RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5254
(147 letters)
>2v26_A Myosin VI; calmodulin-binding, nucleotide-binding, membrane,
vanadate, transport, PRE- powerstroke, transition state,
protein transport; HET: ADP; 1.75A {Sus scrofa} PDB:
2bki_A 2bkh_A 3l9i_A 2x51_A 2vb6_A* 2vas_A*
Length = 784
Score = 130 bits (329), Expect = 3e-36
Identities = 29/68 (42%), Positives = 44/68 (64%)
Query: 66 FEQLCINYANEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFSDNTLCLQLVEGKPNGLLC 125
FEQ CINY NE LQ +FN+ + + EQE Y KEG+ + + DN C+ L+E + G+L
Sbjct: 464 FEQFCINYCNEKLQQFFNERILKEEQELYQKEGLGVNEVHYVDNQDCIDLIEARLVGILD 523
Query: 126 VLDDQAKF 133
+LD++ +
Sbjct: 524 ILDEENRL 531
>1lkx_A Myosin IE heavy chain; myosin motor domain, lever ARM, converter
domain, contractIle protein; HET: ADP; 3.00A
{Dictyostelium discoideum} SCOP: c.37.1.9
Length = 697
Score = 127 bits (322), Expect = 3e-35
Identities = 31/68 (45%), Positives = 44/68 (64%)
Query: 66 FEQLCINYANEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFSDNTLCLQLVEGKPNGLLC 125
FEQL IN+ NE LQ F + + EQEEY +EGI W++IE+ +N +L+E KP GL+
Sbjct: 398 FEQLNINFCNEKLQQLFIELTLKSEQEEYVREGIEWKNIEYFNNKPICELIEKKPIGLIS 457
Query: 126 VLDDQAKF 133
+LD+
Sbjct: 458 LLDEACLI 465
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 125 bits (316), Expect = 2e-34
Identities = 38/68 (55%), Positives = 46/68 (67%), Gaps = 1/68 (1%)
Query: 66 FEQLCINYANEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFSDNTLCLQLVEGKPNGLLC 125
FEQ CINYANE LQ FN HVF+ EQEEY KE I W I+F DN C+ L+E G+L
Sbjct: 449 FEQFCINYANEKLQQQFNMHVFKLEQEEYMKEQIPWTLIDFYDNQPCINLIE-AKMGVLD 507
Query: 126 VLDDQAKF 133
+LD++ K
Sbjct: 508 LLDEECKM 515
>1w7j_A Myosin VA; motor protein, unconventional myosin, myosin V, chicken,
molecular motor, ATPase, ELC, IQ motif, muscle protein,
ATP-binding; HET: ADP; 2A {Gallus gallus} SCOP: b.34.3.1
c.37.1.9 PDB: 1w7i_A* 1oe9_A* 1w8j_A
Length = 795
Score = 123 bits (311), Expect = 8e-34
Identities = 38/68 (55%), Positives = 46/68 (67%), Gaps = 1/68 (1%)
Query: 66 FEQLCINYANEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFSDNTLCLQLVEGKPNGLLC 125
FEQ CINYANE LQ FN HVF+ EQEEY KE I W I+F DN C+ L+E G+L
Sbjct: 449 FEQFCINYANEKLQQQFNMHVFKLEQEEYMKEQIPWTLIDFYDNQPCINLIE-AKMGVLD 507
Query: 126 VLDDQAKF 133
+LD++ K
Sbjct: 508 LLDEECKM 515
>2ycu_A Non muscle myosin 2C, alpha-actinin; motor protein; HET: AOV; 2.25A
{Homo sapiens} PDB: 1br1_A* 1br4_A* 1br2_A*
Length = 995
Score = 118 bits (299), Expect = 3e-32
Identities = 36/71 (50%), Positives = 45/71 (63%), Gaps = 3/71 (4%)
Query: 66 FEQLCINYANEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFS-DNTLCLQLVEG--KPNG 122
FEQLCINY NE LQ FN +F EQEEY +EGI W ++F D C+ L+E P G
Sbjct: 445 FEQLCINYTNEKLQQLFNHTMFVLEQEEYQREGIPWTFLDFGLDLQPCIDLIERPANPPG 504
Query: 123 LLCVLDDQAKF 133
LL +LD++ F
Sbjct: 505 LLALLDEECWF 515
>1w9i_A Myosin II heavy chain; molecular motor, ATPase, motor domain,
mutant, muscle contraction; HET: ADP; 1.75A
{Dictyostelium discoideum} PDB: 1w9j_A* 1w9l_A* 1w9k_A*
1mma_A* 2aka_A 1d0x_A* 1d0y_A* 1d0z_A* 1d1a_A* 1d1b_A*
1d1c_A* 2xel_A* 1yv3_A* 3bz7_A* 3bz8_A* 3bz9_A* 1jwy_A*
1jx2_A* 3mjx_A* 2jhr_A* ...
