RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3929
(120 letters)
>2ii0_A SOS-1, SON of sevenless homolog 1; signaling protein; 2.02A {Homo
sapiens} SCOP: a.117.1.1 PDB: 1xd2_C* 1nvv_S* 1nvu_S*
1nvw_S* 1nvx_S* 1bkd_S
Length = 490
Score = 48.5 bits (115), Expect = 5e-08
Identities = 17/54 (31%), Positives = 29/54 (53%), Gaps = 2/54 (3%)
Query: 40 LVSGTLDALIQHIVPTIDYYPDRAYLFAFLLSSRLFIKPHELLGRVIALCDVQQ 93
+ +GT+ LI+ + T Y D ++ FL + R F KP ELL +I ++ +
Sbjct: 42 IKAGTVIKLIERL--TYHMYADPNFVRTFLTTYRSFCKPQELLSLIIERFEIPE 93
>3ksy_A SOS-1, SON of sevenless homolog 1; RAS, RAS activator, disease
mutation, guanine-nucleotide releasing factor, signaling
protein; 3.18A {Homo sapiens} PDB: 1xd4_A 1xdv_A 1q9c_A
Length = 1049
Score = 44.0 bits (103), Expect = 2e-06
Identities = 17/55 (30%), Positives = 28/55 (50%), Gaps = 2/55 (3%)
Query: 38 GHLVSGTLDALIQHIVPTIDYYPDRAYLFAFLLSSRLFIKPHELLGRVIALCDVQ 92
+ +GT+ LI+ + T Y D ++ FL + R F KP ELL +I ++
Sbjct: 599 PIIKAGTVIKLIERL--TYHMYADPNFVRTFLTTYRSFCKPQELLSLIIERFEIP 651
>3cf6_E RAP guanine nucleotide exchange factor (GEF) 4; EPAC, rapgef4,
CAMP, SP-camps, GEF, gunanine nucleotide exchange
factor, G-protein, GTP-binding, nucleotide-binding; HET:
SP1; 2.20A {Mus musculus}
Length = 694
Score = 36.3 bits (83), Expect = 0.001
Identities = 18/109 (16%), Positives = 42/109 (38%), Gaps = 9/109 (8%)
Query: 12 EEEDEE----ENERKRRRRRRRSWALVYREGHLVSGTLDALIQHIVPTI-----DYYPDR 62
+E D++ E R + + ++ ++SGT + +++H + TI
Sbjct: 151 KEHDQDVLVLEKVPAGNRAANQGNSQPQQKYTVMSGTPEKILEHFLETIRLEPSLNEATD 210
Query: 63 AYLFAFLLSSRLFIKPHELLGRVIALCDVQQKLTDKTPHGKKELIRKYK 111
+ L F++ +F+ +L ++A Q + L K +
Sbjct: 211 SVLNDFVMMHCVFMPNTQLCPALVAHYHAQPSQGTEQERMDYALNNKRR 259
>2byv_E RAP guanine nucleotide exchange factor 4; EPAC2, CAMP-GEF2, CAMP,
cyclic nucleotide, regulation, auto-inhibition, CDC25
homology domain; 2.7A {Mus musculus}
Length = 999
Score = 35.2 bits (80), Expect = 0.003
Identities = 18/109 (16%), Positives = 42/109 (38%), Gaps = 9/109 (8%)
Query: 12 EEEDEE----ENERKRRRRRRRSWALVYREGHLVSGTLDALIQHIVPTI-----DYYPDR 62
+E D++ E R + + ++ ++SGT + +++H + TI
Sbjct: 456 KEHDQDVLVLEKVPAGNRAANQGNSQPQQKYTVMSGTPEKILEHFLETIRLEPSLNEATD 515
Query: 63 AYLFAFLLSSRLFIKPHELLGRVIALCDVQQKLTDKTPHGKKELIRKYK 111
+ L F++ +F+ +L ++A Q + L K +
Sbjct: 516 SVLNDFVMMHCVFMPNTQLCPALVAHYHAQPSQGTEQERMDYALNNKRR 564
>3ttv_A Catalase HPII; heme orientation, oxidoreductase; HET: HEM; 1.45A
{Escherichia coli} PDB: 3ttt_A* 1gge_A* 1iph_A* 4ens_A*
3ttu_A* 3p9p_A* 4enq_A* 1p81_A* 3ttx_A* 4enw_A* 3ttw_A*
4ent_A* 1qws_A* 1cf9_A* 1p80_A* 1qf7_A* 4enu_A* 4enp_A*
1gg9_A* 1ggf_A* ...
