RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3434
(83 letters)
>3cb2_A Gamma-1-tubulin, tubulin gamma-1 chain; lattice, microtubule,
nucleation, GTPase, lateral interaction, structural
protein, hydrolase; HET: GDP; 2.30A {Homo sapiens} PDB:
1z5v_A* 1z5w_A*
Length = 475
Score = 113 bits (284), Expect = 1e-31
Identities = 56/65 (86%), Positives = 61/65 (93%)
Query: 19 DVVVQPYNSLLTLKRLTLNADCVVVLDNTALNRIACDRLHIENPSFAQINSLVSTIMAVS 78
DVVVQPYNSLLTLKRLT NADC+VVLDNTALNRIA DRLHI+NPSF+QIN LVSTIM+ S
Sbjct: 180 DVVVQPYNSLLTLKRLTQNADCLVVLDNTALNRIATDRLHIQNPSFSQINQLVSTIMSAS 239
Query: 79 TSTLR 83
T+TLR
Sbjct: 240 TTTLR 244
>2bto_A Tubulin btuba; bacterial tubulin, polymerization, cytoskeleton,
protein COM cytoskeletal protein; HET: GTP; 2.5A
{Prosthecobacter dejongeii} SCOP: c.32.1.1 d.79.2.1 PDB:
2btq_A*
Length = 473
Score = 102 bits (255), Expect = 2e-27
Identities = 22/65 (33%), Positives = 40/65 (61%)
Query: 19 DVVVQPYNSLLTLKRLTLNADCVVVLDNTALNRIACDRLHIENPSFAQINSLVSTIMAVS 78
VV +PYN++ L L +AD ++ DN AL +A + +IE+P+ +N L++ +A
Sbjct: 181 SVVTEPYNTVFALNTLRRSADACLIFDNEALFDLAHRKWNIESPTVDDLNLLITEALAGI 240
Query: 79 TSTLR 83
T+++R
Sbjct: 241 TASMR 245
>2btq_B Tubulin btubb; structural protein, cytoskeletal protein/complex,
bacterial tubulin, cytoskeleton, polymerization,
verrucomicrobia; HET: GDP; 3.2A {Prosthecobacter
dejongeii}
Length = 426
Score = 99.4 bits (248), Expect = 1e-26
Identities = 28/65 (43%), Positives = 48/65 (73%), Gaps = 1/65 (1%)
Query: 19 DVVVQPYNSLLTLKRLTLNADCVVVLDNTALNRIACDRLHIENPSFAQINSLVSTIMAVS 78
D V+PYN++LTL+R+ NAD V+LDN AL RIA +L+ +P++ +N++++ I++
Sbjct: 178 DSAVEPYNAILTLQRILDNADGAVLLDNEALFRIAKAKLN-RSPNYMDLNNIIALIVSSV 236
Query: 79 TSTLR 83
T++LR
Sbjct: 237 TASLR 241
>3ryc_B Tubulin beta chain; alpha-tubulin, beta-tubulin, GTPase,
microtubule, tubulin, cell cycle; HET: GTP GDP; 2.10A
{Ovis aries} PDB: 3ryf_B* 3ryh_B* 3ryi_B* 3hke_B*
3du7_B* 3e22_B* 3hkc_B* 3hkd_B* 3hkb_B* 3n2g_B* 3n2k_B*
1z2b_B* 2xrp_A* 1tvk_B* 1tub_B* 1jff_B* 1ia0_B* 1ffx_B*
1sa0_B* 1sa1_B* ...
