RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780520|ref|YP_003064933.1| flagellar basal body rod
modification protein [Candidatus Liberibacter asiaticus str. psy62]
(131 letters)
>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 = 34.2 bits (77), Expect = 0.009
Identities = 16/46 (34%), Positives = 20/46 (43%), Gaps = 17/46 (36%)
Query: 16 KSKSKKTLGQDAFLKLLITQIKHQDPTEPMKASEQVAQLAVFSQME 61
K KK L Q A LKL + D + P A LA+ + ME
Sbjct: 19 KQALKK-L-Q-ASLKL------YADDSAP-------A-LAIKATME 47
>2wyt_A Superoxide dismutase [CU-ZN]; oxidoreductase, disease mutation,
amyotrophic lateral sclero antioxidant; HET: SO4; 1.00A
{Homo sapiens} PDB: 2wyz_A* 1hl4_A 1spd_A 2c9v_A* 1hl5_A
1pu0_A 2c9u_A 2c9s_A* 2v0a_A* 3ecu_A 3kh3_A 3kh4_A
3gzp_A 2wko_A 3gzo_A 1uxl_A 3ecv_A 2yqx_A 2zky_A 1ozu_A
...
Length = 153
Score = 27.5 bits (61), Expect = 0.84
Identities = 7/26 (26%), Positives = 11/26 (42%)
Query: 92 NADGSISGVVNAIQVSSTGLTAITVD 117
DG + G++N Q S G +
Sbjct: 9 KGDGPVQGIINFEQKESNGPVKVWGS 34
>3dzy_A Retinoic acid receptor RXR-alpha; DNA-binding, HOST-virus
interaction, metal-binding, nucleus, polymorphism,
receptor, transcription, transcription regulation; HET:
DNA REA BRL; 3.10A {Homo sapiens} PDB: 3dzu_A* 3e00_A*
Length = 467
Score = 26.4 bits (57), Expect = 1.9
Identities = 9/66 (13%), Positives = 24/66 (36%), Gaps = 13/66 (19%)
Query: 25 QDAFLKLLITQIKHQDPTEPMK-------------ASEQVAQLAVFSQMEQSVQMNSTLQ 71
++ L KH+ P +P + + + F ++ +++ L
Sbjct: 398 REKVYASLEAYCKHKYPEQPGRFAKLLLRLPALRSIGLKCLEHLFFFKLIGDTPIDTFLM 457
Query: 72 ELLKSN 77
E+L++
Sbjct: 458 EMLEAP 463
>1xtm_B Hypothetical superoxide dismutase-like protein YOJM; SOD, Cu-Zn
SOD, SOD-like, superoxide dismutase mutants, structural
genomics; 1.60A {Bacillus subtilis} PDB: 1xtl_B 1s4i_B
1u3n_A
Length = 175
Score = 25.7 bits (56), Expect = 3.4
Identities = 6/29 (20%), Positives = 11/29 (37%), Gaps = 1/29 (3%)
Query: 89 NITNADGSISGVVNAIQVSSTGLTAITVD 117
+ N +G G + + GL I +
Sbjct: 25 QLVNREGKAVGFIEIKESDDEGLD-IHIS 52
>3l9y_A Cu-znsod1, superoxide dismutase [CU-ZN]; greek-KEY-barrel,
antioxidant, copper, cytoplasm, metal- binding,
oxidoreductase; 1.80A {Bombyx mori} PDB: 3l9e_A
Length = 154
Score = 25.4 bits (55), Expect = 3.9
Identities = 5/23 (21%), Positives = 9/23 (39%)
Query: 95 GSISGVVNAIQVSSTGLTAITVD 117
G +SG V Q ++ +
Sbjct: 11 GDVSGTVFFDQQDEKSPVVVSGE 33
>3cc6_A Protein tyrosine kinase 2 beta; focal adhesion kinase, structural
genomics, structural genomics consortium, SGC,
alternative splicing; 1.60A {Homo sapiens} PDB: 3fzs_A*
3et7_A 3fzo_A* 3fzr_A* 3fzp_A* 3fzt_A* 3h3c_A*
Length = 281
Score = 25.1 bits (54), Expect = 5.0
Identities = 12/38 (31%), Positives = 21/38 (55%)
Query: 29 LKLLITQIKHQDPTEPMKASEQVAQLAVFSQMEQSVQM 66
L L+T+ DP++ + +E V L+ QME+ + M