Length = 753
Score = 27.4 bits (61), Expect = 1.3
Identities = 10/26 (38%), Positives = 13/26 (50%), Gaps = 6/26 (23%)
Query: 50 QHIVPTIDYYPDRAYLFAFLLSSRLF 75
HIVP +D+ D LL RL+
Sbjct: 394 GHIVPGLDFTNDP------LLQGRLY 413
>3ej6_A Catalase-3; heme, hydrogen iron, metal-binding, oxidoreductase,
peroxidase; HET: NAG HEM; 2.30A {Neurospora crassa}
Length = 688
Score = 27.3 bits (61), Expect = 1.3
Identities = 9/26 (34%), Positives = 12/26 (46%), Gaps = 6/26 (23%)
Query: 50 QHIVPTIDYYPDRAYLFAFLLSSRLF 75
HIV +D+ D LL RL+
Sbjct: 337 GHIVRGVDFTEDP------LLQGRLY 356
>3e3x_A BIPA; MCSG,PSI2, structural genomics, protein struct initiative,
midwest center for structural genomics, GTP-BIN
nucleotide-binding; HET: MLZ MLY; 1.95A {Vibrio
parahaemolyticus}
Length = 332
Score = 27.1 bits (60), Expect = 1.4
Identities = 9/28 (32%), Positives = 14/28 (50%), Gaps = 2/28 (7%)
Query: 2 ITPYIIRLVKEEEDEEENERKRRRRRRR 29
+TP IR+ K E++R R R +
Sbjct: 307 VTPESIRIRKXFLT--ESDRXRASRSAK 332
>1sy7_A Catalase 1; heme oxidation, singlet oxygen, oxidoreductase; HET:
HDD HEM; 1.75A {Neurospora crassa} SCOP: c.23.16.3
Length = 715
Score = 27.4 bits (61), Expect = 1.4
Identities = 8/26 (30%), Positives = 10/26 (38%), Gaps = 6/26 (23%)
Query: 50 QHIVPTIDYYPDRAYLFAFLLSSRLF 75
H+V I + D LL R F
Sbjct: 337 SHVVNGIGFSDDP------LLQGRNF 356
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 27.3 bits (60), Expect = 1.5
Identities = 15/98 (15%), Positives = 30/98 (30%), Gaps = 29/98 (29%)
Query: 39 HLVSGTLDALIQHIVPTIDYYPDRAYLFAFLLSSRLFIKPHE--LL-------GRVIALC 89
H ++ L + + Y+ A +++ R F K L +++A+
Sbjct: 102 HALAAKLLQENDTTLVKTKELI-KNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIF 160
Query: 90 DVQQKLTDKTPHGK-----KELIRK----YKYNLKFFL 118
Q G +EL R Y + +
Sbjct: 161 GGQ---------GNTDDYFEEL-RDLYQTYHVLVGDLI 188
>1m4z_A Origin recognition complex subunit 1; DNA replication,
transcriptional silencing, chromatin, BAH D gene
regulation; 2.20A {Saccharomyces cerevisiae} SCOP:
b.34.12.1 PDB: 1zhi_A 1zbx_A
Length = 238
Score = 27.1 bits (59), Expect = 1.6
Identities = 5/21 (23%), Positives = 11/21 (52%)
Query: 9 LVKEEEDEEENERKRRRRRRR 29
+ +E+ + ++R RRR
Sbjct: 17 ITTDEQGNIIDGGQKRLRRRG 37
>2fl7_A Regulatory protein SIR3; ORC, silencing, chromatin,
transcription; 1.85A {Saccharomyces cerevisiae} PDB:
2fvu_A 3tu4_K*
Length = 232
Score = 27.0 bits (59), Expect = 1.6
Identities = 5/22 (22%), Positives = 13/22 (59%)
Query: 9 LVKEEEDEEENERKRRRRRRRS 30
++ +++ ++ RRR R+R
Sbjct: 17 IITDDQGRVIDDNNRRRSRKRG 38
>1qwl_A KATA catalase; beta barrel, azide complex, oxyferryl complex,
oxidoreductas; HET: HEM; 1.60A {Helicobacter pylori}
SCOP: e.5.1.1 PDB: 1qwm_A* 2a9e_A* 2iqf_A*
Length = 505
Score = 26.8 bits (60), Expect = 1.7
Identities = 11/26 (42%), Positives = 14/26 (53%), Gaps = 6/26 (23%)
Query: 50 QHIVPTIDYYPDRAYLFAFLLSSRLF 75
++VP I Y PDR +L RLF
Sbjct: 318 ANVVPGIGYSPDR------MLQGRLF 337
>2j2m_A Catalase; functional class, oxidoreductase; HET: HEM; 2.4A