Length = 445
Score = 98.3 bits (245), Expect = 4e-26
Identities = 25/65 (38%), Positives = 37/65 (56%)
Query: 19 DVVVQPYNSLLTLKRLTLNADCVVVLDNTALNRIACDRLHIENPSFAQINSLVSTIMAVS 78
D VV+PYN+ L++ +L N D +DN AL I L + P++ +N LVS M+
Sbjct: 177 DTVVEPYNATLSVHQLVENTDETYSIDNEALYDICFRTLKLTTPTYGDLNHLVSATMSGV 236
Query: 79 TSTLR 83
T+ LR
Sbjct: 237 TTCLR 241
>3ryc_A Tubulin alpha chain; alpha-tubulin, beta-tubulin, GTPase,
microtubule, tubulin, cell cycle; HET: GTP GDP; 2.10A
{Ovis aries} PDB: 3ryf_A* 3ryh_A* 3ryi_A* 3hke_A*
3hkc_A* 3hkd_A* 3hkb_A* 3n2g_A* 3n2k_A* 1sa0_A* 1sa1_A*
3edl_F* 1ffx_A* 1ia0_A* 2hxf_A* 2hxh_A* 2p4n_A* 1jff_A*
2wbe_A* 3dco_A* ...
Length = 451
Score = 96.4 bits (240), Expect = 2e-25
Identities = 25/65 (38%), Positives = 40/65 (61%)
Query: 19 DVVVQPYNSLLTLKRLTLNADCVVVLDNTALNRIACDRLHIENPSFAQINSLVSTIMAVS 78
VV+PYNS+LT ++DC ++DN A+ I L IE P++ +N L+S I++
Sbjct: 179 TAVVEPYNSILTTHTTLEHSDCAFMVDNEAIYDICRRNLDIERPTYTNLNRLISQIVSSI 238
Query: 79 TSTLR 83
T++LR
Sbjct: 239 TASLR 243
>3dev_A SH1221; alpha-beta protein., structural genomics, PSI-2, protein
STR initiative, northeast structural genomics
consortium, NESG; 3.10A {Staphylococcus haemolyticus}
Length = 320
Score = 28.7 bits (65), Expect = 0.13
Identities = 13/63 (20%), Positives = 21/63 (33%), Gaps = 13/63 (20%)
Query: 31 LKRLTLNADCVVVLDNTALNRIACDRL-----------HIENPSFAQINSLVSTIMAVST 79
+ + V+V D RI R H + +N V+T + ST
Sbjct: 69 IDDSVYSDALVIVCDTANAPRIDDQRYLNGQSLIKIDHHPATDQYGDVN-FVNTEAS-ST 126
Query: 80 STL 82
S +
Sbjct: 127 SEI 129
>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 = 28.7 bits (63), Expect = 0.18
Identities = 15/99 (15%), Positives = 34/99 (34%), Gaps = 39/99 (39%)
Query: 4 VYFDTLGS-----DIIEI---LHDVVVQPYNSLLT---------------LKRLTLN--- 37
+++ L + ++E+ L + + S L+RL +
Sbjct: 184 IFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPY 243
Query: 38 ADCVVVLDNTALNRIACDRLHIENPSF---AQINSLVST 73
+C++VL N + +F +I L++T
Sbjct: 244 ENCLLVLLNV------QNAKAWN--AFNLSCKI--LLTT 272
Score = 27.9 bits (61), Expect = 0.33
Identities = 15/73 (20%), Positives = 25/73 (34%), Gaps = 7/73 (9%)
Query: 3 SVYFDTLGS-DIIEILHDVVVQPYNSLLTLKRLTLNADCVVVLDNTALNRIACDRLHIEN 61
S+Y + + LH +V YN T L LD + I H++N
Sbjct: 430 SIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPY---LDQYFYSHIG---HHLKN 483
Query: 62 PSFAQINSLVSTI 74
+ +L +
Sbjct: 484 IEHPERMTLFRMV 496
Score = 26.7 bits (58), Expect = 0.78
Identities = 14/67 (20%), Positives = 29/67 (43%), Gaps = 8/67 (11%)
Query: 6 FDTL---GSDIIEILHDVVVQP-YNSLLTLKRLTLNADCVVVLDNTALNRIACDRLHIEN 61
F TL ++++ + V++ Y L++ + + T + DRL+ +N
Sbjct: 68 FWTLLSKQEEMVQKFVEEVLRINYKFLMS----PIKTEQRQPSMMTRMYIEQRDRLYNDN 123
Query: 62 PSFAQIN 68
FA+ N
Sbjct: 124 QVFAKYN 130
>3dma_A Exopolyphosphatase-related protein; structural genomics, PSI-2,
protein structure initiative, northeast structural
genomics consortium, NESG; 2.25A {Bacteroides fragilis}