Length = 770
Score = 118 bits (299), Expect = 4e-32
Identities = 37/70 (52%), Positives = 50/70 (71%), Gaps = 2/70 (2%)
Query: 66 FEQLCINYANEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFS-DNTLCLQLVEGK-PNGL 123
FEQLCINY NE LQ +FN H+F+ EQEEY KE I W I+F D+ + L++G+ P G+
Sbjct: 466 FEQLCINYTNEKLQQFFNHHMFKLEQEEYLKEKINWTFIDFGLDSQATIDLIDGRQPPGI 525
Query: 124 LCVLDDQAKF 133
L +LD+Q+ F
Sbjct: 526 LALLDEQSVF 535
>1g8x_A Myosin II heavy chain fused to alpha-actinin 3; motor, lever ARM,
protein engineering, structural protein; HET: ADP; 2.80A
{Dictyostelium discoideum} SCOP: k.1.1.1
Length = 1010
Score = 118 bits (299), Expect = 4e-32
Identities = 37/70 (52%), Positives = 50/70 (71%), Gaps = 2/70 (2%)
Query: 66 FEQLCINYANEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFS-DNTLCLQLVEGK-PNGL 123
FEQLCINY NE LQ +FN H+F+ EQEEY KE I W I+F D+ + L++G+ P G+
Sbjct: 466 FEQLCINYTNEKLQQFFNHHMFKVEQEEYLKEKINWTFIDFGLDSQATIDLIDGRQPPGI 525
Query: 124 LCVLDDQAKF 133
L +LD+Q+ F
Sbjct: 526 LALLDEQSVF 535
>4db1_A Myosin-7; S1DC, cardiac, beta isoform, MYH7, myhcb, MYHC-beta,
contractIle protein; HET: ANP; 2.60A {Homo sapiens} PDB:
2w4a_M 2w4g_M 2w4h_M 2mys_A* 1m8q_A* 1mvw_A* 1o18_A*
1o19_A* 1o1a_A* 1o1b_A* 1o1c_A* 1o1d_A* 1o1e_A* 1o1f_A*
1o1g_A*
Length = 783
Score = 117 bits (296), Expect = 1e-31
Identities = 36/69 (52%), Positives = 48/69 (69%), Gaps = 2/69 (2%)
Query: 66 FEQLCINYANEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFS-DNTLCLQLVEGKPNGLL 124
FEQLCIN+ NE LQ +FN H+F EQEEY KEGI W I+F D C+ L+E KP G++
Sbjct: 473 FEQLCINFTNEKLQQFFNHHMFVLEQEEYKKEGIEWTFIDFGMDLQACIDLIE-KPMGIM 531
Query: 125 CVLDDQAKF 133
+L+++ F
Sbjct: 532 SILEEECMF 540
>1kk8_A Myosin heavy chain, striated muscle; actin-detached, mechanics of
motor, contractIle PROT; HET: ADP; 2.30A {Argopecten
irradians} SCOP: b.34.3.1 c.37.1.9 PDB: 1kk7_A* 1qvi_A*
1s5g_A* 1sr6_A 1b7t_A* 1kqm_A* 1kwo_A* 1l2o_A* 1dfl_A*
2w4t_C 2w4v_C 2w4w_C 1dfk_A 2ec6_A 2otg_A* 2os8_A*
2ovk_A 2ekv_A 2ekw_A 2oy6_A* ...