{Exiguobacterium oxidotolerans}
Length = 491
Score = 26.7 bits (60), Expect = 1.9
Identities = 8/26 (30%), Positives = 11/26 (42%), Gaps = 6/26 (23%)
Query: 50 QHIVPTIDYYPDRAYLFAFLLSSRLF 75
+VP + D+ LL RLF
Sbjct: 318 GVLVPGMLPSEDK------LLQGRLF 337
>1si8_A Catalase; N-terminal ARM, anti-parallel beta-barrel, wrapping
region, terminal helical region, tetramer, heme group,
oxidoreducta; HET: HEM; 2.30A {Enterococcus faecalis}
SCOP: e.5.1.1
Length = 484
Score = 26.7 bits (60), Expect = 2.1
Identities = 10/26 (38%), Positives = 13/26 (50%), Gaps = 6/26 (23%)
Query: 50 QHIVPTIDYYPDRAYLFAFLLSSRLF 75
+ VP I+ PD+ LL RLF
Sbjct: 316 GNFVPGIEASPDK------LLQGRLF 335
>1gwe_A Catalase; oxidoreductase, hdyrogen-peroxide:hydrogen peroxide
oxidoreductase; HET: HEM; 0.88A {Micrococcus luteus}
SCOP: e.5.1.1 PDB: 1gwh_A* 1hbz_A* 1gwf_A*
Length = 503
Score = 26.8 bits (60), Expect = 2.1
Identities = 9/25 (36%), Positives = 11/25 (44%), Gaps = 6/25 (24%)
Query: 51 HIVPTIDYYPDRAYLFAFLLSSRLF 75
+ VP I PDR +L R F
Sbjct: 323 NTVPGIGLSPDR------MLLGRAF 341
>1m7s_A Catalase; beta barrel, alpha helical domain, oxidoreductase; HET:
HEM; 1.80A {Pseudomonas syringae} SCOP: e.5.1.1
Length = 484
Score = 26.7 bits (60), Expect = 2.2
Identities = 9/25 (36%), Positives = 13/25 (52%), Gaps = 6/25 (24%)
Query: 51 HIVPTIDYYPDRAYLFAFLLSSRLF 75
++VP I+ DR LL R+F
Sbjct: 312 NLVPGIEPSEDR------LLQGRVF 330
>3e4w_A Putative uncharacterized protein; heme enzyme, catalase,
peroxidase, oxidoreductase; HET: HEM; 1.80A
{Mycobacterium avium subsp} PDB: 3e4y_A*
Length = 320
Score = 26.4 bits (59), Expect = 2.3
Identities = 4/26 (15%), Positives = 7/26 (26%), Gaps = 6/26 (23%)
Query: 50 QHIVPTIDYYPDRAYLFAFLLSSRLF 75
+ I+ D +L R
Sbjct: 280 MRVTDGIEPSDDP------VLRFRTL 299
>2v1o_A Cytosolic acyl coenzyme A thioester hydrolase; acyl-COA
thioesterase 7, serine esterase, protein structure,
domain duplication, ACOT7, macrophage; HET: COA; 1.78A
{Mus musculus}
Length = 151
Score = 26.2 bits (58), Expect = 2.6
Identities = 6/23 (26%), Positives = 14/23 (60%)
Query: 7 IRLVKEEEDEEENERKRRRRRRR 29
I +++E++EE +R ++ R
Sbjct: 125 IVYLRQEQEEEGRKRYEAQKLER 147
Score = 24.6 bits (54), Expect = 7.5
Identities = 7/26 (26%), Positives = 14/26 (53%)
Query: 4 PYIIRLVKEEEDEEENERKRRRRRRR 29
P I+ L +E+E+E + ++ R
Sbjct: 123 PPIVYLRQEQEEEGRKRYEAQKLERM 148
>2isa_A Catalase; peroxidase, heme, oxidoreductase, iron, hydrogen
peroxide; HET: OMT HEM; 1.97A {Vibrio salmonicida} PDB:
1m85_A* 1mqf_A* 1nm0_A* 2cag_A* 2cah_A* 1e93_A* 1h7k_A*
1h6n_A* 3hb6_A*
Length = 483
Score = 26.3 bits (59), Expect = 2.6
Identities = 9/25 (36%), Positives = 14/25 (56%), Gaps = 6/25 (24%)
Query: 51 HIVPTIDYYPDRAYLFAFLLSSRLF 75
++VP I + PD+ +L RLF
Sbjct: 316 NVVPGISFSPDK------MLQGRLF 334
>4eqy_A Acyl-[acyl-carrier-protein]--UDP-N-acetylglucosam acyltransferase;
ssgcid, beta helix, structural genomics, seattle
structural center for infectious disease, transferase;
