG+ + A R +L+
Sbjct: 205 DALLVFDEVQCGMGRTGKLFAYQKYGVVPDVLTTAKGLGGGVPIGAVIVNERANVLEPG 263
>pdb|2ORD|A Chain A, Crystal Structure Of Acetylornithine Aminotransferase (Ec
2.6.1.11) (Acoat) (Tm1785) From Thermotoga Maritima At
1.40 A Resolution
pdb|2ORD|B Chain B, Crystal Structure Of Acetylornithine Aminotransferase (Ec
2.6.1.11) (Acoat) (Tm1785) From Thermotoga Maritima At
1.40 A Resolution
Length = 397
Score = 37.4 bits (85), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 51/119 (42%), Gaps = 4/119 (3%)
Query: 309 FTEIIASISDIKFAN--DGQHLLSRDYMNLKLWDIRMDSTPV-ATFKIHEHLRPKLCDLY 365
F ++ +F N D + S D + L I+ +S V AT + E R KLCD Y
Sbjct: 158 FEPLVPGFEYFEFNNVEDLRRKXSEDVCAVFLEPIQGESGIVPATKEFLEEAR-KLCDEY 216
Query: 366 NNDSIFDKFECSVSGDGLHFATGSYSNLLRIFSHGVGSAGGITVEAGKNENRKPILQAA 424
+ +FD+ +C G FA Y + + + G GG+ + A R +L+
Sbjct: 217 DALLVFDEVQCGXGRTGKLFAYQKYGVVPDVLTTAKGLGGGVPIGAVIVNERANVLEPG 275
>pdb|1NR0|A Chain A, Two Seven-Bladed Beta-Propeller Domains Revealed By The
Structure Of A C. Elegans Homologue Of Yeast Actin
Interacting Protein 1 (Aip1).
pdb|1PEV|A Chain A, Crystal Structure Of The Actin Interacting Protein From
Caenorhabditis Elegans
Length = 611
Score = 33.9 bits (76), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 41/170 (24%), Positives = 70/170 (41%), Gaps = 31/170 (18%)
Query: 103 EFDYLKSLEIEEKINRVRWCAAPNGSMFILSTNDKTIKLWKVRDQKVKKI------KEMD 156
E D LK++ + + W +P+G+ ++ DKTIK+W V KV+K E
Sbjct: 229 EDDSLKNVAHSGSVFGLTW--SPDGTKIASASADKTIKIWNVATLKVEKTIPVGTRIEDQ 286
Query: 157 HFPFVSSENTL--LAEKNFMNEHNPPSFAHGYHLEWTENMATKVYPHAHDFXXXXXXXXX 214
+ ++ L ++ F+N NP E + + H+
Sbjct: 287 QLGIIWTKQALVSISANGFINFVNP------------ELGSIDQVRYGHNKAITALSSSA 334
Query: 215 DCETFVSAD-DLRINLWNLE--ISDQCFN------IVDMKPSNMDDLTEV 255
D +T SAD + IN W++ IS++ F I +K ++ DL V
Sbjct: 335 DGKTLFSADAEGHINSWDISTGISNRVFPDVHATMITGIKTTSKGDLFTV 384
>pdb|1ERJ|A Chain A, Crystal Structure Of The C-Terminal Wd40 Domain Of Tup1
pdb|1ERJ|B Chain B, Crystal Structure Of The C-Terminal Wd40 Domain Of Tup1
pdb|1ERJ|C Chain C, Crystal Structure Of The C-Terminal Wd40 Domain Of Tup1
Length = 393
Score = 33.1 bits (74), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 31/144 (21%), Positives = 55/144 (38%), Gaps = 38/144 (26%)
Query: 27 EELQDVDIVSAIEFDKTGDYLAVGDRGGRVILFETVGGKNTPNQHISRSELEKQM--DFT 84
+ L +V ++F G+YLA G K T +S L ++ D
Sbjct: 59 KSLDHTSVVCCVKFSNDGEYLATG------------CNKTTQVYRVSDGSLVARLSDDSA 106
Query: 85 STSHPEYRYKTEFQSHEPEFD-YLKSLEIEEKINRVRWCAAPNGSMFILSTNDKTIKLWK 143
+ PE S P D Y++S+ C +P+G D+ I++W
Sbjct: 107 ANKDPE----NLNTSSSPSSDLYIRSV-----------CFSPDGKFLATGAEDRLIRIWD 151
Query: 144 VRDQKV--------KKIKEMDHFP 159
+ ++K+ + I +D+FP
Sbjct: 152 IENRKIVMILQGHEQDIYSLDYFP 175
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 33/152 (21%), Positives = 63/152 (41%), Gaps = 11/152 (7%)
Query: 30 QDVD-IVSAIEFDKTGDYLAVGDRGGRVILFETVGGKNTPNQHISRSELEKQMDFTSTSH 88
+DV+ IV + GD + V + +V+LF+ H + DF+ H
Sbjct: 802 EDVEVIVKCCSWSADGDKIIVAAKN-KVLLFDIHTSGLLAEIHTGHHSTIQYCDFSPYDH 860
