RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 033744
(112 letters)
>2ogh_A Eukaryotic translation initiation factor EIF-1; alpha-beta protein;
NMR {Saccharomyces cerevisiae}
Length = 108
Score = 123 bits (311), Expect = 2e-38
Identities = 53/106 (50%), Positives = 72/106 (67%), Gaps = 1/106 (0%)
Query: 7 QIPTSYDPFADIKDSLAPGDKGYVHLRVQQRNGKKCLTTVQGLKEDFGYQKILKDLKKEF 66
+ S+DPFAD D Y+H+R+QQRNG+K LTTVQG+ E++ ++ILK LKK+F
Sbjct: 4 ENLKSFDPFADTGDDET-ATSNYIHIRIQQRNGRKTLTTVQGVPEEYDLKRILKVLKKDF 62
Query: 67 CCNGNVVNDKVLGKVIQLQGDHRKNVMIFLVKSKIVDKDRIKIHGF 112
CNGN+V D +G++IQLQGD R V F++ + K IKIHGF
Sbjct: 63 ACNGNIVKDPEMGEIIQLQGDQRAKVCEFMISQLGLQKKNIKIHGF 108
>2if1_A EIF1, SUI1; translation initiation factor; NMR {Homo sapiens} SCOP:
d.64.1.1
Length = 126
Score = 120 bits (301), Expect = 1e-36
Identities = 54/111 (48%), Positives = 75/111 (67%), Gaps = 3/111 (2%)
Query: 5 DSQIPTSYDPFADIK---DSLAPGDKGYVHLRVQQRNGKKCLTTVQGLKEDFGYQKILKD 61
Q S+DPFAD D L G + Y+H+R+QQRNG+K LTTVQG+ +D+ +K++K
Sbjct: 16 AIQNLHSFDPFADASKGDDLLPAGTEDYIHIRIQQRNGRKTLTTVQGIADDYDKKKLVKA 75
Query: 62 LKKEFCCNGNVVNDKVLGKVIQLQGDHRKNVMIFLVKSKIVDKDRIKIHGF 112
KK+F CNG V+ G+VIQLQGD RKN+ FLV+ + D++K+HGF
Sbjct: 76 FKKKFACNGTVIEHPEYGEVIQLQGDQRKNICQFLVEIGLAKDDQLKVHGF 126
>2xzm_F EIF1; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_F
Length = 101
Score = 104 bits (262), Expect = 5e-31
Identities = 39/99 (39%), Positives = 59/99 (59%), Gaps = 1/99 (1%)
Query: 13 DPFADIKDSLAPGDKGYVHLRVQQRNGKKCLTTVQGLKEDFGYQKILKDLKKEFCCNGNV 72
D ++++ + ++H+RV+QR G+KC TTV+G+ +F Y+KI+K KK CN +
Sbjct: 3 DNDFQFENNIDDF-QTHIHIRVEQRRGRKCFTTVEGIPPEFDYEKIMKYWKKWLSCNATI 61
Query: 73 VNDKVLGKVIQLQGDHRKNVMIFLVKSKIVDKDRIKIHG 111
V + KVI+L GDHR + FL + I D I IHG
Sbjct: 62 VEEDEGKKVIKLNGDHRNQIQQFLSEEGIAAVDNITIHG 100
>1d1r_A Hypothetical 11.4 KD protein YCIH in PYRF-OSMB intergenic region;
alpha-beta plait, open-faced beta sandwich,
ferredoxin-like fold; NMR {Escherichia coli} SCOP:
d.64.1.1
Length = 116
Score = 55.2 bits (133), Expect = 2e-11
Identities = 21/78 (26%), Positives = 34/78 (43%), Gaps = 7/78 (8%)
Query: 23 APGDKGYVHLRVQ-QRNGKKCLTTVQGLK-EDFGYQKILKDLKKEFCCNGNVVNDKVLGK 80
P G V ++ Q K + + G+ +D K+ +LKK+ C G V +
Sbjct: 26 RPKGDGVVRIQRQTSGRKGKGVCLITGVDLDDAELTKLAAELKKKCGCGGAVKDG----- 80
Query: 81 VIQLQGDHRKNVMIFLVK 98
VI++QGD R + L
Sbjct: 81 VIEIQGDKRDLLKSLLEA 98
>3og2_A Beta-galactosidase; TIM barrel domain, glycoside hydrolase, family
35, glycoprot hydrolase; HET: NAG BMA MAN GLC; 1.20A
{Trichoderma reesei} PDB: 3ogr_A* 3ogs_A* 3ogv_A*
Length = 1003
Score = 27.8 bits (61), Expect = 0.73
Identities = 9/30 (30%), Positives = 15/30 (50%)
Query: 8 IPTSYDPFADIKDSLAPGDKGYVHLRVQQR 37
TSYD A I++ + Y L++Q +
Sbjct: 338 GYTSYDYGASIREDRRIDREKYSELKLQGQ 367
>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 = 27.5 bits (60), Expect = 0.94
Identities = 9/62 (14%), Positives = 23/62 (37%), Gaps = 11/62 (17%)
Query: 50 KEDFGYQKIL----KDLKKEFCCNG------NVVNDKVLGKVIQLQGDHRKNVMIF-LVK 98
+ + Y+ IL F C ++++ + + +I + + +F +
Sbjct: 13 EHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLL 72
Query: 99 SK 100
SK
Sbjct: 73 SK 74
>1tg7_A Beta-galactosidase; TIM barrel domain, glycoside hydrolase, family
GH35, glycopr penicillium, hydrolase; HET: NAG BMA MAN;
1.90A {Penicillium SP} SCOP: b.149.1.1 b.18.1.27
b.18.1.27 b.71.1.5 c.1.8.14 PDB: 1xc6_A*
Length = 971
Score = 27.5 bits (60), Expect = 1.0
Identities = 8/30 (26%), Positives = 13/30 (43%)
Query: 8 IPTSYDPFADIKDSLAPGDKGYVHLRVQQR 37
TSYD + I +S + Y L++
Sbjct: 319 GYTSYDYGSAISESRNITREKYSELKLLGN 348
>1x88_A Kinesin-like protein KIF11; switch II, motor domain, NECK linker,
cell cycle; HET: ADP NAT; 1.80A {Homo sapiens} SCOP:
c.37.1.9 PDB: 3hqd_A* 3ken_A* 2pg2_A* 1yrs_A* 2fme_A*
2g1q_A* 2gm1_A* 1ii6_A* 2uyi_A* 2uym_A* 2wog_A* 2x2r_A*
2x7c_A* 2x7d_A* 2x7e_A* 2xae_A* 3k3b_A* 3k5e_A* 3l9h_A*
1q0b_A* ...
