RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11249
(105 letters)
>3e9v_A Protein BTG2; B-cell translocation gene 2, structural genomics,
PSI- 2, protein structure initiative; 1.70A {Homo
sapiens} SCOP: d.370.1.1 PDB: 3dju_B 3djn_B
Length = 120
Score = 125 bits (314), Expect = 7e-39
Identities = 46/107 (42%), Positives = 65/107 (60%), Gaps = 5/107 (4%)
Query: 1 MQDQISAAVLFLAKLIERSNTSCDADQLEAFKTKLAELLNDRFANHWFPEAPNRGQGYRC 60
M +I+AAV FL+ L+ R+ +L+ F L E L + + +HWFPE P++G GYRC
Sbjct: 2 MLPEIAAAVGFLSSLL-RTRGCVSEQRLKVFSGALQEALTEHYKHHWFPEKPSKGSGYRC 60
Query: 61 IRLNKNVKKDTILENAAKAVGMSYEDMR--LPVELTLWVDPHEVCCR 105
IR+N + D I+ A +G+S + LP ELTLWVDP+EV R
Sbjct: 61 IRINHKM--DPIISRVASQIGLSQPQLHQLLPSELTLWVDPYEVSYR 105
>2z15_A Protein TOB1; human TOB1 protein, phosphorylation, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; 2.30A {Homo sapiens} SCOP:
d.370.1.1 PDB: 2d5r_B
Length = 130
Score = 121 bits (306), Expect = 2e-37
Identities = 35/107 (32%), Positives = 60/107 (56%), Gaps = 7/107 (6%)
Query: 1 MQDQISAAVLFLAKLIERSNTSCDADQLEAFKTKLAELLNDRFANHWFPEAPNRGQGYRC 60
MQ +I A+ F+ + ++ F +L LL ++ HW+PE P +G G+RC
Sbjct: 8 MQLEIQVALNFIISYL---YNKLPRRRVNIFGEELERLLKKKYEGHWYPEKPYKGSGFRC 64
Query: 61 IRLNKNVKKDTILENAAKAVGMSYEDMR--LPVELTLWVDPHEVCCR 105
I + + V D ++E A+K G+ +D+R LP +L++W+DP EV +
Sbjct: 65 IHIGEKV--DPVIEQASKESGLDIDDVRGNLPQDLSVWIDPFEVSYQ 109
>2i2x_B MTAC, methyltransferase 1; TIM barrel and helix bundle (MTAB),
rossman fold and helix B (MTAC); HET: B13; 2.50A
{Methanosarcina barkeri}
Length = 258
Score = 27.3 bits (61), Expect = 0.76
Identities = 6/34 (17%), Positives = 13/34 (38%), Gaps = 4/34 (11%)
Query: 54 RGQGYRCIRLNKNVKKDTILENA----AKAVGMS 83
R GY + L ++V + +L + +
Sbjct: 148 RANGYNVVDLGRDVPAEEVLAAVQKEKPIMLTGT 181
>3k49_A MRNA-binding protein PUF3; PUF3, pumilio, RNA binding,
mitochondrial mRNA,, membrane, mitochondrion; HET: CIT;
2.50A {Saccharomyces cerevisiae} PDB: 3k4e_A
Length = 369
Score = 27.4 bits (61), Expect = 0.88
Identities = 5/33 (15%), Positives = 16/33 (48%)
Query: 14 KLIERSNTSCDADQLEAFKTKLAELLNDRFANH 46
K +E +++ + + + +++ D+ NH
Sbjct: 120 KALEYIDSNQRIELVLELSDSVLQMIKDQNGNH 152
>2dir_A Thump domain-containing protein 1; structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens} SCOP: d.308.1.3
Length = 98
Score = 26.7 bits (59), Expect = 0.92
Identities = 21/92 (22%), Positives = 31/92 (33%), Gaps = 13/92 (14%)
Query: 19 SNTSCDADQLEAFKTKLAELLNDRFANHWFPEAPNRGQGYRC-IRLNKNVKKDTILENAA 77
S +S A LE K L WF R N +V ++ ++ A
Sbjct: 3 SGSSGKAF-LEDMKKYAETFLEP-----WFKAPNKGTFQIVYKSRNNSHVNREEVIRELA 56
Query: 78 KAVGMSYE----DMRLPVELTLWVD-PHEVCC 104
V D+ P + T+ V+ VCC
Sbjct: 57 GIVCTLNSENKVDLTNP-QYTVVVEIIKAVCC 87
>1y80_A Predicted cobalamin binding protein; corrinoid, factor IIIM, methyl
transferase, structural genomics, PSI, protein structure
initiative; HET: B1M; 1.70A {Moorella thermoacetica}
