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= 000055
(2548 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SN6|B Chain B, Crystal Structure Of The Beta2 Adrenergic Receptor-Gs
Protein Complex
Length = 351
Score = 37.4 bits (85), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 26/56 (46%), Gaps = 8/56 (14%)
Query: 2437 SKPGDQNGMLWYIPKA--------HLGSVTRISTVPNTSLFLTGSKDGDVKLWDAK 2484
+ GD LW I H G V +S P+T LF++G+ D KLWD +
Sbjct: 170 TSSGDTTCALWDIETGQQTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVR 225
>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 = 37.4 bits (85), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 26/56 (46%), Gaps = 8/56 (14%)
Query: 2437 SKPGDQNGMLWYIPKA--------HLGSVTRISTVPNTSLFLTGSKDGDVKLWDAK 2484
+ GD LW I H G V +S P+T LF++G+ D KLWD +
Sbjct: 159 TSSGDTTCALWDIETGQQTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVR 214
>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 = 37.4 bits (85), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 26/56 (46%), Gaps = 8/56 (14%)
Query: 2437 SKPGDQNGMLWYIPKA--------HLGSVTRISTVPNTSLFLTGSKDGDVKLWDAK 2484
+ GD LW I H G V +S P+T LF++G+ D KLWD +
Sbjct: 159 TSSGDTTCALWDIETGQQTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVR 214
>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 = 37.4 bits (85), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 26/56 (46%), Gaps = 8/56 (14%)
Query: 2437 SKPGDQNGMLWYIPKA--------HLGSVTRISTVPNTSLFLTGSKDGDVKLWDAK 2484
+ GD LW I H G V +S P+T LF++G+ D KLWD +
Sbjct: 159 TSSGDTTCALWDIETGQQTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVR 214
>pdb|1A0R|B Chain B, Heterotrimeric Complex Of PhosducinTRANSDUCIN BETA-Gamma
Length = 340
Score = 37.4 bits (85), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 26/56 (46%), Gaps = 8/56 (14%)
Query: 2437 SKPGDQNGMLWYIPKA--------HLGSVTRISTVPNTSLFLTGSKDGDVKLWDAK 2484
+ GD LW I H G V +S P+T LF++G+ D KLWD +
Sbjct: 159 TSSGDTTCALWDIETGQQTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVR 214
>pdb|3ACP|A Chain A, Crystal Structure Of Yeast Rpn14, A Chaperone Of The 19s Reg
Particle Of The Proteasome
Length = 417
Score = 36.6 bits (83), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 42/96 (43%), Gaps = 28/96 (29%)
Query: 2449 IPKAHLGSVTRISTVPNTSLFLTGSKDGDVKLWDAKAAQ----LVYHWSKLHERHTFLQP 2504
I +AH+ +T++ P+ ++ S+D +K+W K L+ H
Sbjct: 131 IDQAHVSEITKLKFFPSGEALISSSQDMQLKIWSVKDGSNPRTLIGH------------- 177
Query: 2505 SSRGFGGVVRAGVTDIQVVSRG--FLSCGGDGSVKL 2538
RA VTDI ++ RG LS DG+++L
Sbjct: 178 ---------RATVTDIAIIDRGRNVLSASLDGTIRL 204
>pdb|3VL1|A Chain A, Crystal Structure Of Yeast Rpn14
pdb|3VL1|B Chain B, Crystal Structure Of Yeast Rpn14
Length = 420
Score = 36.6 bits (83), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 42/96 (43%), Gaps = 28/96 (29%)
Query: 2449 IPKAHLGSVTRISTVPNTSLFLTGSKDGDVKLWDAKAAQ----LVYHWSKLHERHTFLQP 2504
I +AH+ +T++ P+ ++ S+D +K+W K L+ H
Sbjct: 134 IDQAHVSEITKLKFFPSGEALISSSQDMQLKIWSVKDGSNPRTLIGH------------- 180
Query: 2505 SSRGFGGVVRAGVTDIQVVSRG--FLSCGGDGSVKL 2538
RA VTDI ++ RG LS DG+++L
Sbjct: 181 ---------RATVTDIAIIDRGRNVLSASLDGTIRL 207
>pdb|3FM0|A Chain A, Crystal Structure Of Wd40 Protein Ciao1
Length = 345
Score = 34.3 bits (77), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 32/114 (28%), Positives = 50/114 (43%), Gaps = 13/114 (11%)