Length = 359
Score = 26.4 bits (59), Expect = 2.0
Identities = 8/35 (22%), Positives = 15/35 (42%)
Query: 17 DIKDSLAPGDKGYVHLRVQQRNGKKCLTTVQGLKE 51
++ D L P L++ K ++GL+E
Sbjct: 158 ELFDLLNPSSDVSERLQMFDDPRNKRGVIIKGLEE 192
>2qyf_B MAD2L1-binding protein; MAD2 family, spindle assembly checkpoint,
cell cycle, cell division, mitosis, nucleus,
phosphorylation; 2.30A {Homo sapiens}
Length = 240
Score = 26.3 bits (57), Expect = 2.2
Identities = 7/49 (14%), Positives = 19/49 (38%), Gaps = 3/49 (6%)
Query: 6 SQIPTSYDPFADIKDSLAPGDKGYVHLRVQ---QRNGKKCLTTVQGLKE 51
Q+P Y+ +P + + + + + + +KC + L+
Sbjct: 51 QQLPLPYEQLKHFYRKPSPQAEEMLKKKPRATTEVSSRKCQQALAELES 99
>3nqb_A Adenine deaminase 2; PSI-II, structural genomics, protein structure
initiative, N SGX research center for structural
genomics, nysgxrc; 2.21A {Agrobacterium tumefaciens}
PDB: 3t81_A 3t8l_A
Length = 608
Score = 25.4 bits (55), Expect = 4.8
Identities = 11/41 (26%), Positives = 16/41 (39%)
Query: 17 DIKDSLAPGDKGYVHLRVQQRNGKKCLTTVQGLKEDFGYQK 57
D+KD +G + V R+G TT G +G
Sbjct: 431 DVKDGFVVPPEGATMISVTHRHGMAEPTTKTGFLTGWGRWN 471
>3oon_A Outer membrane protein (TPN50); protein structure initiative,
PSI-2, structural genomics, MI center for structural
genomics, MCSG; 1.79A {Borrelia burgdorferi}
Length = 123
Score = 24.9 bits (55), Expect = 4.8
Identities = 8/23 (34%), Positives = 15/23 (65%)
Query: 90 KNVMIFLVKSKIVDKDRIKIHGF 112
+ + +L+K K+ DKD+I G+
Sbjct: 75 RAIGNYLIKMKVKDKDQILFKGW 97
>3thd_A Beta-galactosidase; TIM-barrel domain, glycosyl hydrolase,
glycosylation, hydrolase; HET: NAG DGJ; 1.79A {Homo
sapiens} PDB: 3thc_A*
Length = 654
Score = 25.2 bits (54), Expect = 5.9
Identities = 13/62 (20%), Positives = 23/62 (37%)
Query: 8 IPTSYDPFADIKDSLAPGDKGYVHLRVQQRNGKKCLTTVQGLKEDFGYQKILKDLKKEFC 67
PTSYD A + ++ +K + + Q+ K + F Y K+ + K
Sbjct: 304 QPTSYDYDAPLSEAGDLTEKYFALRNIIQKFEKVPEGPIPPSTPKFAYGKVTLEKLKTVG 363
Query: 68 CN 69
Sbjct: 364 AA 365
>1ux5_A BNI1 protein; structural protein, FH2 actin cytoskeleton; 2.5A
{Saccharomyces cerevisiae} SCOP: a.207.1.1 PDB: 1y64_B*
1ux4_A
Length = 411
Score = 24.8 bits (54), Expect = 7.9
Identities = 11/62 (17%), Positives = 20/62 (32%), Gaps = 4/62 (6%)
Query: 51 EDFGYQKILKDLKKEFCCNGNVVNDKVLGKVIQ----LQGDHRKNVMIFLVKSKIVDKDR 106
+D + +L DL+K F + +Q L D + I L +
Sbjct: 35 DDLYEKGVLADLEKAFAAREIKSLASKRKEDLQKITFLSRDISQQFGINLHMYSSLSVAD 94
Query: 107 IK 108
+
Sbjct: 95 LV 96
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
0.322 0.142 0.418
Gapped
Lambda K H
0.267 0.0625 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,719,008
Number of extensions: 90332
Number of successful extensions: 193
Number of sequences better than 10.0: 1
Number of HSP's gapped: 189
Number of HSP's successfully gapped: 20
Length of query: 112
Length of database: 6,701,793
Length adjustment: 76
Effective length of query: 36
Effective length of database: 4,579,797
Effective search space: 164872692
Effective search space used: 164872692
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 (21.8 bits)
S2: 51 (23.6 bits)