1.80A {Burkholderia thailandensis}
Length = 283
Score = 26.1 bits (58), Expect = 2.8
Identities = 8/54 (14%), Positives = 17/54 (31%)
Query: 20 ERKRRRRRRRSWALVYREGHLVSGTLDALIQHIVPTIDYYPDRAYLFAFLLSSR 73
R ++ ++Y+ + L + D L F+ SS+
Sbjct: 225 SPDAISALRSAYRILYKNSLSLEEAKVQLSELAQAGGDGDAAVKALVDFVESSQ 278
>1efv_A Electron transfer flavoprotein; electron transport, glutaric
acidemia type II; HET: FAD AMP; 2.10A {Homo sapiens}
SCOP: c.26.2.3 c.31.1.2 PDB: 2a1u_A* 1t9g_R* 2a1t_R*
Length = 315
Score = 25.9 bits (58), Expect = 3.5
Identities = 14/59 (23%), Positives = 20/59 (33%), Gaps = 10/59 (16%)
Query: 39 HLVSGTLDALIQHIVPTIDYYPDRAYLFAFLLSSRLFIKPHELLGRVIALCDVQQKLTD 97
L+ L LI +Y + F K LL RV A +V ++D
Sbjct: 68 GLLPEELTPLILATQKQFNYT-------HICAGASAFGK--NLLPRVAAKLEVAP-ISD 116
>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 = 25.7 bits (55), Expect = 3.6
Identities = 4/15 (26%), Positives = 11/15 (73%)
Query: 103 KKELIRKYKYNLKFF 117
+K+ ++K + +LK +
Sbjct: 18 EKQALKKLQASLKLY 32
>3mi9_C Protein TAT; P-TEFB, HIV-1, protein binding; HET: TPO; 2.10A
{Human immunodeficiency virus type 1} PDB: 3mia_C*
1jfw_A 1tbc_A 1tiv_A 1k5k_A
Length = 86
Score = 24.9 bits (55), Expect = 3.7
Identities = 7/10 (70%), Positives = 10/10 (100%)
Query: 21 RKRRRRRRRS 30
RK+RR+RRR+
Sbjct: 49 RKKRRQRRRA 58
>2xq1_A Peroxisomal catalase; oxidoreductase, hydrogen peroxide
detoxification, PTS1; HET: HEM; 2.90A {Pichia angusta}
Length = 509
Score = 26.1 bits (58), Expect = 3.8
Identities = 9/25 (36%), Positives = 12/25 (48%), Gaps = 6/25 (24%)
Query: 51 HIVPTIDYYPDRAYLFAFLLSSRLF 75
H VP ++ D +L SRLF
Sbjct: 330 HTVPGMEPSNDP------VLQSRLF 348
>1tac_A TAT protein; transcription regulation, HIV-1, transactivation,
RNA binding, structure; NMR {Human immunodeficiency
virus 1} SCOP: j.40.1.1
Length = 86
Score = 24.9 bits (55), Expect = 3.9
Identities = 7/10 (70%), Positives = 9/10 (90%)
Query: 21 RKRRRRRRRS 30
RK+RR+RRR
Sbjct: 49 RKKRRQRRRP 58
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT,
cytoplasmic vesicle, membrane, Ca structural protein;
7.94A {Bos taurus}
Length = 190
Score = 25.5 bits (55), Expect = 4.1
Identities = 7/26 (26%), Positives = 10/26 (38%)
Query: 7 IRLVKEEEDEEENERKRRRRRRRSWA 32
I E E+ RK R +R+
Sbjct: 74 IAQADRLTQEPESIRKWREEQRKRLQ 99
Score = 25.1 bits (54), Expect = 6.4
Identities = 7/46 (15%), Positives = 13/46 (28%), Gaps = 12/46 (26%)
Query: 4 PYIIRLVKEEEDEE-----ENERKRR-------RRRRRSWALVYRE 37
P IR +EE+ + + ++ W E
Sbjct: 84 PESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSE 129
>1u5u_A Allene oxide synthase-lipoxygenase protein; catalase, heme,
eicosanoid, fusion PR lyase; HET: HEM; 2.00A {Plexaura
homomalla} SCOP: e.5.1.2
Length = 374
Score = 25.9 bits (57), Expect = 4.4
Identities = 1/27 (3%), Positives = 9/27 (33%), Gaps = 1/27 (3%)
Query: 51 HIVPTIDYYPDR-AYLFAFLLSSRLFI 76
+ ++ + + + R+ +
Sbjct: 326 NQPASLGLLEAKSPEDYNSIGELRVAV 352
>1a4e_A Catalase A; oxidoreductase, peroxidase; HET: HEM; 2.40A