Query: 89 PEYRYKTEFQSHEPEFDYLKSLEIEEKINRVRWC----AAPNGSMFILSTNDKTIKLW-- 142
+++ D L++ + + W +P+GS F+ +++D+TI++W
Sbjct: 861 LAVIALSQYCVELWNID--SRLKVADCRGHLSWVHGVMFSPDGSSFLTASDDQTIRVWET 918
Query: 143 -KVRDQKVKKIKEMDHFPFVSSENTLLAEKNF 173
KV +K+ F +E +LA N
Sbjct: 919 KKVCKNSAIVLKQEIDVVFQENETMVLAVDNI 950
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 33/152 (21%), Positives = 63/152 (41%), Gaps = 11/152 (7%)
Query: 30 QDVD-IVSAIEFDKTGDYLAVGDRGGRVILFETVGGKNTPNQHISRSELEKQMDFTSTSH 88
+DV+ IV + GD + V + +V+LF+ H + DF+ H
Sbjct: 795 EDVEVIVKCCSWSADGDKIIVAAKN-KVLLFDIHTSGLLAEIHTGHHSTIQYCDFSPYDH 853
Query: 89 PEYRYKTEFQSHEPEFDYLKSLEIEEKINRVRWC----AAPNGSMFILSTNDKTIKLW-- 142
+++ D L++ + + W +P+GS F+ +++D+TI++W
Sbjct: 854 LAVIALSQYCVELWNID--SRLKVADCRGHLSWVHGVMFSPDGSSFLTASDDQTIRVWET 911
Query: 143 -KVRDQKVKKIKEMDHFPFVSSENTLLAEKNF 173
KV +K+ F +E +LA N
Sbjct: 912 KKVCKNSAIVLKQEIDVVFQENETMVLAVDNI 943
>pdb|4A11|B Chain B, Structure Of The Hsddb1-Hscsa Complex
Length = 408
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 45/86 (52%), Gaps = 2/86 (2%)
Query: 256 ITSAEFHPIYCNLLAYSSSRGFVRLVDMRQSALCDHSARILRDAAESHGSKSFFTEIIAS 315
I + + P Y +LA +S+ V+L D+R+++ C + + +S +S T
Sbjct: 189 ILAVSWSPRYDYILATASADSRVKLWDVRRASGCLITLD-QHNGKKSQAVESANTAHNGK 247
Query: 316 ISDIKFANDGQHLLSRDYMN-LKLWD 340
++ + F +DG HLL+ N ++LW+
Sbjct: 248 VNGLCFTSDGLHLLTVGTDNRMRLWN 273
>pdb|3IZA|A Chain A, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|B Chain B, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|C Chain C, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|D Chain D, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|E Chain E, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|F Chain F, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|G Chain G, Structure Of An Apoptosome-Procaspase-9 Card Complex
Length = 1263
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 32/149 (21%), Positives = 61/149 (40%), Gaps = 34/149 (22%)
Query: 124 APNGSMFILSTNDKTIKLWKVR----------DQKVKKIKE--------MDHFPFVSSEN 165
+P+GS F+ S++D+TI+LW+ + Q+V + + +DH + N
Sbjct: 897 SPDGSSFLTSSDDQTIRLWETKKVCKNSAVMLKQEVDVVFQENEVMVLAVDHIRRLQLIN 956
Query: 166 TLLAEKNFMNEHNPPSFAHGYHLEWT----ENMATKVYP----------HAHDFXXXXXX 211
+ +++ E HL++ EN A ++ H
Sbjct: 957 GRTGQIDYLTEAQVSCCCLSPHLQYIAFGDENGAIEILELVNNRIFQSRFQHKKTVWHIQ 1016
Query: 212 XXXDCETFV-SADDLRINLWNLEISDQCF 239
D +T + S+DD I +WN ++ D+C
Sbjct: 1017 FTADEKTLISSSDDAEIQVWNWQL-DKCI 1044
>pdb|2BCJ|B Chain B, Crystal Structure Of G Protein-coupled Receptor Kinase 2
In Complex With Galpha-q And Gbetagamma Subunits
Length = 340
Score = 30.4 bits (67), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 42/89 (47%), Gaps = 21/89 (23%)
Query: 312 IIASISDIKFANDGQHLLSR-DYMNLKLWD-IRMDSTPVATFKIHEHLRPKLCDLYNNDS 369
II I+ + F+ G+ LL+ D N +WD ++ D V L +D
Sbjct: 269 IICGITSVSFSKSGRLLLAGYDDFNCNVWDALKADRAGV---------------LAGHD- 312
Query: 370 IFDKFEC-SVSGDGLHFATGSYSNLLRIF 397
++ C V+ DG+ ATGS+ + L+I+
Sbjct: 313 --NRVSCLGVTDDGMAVATGSWDSFLKIW 339
>pdb|1GG2|B Chain B, G Protein Heterotrimer Mutant Gi_alpha_1(G203a) Beta_1
