RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12760
(199 letters)
>1w1w_A Structural maintenance of chromosome 1; cohesin, chromosome
segregation, cell adhesion, kleisin, MIT cell cycle;
HET: ATG; 2.90A {Saccharomyces cerevisiae} SCOP:
c.37.1.12
Length = 430
Score = 109 bits (274), Expect = 1e-28
Identities = 36/117 (30%), Positives = 60/117 (51%), Gaps = 9/117 (7%)
Query: 84 YAKRSKEMQAVLATLNTYCTGYEQCLSKRQKEFDTNFVKIGKRVQECYQMLTF------- 136
+ + E + + A + + KR++ F+ F + + Y+ LT
Sbjct: 237 FEVINNETEQLKAEEKKILNQFLKIKKKRKELFEKTFDYVSDHLDAIYRELTKNPNSNVE 296
Query: 137 --GGKADLEYKEYSDPYAQGIKYVVRPPRKSWKSIDCLSGGEKTLASLALVFALHYY 191
GG A L ++ +P+ GIKY PP K +K ++ LSGGEKT+A+LAL+FA++ Y
Sbjct: 297 LAGGNASLTIEDEDEPFNAGIKYHATPPLKRFKDMEYLSGGEKTVAALALLFAINSY 353
>3kta_B Chromosome segregation protein SMC; structural maintenance of
chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A,
transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB:
1xew_Y 1xex_B*
Length = 173
Score = 71.9 bits (177), Expect = 3e-16
Identities = 27/76 (35%), Positives = 41/76 (53%)
Query: 113 QKEFDTNFVKIGKRVQECYQMLTFGGKADLEYKEYSDPYAQGIKYVVRPPRKSWKSIDCL 172
+ F F I + E + L+ GG A L + DP++ G++ +P K K I+ +
Sbjct: 6 KNVFMRTFEAISRNFSEIFAKLSPGGSARLILENPEDPFSGGLEIEAKPAGKDVKRIEAM 65
Query: 173 SGGEKTLASLALVFAL 188
SGGEK L +LA VFA+
Sbjct: 66 SGGEKALTALAFVFAI 81
>1e69_A Chromosome segregation SMC protein; structural maintenance of
chromosomes, coiled coil; 3.1A {Thermotoga maritima}
SCOP: c.37.1.12
Length = 322
Score = 63.1 bits (154), Expect = 3e-12
Identities = 22/74 (29%), Positives = 35/74 (47%), Gaps = 1/74 (1%)
Query: 116 FDTNFVKIGKRVQECYQMLTFGGKADLE-YKEYSDPYAQGIKYVVRPPRKSWKSIDCLSG 174
++ ++ + +L FGG+ L E G + +R P + + + LSG
Sbjct: 163 PRGSYQRVNESFNRFISLLFFGGEGRLNIVSEAKSILDAGFEISIRKPGRRDQKLSLLSG 222
Query: 175 GEKTLASLALVFAL 188
GEK L LAL+FAL
Sbjct: 223 GEKALVGLALLFAL 236
>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 = 45.0 bits (106), Expect = 7e-06
Identities = 40/200 (20%), Positives = 64/200 (32%), Gaps = 43/200 (21%)
Query: 18 AIVTRPCSITSWMAVLSISDILSNSSI-HTTPRSANTMAPASKWRS------PVSGSDVT 70
A TRP L LS+ S+ H + AS+ + P
Sbjct: 3 AYSTRP---------L----TLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFA 49
Query: 71 AAVRPT--PELPVR--DYAKRSKEMQAVLATLNTYCTGYEQCLSKRQKEFDTNFVKIGKR 126
A PT EL + Y E V ++Q L+ EF+ +++ G
Sbjct: 50 ADDEPTTPAELVGKFLGYVSSLVEPSKV--------GQFDQVLNLCLTEFENCYLE-GND 100
Query: 127 VQE-CYQMLTFGGKADLEYKEYSDPYAQGIKYVVRPPRKSWKS--IDCLSGGEKTLASLA 183
+ ++L ++ KE Y RP K S + G A L