Sbjct: 243 LYTLMTRCWDYDPSDRPRFTELVCSLSDVYQMEKDIAM 280
>1pzl_A Hepatocyte nuclear factor 4-alpha; transcription; HET: MYR; 2.10A
{Homo sapiens} SCOP: a.123.1.1 PDB: 3fs1_A* 1m7w_A*
1lv2_A*
Length = 237
Score = 25.0 bits (54), Expect = 6.0
Identities = 8/67 (11%), Positives = 22/67 (32%), Gaps = 13/67 (19%)
Query: 25 QDAFLKLLITQIKHQDPTEPMK-------------ASEQVAQLAVFSQMEQSVQMNSTLQ 71
+ L I + + + Q+ + F ++ ++++ LQ
Sbjct: 171 RSQVQVSLEDYINDRQYDSRGRFGEXXXXXPTLQSITWQMIEQIQFIKLFGMAKIDNLLQ 230
Query: 72 ELLKSNN 78
E+L +
Sbjct: 231 EMLLGGS 237
>2p1t_A Retinoic acid receptor RXR-alpha; protein-ligand complex, hormone
receptor; HET: 3TN; 1.80A {Homo sapiens} SCOP: a.123.1.1
PDB: 1mvc_A* 1mzn_A* 1mv9_A* 2p1u_A* 2p1v_A* 2zxz_A*
2zy0_A* 3fug_A* 3e94_A* 1fby_A* 3fc6_A* 1rdt_A* 3fal_A*
1g5y_A* 1fm9_A* 1g1u_A 1fm6_A* 1k74_A* 2acl_A* 1xvp_A*
...
Length = 240
Score = 24.7 bits (53), Expect = 7.8
Identities = 9/66 (13%), Positives = 24/66 (36%), Gaps = 13/66 (19%)
Query: 25 QDAFLKLLITQIKHQDPTEPMK-------------ASEQVAQLAVFSQMEQSVQMNSTLQ 71
++ L KH+ P +P + + + F ++ +++ L
Sbjct: 171 REKVYASLEAYCKHKYPEQPGRFAKLLLRLPALRSIGLKCLEHLFFFKLIGDTPIDTFLM 230
Query: 72 ELLKSN 77
E+L++
Sbjct: 231 EMLEAP 236
>1f1g_A Cuznsod, copper-zinc superoxide dismutase; nitric oxide,
oxidoreductase; 1.35A {Saccharomyces cerevisiae} SCOP:
b.1.8.1 PDB: 1f1a_A 1f18_A 1jcv_A 1b4l_A 1sdy_A 1yaz_A
1yso_A 2jcw_A 1f1d_A 1jk9_A 1b4t_A
Length = 154
Score = 24.5 bits (53), Expect = 7.9
Identities = 8/26 (30%), Positives = 13/26 (50%)
Query: 92 NADGSISGVVNAIQVSSTGLTAITVD 117
D +SGVV Q S + T ++ +
Sbjct: 9 KGDAGVSGVVKFEQASESEPTTVSYE 34
>3cjw_A COUP transcription factor 2; COUP-TFII, nuclear receptor, ligand
binding domain, orphan receptor, three-layered helical
sandwich, DNA-binding; 1.48A {Homo sapiens}
Length = 244
Score = 24.3 bits (52), Expect = 9.8
Identities = 10/67 (14%), Positives = 25/67 (37%), Gaps = 13/67 (19%)
Query: 25 QDAFLKLLITQIKHQDPTEPMK-------------ASEQVAQLAVFSQMEQSVQMNSTLQ 71
Q+ L ++ Q P +P + S V + F ++ + + ++
Sbjct: 168 QEKSQCALEEYVRSQYPNQPTRFGKLLLRLPSLRTVSSSVIEQLFFVRLVGKTPIETLIR 227
Query: 72 ELLKSNN 78
++L S +
Sbjct: 228 DMLLSGS 234
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.307 0.121 0.306
Gapped
Lambda K H
0.267 0.0561 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 855,570
Number of extensions: 30559
Number of successful extensions: 94
Number of sequences better than 10.0: 1
Number of HSP's gapped: 93
Number of HSP's successfully gapped: 25
Length of query: 131
Length of database: 5,693,230
Length adjustment: 82
Effective length of query: 49
Effective length of database: 3,705,222
Effective search space: 181555878
Effective search space used: 181555878
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 51 (23.8 bits)