Length = 837
Score = 117 bits (295), Expect = 1e-31
Identities = 38/69 (55%), Positives = 49/69 (71%), Gaps = 2/69 (2%)
Query: 66 FEQLCINYANEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFS-DNTLCLQLVEGKPNGLL 124
FEQLCINY NE LQ +FN H+F EQEEY KEGI W I+F D +C+ L+E KP G+L
Sbjct: 472 FEQLCINYTNERLQQFFNHHMFILEQEEYKKEGIAWEFIDFGMDLQMCIDLIE-KPMGIL 530
Query: 125 CVLDDQAKF 133
+L+++ F
Sbjct: 531 SILEEECMF 539
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin
subfragment 2, heavy meromyosin, essential light chain,
motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP:
i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 116 bits (291), Expect = 4e-31
Identities = 36/71 (50%), Positives = 46/71 (64%), Gaps = 3/71 (4%)
Query: 66 FEQLCINYANEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFS-DNTLCLQLVEGK--PNG 122
FEQLCINY NE LQ FN +F EQEEY +EGI W I+F D C++L+E P G
Sbjct: 476 FEQLCINYTNEKLQQLFNHTMFILEQEEYQREGIEWNFIDFGLDLQPCIELIERPTNPPG 535
Query: 123 LLCVLDDQAKF 133
+L +LD++ F
Sbjct: 536 VLALLDEECWF 546
>3gde_A DNA ligase; DNA-binding domain, adenylation domain, OB-fold domain,
ATP-binding, cell cycle, cell division, DNA damage, DNA
recombination; HET: DNA; 2.30A {Archaeoglobus fulgidus}
Length = 558
Score = 76.6 bits (189), Expect = 2e-17
Identities = 22/64 (34%), Positives = 34/64 (53%)
Query: 1 MFQPAPLTVATVFDKLKDIAGMTGQASVSRKIDKIQSLFVACRHCEARYLIRSLAGKLRI 60
LTV V + +IA +TG+ S+ RKI + L+ EARYL R + ++R+
Sbjct: 109 TLAFEELTVRKVRETFDEIASLTGEGSMKRKIMLLTGLYGLATPLEARYLTRLILNEMRL 168
Query: 61 GLAE 64
G+ E
Sbjct: 169 GVGE 172
>2hiv_A Thermostable DNA ligase; ATP-dependent, open conformation; 2.05A
{Sulfolobus solfataricus} PDB: 2hix_A*
Length = 621
Score = 76.4 bits (188), Expect = 2e-17
Identities = 20/63 (31%), Positives = 32/63 (50%)
Query: 2 FQPAPLTVATVFDKLKDIAGMTGQASVSRKIDKIQSLFVACRHCEARYLIRSLAGKLRIG 61
LTV V+ L +A TG+ S KI + L EA++L+R + G+LR+G
Sbjct: 134 TSKESLTVDEVYSTLSKVALTTGEGSRDLKIRLLAGLLKKADPLEAKFLVRFVEGRLRVG 193
Query: 62 LAE 64
+ +
Sbjct: 194 IGD 196
>1x9n_A DNA ligase I; 5'-adenylated nicked DNA, protein-DNA complex, L
complex; HET: DNA DOC AMP; 3.00A {Homo sapiens} SCOP:
a.235.1.1 b.40.4.6 d.142.2.1
Length = 688
Score = 74.2 bits (182), Expect = 1e-16
Identities = 39/64 (60%), Positives = 50/64 (78%)
Query: 1 MFQPAPLTVATVFDKLKDIAGMTGQASVSRKIDKIQSLFVACRHCEARYLIRSLAGKLRI 60
M P PLT + VF K +DIA +TG AS ++KID I+ LFVACRH EAR++ RSL+G+LR+
Sbjct: 162 MLPPPPLTASGVFSKFRDIARLTGSASTAKKIDIIKGLFVACRHSEARFIARSLSGRLRL 221
Query: 61 GLAE 64
GLAE
Sbjct: 222 GLAE 225
>2cfm_A Thermostable DNA ligase; protein-nucleotide complex, cell cycle,
cell division, DNA damage, DNA recombination, DNA
repair, DNA replication; HET: AMP; 1.8A {Pyrococcus
furiosus} PDB: 3rr5_A*
Length = 561
Score = 71.6 bits (176), Expect = 1e-15
Identities = 23/64 (35%), Positives = 36/64 (56%)
Query: 1 MFQPAPLTVATVFDKLKDIAGMTGQASVSRKIDKIQSLFVACRHCEARYLIRSLAGKLRI 60
F PLT+ V+ L +A TG+ S +K+ + LF+ EA+YL R++ G +R
Sbjct: 105 SFFSQPLTIKRVYQTLVKVAETTGEGSQDKKVKYLADLFMDAEPLEAKYLARTILGTMRT 164
Query: 61 GLAE 64
G+AE
Sbjct: 165 GVAE 168
>3l2p_A DNA ligase 3; DNA ligase, DNA repair, ATP-binding, cell cycle, cell
divisi damage; HET: DNA AMP; 3.00A {Homo sapiens}
Length = 579
Score = 67.9 bits (166), Expect = 3e-14
Identities = 10/65 (15%), Positives = 26/65 (40%), Gaps = 3/65 (4%)
Query: 1 MFQPAPLTVATVFDKLKDIAGMTGQASVSRKIDKIQSLFVACRHCEARYLIRSLAGKLRI 60