Gamma_2 With Gdp Bound
pdb|1GP2|B Chain B, G Protein Heterotrimer Gi_alpha_1 Beta_1 Gamma_2 With Gdp
Bound
pdb|1TBG|A Chain A, Beta-Gamma Dimer Of The Heterotrimeric G-Protein
Transducin
pdb|1TBG|B Chain B, Beta-Gamma Dimer Of The Heterotrimeric G-Protein
Transducin
pdb|1TBG|C Chain C, Beta-Gamma Dimer Of The Heterotrimeric G-Protein
Transducin
pdb|1TBG|D Chain D, Beta-Gamma Dimer Of The Heterotrimeric G-Protein
Transducin
pdb|1OMW|B Chain B, Crystal Structure Of The Complex Between G Protein-Coupled
Receptor Kinase 2 And Heterotrimeric G Protein Beta 1
And Gamma 2 Subunits
pdb|1XHM|A Chain A, The Crystal Structure Of A Biologically Active Peptide
(Sigk) Bound To A G Protein Beta:gamma Heterodimer
pdb|3CIK|B Chain B, Human Grk2 In Complex With Gbetagamma Subunits
pdb|3KRW|B Chain B, Human Grk2 In Complex With Gbetgamma Subunits And Balanol
(Soak)
pdb|3KRX|B Chain B, Human Grk2 In Complex With Gbetgamma Subunits And Balanol
(Co-Crystal)
pdb|3AH8|B Chain B, Structure Of Heterotrimeric G Protein Galpha-Q Beta Gamma
In Complex With An Inhibitor Ym-254890
pdb|3PSC|B Chain B, Bovine Grk2 In Complex With Gbetagamma Subunits
pdb|3PVU|B Chain B, Bovine Grk2 In Complex With Gbetagamma Subunits And A
Selective Kinase Inhibitor (Cmpd101)
pdb|3PVW|B Chain B, Bovine Grk2 In Complex With Gbetagamma Subunits And A
Selective Kinase Inhibitor (Cmpd103a)
pdb|3UZS|B Chain B, Structure Of The C13.28 Rna Aptamer Bound To The G
Protein-Coupled Receptor Kinase 2-Heterotrimeric G
Protein Beta 1 And Gamma 2 Subunit Complex
pdb|3V5W|B Chain B, Human G Protein-Coupled Receptor Kinase 2 In Complex With
Soluble Gbetagamma Subunits And Paroxetine
Length = 340
Score = 30.4 bits (67), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 42/89 (47%), Gaps = 21/89 (23%)
Query: 312 IIASISDIKFANDGQHLLSR-DYMNLKLWD-IRMDSTPVATFKIHEHLRPKLCDLYNNDS 369
II I+ + F+ G+ LL+ D N +WD ++ D V L +D
Sbjct: 269 IICGITSVSFSKSGRLLLAGYDDFNCNVWDALKADRAGV---------------LAGHD- 312
Query: 370 IFDKFEC-SVSGDGLHFATGSYSNLLRIF 397
++ C V+ DG+ ATGS+ + L+I+
Sbjct: 313 --NRVSCLGVTDDGMAVATGSWDSFLKIW 339
>pdb|3SN6|B Chain B, Crystal Structure Of The Beta2 Adrenergic Receptor-Gs
Protein Complex
Length = 351
Score = 30.4 bits (67), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 42/89 (47%), Gaps = 21/89 (23%)
Query: 312 IIASISDIKFANDGQHLLSR-DYMNLKLWD-IRMDSTPVATFKIHEHLRPKLCDLYNNDS 369
II I+ + F+ G+ LL+ D N +WD ++ D V L +D
Sbjct: 280 IICGITSVSFSKSGRLLLAGYDDFNCNVWDALKADRAGV---------------LAGHD- 323
Query: 370 IFDKFEC-SVSGDGLHFATGSYSNLLRIF 397
++ C V+ DG+ ATGS+ + L+I+
Sbjct: 324 --NRVSCLGVTDDGMAVATGSWDSFLKIW 350
>pdb|1A0R|B Chain B, Heterotrimeric Complex Of PhosducinTRANSDUCIN BETA-Gamma
Length = 340
Score = 30.4 bits (67), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 42/89 (47%), Gaps = 21/89 (23%)
Query: 312 IIASISDIKFANDGQHLLSR-DYMNLKLWD-IRMDSTPVATFKIHEHLRPKLCDLYNNDS 369
II I+ + F+ G+ LL+ D N +WD ++ D V L +D
Sbjct: 269 IICGITSVSFSKSGRLLLAGYDDFNCNVWDALKADRAGV---------------LAGHD- 312