{Saccharomyces cerevisiae} SCOP: e.5.1.1
Length = 488
Score = 25.6 bits (57), Expect = 4.5
Identities = 7/25 (28%), Positives = 10/25 (40%), Gaps = 6/25 (24%)
Query: 51 HIVPTIDYYPDRAYLFAFLLSSRLF 75
VP + D +L +RLF
Sbjct: 321 TTVPYQEASADP------VLQARLF 339
>1dgf_A Catalase; heme, NADPH, hydrogen peroxide, oxidoreductase; HET: HEM
NDP; 1.50A {Homo sapiens} SCOP: e.5.1.1 PDB: 1dgg_A*
1f4j_A* 1qqw_A* 1dgh_A* 1dgb_A* 3rgp_A* 3re8_A* 3rgs_A*
3nwl_A* 4blc_A* 1th2_A* 1th3_A* 1th4_A* 1tgu_A* 7cat_A*
8cat_A*
Length = 497
Score = 25.6 bits (57), Expect = 4.7
Identities = 8/25 (32%), Positives = 13/25 (52%), Gaps = 6/25 (24%)
Query: 51 HIVPTIDYYPDRAYLFAFLLSSRLF 75
++ P I+ PD+ +L RLF
Sbjct: 334 NMPPGIEASPDK------MLQGRLF 352
>1v5d_A Chitosanase; chitosan degradation, hydrolase, glycosil hydrolase,
family 8; HET: PIN; 1.50A {Bacillus SP} SCOP: a.102.1.2
PDB: 1v5c_A*
Length = 386
Score = 25.8 bits (56), Expect = 4.8
Identities = 6/22 (27%), Positives = 9/22 (40%)
Query: 57 DYYPDRAYLFAFLLSSRLFIKP 78
Y+ D L L + + KP
Sbjct: 363 RYFSDSYNLLTMLFITGNWWKP 384
>3aab_A Putative uncharacterized protein ST1653; alpha-crystallin domain,
chaperone; 1.85A {Sulfolobus tokodaii} PDB: 3aac_A
Length = 123
Score = 24.9 bits (55), Expect = 6.0
Identities = 4/21 (19%), Positives = 9/21 (42%)
Query: 10 VKEEEDEEENERKRRRRRRRS 30
++ E + E K +R +
Sbjct: 62 IEAEREITEPGVKYLTQRPKY 82
>2w4s_A Ankyrin-repeat protein; RNA transport, structural protein; 2.45A
{Cryptosporidium parvum}
Length = 113
Score = 24.6 bits (53), Expect = 8.2
Identities = 8/28 (28%), Positives = 13/28 (46%)
Query: 2 ITPYIIRLVKEEEDEEENERKRRRRRRR 29
IT +++EE E N + +R R
Sbjct: 82 ITIQEWNYIRQEEKERINAKNILKRNNR 109
>4ab5_A Transcriptional regulator, LYSR family; transcription factors;
2.51A {Neisseria meningitidis serogroup B} PDB: 4ab6_A
Length = 222
Score = 24.6 bits (54), Expect = 8.9
Identities = 4/25 (16%), Positives = 6/25 (24%)
Query: 28 RRSWALVYREGHLVSGTLDALIQHI 52
+ R L+ Q I
Sbjct: 181 QSKLYAAIRTEDTDKSYLNNFCQII 205
>4eld_A MJ16.5-P1, small heat shock protein HSP16.5; chaperone; 2.70A
{Methanocaldococcus jannaschii} PDB: 1shs_A
Length = 161
Score = 24.7 bits (54), Expect = 9.1
Identities = 5/25 (20%), Positives = 7/25 (28%)
Query: 6 IIRLVKEEEDEEENERKRRRRRRRS 30
IR + E+ER
Sbjct: 92 EIRAKRSPLMITESERIIYSEIPEE 116
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
0.327 0.144 0.428
Gapped
Lambda K H
0.267 0.0425 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,969,423
Number of extensions: 113302
Number of successful extensions: 676
Number of sequences better than 10.0: 1
Number of HSP's gapped: 635
Number of HSP's successfully gapped: 60
Length of query: 120
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 38
Effective length of database: 4,412,271
Effective search space: 167666298
Effective search space used: 167666298
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 (21.7 bits)
S2: 51 (24.2 bits)