Length = 210
Score = 27.2 bits (61), Expect = 0.92
Identities = 7/31 (22%), Positives = 12/31 (38%), Gaps = 4/31 (12%)
Query: 57 GYRCIRLNKNVKKDTILENA----AKAVGMS 83
G+ L +++ +E VGMS
Sbjct: 116 GFTVYNLGVDIEPGKFVEAVKKYQPDIVGMS 146
>3gvo_A Pumilio 2, pumilio homolog 2; RNA-binding, PUF domain, RNA binding
protein; HET: DTD; 1.60A {Mus musculus} PDB: 3gvt_A
3q0q_A 3q0r_A 3q0s_A 1ib2_A 1m8w_A 1m8x_A 1m8y_A 1m8z_A
3q0l_A 3q0m_A 3q0n_A 3q0o_A 3q0p_A 2yjy_A 3bsx_A 3bsb_A
3h3d_X
Length = 351
Score = 26.9 bits (60), Expect = 1.2
Identities = 5/33 (15%), Positives = 16/33 (48%)
Query: 14 KLIERSNTSCDADQLEAFKTKLAELLNDRFANH 46
K +E ++ ++ ++ + + + D+ NH
Sbjct: 115 KALESISSDQQSEMVKELDGHVLKCVKDQNGNH 147
>3kp1_A D-ornithine aminomutase E component; 5 aminomutase (OAM), metal
binding protein; HET: PLP B12 5AD; 2.01A {Clostridium
sticklandii} PDB: 3kow_A* 3koy_A* 3koz_A* 3kp0_A*
3kox_A*
Length = 763
Score = 26.5 bits (58), Expect = 1.7
Identities = 7/35 (20%), Positives = 13/35 (37%), Gaps = 4/35 (11%)
Query: 54 RGQGYRCIRLNKNVKKDTILENA----AKAVGMSY 84
G L +V + +++ A A A+ S
Sbjct: 631 EKYGVEVHYLGTSVPVEKLVDAAIELKADAILAST 665
>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC,
cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo
sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B*
2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A*
2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A*
2zi7_B* 2zia_A* 3kfx_A* ...
Length = 263
Score = 26.3 bits (57), Expect = 2.0
Identities = 7/57 (12%), Positives = 15/57 (26%)
Query: 32 KTKLAELLNDRFANHWFPEAPNRGQGYRCIRLNKNVKKDTILENAAKAVGMSYEDMR 88
K+ +L + P ++ + +N + M YE
Sbjct: 37 KSTFVNILKQLCEDWEVVPEPVARWCNVQSTQDEFEELTMSQKNGGNVLQMMYEKPE 93
>1ctt_A Cytidine deaminase; hydrolase; HET: DHZ; 2.20A {Escherichia coli}
SCOP: c.97.1.1 c.97.1.1 PDB: 1aln_A* 1af2_A* 1ctu_A*
Length = 294
Score = 25.7 bits (56), Expect = 2.9
Identities = 8/52 (15%), Positives = 13/52 (25%), Gaps = 3/52 (5%)
Query: 33 TKLAELLNDRFANHWFPEAPNRGQGYRCIRLNKNVKKDTILENAAKAVGMSY 84
L + L D F + D + + A A S+
Sbjct: 155 HALRDYLPDAFGPKDLEIKTLL---MDEQDHGYALTGDALSQAAIAAANRSH 203
>1xla_A D-xylose isomerase; isomerase(intramolecular oxidoreductase); 2.30A
{Arthrobacter SP} SCOP: c.1.15.3 PDB: 1die_A* 1did_A
1xlb_A 1xlc_A* 1xld_A* 1xle_A 1xlf_A* 1xlg_A* 1xlh_A
1xli_A* 1xlj_A* 1xlk_A 1xll_A 1xlm_A* 4xia_A* 5xia_A*
Length = 394
Score = 26.0 bits (56), Expect = 3.0
Identities = 10/54 (18%), Positives = 20/54 (37%)
Query: 11 FLAKLIERSNTSCDADQLEAFKTKLAELLNDRFANHWFPEAPNRGQGYRCIRLN 64
+ + ++ S + A+L+ND + F + + IRLN
Sbjct: 330 EVQEAMKTSGVFELGETTLNAGESAADLMNDSASFAGFDAEAAAERNFAFIRLN 383
>1qb0_A Protein (M-phase inducer phosphatase 2 (CDC25B)); hydrolase, cell
cycle phosphatase, dual specificity protein
phosphatase; 1.91A {Homo sapiens} SCOP: c.46.1.1 PDB:
1cwr_A 1cws_A 2uzq_A
Length = 211
