RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy547
(282 letters)
>d1h95a_ b.40.4.5 (A:) Y-box protein 1 cold shock domain (YB1-CSD)
{Human (Homo sapiens) [TaxId: 9606]}
Length = 79
Score = 98.7 bits (246), Expect = 4e-27
Identities = 46/75 (61%), Positives = 59/75 (78%)
Query: 29 VLATKVCGVVKWFSVKSGYGFIATPSSNEDVFVHSKRIKYNNPRKLYKTLAEGETVEFDI 88
V+ATKV G VKWF+V++GYGFI + EDVFVH IK NNPRK +++ +GETVEFD+
Sbjct: 4 VIATKVLGTVKWFNVRNGYGFINRNDTKEDVFVHQTAIKKNNPRKYLRSVGDGETVEFDV 63
Query: 89 MQGDKGHEAINVTGP 103
++G+KG EA NVTGP
Sbjct: 64 VEGEKGAEAANVTGP 78
Score = 84.9 bits (210), Expect = 8e-22
Identities = 39/68 (57%), Positives = 53/68 (77%)
Query: 196 VLATKVCGVVKWFSVKSGYGFIATPSSNEDVFVHSKRIKYNNPRKLYKTLAEGETVEFDI 255
V+ATKV G VKWF+V++GYGFI + EDVFVH IK NNPRK +++ +GETVEFD+
Sbjct: 4 VIATKVLGTVKWFNVRNGYGFINRNDTKEDVFVHQTAIKKNNPRKYLRSVGDGETVEFDV 63
Query: 256 MQGDKGNQ 263
++G+KG +
Sbjct: 64 VEGEKGAE 71
>d1mjca_ b.40.4.5 (A:) Major cold shock protein {Escherichia coli
[TaxId: 562]}
Length = 69
Score = 79.8 bits (197), Expect = 4e-20
Identities = 31/71 (43%), Positives = 42/71 (59%), Gaps = 4/71 (5%)
Query: 31 ATKVCGVVKWFSVKSGYGFIATPSSNEDVFVHSKRIKYNNPRKLYKTLAEGETVEFDIMQ 90
+ K+ G+VKWF+ G+GFI ++DVFVH I+ + YK+L EG+ V F I
Sbjct: 1 SGKMTGIVKWFNADKGFGFITPDDGSKDVFVHFSAIQNDG----YKSLDEGQKVSFTIES 56
Query: 91 GDKGHEAINVT 101
G KG A NVT
Sbjct: 57 GAKGPAAGNVT 67
Score = 72.5 bits (178), Expect = 2e-17
Identities = 27/66 (40%), Positives = 38/66 (57%), Gaps = 4/66 (6%)
Query: 198 ATKVCGVVKWFSVKSGYGFIATPSSNEDVFVHSKRIKYNNPRKLYKTLAEGETVEFDIMQ 257
+ K+ G+VKWF+ G+GFI ++DVFVH I+ + YK+L EG+ V F I
Sbjct: 1 SGKMTGIVKWFNADKGFGFITPDDGSKDVFVHFSAIQNDG----YKSLDEGQKVSFTIES 56
Query: 258 GDKGNQ 263
G KG
Sbjct: 57 GAKGPA 62
>d1g6pa_ b.40.4.5 (A:) Major cold shock protein {Thermotoga maritima
[TaxId: 2336]}
Length = 66
Score = 73.3 bits (180), Expect = 9e-18
Identities = 32/69 (46%), Positives = 40/69 (57%), Gaps = 5/69 (7%)
Query: 36 GVVKWFSVKSGYGFIATPSSNEDVFVHSKRIKYNNPRKLYKTLAEGETVEFDIMQGDKGH 95
G VKWF K GYGFI T DVFVH I+ +KTL EG+ VEF+I +G KG
Sbjct: 3 GKVKWFDSKKGYGFI-TKDEGGDVFVHWSAIEMEG----FKTLKEGQVVEFEIQEGKKGP 57
Query: 96 EAINVTGPD 104
+A +V +
Sbjct: 58 QAAHVKVVE 66
Score = 65.5 bits (160), Expect = 7e-15
Identities = 31/61 (50%), Positives = 36/61 (59%), Gaps = 5/61 (8%)
Query: 203 GVVKWFSVKSGYGFIATPSSNEDVFVHSKRIKYNNPRKLYKTLAEGETVEFDIMQGDKGN 262
G VKWF K GYGFI T DVFVH I+ +KTL EG+ VEF+I +G KG
Sbjct: 3 GKVKWFDSKKGYGFI-TKDEGGDVFVHWSAIEMEG----FKTLKEGQVVEFEIQEGKKGP 57
Query: 263 Q 263
Q
Sbjct: 58 Q 58
>d1c9oa_ b.40.4.5 (A:) Major cold shock protein {Bacillus
caldolyticus [TaxId: 1394]}
Length = 66
Score = 71.4 bits (175), Expect = 5e-17
Identities = 30/66 (45%), Positives = 40/66 (60%), Gaps = 5/66 (7%)