Query: 370 IFDKFEC-SVSGDGLHFATGSYSNLLRIF 397
++ C V+ DG+ ATGS+ + L+I+
Sbjct: 313 --NRVSCLGVTDDGMAVATGSWDSFLKIW 339
>pdb|1GOT|B Chain B, Heterotrimeric Complex Of A Gt-AlphaGI-Alpha Chimera And
The Gt-Beta-Gamma Subunits
pdb|2TRC|B Chain B, PhosducinTRANSDUCIN BETA-Gamma Complex
pdb|1B9X|A Chain A, Structural Analysis Of Phosducin And Its Phosphorylation-
Regulated Interaction With Transducin
pdb|1B9Y|A Chain A, Structural Analysis Of Phosducin And Its Phosphorylation-
Regulated Interaction With Transducin Beta-Gamma
Length = 340
Score = 30.4 bits (67), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 42/89 (47%), Gaps = 21/89 (23%)
Query: 312 IIASISDIKFANDGQHLLSR-DYMNLKLWD-IRMDSTPVATFKIHEHLRPKLCDLYNNDS 369
II I+ + F+ G+ LL+ D N +WD ++ D V L +D
Sbjct: 269 IICGITSVSFSKSGRLLLAGYDDFNCNVWDALKADRAGV---------------LAGHD- 312
Query: 370 IFDKFEC-SVSGDGLHFATGSYSNLLRIF 397
++ C V+ DG+ ATGS+ + L+I+
Sbjct: 313 --NRVSCLGVTDDGMAVATGSWDSFLKIW 339
>pdb|3FM0|A Chain A, Crystal Structure Of Wd40 Protein Ciao1
Length = 345
Score = 30.0 bits (66), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 13/52 (25%), Positives = 33/52 (63%), Gaps = 3/52 (5%)
Query: 97 FQSHEPEFDYLKSLEI-EEKINRVRWCAAPNGSMFILSTNDKTIKLWKVRDQ 147
++ ++ +F+ + +LE E ++ V W AP+G++ + DK++ +W+V ++
Sbjct: 88 WKKNQDDFECVTTLEGHENEVKSVAW--APSGNLLATCSRDKSVWVWEVDEE 137
>pdb|3IZ6|AA Chain a, Localization Of The Small Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 380
Score = 30.0 bits (66), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 39/90 (43%), Gaps = 16/90 (17%)
Query: 336 LKLWDIRMDSTPVATFKIHEHLRPKLCDLYNNDSIFDKFECSVSGDGLHFATGSYSNLLR 395
++LWD+R+ S V T+ HE D+ N+ F DG F TGS R
Sbjct: 230 VRLWDLRITSRAVRTYHGHEG------DI-NSVKFFP--------DGQRFGTGSDDGTCR 274
Query: 396 IFSHGVGSAGGI-TVEAGKNENRKPILQAA 424
+F G + E +N+N PI+ +
Sbjct: 275 LFDMRTGHQLQVYNREPDRNDNELPIVTSV 304
>pdb|3MMY|A Chain A, Structural And Functional Analysis Of The Interaction
Between The Nucleoporin Nup98 And The Mrna Export Factor
Rae1
pdb|3MMY|C Chain C, Structural And Functional Analysis Of The Interaction
Between The Nucleoporin Nup98 And The Mrna Export Factor
Rae1
pdb|3MMY|E Chain E, Structural And Functional Analysis Of The Interaction
Between The Nucleoporin Nup98 And The Mrna Export Factor
Rae1
pdb|3MMY|G Chain G, Structural And Functional Analysis Of The Interaction
Between The Nucleoporin Nup98 And The Mrna Export Factor
Rae1
Length = 368
Score = 30.0 bits (66), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 17/33 (51%)
Query: 113 EEKINRVRWCAAPNGSMFILSTNDKTIKLWKVR 145
+ + + W APN S + + DKT+K W R
Sbjct: 127 DAPVKTIHWIKAPNYSCVMTGSWDKTLKFWDTR 159
>pdb|3LEC|A Chain A, The Crystal Structure Of A Protein In The Nadb-Rossmann
Superfamily From Streptococcus Agalactiae To 1.8a
Length = 230
Score = 29.3 bits (64), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 35/68 (51%), Gaps = 4/68 (5%)
Query: 120 RWCAAPNGSMF---ILSTNDKTIKLWKVRDQKVK-KIKEMDHFPFVSSENTLLAEKNFMN 175
+W AA + + IL+ NDK ++ V+ KE+ PF+ S NT + ++ + N