Sbjct: 101 IHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGN---AQLV 157
Query: 184 LVF----ALHYYWLWLQNIY 199
+F Y+ L+++Y
Sbjct: 158 AIFGGQGNTDDYFEELRDLY 177
Score = 40.8 bits (95), Expect = 2e-04
Identities = 24/116 (20%), Positives = 36/116 (31%), Gaps = 46/116 (39%)
Query: 28 SWMAVLSISDILSNSSIHTTPRSANTMAPASKW------RSP----VSGSDVTAAVRPTP 77
S M LSIS+ L+ + N+ PA K VSG
Sbjct: 336 SPM--LSISN-LTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSG----------- 381
Query: 78 ELPVRDYAKRSKEMQAVLATLNTY------CTGYEQC---LSKRQKEFDTNFVKIG 124
P + L LN +G +Q S+R+ +F F+ +
Sbjct: 382 --PPQS-----------LYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVA 424
Score = 33.5 bits (76), Expect = 0.050
Identities = 28/159 (17%), Positives = 43/159 (27%), Gaps = 60/159 (37%)
Query: 2 ELEREHHEEIVEKKRRAIVTRPCSITSWMAVLSISDILSNSSIHTTPRSANTMAPASKWR 61
EL R + + T+ +I W L N S TP + +
Sbjct: 197 ELIRTTLDA------EKVFTQGLNILEW---------LENPS--NTP-DKDYLLSI---- 234
Query: 62 SPVS--GSDVTAAVRPTPELPVRDYA-------KRSKEMQAVLATLNTYCTGYEQCL--- 109
P+S V Y E+++ L TG+ Q L
Sbjct: 235 -PISCPLIGVIQLAH---------YVVTAKLLGFTPGELRSYLKGA----TGHSQGLVTA 280
Query: 110 -----SKRQKEFDTNFVK-------IGKRVQECYQMLTF 136
+ + F + K IG R E Y +
Sbjct: 281 VAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSL 319
Score = 31.6 bits (71), Expect = 0.19
Identities = 30/203 (14%), Positives = 67/203 (33%), Gaps = 50/203 (24%)
Query: 18 AIVTRPCSITSWMAVLSI------SDILSNSSIHT----TPRSANTMAPASKW--RSPVS 65
+ + P + + VL++ + L + IH + +T +K ++ ++
Sbjct: 69 SSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYIT 128
Query: 66 GSDVTAAVRPTPELPVRDYAKRSKEMQAVLATL-----NTYCTGYEQCLSKRQKEFDTNF 120
A RP + + E A L + NT + + + + T
Sbjct: 129 AR--IMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNT-----DDYFEELRDLYQTYH 181
Query: 121 VKIGKRVQECYQMLTFGGKADLEYKEYSDPYAQGIKYVVRPPRKSWKSIDCLSGGEKT-- 178
V +G ++ + L+ + L+ ++ + QG+ + W L T
Sbjct: 182 VLVGDLIKFSAETLSELIRTTLDAEKV---FTQGLNIL------EW-----LENPSNTPD 227
Query: 179 ---LAS-------LALVFALHYY 191
L S + ++ HY
Sbjct: 228 KDYLLSIPISCPLIGVIQLAHYV 250
Score = 29.2 bits (65), Expect = 1.1
Identities = 8/37 (21%), Positives = 11/37 (29%), Gaps = 5/37 (13%)
Query: 5 REHHEEIVEKKRRAIVTRPCSITSWMAVL--SISDIL 39
R I E+ I+ P W + IL
Sbjct: 469 RVLSGSISERIVDCIIRLPV---KWETTTQFKATHIL 502
>3auy_A DNA double-strand break repair RAD50 ATPase; DNA repair, ABC
transporter ATPase domain-like; HET: DNA ADP; 2.70A
{Methanocaldococcus jannaschii} PDB: 3aux_A* 3av0_B*
Length = 371
Score = 32.9 bits (75), Expect = 0.047
Identities = 18/103 (17%), Positives = 32/103 (31%), Gaps = 13/103 (12%)