Score = 25.8 bits (56), Expect = 3.0
Identities = 8/46 (17%), Positives = 15/46 (32%)
Query: 16 IERSNTSCDADQLEAFKTKLAELLNDRFANHWFPEAPNRGQGYRCI 61
+ RS + C + + EL+ D + Q + I
Sbjct: 1 VLRSKSLCHDEIENLLDSDHRELIGDYSKAFLLQTVDGKHQDLKYI 46
>4eg0_A D-alanine--D-alanine ligase; structural genomics, seattle
structural genomics center for infectious disease,
ssgcid; 1.65A {Burkholderia ambifaria} PDB: 4egq_A
Length = 317
Score = 24.8 bits (55), Expect = 5.8
Identities = 7/22 (31%), Positives = 16/22 (72%), Gaps = 3/22 (13%)
Query: 76 AAKAVGMSYEDM--RLPVELTL 95
AA+++G+ Y ++ ++ + LTL
Sbjct: 295 AARSIGIGYSELVVKV-LSLTL 315
>1b9m_A Protein (mode); DNA-binding, gene regulation, winged helix turn
helix, molybdate, OB fold, transcription; 1.75A
{Escherichia coli} SCOP: a.4.5.8 b.40.6.2 b.40.6.2 PDB:
1b9n_A 1o7l_A 1h9s_A 1h9r_A 1h9s_B
Length = 265
Score = 24.5 bits (53), Expect = 8.2
Identities = 9/28 (32%), Positives = 13/28 (46%)
Query: 57 GYRCIRLNKNVKKDTILENAAKAVGMSY 84
R I L K++ + AK G+SY
Sbjct: 21 DPRRISLLKHIALSGSISQGAKDAGISY 48
>1rhc_A F420-dependent alcohol dehydrogenase; (alpha, beta)8 barrel,
oxidoreductase; HET: F42; 1.80A {Methanoculleus
thermophilus} SCOP: c.1.16.3
Length = 330
Score = 24.3 bits (53), Expect = 8.8
Identities = 9/58 (15%), Positives = 14/58 (24%), Gaps = 8/58 (13%)
Query: 42 RFANHWFPEAPNRGQGYRCIRLNKNVKKDTILENAAKAVGMSYEDMRLPVELTLWVDP 99
+ +H A E A+ G M + + VDP
Sbjct: 185 MYGDHLMTVAAAPSTLKN--------VTIPKFEEGAREAGKDPSKMEHAMLIWYSVDP 234
>1w63_A Adapter-related protein complex 1 gamma 1 subunit; endocytosis,
clathrin adaptor, transport, coated PITS; 4.0A {Mus
musculus} SCOP: i.23.1.1
Length = 618
Score = 24.5 bits (53), Expect = 9.2
Identities = 8/35 (22%), Positives = 14/35 (40%), Gaps = 5/35 (14%)
Query: 8 AVLFLAKLIERSNTSCDADQLEAFKTKLAELLNDR 42
A L +I + + +E F LLN++
Sbjct: 162 AALCAVHVIRK-----VPELMEMFLPATKNLLNEK 191
>1iow_A DD-ligase, DDLB, D-ALA\:D-Ala ligase; glycogen phosphorylase, cell
WALL, peptidoglycan synthesis, vancomycin, ADP binding;
HET: ADP PHY; 1.90A {Escherichia coli} SCOP: c.30.1.2
d.142.1.1 PDB: 1iov_A* 2dln_A* 3v4z_A*
Length = 306
Score = 24.4 bits (54), Expect = 9.5
Identities = 5/12 (41%), Positives = 8/12 (66%)
Query: 76 AAKAVGMSYEDM 87
AA+ GMS+ +
Sbjct: 286 AARQAGMSFSQL 297
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
0.321 0.134 0.410
Gapped
Lambda K H
0.267 0.0812 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,559,024
Number of extensions: 76576
Number of successful extensions: 338
Number of sequences better than 10.0: 1
Number of HSP's gapped: 333
Number of HSP's successfully gapped: 22
Length of query: 105
Length of database: 6,701,793
Length adjustment: 70
Effective length of query: 35
Effective length of database: 4,747,323
Effective search space: 166156305
Effective search space used: 166156305
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (23.3 bits)