Query: 2272 ASISALQFDHYGHRFASAALDGTVCTWQLEVGGR------SNVRPMESCLC----FSSHA 2321
+++ +L FD G R AS + D TV W+ + G S P C+C F S
Sbjct: 195 STVWSLAFDPSGQRLASCSDDRTVRIWRQYLPGNEQGVACSGSDPSWKCICTLSGFHSRT 254
Query: 2322 M-DVSYITSSGSVIAAAGHSSNGINVVVWDTLAPPTSSRASITCHEGGARSISV 2374
+ D+++ +G++ A G + I V D + P S+T H A S V
Sbjct: 255 IYDIAWCQLTGALATACG--DDAIRVFQEDPNSDPQQPTFSLTAHLHQAHSQDV 306
>pdb|3LLX|A Chain A, Crystal Structure Of An Ala Racemase-like Protein (il1761)
From Idiomarina Loihiensis At 1.50 A Resolution
Length = 376
Score = 32.7 bits (73), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 5/48 (10%)
Query: 2075 EICKRNGELFEALCVNSIDQRQGAIASNRKGIVFFNLEDEIPLHDQLK 2122
++CK +G + + LCVNS Q G I + + LED P+ QL+
Sbjct: 300 QVCKIDGSVLDGLCVNSTSQEHGVIELSDA----YQLED-FPVGHQLR 342
>pdb|3DM0|A Chain A, Maltose Binding Protein Fusion With Rack1 From A. Thaliana
Length = 694
Score = 32.7 bits (73), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 22/38 (57%)
Query: 2453 HLGSVTRISTVPNTSLFLTGSKDGDVKLWDAKAAQLVY 2490
H G V+ ++ P+ SL +G KDG V LWD + +Y
Sbjct: 560 HTGYVSTVAVSPDGSLCASGGKDGVVLLWDLAEGKKLY 597
>pdb|3CFS|B Chain B, Structural Basis Of The Interaction Of Rbap46RBAP48 WITH
Histone H4
Length = 414
Score = 32.0 bits (71), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 33/78 (42%), Gaps = 12/78 (15%)
Query: 2436 GSKPGDQNGMLW-----------YIPKAHLGSVTRISTVPNTSLFL-TGSKDGDVKLWDA 2483
GS DQ M+W ++ AH V +S P + L TGS D V LWD
Sbjct: 246 GSVADDQKLMIWDTRSNTTSKPSHLVDAHTAEVNCLSFNPYSEFILATGSADKTVALWDL 305
Query: 2484 KAAQLVYHWSKLHERHTF 2501
+ +L H + H+ F
Sbjct: 306 RNLKLKLHTFESHKDEIF 323
>pdb|2OVP|B Chain B, Structure Of The Skp1-Fbw7 Complex
pdb|2OVQ|B Chain B, Structure Of The Skp1-Fbw7-Cyclinedegc Complex
pdb|2OVR|B Chain B, Structure Of The Skp1-Fbw7-Cyclinedegn Complex
Length = 445
Score = 32.0 bits (71), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 57/244 (23%), Positives = 86/244 (35%), Gaps = 73/244 (29%)
Query: 2271 LASISALQFDHYGHRFASAALDGTVCTWQLEVGGRSNVRPMESCL-CFSSHAMDVSYITS 2329
+A++ +Q+D G R S A D V W E E+CL H V +
Sbjct: 239 VAAVRCVQYD--GRRVVSGAYDFMVKVWDPET---------ETCLHTLQGHTNRVYSLQF 287
Query: 2330 SGSVIAAAGHSSNGINVVVWDTLAPPTSSRASITCHEGGARSISVFDNDLGSGSVSPLIV 2389
G + + S ++ VWD + ++T H+ + + DN ++V
Sbjct: 288 DGIHVVSG---SLDTSIRVWD--VETGNCIHTLTGHQSLTSGMELKDN---------ILV 333
Query: 2390 TGGKGGDVGIHDFRYIATGKTKKHKHSDRGGSSINTCAHADAQTGSGSKPGDQNGMLWYI 2449
+G V I D I TG+ QT G
Sbjct: 334 SGNADSTVKIWD---IKTGQC--------------------LQTLQG------------- 357
Query: 2450 PKAHLGSVTRISTVPNTSLFLTGSKDGDVKLWDAKAAQLVYHWSKLHERHTFLQPSSRGF 2509
P H +VT + N + +T S DG VKLWD K + + + + S G
Sbjct: 358 PNKHQSAVTCLQF--NKNFVITSSDDGTVKLWDLKTGEFIRN---------LVTLESGGS 406
Query: 2510 GGVV 2513
GGVV
Sbjct: 407 GGVV 410
>pdb|2XZM|R Chain R, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit In
Complex With Initiation Factor 1. This File Contains The
40s Subunit And Initiation Factor For Molecule 1
pdb|2XZN|R Chain R, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit In
Complex With Initiation Factor 1. This File Contains The
40s Subunit And Initiation Factor For Molecule 2
Length = 343
Score = 31.6 bits (70), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 21/42 (50%)
Query: 2441 DQNGMLWYIPKAHLGSVTRISTVPNTSLFLTGSKDGDVKLWD 2482
+ N + Y KAH +V +S PN TG KD + +WD