Query: 86 KRSKEMQAVLATLNTYCTGYEQCLSKRQKEFDTNFVKIGKRVQECYQMLTFGGKADLEYK 145
++ + L + R+K I K + E + K
Sbjct: 208 EKLTKFVEYLDKVRRIFGRNGFQAYLREKYVP----LIQKYLNEAFSEFDLPYSFVELTK 263
Query: 146 EYSDPYAQGIKYVVRPPRKSWKSIDCLSGGEKTLASLALVFAL 188
++ V +ID LSGGE+ +L+L A+
Sbjct: 264 DF---------EVRVHAPNGVLTIDNLSGGEQIAVALSLRLAI 297
>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga
maritima} PDB: 3qg5_A 3tho_A*
Length = 365
Score = 31.8 bits (72), Expect = 0.12
Identities = 9/17 (52%), Positives = 13/17 (76%)
Query: 172 LSGGEKTLASLALVFAL 188
LSGGE+ L S++L +L
Sbjct: 280 LSGGERALISISLAMSL 296
>3qkt_A DNA double-strand break repair RAD50 ATPase; RECA-like fold,
coiled-coils, ATP binding, DNA bindi MRE11, replication;
HET: DNA ANP; 1.90A {Pyrococcus furiosus} PDB: 3qku_A*
1ii8_A 3qks_B* 3qkr_B* 1ii8_B
Length = 339
Score = 30.4 bits (68), Expect = 0.39
Identities = 18/103 (17%), Positives = 35/103 (33%), Gaps = 1/103 (0%)
Query: 86 KRSKEMQAVLATLNTYCTGYEQCLSKRQKEFDTNFVKIGKRVQECYQMLTFGGKADLEYK 145
+ + L+ L G E+ + K +K ++ E + F + +Y
Sbjct: 164 DKFETAYKKLSELKGGSGGTEELIEKVKKYKALAREAALSKIGELASEI-FAEFTEGKYS 222
Query: 146 EYSDPYAQGIKYVVRPPRKSWKSIDCLSGGEKTLASLALVFAL 188
E + + + + LSGGE+ LA A+
Sbjct: 223 EVVVRAEENKVRLFVVWEGKERPLTFLSGGERIALGLAFRLAM 265
>1uoz_A Putative cellulase; hydrolase, glycoside hydrolase, family 6; HET:
GLC SSG; 1.10A {Mycobacterium tuberculosis} SCOP:
c.6.1.1 PDB: 1up3_A* 1up0_A* 1up2_A*
Length = 315
Score = 26.2 bits (57), Expect = 7.9
Identities = 19/120 (15%), Positives = 33/120 (27%), Gaps = 8/120 (6%)
Query: 42 SSIHTTPRSANTMAPASKWRSPVSGSDVTAAVRPTPELPVRDYAKRSKEMQAV----LAT 97
S AN +A + P S + V A P + + Q+
Sbjct: 14 SGHIEGRHMANPLAGKPFYVDPASAAMVAARNANPPN---AELTSVANTPQSYWLDQAFP 70
Query: 98 LNTYCTGYEQCLSKRQKEFDTN-FVKIGKRVQECYQMLTFGGKADLEYKEYSDPYAQGIK 156
T + Q G ++C + G +Y+ + D A G+
Sbjct: 71 PATVGGTVARYTGAAQAAGAMPVLTLYGIPHRDCGSYASGGFATGTDYRGWIDAVASGLG 130
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
0.318 0.130 0.397
Gapped
Lambda K H
0.267 0.0605 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,039,694
Number of extensions: 159274
Number of successful extensions: 306
Number of sequences better than 10.0: 1
Number of HSP's gapped: 303
Number of HSP's successfully gapped: 16
Length of query: 199
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 110
Effective length of database: 4,216,824
Effective search space: 463850640
Effective search space used: 463850640
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 (21.7 bits)
S2: 55 (25.2 bits)