Length = 343
Score = 26.1 bits (58), Expect = 1.1
Identities = 16/65 (24%), Positives = 21/65 (32%), Gaps = 16/65 (24%)
Query: 32 KRLTLNADCVVVLDNTALNRIACDRL--------------HIENPSFAQINSLVSTIMAV 77
+L + AD + LD AL RI H+ F +I
Sbjct: 86 DKLIMEADVICCLDFNALKRIDEMSDIVAASPGRKIMIDHHLYPEDFCRITISHPE--IS 143
Query: 78 STSTL 82
STS L
Sbjct: 144 STSEL 148
>3lq1_A 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene- 1-carboxylate
synthase; menaquinone biosynthesis, sephchc synthase,
structural genomics; 2.60A {Listeria monocytogenes}
Length = 578
Score = 26.3 bits (58), Expect = 1.4
Identities = 9/30 (30%), Positives = 16/30 (53%), Gaps = 6/30 (20%)
Query: 17 LHDVVVQPYNSLLTLKRLTLNADCVVVLDN 46
HD+ N LL K+ +N +V+++N
Sbjct: 465 YHDM-----NGLLMAKKYKMNLT-IVIVNN 488
>2x7j_A 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene -1-carboxylate
synthase; transferase, metal-binding; HET: TPP; 2.35A
{Bacillus subtilis}
Length = 604
Score = 26.0 bits (57), Expect = 1.5
Identities = 9/30 (30%), Positives = 16/30 (53%), Gaps = 6/30 (20%)
Query: 17 LHDVVVQPYNSLLTLKRLTLNADCVVVLDN 46
HD+ N LL K+L + V++++N
Sbjct: 485 YHDL-----NGLLAAKKLGIPL-TVILVNN 508
>3pvs_A Replication-associated recombination protein A; maintenance of
genome stability Pro recombination; 2.50A {Escherichia
coli}
Length = 447
Score = 24.8 bits (55), Expect = 3.4
Identities = 7/13 (53%), Positives = 10/13 (76%)
Query: 60 ENPSFAQINSLVS 72
ENPSF ++L+S
Sbjct: 143 ENPSFELNSALLS 155
>3o3r_A Aldo-keto reductase family 1, member B7; aldose reductase like
protein, AKR1B14, oxidoreductase; HET: NAP; 1.86A
{Rattus norvegicus} PDB: 3qkz_A*
Length = 316
Score = 23.6 bits (52), Expect = 8.4
Identities = 9/36 (25%), Positives = 15/36 (41%)
Query: 18 HDVVVQPYNSLLTLKRLTLNADCVVVLDNTALNRIA 53
+ V Y+ L + R + VVL+ + IA
Sbjct: 203 KGIAVIAYSPLGSPDRPYAKPEDPVVLEIPKIKEIA 238
>1zej_A HBD-9, 3-hydroxyacyl-COA dehydrogenase; structural genomics, joint
center for structural genomics, J protein structure
initiative, PSI; HET: PE8; 2.00A {Archaeoglobus
fulgidus}
Length = 293
Score = 23.7 bits (52), Expect = 8.5
Identities = 3/19 (15%), Positives = 9/19 (47%)
Query: 64 FAQINSLVSTIMAVSTSTL 82
++ L + + +TS +
Sbjct: 92 LREVERLTNAPLCSNTSVI 110
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
0.323 0.135 0.373
Gapped
Lambda K H
0.267 0.0669 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,180,058
Number of extensions: 57397
Number of successful extensions: 134
Number of sequences better than 10.0: 1
Number of HSP's gapped: 133
Number of HSP's successfully gapped: 16
Length of query: 83
Length of database: 6,701,793
Length adjustment: 51
Effective length of query: 32
Effective length of database: 5,277,822
Effective search space: 168890304
Effective search space used: 168890304
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 51 (23.5 bits)