+ LT+ V + L ++ +T + + +Q + C + + +IR + L++
Sbjct: 112 PAAKSLLTIQEVDEFLLRLSKLTKEDE---QQQALQDIASRCTANDLKCIIRLIKHDLKM 168
Query: 61 GLAEH 65
Sbjct: 169 NSGAK 173
>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 = 35.6 bits (81), Expect = 0.004
Identities = 29/169 (17%), Positives = 59/169 (34%), Gaps = 32/169 (18%)
Query: 3 QPAPLTVATVF--DKLKDIAGMTGQASVSR--KIDKIQSLFVACRHCEARYLIRSL---- 54
QP+ +T + D+L + + + +VSR K++ + R A+ ++ +
Sbjct: 104 QPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRP--AKNVL--IDGVL 159
Query: 55 -AGK--LRIGLAEHFEQLC--------INYAN--------EHLQYYFNQHVFQYEQEEYN 95
+GK + + + ++ C +N N E LQ Q + +
Sbjct: 160 GSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDH 219
Query: 96 KEGIRWRHIEFSDNTLCLQLVEGKPNGLLCVLDDQAKFSLIPPDDILCR 144
I+ R L + N LL VL + ++ C+
Sbjct: 220 SSNIKLRIHSIQAELRRLLKSKPYENCLL-VLLNVQNAKAWNAFNLSCK 267
Score = 29.8 bits (66), Expect = 0.39
Identities = 24/136 (17%), Positives = 45/136 (33%), Gaps = 42/136 (30%)
Query: 36 QSLFVACRHCEARYLIRSLAGKLRIGLAE----HFEQLCIN-------YANEHL------ 78
SL V + E+ I S+ +L++ L H + ++ + ++ L
Sbjct: 414 YSL-VEKQPKESTISIPSIYLELKVKLENEYALH--RSIVDHYNIPKTFDSDDLIPPYLD 470
Query: 79 QYYFNQ---HVFQYEQEEYNKEGIRWRHIEFSDNTLCLQLVEGK----------PNGLLC 125
QY+++ H+ E E R F L + +E K +L
Sbjct: 471 QYFYSHIGHHLKNIEHPE--------RMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILN 522
Query: 126 VLDDQAKF-SLIPPDD 140
L + I +D
Sbjct: 523 TLQQLKFYKPYICDND 538
Score = 26.7 bits (58), Expect = 3.4
Identities = 24/128 (18%), Positives = 41/128 (32%), Gaps = 19/128 (14%)
Query: 13 FDKLKDIAGMTGQASVSRKIDKIQSLFVACRHCEARYLIRSLAGKLRIGLAEHFEQ-LCI 71
FD KD+ M +ID I + L +L K + + E+ L I
Sbjct: 33 FD-CKDVQDMPKSILSKEEIDHI--IMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRI 89
Query: 72 NY-------ANEHLQYYFNQHVFQYEQEE-YN-----KEGIRWRHIEFSDNTLCLQLVEG 118
NY E Q ++ +++ YN + R + L E
Sbjct: 90 NYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALL--EL 147
Query: 119 KPNGLLCV 126
+P + +
Sbjct: 148 RPAKNVLI 155
>2i6j_A Ssoptp, sulfolobus solfataricus protein tyrosine phosphatase; PTP
domain, hydrolase; 1.66A {Sulfolobus solfataricus} PDB:
2i6i_A 2i6m_A 3ro1_A* 2i6o_A* 2dxp_A* 2i6p_A*
Length = 161
Score = 26.0 bits (57), Expect = 4.6
Identities = 7/34 (20%), Positives = 11/34 (32%)
Query: 75 NEHLQYYFNQHVFQYEQEEYNKEGIRWRHIEFSD 108
E + + Y K G++ HI D
Sbjct: 36 PEDWEIEESWGDKDYYLSILKKNGLQPLHIPIPD 69
>2jl1_A Triphenylmethane reductase; oxidoreductase, bioremediation; HET:
NAP GOL; 1.96A {Citrobacter SP} PDB: 2vrb_A* 2vrc_A
2vrc_D
Length = 287
Score = 26.1 bits (58), Expect = 5.1
Identities = 6/54 (11%), Positives = 19/54 (35%), Gaps = 4/54 (7%)
Query: 92 EEYNKE-GIRW---RHIEFSDNTLCLQLVEGKPNGLLCVLDDQAKFSLIPPDDI 141
E + I + R+ ++D + L +G + + + +++
Sbjct: 125 EYAIRTTNIPYTFLRNALYTDFFVNEGLRASTESGAIVTNAGSGIVNSVTRNEL 178
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
0.326 0.141 0.436
Gapped
Lambda K H
0.267 0.0751 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,304,265
Number of extensions: 126044
Number of successful extensions: 320
Number of sequences better than 10.0: 1
Number of HSP's gapped: 305
Number of HSP's successfully gapped: 26
Length of query: 147
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 62
Effective length of database: 4,328,508
Effective search space: 268367496
Effective search space used: 268367496
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (24.2 bits)