Sbjct: 134 KWLAANDFEIVAEDILTENDKRYEILVVKHGHXNLTAKELRFGPFLLSNNTTVFKEKWQN 193
Query: 176 EHNPPSFA 183
E N +FA
Sbjct: 194 ELNKLTFA 201
>pdb|1VYH|C Chain C, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|D Chain D, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|G Chain G, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|H Chain H, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|K Chain K, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|L Chain L, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|O Chain O, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|P Chain P, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|S Chain S, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|T Chain T, Paf-Ah Holoenzyme: Lis1ALFA2
Length = 410
Score = 28.9 bits (63), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 10/21 (47%), Positives = 16/21 (76%)
Query: 125 PNGSMFILSTNDKTIKLWKVR 145
PNG + ++ DKTIK+W+V+
Sbjct: 202 PNGDHIVSASRDKTIKMWEVQ 222
>pdb|3MXX|A Chain A, Crystal Structure Of Wdr5 Mutant (S62a)
Length = 315
Score = 28.5 bits (62), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 63/280 (22%), Positives = 111/280 (39%), Gaps = 53/280 (18%)
Query: 124 APNGSMFILSTNDKTIKLWKVRDQKVKKIKEMDHFPFV----SSENTLLAEKNFMNEHNP 179
+PNG S+ DK IK+W D K +K SS++ LL +
Sbjct: 35 SPNGEWLAASSADKLIKIWGAYDGKFEKTISGHKLGISDVAWSSDSNLLVSASDDKTLKI 94
Query: 180 PSFAHGYHLEWTENMATKVYPHAHDFXXXXXXXXXDCETFVSAD-DLRINLWNLEISDQC 238
+ G L+ + + V+ +F VS D + +W+++ + +C
Sbjct: 95 WDVSSGKCLKTLKGHSNYVF--CCNFNPQS-------NLIVSGSFDESVRIWDVK-TGKC 144
Query: 239 FNIVDMKPSNMDDLTEVITSAEFHPIYCNLLAYSSSRGFVRLVDMRQSALCDHSARILRD 298
+ P++ D ++ V + + +L+ SS G R + D
Sbjct: 145 LKTL---PAHSDPVSAVHFNRDG-----SLIVSSSYDGLCR----------------IWD 180
Query: 299 AAESHGSKSFFTEIIASISDIKFANDGQHLLSRDYMN-LKLWDIRMDSTPVATFKIHEHL 357
A K+ + +S +KF+ +G+++L+ N LKLWD + T+ H++
Sbjct: 181 TASGQCLKTLIDDDNPPVSFVKFSPNGKYILAATLDNTLKLWDYSKGKC-LKTYTGHKN- 238
Query: 358 RPKLCDLYNNDSIFDKFECSVSGDGLHFATGSYSNLLRIF 397
K C IF F SV+G G +GS NL+ I+
Sbjct: 239 -EKYC-------IFANF--SVTG-GKWIVSGSEDNLVYIW 267
>pdb|3D79|A Chain A, Crystal Structure Of Hypothetical Protein Ph0734.1 From
Hyperthermophilic Archaea Pyrococcus Horikoshii Ot3
Length = 179
Score = 28.5 bits (62), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 20/38 (52%)
Query: 15 KCSQAFGERNPDEELQDVDIVSAIEFDKTGDYLAVGDR 52
+ SQ FGE + L D V EFDKT + + V D+
Sbjct: 27 QLSQMFGEEIARKMLNKKDEVKVAEFDKTTEIILVNDK 64
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.318 0.133 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,726,632
Number of Sequences: 62578
Number of extensions: 593559
Number of successful extensions: 1551
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 1515
Number of HSP's gapped (non-prelim): 53
length of query: 487
length of database: 14,973,337
effective HSP length: 103
effective length of query: 384
effective length of database: 8,527,803
effective search space: 3274676352
effective search space used: 3274676352
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)