Query: 36 GVVKWFSVKSGYGFIATPSSNEDVFVHSKRIKYNNPRKLYKTLAEGETVEFDIMQGDKGH 95
G VKWF+ + GYGFI DVFVH I+ +KTL EG+ V F+I+QG++G
Sbjct: 4 GKVKWFNNEKGYGFI-EVEGGSDVFVHFTAIQGEG----FKTLEEGQEVSFEIVQGNRGP 58
Query: 96 EAINVT 101
+A NV
Sbjct: 59 QAANVV 64
Score = 64.8 bits (158), Expect = 2e-14
Identities = 28/61 (45%), Positives = 37/61 (60%), Gaps = 5/61 (8%)
Query: 203 GVVKWFSVKSGYGFIATPSSNEDVFVHSKRIKYNNPRKLYKTLAEGETVEFDIMQGDKGN 262
G VKWF+ + GYGFI DVFVH I+ +KTL EG+ V F+I+QG++G
Sbjct: 4 GKVKWFNNEKGYGFI-EVEGGSDVFVHFTAIQGEG----FKTLEEGQEVSFEIVQGNRGP 58
Query: 263 Q 263
Q
Sbjct: 59 Q 59
>d1wfqa_ b.40.4.5 (A:) Cold shock domain protein E1 (UNR) {Human
(Homo sapiens) [TaxId: 9606]}
Length = 89
Score = 63.4 bits (154), Expect = 9e-14
Identities = 17/77 (22%), Positives = 31/77 (40%), Gaps = 9/77 (11%)
Query: 31 ATKVCGVVKWFSVKSGYGFIATPSSNEDVFVHSKRIKYNNPRKLYKTLAEGETVEFDIMQ 90
A + GV++ + YGFI +F H + N + L G+ VEF++
Sbjct: 16 ALRETGVIEKL--LTSYGFIQCSERQARLFFHCSQYNGN-----LQDLKVGDDVEFEVSS 68
Query: 91 GDKGHE--AINVTGPDG 105
+ + A+ + G
Sbjct: 69 DRRTGKPIAVKLVKISG 85
Score = 58.8 bits (142), Expect = 4e-12
Identities = 18/82 (21%), Positives = 32/82 (39%), Gaps = 9/82 (10%)
Query: 182 SNPSASESPKKEPVVLATKVCGVVKWFSVKSGYGFIATPSSNEDVFVHSKRIKYNNPRKL 241
S+ S+ P A + GV++ + YGFI +F H + N
Sbjct: 2 SSGSSGGYPNGTSA--ALRETGVIEKL--LTSYGFIQCSERQARLFFHCSQYNGN----- 52
Query: 242 YKTLAEGETVEFDIMQGDKGNQ 263
+ L G+ VEF++ + +
Sbjct: 53 LQDLKVGDDVEFEVSSDRRTGK 74
>d1vqon1 c.55.4.1 (N:1-186) Ribosomal protein L18 (L18p) {Archaeon
Haloarcula marismortui [TaxId: 2238]}
Length = 186
Score = 24.9 bits (54), Expect = 9.0
Identities = 16/97 (16%), Positives = 34/97 (35%), Gaps = 18/97 (18%)
Query: 115 ANKPKYN-----RRKAKANKRKRKSRRNNRLFGVKYQLEIPMEFSSKTMPFFMILFCCLQ 169
A P+Y RR+A+ + +R + K +L S+K + ++
Sbjct: 1 ATGPRYKVPMRRRREARTDYHQRLRLLKSG----KPRLVA--RKSNKHVRAQLVTL---- 50
Query: 170 MCDSGTK--AEATPSNPSASESPKKEPVVLATKVCGV 204
+G A A S+ + + + + G+
Sbjct: 51 -GPNGDDTLASAHSSDLAEYGWEAPTGNMPSAYLTGL 86
Database: scop70_1_75
Posted date: Mar 27, 2010 6:21 PM
Number of letters in database: 2,407,596
Number of sequences in database: 13,730
Lambda K H
0.316 0.132 0.391
Gapped
Lambda K H
0.267 0.0584 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,004,902
Number of extensions: 44547
Number of successful extensions: 122
Number of sequences better than 10.0: 1
Number of HSP's gapped: 114
Number of HSP's successfully gapped: 15
Length of query: 282
Length of database: 2,407,596
Length adjustment: 84
Effective length of query: 198
Effective length of database: 1,254,276
Effective search space: 248346648
Effective search space used: 248346648
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 52 (24.1 bits)