Sbjct: 200 NTNFQIRYTFKAHESNVNHLSISPNGKYIATGGKDKKLLIWD 241
>pdb|2XYI|A Chain A, Crystal Structure Of Nurf55 In Complex With A H4 Peptide
Length = 430
Score = 31.6 bits (70), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 32/78 (41%), Gaps = 12/78 (15%)
Query: 2436 GSKPGDQNGMLW-----------YIPKAHLGSVTRISTVPNTSLFL-TGSKDGDVKLWDA 2483
GS DQ M+W + AH V +S P + L TGS D V LWD
Sbjct: 248 GSVADDQKLMIWDTRNNNTSKPSHTVDAHTAEVNCLSFNPYSEFILATGSADKTVALWDL 307
Query: 2484 KAAQLVYHWSKLHERHTF 2501
+ +L H + H+ F
Sbjct: 308 RNLKLKLHSFESHKDEIF 325
>pdb|3C99|A Chain A, Structural Basis Of Histone H4 Recognition By P55
pdb|3C9C|A Chain A, Structural Basis Of Histone H4 Recognition By P55
Length = 432
Score = 31.6 bits (70), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 32/78 (41%), Gaps = 12/78 (15%)
Query: 2436 GSKPGDQNGMLW-----------YIPKAHLGSVTRISTVPNTSLFL-TGSKDGDVKLWDA 2483
GS DQ M+W + AH V +S P + L TGS D V LWD
Sbjct: 250 GSVADDQKLMIWDTRNNNTSKPSHTVDAHTAEVNCLSFNPYSEFILATGSADKTVALWDL 309
Query: 2484 KAAQLVYHWSKLHERHTF 2501
+ +L H + H+ F
Sbjct: 310 RNLKLKLHSFESHKDEIF 327
>pdb|2YBA|A Chain A, Crystal Structure Of Nurf55 In Complex With Histone H3
pdb|2YBA|B Chain B, Crystal Structure Of Nurf55 In Complex With Histone H3
pdb|2YB8|B Chain B, Crystal Structure Of Nurf55 In Complex With Su(Z)12
Length = 422
Score = 31.2 bits (69), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 32/78 (41%), Gaps = 12/78 (15%)
Query: 2436 GSKPGDQNGMLW-----------YIPKAHLGSVTRISTVPNTSLFL-TGSKDGDVKLWDA 2483
GS DQ M+W + AH V +S P + L TGS D V LWD
Sbjct: 252 GSVADDQKLMIWDTRNNNTSKPSHTVDAHTAEVNCLSFNPYSEFILATGSADKTVALWDL 311
Query: 2484 KAAQLVYHWSKLHERHTF 2501
+ +L H + H+ F
Sbjct: 312 RNLKLKLHSFESHKDEIF 329
>pdb|4AOW|A Chain A, Crystal Structure Of The Human Rack1 Protein At A Resolution
Of 2.45 Angstrom
pdb|4AOW|B Chain B, Crystal Structure Of The Human Rack1 Protein At A Resolution
Of 2.45 Angstrom
pdb|4AOW|C Chain C, Crystal Structure Of The Human Rack1 Protein At A Resolution
Of 2.45 Angstrom
Length = 340
Score = 31.2 bits (69), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 2452 AHLGSVTRISTVPNTSLFLTGSKDGDVKLWDAKAAQLVY 2490
H G + ++ P+ SL +G KDG LWD + +Y
Sbjct: 213 GHTGYLNTVTVSPDGSLCASGGKDGQAMLWDLNEGKHLY 251
>pdb|2ZKQ|AA Chain a, Structure Of A Mammalian Ribosomal 40s Subunit Within An 80s
Complex Obtained By Docking Homology Models Of The Rna
And Proteins Into An 8.7 A Cryo-Em Map
Length = 317
Score = 31.2 bits (69), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 2452 AHLGSVTRISTVPNTSLFLTGSKDGDVKLWDAKAAQLVY 2490
H G + ++ P+ SL +G KDG LWD + +Y
Sbjct: 190 GHTGYLNTVTVSPDGSLCASGGKDGQAMLWDLNEGKHLY 228
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
0.319 0.134 0.419
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 77,765,016
Number of Sequences: 62578
Number of extensions: 3293730
Number of successful extensions: 6752
Number of sequences better than 100.0: 27
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 6644
Number of HSP's gapped (non-prelim): 116
length of query: 2548
length of database: 14,973,337
effective HSP length: 115
effective length of query: 2433
effective length of database: 7,776,867
effective search space: 18921117411
effective search space used: 18921117411
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 60 (27.7 bits)